Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 215 of 276
Found at i:71449318 original size:30 final size:30
Alignment explanation
Indices: 71449284--71449344 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71449274 TCCTTAACTC
*
71449284 AAACTTTTTTAAAATTACAATTTTGCCCCT
1 AAACTTTTTCAAAATTACAATTTTGCCCCT
* * *
71449314 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTTTCAAAATTACAATTTTGCCCCT
71449344 A
1 A
71449345 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAACTTTTTCAAAATTACAATTTTGCCCCT
Found at i:71457804 original size:14 final size:14
Alignment explanation
Indices: 71457785--71457814 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71457775 AAAGAAAATT
*
71457785 TTCTTCTAGTGAAA
1 TTCTTCTAATGAAA
71457799 TTCTTCTAATGAAA
1 TTCTTCTAATGAAA
71457813 TT
1 TT
71457815 GAATTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (14 bp):
TTCTTCTAATGAAA
Found at i:71465723 original size:205 final size:205
Alignment explanation
Indices: 71465216--71465726 Score: 736
Period size: 205 Copynumber: 2.5 Consensus size: 205
71465206 TATTCGGCGG
* * ** * * *
71465216 GGAGCAGATTGAAGATATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCCAAGATGA
1 GGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGA
*** * * * *
71465281 TTTGTTGTCTCTGTAGTGTTAGAGAACAAATCAAAGTCTGGCATCTCTACTTCAATAGAGAGCAG
66 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAG
* * * * *
71465346 ATACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTT
131 ACACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTAGCATCCTT
*
71465411 GTGCTTACAA
196 GTGCCTACAA
* * *
71465421 GGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCTTACGTTAAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGA
* * * *
71465486 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATGGAGGGTAG
66 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAG
71465551 ACACATAGCAGATC-CAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTAGCATCCT
131 ACACATAGCAGATCTC-ACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTAGCATCCT
71465615 TGTGCCTACAA
195 TGTGCCTACAA
* *
71465626 GGAGCAAATCGAAGATGTAGCTGATTTGGCTTTCACGTGCTTAAGTTAAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGA
*
71465691 TTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
66 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
71465727 AAGCAGATTT
Statistics
Matches: 272, Mismatches: 33, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
204 1 0.00
205 271 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
GGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGA
TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAG
ACACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTAGCATCCTT
GTGCCTACAA
Found at i:71465884 original size:45 final size:45
Alignment explanation
Indices: 71465820--71465905 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
71465810 GAAGAAGCAA
71465820 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
71465865 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
71465906 GTAGATATCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:71469204 original size:31 final size:31
Alignment explanation
Indices: 71469169--71469241 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
71469159 AAATGGTAAT
71469169 ATAAGTGACTAAAATGTAACCTG-AGTCAAAC
1 ATAAGTGACTAAAATGTAACCTGAAG-CAAAC
**
71469200 ATAAGTGACTAAAATGTAATTTGAAGCAAAC
1 ATAAGTGACTAAAATGTAACCTGAAGCAAAC
*
71469231 AAAAGTGACTA
1 ATAAGTGACTA
71469242 TTTTTGTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (31 bp):
ATAAGTGACTAAAATGTAACCTGAAGCAAAC
Found at i:71475689 original size:46 final size:46
Alignment explanation
Indices: 71475587--71475754 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
71475577 TATGAAAGCT
* *
71475587 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGTGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGTAGT-C
*
71475634 TAGTGTAAGA-CATGTCTGGGACATGCATAGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGT-AGTC
* * * *
71475681 AGTGTAAGA-CATGTCTAGGACATGCATCTG-CTACGAGATGT-GTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTAGTC
71475725 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
71475755 AGCATTTTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 53 0.50
47 15 0.14
48 12 0.11
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAGTC
Found at i:71478456 original size:40 final size:41
Alignment explanation
Indices: 71478401--71478551 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
71478391 GGATATAACT
* *
71478401 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* *
71478441 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
*
71478481 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* ** *
71478520 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
71478552 TTTTCATCCA
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 31 0.31
40 67 0.67
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:71482653 original size:43 final size:43
Alignment explanation
Indices: 71482583--71482740 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
71482573 AATGTGTTAT
*
71482583 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTT-TGATTTA
71482627 CGT-TAAGACCACGTCTGGGACATTGGCATCGTAC-TTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTTTGATTTA
* * * *
71482668 TGTGTAAGACC-CTGTCTGGGACAGTGACATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGA-CTTTGATTTA
* * *
71482711 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
71482741 TGTACGAGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 4 0.04
42 32 0.33
43 54 0.56
44 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTGATTTA
Found at i:71482731 original size:85 final size:85
Alignment explanation
Indices: 71482584--71482745 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
71482574 ATGTGTTATC
* *
71482584 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTTAAGACCACGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGACATCGACTTATGATTTACATTAAGACCACGTCTGGGACA
71482649 TTGGCATCGTACTTGATTTT
66 TTGGCATCGTACTTGATTTT
* *
71482669 GTGTAAGACC-CTGTCTGGGACAG-TGACATCGA-TATTTGA-TTACATGTAAGACCACGTTTGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGACATCGACT-TATGATTTACAT-TAAGACCACGTCTGG
* *
71482730 GACGTTGGCATTGTAC
62 GACATTGGCATCGTAC
71482746 GAGTTTTCCG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
84 7 0.10
85 59 0.88
86 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (85 bp):
GTGTAAGACCACGTCTGGGACGTTGACATCGACTTATGATTTACATTAAGACCACGTCTGGGACA
TTGGCATCGTACTTGATTTT
Found at i:71485335 original size:13 final size:13
Alignment explanation
Indices: 71485317--71485341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71485307 TATGTGAAAT
71485317 ATTATTTAATTTG
1 ATTATTTAATTTG
71485330 ATTATTTAATTT
1 ATTATTTAATTT
71485342 TAATTTTTTA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTTAATTTG
Found at i:71486035 original size:20 final size:21
Alignment explanation
Indices: 71485996--71486035 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71485986 AAGGGCTATT
*
71485996 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
71486017 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
71486036 TTGAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:71488452 original size:47 final size:46
Alignment explanation
Indices: 71488288--71488646 Score: 186
Period size: 47 Copynumber: 7.7 Consensus size: 46
71488278 GATTTGTGCA
* * * ** **
71488288 CCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACA-TTATGAGAA
1 CCAGTGTAAGACATGTCTGGGACATGCATCAG-CACAGAGATGAGTG
* * * *
71488334 CCAGTGTAAGACCATGTTTTGGG-CATGGCATCGGCATCCA-A-ACGAGGG
1 CCAGTGTAAGA-CATG-TCTGGGACAT-GCATCAGCA--CAGAGATGAGTG
* * * *
71488382 CTAGTGTAAGACATGTCTGGGACATACATCAGC-CATACTATGA-TAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCACAGA-GATGAGT-G
*
71488428 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGTG
*
71488476 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGACAGAGAT-A--G
1 CCAGTGTAAGACATGTCTGGGACATGCATCAG---C-ACAGAGATGAGTG
* * * * * * * *
71488523 CCACTATAAGATATATCTGGGACACGTAT-TG-ACTA-AGA-GTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCAC-AGAGATG-AGTG
* * * *
71488567 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGTG
71488615 CCAGTGTAAGACCATGTCTGGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATC
71488647 GACAATATAT
Statistics
Matches: 244, Mismatches: 38, Indels: 58
0.72 0.11 0.17
Matches are distributed among these distances:
41 5 0.02
42 1 0.00
43 2 0.01
44 24 0.10
45 1 0.00
46 45 0.18
47 68 0.28
48 62 0.25
49 23 0.09
50 13 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGTG
Found at i:71488455 original size:94 final size:92
Alignment explanation
Indices: 71488290--71488647 Score: 306
Period size: 94 Copynumber: 3.8 Consensus size: 92
71488280 TTTGTGCACC
* * * * * * *
71488290 AGTGTAAGACGTGTCTGGGACATGCTTCGGC-CACATTATGAGAACCAGTGTAAGACCATGTTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATG-TCT
71488354 GGG-CATGGCATCGGCATCCAAACGAGGGCT
65 GGGACATGGCATCGGCA--CAAA-GAGGGCT
* *
71488384 AGTGTAAGACATGTCTGGGACATACATCAGC-CATACTATGATAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATGTCTG
* *
71488448 GGACATGGCATCGGCACAGAGATGAGTGCC
66 GGACATGGCATCGGCACA-A-A-GAGGGCT
* * * * * *
71488478 AGTGTAAGACATGTCTGGGACATGCATCGGCTTC-GAC-A-GAGATAGCCACTATAAGA-TATAT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-TCATACTATGAG--AGCCAGTGTAAGACCATGT
* * * *
71488539 CTGGGACA-CGTAT-TG-ACTAAGAGTTGTGCT
63 CTGGGACATGGCATCGGCACAAAGAG--G-GCT
*
71488569 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CTCATACTATGAGAGCCAGTGTAAGACCATGTC
71488633 TGGGACATGGCATCG
64 TGGGACATGGCATCG
71488648 ACAATATATC
Statistics
Matches: 210, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
88 3 0.01
89 1 0.00
90 1 0.00
91 33 0.16
92 15 0.07
93 25 0.12
94 118 0.56
95 13 0.06
96 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCACAAAGAGGGCT
Found at i:71495865 original size:23 final size:23
Alignment explanation
Indices: 71495834--71495880 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
71495824 CTGTAATCAA
*
71495834 TACATAGCCCCAACGATTAATCT
1 TACACAGCCCCAACGATTAATCT
* *
71495857 TACACAGCCTCAATGATTAATCT
1 TACACAGCCCCAACGATTAATCT
71495880 T
1 T
71495881 TCTTCTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.30
Consensus pattern (23 bp):
TACACAGCCCCAACGATTAATCT
Found at i:71497884 original size:27 final size:26
Alignment explanation
Indices: 71497854--71497908 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
71497844 AATTCCATAT
* *
71497854 CTGTAGGCTAGTATTACTGAAATAGCC
1 CTGTAGGCTAGAATTACTAAAATA-CC
*
71497881 CTGTAGGGTAGAATTACTAAAATACC
1 CTGTAGGCTAGAATTACTAAAATACC
71497907 CT
1 CT
71497909 TGGTTTACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACTAAAATACC
Found at i:71497922 original size:27 final size:27
Alignment explanation
Indices: 71497892--71498235 Score: 244
Period size: 27 Copynumber: 12.7 Consensus size: 27
71497882 TGTAGGGTAG
* **
71497892 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * * *
71497919 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACCAAAATACCCTTGGTTTGTAA
71497946 AATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTGTAA
* ** *
71497973 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
** * ***
71498000 AATTACTGAAATACCCTCGACATGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * ****
71498027 ATTTACCGAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** * *
71498054 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * *
71498081 AATTAGCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * **
71498108 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * *
71498135 AATTA-TAGAAATACCCTTGACTTT-CAA
1 AATTACCA-AAATACCCTTG-GTTTGTAA
* *
71498162 TAATTACAAAAATACCATTGGTTTGTAA
1 -AATTACCAAAATACCCTTGGTTTGTAA
* *
71498190 AATTACCAAAATACCATTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
71498217 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
71498236 TAGGGTGAAA
Statistics
Matches: 257, Mismatches: 53, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
26 4 0.02
27 230 0.89
28 22 0.09
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:71498536 original size:41 final size:41
Alignment explanation
Indices: 71498473--71498595 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
71498463 CGGAGGAAGA
* * *
71498473 AATTGAGGATCGCATGGCTGCTTGACGACCGTGGATCCACT
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
*
71498514 GATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
*
71498555 AATTAAGGATCGCATGGTTGCTTGATGACCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
71498596 GGCGACTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
AATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:71501995 original size:25 final size:25
Alignment explanation
Indices: 71501967--71502014 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
71501957 GCACTCTCTC
*
71501967 GAGCCATGTAATAGGATGCTTATGT
1 GAGCCATGTAATAGGACGCTTATGT
*
71501992 GAGCCATGTATTAGGACGCTTAT
1 GAGCCATGTAATAGGACGCTTAT
71502015 CCGGGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (25 bp):
GAGCCATGTAATAGGACGCTTATGT
Found at i:71502164 original size:24 final size:25
Alignment explanation
Indices: 71502133--71502181 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
71502123 TTCAAGCGAG
*
71502133 CTATATCAGGAAGCTCGT-AAGAGC
1 CTATATCAGGAAGCTCATGAAGAGC
*
71502157 CTATATCAGGACGCTCATGAAGAGC
1 CTATATCAGGAAGCTCATGAAGAGC
71502182 TGCATTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
CTATATCAGGAAGCTCATGAAGAGC
Found at i:71507589 original size:34 final size:34
Alignment explanation
Indices: 71507548--71507618 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
71507538 ATTTCAAAAA
* **
71507548 TTTTGTACGTAAATATTTTATTGATTCTTTTTAT
1 TTTTGTACGTAAATAATTTAACGATTCTTTTTAT
71507582 TTTTGTACGTAAATAATTTAACGATTCTTTTTAT
1 TTTTGTACGTAAATAATTTAACGATTCTTTTTAT
71507616 TTT
1 TTT
71507619 ATTATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.59
Consensus pattern (34 bp):
TTTTGTACGTAAATAATTTAACGATTCTTTTTAT
Found at i:71507899 original size:50 final size:49
Alignment explanation
Indices: 71507786--71507961 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
71507776 TGAGGTCGCA
* * * * * * *
71507786 TGTGTAGTACTAAGTGCAGGCTATTATGCGTACCGGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAA-TT-GGTCACG
* * ***
71507837 TGTGTAGTACTAACTGCTGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAATT-GGTCACG
* * *
71507887 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGACAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAATTGGTCACG
71507936 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
71507962 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 31 0.29
50 44 0.42
51 31 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAATTGGTCACG
Found at i:71509621 original size:16 final size:15
Alignment explanation
Indices: 71509583--71509624 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
71509573 TGGATTCTCG
*
71509583 TATCATGGATTTATT
1 TATCTTGGATTTATT
*
71509598 TATCTTGGATTTCTT
1 TATCTTGGATTTATT
71509613 TATTCTTGGATT
1 TA-TCTTGGATT
71509625 CTCTATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTATT
Found at i:71509626 original size:15 final size:16
Alignment explanation
Indices: 71509588--71509624 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
71509578 TCTCGTATCA
*
71509588 TGGATTTATTTA-TCT
1 TGGATTTCTTTATTCT
71509603 TGGATTTCTTTATTCT
1 TGGATTTCTTTATTCT
71509619 TGGATT
1 TGGATT
71509625 CTCTATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.59
Consensus pattern (16 bp):
TGGATTTCTTTATTCT
Found at i:71509631 original size:15 final size:16
Alignment explanation
Indices: 71509600--71509645 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
71509590 GATTTATTTA
*
71509600 TCTTGGATTTCTTTAT
1 TCTTGGATTTCTCTAT
71509616 TCTTGGA-TTCTCTAT
1 TCTTGGATTTCTCTAT
**
71509631 T-TCAGATTTCTCTAT
1 TCTTGGATTTCTCTAT
71509646 CTTAGGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 3 0.12
15 16 0.62
16 7 0.27
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (16 bp):
TCTTGGATTTCTCTAT
Found at i:71515174 original size:15 final size:16
Alignment explanation
Indices: 71515156--71515189 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
71515146 TCTCGTATAA
71515156 TGGATTTCTTTA-TCT
1 TGGATTTCTTTATTCT
71515171 TGGATTTCTTTATTCT
1 TGGATTTCTTTATTCT
71515187 TGG
1 TGG
71515190 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (16 bp):
TGGATTTCTTTATTCT
Found at i:71517794 original size:34 final size:34
Alignment explanation
Indices: 71517751--71517820 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
71517741 TTTCAAAAAG
**
71517751 TTTGTACGTAAATAATTTATTGATTCTTTTTATT
1 TTTGTACGTAAATAATTTAACGATTCTTTTTATT
71517785 TTTGTACGTAAATAATTTAACGATTCTTTTTATT
1 TTTGTACGTAAATAATTTAACGATTCTTTTTATT
71517819 TT
1 TT
71517821 ATTATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (34 bp):
TTTGTACGTAAATAATTTAACGATTCTTTTTATT
Found at i:71518110 original size:50 final size:49
Alignment explanation
Indices: 71517989--71518166 Score: 167
Period size: 50 Copynumber: 3.6 Consensus size: 49
71517979 TGTGAGGTCG
** * ** ***
71517989 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAA-TT-GGCCA
* * ** *
71518040 CATGTATAGTACTAACTGCAGGCTACTACATGTATCAAATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATT-GGCCA
* * ** *
71518090 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGCCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATTGGCCA
71518139 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
71518167 TGCGTACCAG
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
49 30 0.29
50 41 0.39
51 33 0.32
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATTGGCCA
Found at i:71529454 original size:17 final size:17
Alignment explanation
Indices: 71529432--71529468 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
71529422 TTGGTATCAT
71529432 AGGCCAAATGATCTTAG
1 AGGCCAAATGATCTTAG
* *
71529449 AGGCCAAATGGTCTTGG
1 AGGCCAAATGATCTTAG
71529466 AGG
1 AGG
71529469 TCTCTATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (17 bp):
AGGCCAAATGATCTTAG
Found at i:71530032 original size:194 final size:193
Alignment explanation
Indices: 71529557--71530139 Score: 810
Period size: 194 Copynumber: 3.0 Consensus size: 193
71529547 GGCTTCTTGG
* * *
71529557 TATATTTTATTAGTTAGCTAAATGATGTTGATTTCTTATACTTTTACATTTATTTCCTTAATTGT
1 TATATTTTCTTAGTTAGCCAAATGAT-TTGATTTCTTATACTTTTACATTTCTTTCCTTAATTGT
* * * ** *
71529622 TTTATTTTCTCGATGAATATATCCTCATTCAACTGTTAGCTTTGATTAATGTTGTCGGGATCAAT
65 TGTATTTTCTCCATGAATATATCCTCATTCAACTGCTAGCTTTGATTAATGTTGTTAGGATCAGT
* * ** **
71529687 TGCACTTCTAGTACTATGTTGTTGCTTGCCACTAAAAGAAATTTTGTTTATTTTGGCA-TTTTT
130 TGCACTTCTAGTACCATGTTGTTGCTTGCCACTACAAGAAATTCAGTTTATAGTGGCATTTTTT
* * *
71529750 TATATTTTCTTAGTTAGCCAATTAATTTTGATTTCTTATACTTTTACATTTCTTTCCTTAACTGT
1 TATATTTTCTTAGTTAGCCAAATGA-TTTGATTTCTTATACTTTTACATTTCTTTCCTTAATTGT
* * * *
71529815 TGTATTTTCTCCATGAATATATCCTTATTCAACTGCTAGCTTTGGTTAATGTTGTTAAGATTAGT
65 TGTATTTTCTCCATGAATATATCCTCATTCAACTGCTAGCTTTGATTAATGTTGTTAGGATCAGT
* * * * *
71529880 TGCACTTCTCGTACCATATTGTTGCTTGTCACTACAAGAAATTCAGTTTAGAGTGGGATTTTTT
130 TGCACTTCTAGTACCATGTTGTTGCTTGCCACTACAAGAAATTCAGTTTATAGTGGCATTTTTT
**
71529944 TATATTTTCTTAGTTAGCCAAATGATTCTGATTTAATATACTTTTACATTTCTTTCCTTAATTGT
1 TATATTTTCTTAGTTAGCCAAATGATT-TGATTTCTTATACTTTTACATTTCTTTCCTTAATTGT
* * *
71530009 TGCATTTTCGCCATGAATATATCCTCATTCAACCGCTAGCTTTGATTAATGTTGTTAGGATCAGT
65 TGTATTTTCTCCATGAATATATCCTCATTCAACTGCTAGCTTTGATTAATGTTGTTAGGATCAGT
*
71530074 TGCACTTCTGGTACCATGTTGTTGCTTGCCACTACAAGAAATTCTA-TTTATAGTGGCATTGTTT
130 TGCACTTCTAGTACCATGTTGTTGCTTGCCACTACAAGAAATTC-AGTTTATAGTGGCATT-TTT
71530138 T
193 T
71530139 T
1 T
71530140 CACCTTTAGT
Statistics
Matches: 341, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
193 161 0.47
194 174 0.51
195 6 0.02
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (193 bp):
TATATTTTCTTAGTTAGCCAAATGATTTGATTTCTTATACTTTTACATTTCTTTCCTTAATTGTT
GTATTTTCTCCATGAATATATCCTCATTCAACTGCTAGCTTTGATTAATGTTGTTAGGATCAGTT
GCACTTCTAGTACCATGTTGTTGCTTGCCACTACAAGAAATTCAGTTTATAGTGGCATTTTTT
Found at i:71530973 original size:17 final size:17
Alignment explanation
Indices: 71530951--71530984 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71530941 TATCCATAAT
71530951 CCAATTGACAAAGTTTC
1 CCAATTGACAAAGTTTC
*
71530968 CCAATTGGCAAAGTTTC
1 CCAATTGACAAAGTTTC
71530985 ATCTAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (17 bp):
CCAATTGACAAAGTTTC
Found at i:71535445 original size:30 final size:30
Alignment explanation
Indices: 71535397--71535453 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71535387 TTTACGAGCC
*
71535397 TAGGGGTAAAAATGTAATTTTGACAAAGTT
1 TAGGGGTAAAAATATAATTTTGACAAAGTT
*
71535427 TAGGGG-AAAAATTATAATTTTGCCAAA
1 TAGGGGTAAAAA-TATAATTTTGACAAA
71535454 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (30 bp):
TAGGGGTAAAAATATAATTTTGACAAAGTT
Found at i:71540925 original size:13 final size:13
Alignment explanation
Indices: 71540907--71540931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71540897 AGGCCATGCG
71540907 AGGGACATGGGCT
1 AGGGACATGGGCT
71540920 AGGGACATGGGC
1 AGGGACATGGGC
71540932 GTGTGCTTTG
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:0.24, C:0.16, G:0.48, T:0.12
Consensus pattern (13 bp):
AGGGACATGGGCT
Found at i:71552348 original size:28 final size:28
Alignment explanation
Indices: 71552304--71552367 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
71552294 GGAGGTAGCG
* *
71552304 TTCTGGTGGCTATGCCACAAACATCTGT
1 TTCTGGTGGCTACGCCACAAACATCTAT
*
71552332 TTCTGGTGGCTACGCCACAAATATCTAT
1 TTCTGGTGGCTACGCCACAAACATCTAT
*
71552360 ATCTGGTG
1 TTCTGGTG
71552368 ACTCTTTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TTCTGGTGGCTACGCCACAAACATCTAT
Found at i:71560336 original size:27 final size:27
Alignment explanation
Indices: 71560306--71560367 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
71560296 ATTTACTAAA
* *
71560306 ATACCCCTAAGTATGAAAA-TTACCATT
1 ATACCCCTAAG-ATAAAAAGTGACCATT
*
71560333 ATACCCCT-AGATAAAAAGTGACCGTT
1 ATACCCCTAAGATAAAAAGTGACCATT
71560359 ATACCCCTA
1 ATACCCCTA
71560368 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.20
26 16 0.53
27 8 0.27
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGATAAAAAGTGACCATT
Found at i:71560532 original size:28 final size:28
Alignment explanation
Indices: 71560473--71560535 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
71560463 GAAGAAGCGT
* ** *
71560473 TCTGGTGGCTATGCCACAAATATTTATT
1 TCTGGTGGCTACGCCACAAATATCCATA
*
71560501 TCTGGTGGCTACGCCACAAATATCCGTA
1 TCTGGTGGCTACGCCACAAATATCCATA
71560529 TCTGGTG
1 TCTGGTG
71560536 ACTCTGTCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
TCTGGTGGCTACGCCACAAATATCCATA
Found at i:71564074 original size:28 final size:27
Alignment explanation
Indices: 71564019--71564103 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
71564009 AGCATGGCTG
* *
71564019 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
71564045 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
71564073 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
71564100 CCAG
1 CCAG
71564104 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:71567151 original size:37 final size:37
Alignment explanation
Indices: 71567101--71567174 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
71567091 AATTGATGCT
71567101 CAGCTTTCACTTGCTGGCATGTCAGACATTTCCCTAC
1 CAGCTTTCACTTGCTGGCATGTCAGACATTTCCCTAC
*
71567138 CAGCTTTCACTTGCTGGCATGTTAGACATTTCCCTAC
1 CAGCTTTCACTTGCTGGCATGTCAGACATTTCCCTAC
71567175 AAACTCTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (37 bp):
CAGCTTTCACTTGCTGGCATGTCAGACATTTCCCTAC
Found at i:71571480 original size:27 final size:26
Alignment explanation
Indices: 71571443--71571554 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
71571433 AGCAAGGCTG
* *
71571443 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
71571469 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
71571497 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
71571524 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
71571551 CCAG
1 CCAG
71571555 GACACTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:71571534 original size:54 final size:54
Alignment explanation
Indices: 71571443--71571554 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
71571433 AGCAAGGCTG
*
71571443 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
71571497 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
71571551 CCAG
1 CCAG
71571555 GACACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:71571722 original size:28 final size:26
Alignment explanation
Indices: 71571660--71571722 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
71571650 AAAGTACCCC
** * *
71571660 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
71571686 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
71571714 TAGGGGTAT
1 TAGGGGTAT
71571723 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:71579273 original size:30 final size:30
Alignment explanation
Indices: 71579239--71579298 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71579229 CTCCCGAGCC
*
71579239 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
71579269 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
71579299 CGTATTAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:71583083 original size:48 final size:48
Alignment explanation
Indices: 71582946--71583068 Score: 210
Period size: 48 Copynumber: 2.6 Consensus size: 48
71582936 TTAGAGAATT
* * *
71582946 CATTGATTTGGCTTTGGACAATGATATCAGCACTTTGGGTGCGAGTTA
1 CATTGATTTGGCTTCGGGCCATGATATCAGCACTTTGGGTGCGAGTTA
*
71582994 CATTGATTTGCCTTCGGGCCATGATATCAGCACTTTGGGTGCGAGTTA
1 CATTGATTTGGCTTCGGGCCATGATATCAGCACTTTGGGTGCGAGTTA
71583042 CATTGATTTGGCTTCGGGCCATGATAT
1 CATTGATTTGGCTTCGGGCCATGATAT
71583069 TGTCACTTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (48 bp):
CATTGATTTGGCTTCGGGCCATGATATCAGCACTTTGGGTGCGAGTTA
Found at i:71586288 original size:20 final size:19
Alignment explanation
Indices: 71586258--71586301 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
71586248 AGCACATGTA
* *
71586258 TTCATAAATTTTAGAATTT
1 TTCATAAATTTTACAAGTT
71586277 TTCATCAAATTTTACAAGTT
1 TTCAT-AAATTTTACAAGTT
71586297 TTCAT
1 TTCAT
71586302 TTTAGTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (19 bp):
TTCATAAATTTTACAAGTT
Found at i:71590951 original size:20 final size:20
Alignment explanation
Indices: 71590926--71590971 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
71590916 TTGATGTCTT
71590926 CATTTAAACCTTCTTCAAAG
1 CATTTAAACCTTCTTCAAAG
71590946 CATTTAAACCTTCTTCAAAG
1 CATTTAAACCTTCTTCAAAG
*
71590966 CGTTTA
1 CATTTA
71590972 TATATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.37
Consensus pattern (20 bp):
CATTTAAACCTTCTTCAAAG
Found at i:71593925 original size:88 final size:88
Alignment explanation
Indices: 71593770--71593955 Score: 291
Period size: 88 Copynumber: 2.1 Consensus size: 88
71593760 ATATATTGGA
* * *
71593770 ATCACATTTCGATGCCAACGTATAAAACATGGACTTACTCACACACATATATATGAATCACATAT
1 ATCACATATCGATGCCAACGTATAAAACATGGACTTACTCACACACATATATAGGAATCACACAT
71593835 CGATGCCATGGTCTTACTCGCAC
66 CGATGCCATGGTCTTACTCGCAC
* * * * * *
71593858 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCGCACATATATAGGAATCGCACAT
1 ATCACATATCGATGCCAACGTATAAAACATGGACTTACTCACACACATATATAGGAATCACACAT
71593923 CGATGCCATGGTCTTACTCGCAC
66 CGATGCCATGGTCTTACTCGCAC
71593946 ATCACATATC
1 ATCACATATC
71593956 AAAATTCACA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (88 bp):
ATCACATATCGATGCCAACGTATAAAACATGGACTTACTCACACACATATATAGGAATCACACAT
CGATGCCATGGTCTTACTCGCAC
Found at i:71593966 original size:44 final size:43
Alignment explanation
Indices: 71593833--71593958 Score: 107
Period size: 44 Copynumber: 2.9 Consensus size: 43
71593823 TGAATCACAT
*
71593833 ATCGATGCCATGGTCTTACTCGCACATCACATATC-GATGC-C
1 ATCGATGCCATGGTCTTACTCGCACATCACATATCAAATGCAC
* ** * * *
71593874 AACGTATTAAACGTGGTCTTACTCGCGCA-CATATAT-AGGAATCGCAC
1 ATCG-A-T-GCCATGGTCTTACTCGCACATCACATATCA--AAT-GCAC
71593921 ATCGATGCCATGGTCTTACTCGCACATCACATATCAAA
1 ATCGATGCCATGGTCTTACTCGCACATCACATATCAAA
71593959 ATTCACATGT
Statistics
Matches: 62, Mismatches: 13, Indels: 17
0.67 0.14 0.18
Matches are distributed among these distances:
41 3 0.05
42 1 0.02
43 7 0.11
44 34 0.55
45 9 0.15
46 4 0.06
47 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCGATGCCATGGTCTTACTCGCACATCACATATCAAATGCAC
Found at i:71598621 original size:25 final size:24
Alignment explanation
Indices: 71598603--71598696 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
71598593 TGAGTTGATG
71598603 AATAGTAAGCTCTAATGAGCTGAA
1 AATAGTAAGCTCTAATGAGCTGAA
* * *
71598627 AATGGTAAGCTCTATTAAGCTGAA
1 AATAGTAAGCTCTAATGAGCTGAA
* * **
71598651 CA-A-TAAGCTATTTTGAGCTG--
1 AATAGTAAGCTCTAATGAGCTGAA
* *
71598671 AATCGGTAAGCTCCAATGAGCTGAA
1 AAT-AGTAAGCTCTAATGAGCTGAA
71598696 A
1 A
71598697 CAGTAATCTC
Statistics
Matches: 51, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
20 1 0.02
22 14 0.27
23 13 0.25
24 22 0.43
25 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (24 bp):
AATAGTAAGCTCTAATGAGCTGAA
Found at i:71598702 original size:23 final size:23
Alignment explanation
Indices: 71598606--71598716 Score: 82
Period size: 23 Copynumber: 4.8 Consensus size: 23
71598596 GTTGATGAAT
71598606 AGTAAGCTCTAATGAGCTGAAA-
1 AGTAAGCTCTAATGAGCTGAAAC
* *
71598628 ATGGTAAGCTCTATTAAGCTG-AAC
1 A--GTAAGCTCTAATGAGCTGAAAC
* * ** *
71598652 AATAAGCTATTTTGAGCTGAATC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
71598675 GGTAAGCTCCAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * *
71598698 AGTAATCTCTTACGAGCTG
1 AGTAAGCTCTAATGAGCTG
71598717 TAGTGAGTTC
Statistics
Matches: 66, Mismatches: 19, Indels: 7
0.72 0.21 0.08
Matches are distributed among these distances:
22 15 0.23
23 34 0.52
24 17 0.26
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:71598837 original size:22 final size:22
Alignment explanation
Indices: 71598809--71598884 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
71598799 GTTCAAACGG
*
71598809 TAAGCTCTATTAAGCTGAACAA
1 TAAGCTCTATTGAGCTGAACAA
* *
71598831 TAAGCTCTTTTGAGCTGAATCAG
1 TAAGCTCTATTGAGCTGAA-CAA
* *
71598854 TAAGCTCCAATGAGCTGAAACAA
1 TAAGCTCTATTGAGCTG-AACAA
*
71598877 TAATCTCT
1 TAAGCTCT
71598885 TACGAGCTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
22 17 0.40
23 24 0.56
24 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (22 bp):
TAAGCTCTATTGAGCTGAACAA
Found at i:71598891 original size:23 final size:23
Alignment explanation
Indices: 71598821--71598893 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
71598811 AGCTCTATTA
*
71598821 AGCTG-AACAATAAGCTCTTTTG
1 AGCTGAAACAATAAGCTCTTATG
* * **
71598843 AGCTGAATCAGTAAGCTCCAATG
1 AGCTGAAACAATAAGCTCTTATG
* *
71598866 AGCTGAAACAATAATCTCTTACG
1 AGCTGAAACAATAAGCTCTTATG
71598889 AGCTG
1 AGCTG
71598894 TGGTGAGTTC
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 5 0.13
23 34 0.87
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (23 bp):
AGCTGAAACAATAAGCTCTTATG
Found at i:71598926 original size:177 final size:177
Alignment explanation
Indices: 71598630--71598982 Score: 652
Period size: 177 Copynumber: 2.0 Consensus size: 177
71598620 AGCTGAAAAT
*
71598630 GGTAAGCTCTATTAAGCTGAACAATAAGCTATTTTGAGCTGAATCGGTAAGCTCCAATGAGCTGA
1 GGTAAGCTCTATTAAGCTGAACAATAAGCTATTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGA
*
71598695 AACAGTAATCTCTTACGAGCTGTAGTGAGTTCGCAACGAATGCAGGAGCTCAACCAATACCGTAA
66 AACAATAATCTCTTACGAGCTGTAGTGAGTTCGCAACGAATGCAGGAGCTCAACCAATACCGTAA
*
71598760 TCTCAGTAACACGTCACTCGTATCCAATGAATTCATATAGTTCAAAC
131 TCTCAATAACACGTCACTCGTATCCAATGAATTCATATAGTTCAAAC
*
71598807 GGTAAGCTCTATTAAGCTGAACAATAAGCTCTTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGA
1 GGTAAGCTCTATTAAGCTGAACAATAAGCTATTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGA
*
71598872 AACAATAATCTCTTACGAGCTGTGGTGAGTTCGCAACGAATGCAGGAGCTCAACCAATACCGTAA
66 AACAATAATCTCTTACGAGCTGTAGTGAGTTCGCAACGAATGCAGGAGCTCAACCAATACCGTAA
*
71598937 TCTCAATAACACGTCACTTGTATCCAATGAATTCATATAGTTCAAA
131 TCTCAATAACACGTCACTCGTATCCAATGAATTCATATAGTTCAAA
71598983 TGGGACTCGG
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 170 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (177 bp):
GGTAAGCTCTATTAAGCTGAACAATAAGCTATTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGA
AACAATAATCTCTTACGAGCTGTAGTGAGTTCGCAACGAATGCAGGAGCTCAACCAATACCGTAA
TCTCAATAACACGTCACTCGTATCCAATGAATTCATATAGTTCAAAC
Found at i:71620246 original size:7 final size:6
Alignment explanation
Indices: 71620212--71620250 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
71620202 GTTTAAAAAC
* * *
71620212 TTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
71620251 ATCTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:71627408 original size:13 final size:13
Alignment explanation
Indices: 71627390--71627414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71627380 TATGGGTTCA
71627390 CACGGCCGTGTCG
1 CACGGCCGTGTCG
71627403 CACGGCCGTGTC
1 CACGGCCGTGTC
71627415 TAGCTTCGCT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:71636426 original size:23 final size:23
Alignment explanation
Indices: 71636304--71636426 Score: 92
Period size: 23 Copynumber: 5.3 Consensus size: 23
71636294 AACTCCTCCT
* *
71636304 GAGCTGATGAACAGTAAGCTCTAAT
1 GAGCTGA--AACAGTAAGCTCTTAC
*
71636329 GAGCTGAAA-ATGGTAAGCTC-TATT
1 GAGCTGAAACA--GTAAGCTCTTA-C
* *
71636353 GAGCTG-AATAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCTTAC
* **
71636375 GAGCT-AAATCAATAAGCTCCAAC
1 GAGCTGAAA-CAGTAAGCTCTTAC
71636398 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTTAC
71636421 GAGCTG
1 GAGCTG
71636427 TGGTGAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
22 16 0.20
23 37 0.47
24 19 0.24
25 7 0.09
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:71639067 original size:25 final size:25
Alignment explanation
Indices: 71639033--71639084 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
71639023 CGAAGTGGTG
71639033 TGTAGAGGATAGATGGGTAGGACCT
1 TGTAGAGGATAGATGGGTAGGACCT
*
71639058 TGTAGAGGATGGATGGGTAGGACCT
1 TGTAGAGGATAGATGGGTAGGACCT
71639083 TG
1 TG
71639085 CATGCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.42, T:0.25
Consensus pattern (25 bp):
TGTAGAGGATAGATGGGTAGGACCT
Found at i:71643081 original size:68 final size:68
Alignment explanation
Indices: 71642991--71643284 Score: 570
Period size: 68 Copynumber: 4.3 Consensus size: 68
71642981 TTCACTTGGA
* *
71642991 ATCACTCATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
71643056 CGT
66 CGT
71643059 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
71643124 CGT
66 CGT
71643127 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
71643192 CGT
66 CGT
71643195 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
71643260 CGT
66 CGT
71643263 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
71643285 TATATAGTAT
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 224 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
CGT
Found at i:71650801 original size:68 final size:68
Alignment explanation
Indices: 71650705--71651610 Score: 1776
Period size: 68 Copynumber: 13.3 Consensus size: 68
71650695 TTTACTTGGA
* * *
71650705 ATCACTCATGCGACCTTGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71650770 CGT
66 CGT
71650773 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71650838 CGT
66 CGT
71650841 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71650906 CGT
66 CGT
71650909 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71650974 CGT
66 CGT
71650977 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651042 CGT
66 CGT
71651045 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651110 CGT
66 CGT
71651113 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651178 CGT
66 CGT
71651181 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651246 CGT
66 CGT
71651249 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651314 CGT
66 CGT
71651317 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651382 CGT
66 CGT
71651385 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651450 CGT
66 CGT
71651453 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651518 CGT
66 CGT
*
71651521 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAAGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
71651586 CGT
66 CGT
71651589 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
71651611 TATATAGTAT
Statistics
Matches: 834, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 834 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:71662410 original size:85 final size:85
Alignment explanation
Indices: 71662267--71662445 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
71662257 GGCCGGCCAT
71662267 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
71662332 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
71662352 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
71662417 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
71662437 GGGCATGGG
1 GAGCATGGG
71662446 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:71664548 original size:47 final size:47
Alignment explanation
Indices: 71664490--71664690 Score: 348
Period size: 47 Copynumber: 4.2 Consensus size: 47
71664480 ATTCAGCCAA
*
71664490 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
71664537 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
71664584 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
71664633 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
71664680 GAAAGTGTATA
1 GAAAGTGTATA
71664691 CCGATGTGAT
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
47 101 0.69
49 45 0.31
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:71664606 original size:96 final size:96
Alignment explanation
Indices: 71664490--71664690 Score: 388
Period size: 96 Copynumber: 2.1 Consensus size: 96
71664480 ATTCAGCCAA
71664490 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
71664553 GATAAGGCCTAATAGCCGATGTGATGAATGT
66 GATAAGGCCTAATAGCCGATGTGATGAATGT
71664584 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
71664649 GATAAGGCCTAATAGCCGATGTGATGAATGT
66 GATAAGGCCTAATAGCCGATGTGATGAATGT
71664680 GAAAGTGTATA
1 GAAAGTGTATA
71664691 CCGATGTGAT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 7 0.07
96 98 0.93
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
GATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:71664695 original size:74 final size:74
Alignment explanation
Indices: 71664617--71664764 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
71664607 GGCCTAATGG
* *
71664617 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGA
71664682 AAGTGTATA
66 AAGTGTATA
*
71664691 CCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGA
71664756 AAGTGTATA
66 AAGTGTATA
71664765 TATGTGATAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (74 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGA
AAGTGTATA
Found at i:71664702 original size:27 final size:27
Alignment explanation
Indices: 71664664--71664717 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
71664654 GGCCTAATAG
71664664 CCGATGTGATGAATGTGAAAGTGTATA
1 CCGATGTGATGAATGTGAAAGTGTATA
71664691 CCGATGTGATGAATGTGAAAGTGTATA
1 CCGATGTGATGAATGTGAAAGTGTATA
71664718 TATGTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (27 bp):
CCGATGTGATGAATGTGAAAGTGTATA
Found at i:71664738 original size:121 final size:122
Alignment explanation
Indices: 71664568--71664811 Score: 436
Period size: 121 Copynumber: 2.0 Consensus size: 122
71664558 GGCCTAATAG
*
71664568 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAAGTG-ATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71664633 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
65 GAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATA
71664691 CCGATGTGATGAATGTGAAAGTG-TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CCGATGTGATGAATGTGAAAGTGATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTG
*
71664755 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
66 AAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATA
71664812 TATGTGACAG
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 94 0.80
123 23 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (122 bp):
CCGATGTGATGAATGTGAAAGTGATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:71664743 original size:47 final size:47
Alignment explanation
Indices: 71664694--71664869 Score: 253
Period size: 47 Copynumber: 3.7 Consensus size: 47
71664684 GTGTATACCG
* *
71664694 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
71664741 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* * * *
71664788 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* * * * *
71664835 ACGTGATGGATGTGAAAGTGCATAAATGTGGTAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71664870 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
Found at i:71673010 original size:85 final size:85
Alignment explanation
Indices: 71672867--71673046 Score: 360
Period size: 85 Copynumber: 2.1 Consensus size: 85
71672857 TACGGTCATA
71672867 GGACACGGGCGTGTGCCTTGGCTGTGTGGCTTCAATTTGTTCATGACAAATTGGCAGAATGTCTA
1 GGACACGGGCGTGTGCCTTGGCTGTGTGGCTTCAATTTGTTCATGACAAATTGGCAGAATGTCTA
71672932 GAGTTTTGGACACGAGTTCG
66 GAGTTTTGGACACGAGTTCG
71672952 GGACACGGGCGTGTGCCTTGGCTGTGTGGCTTCAATTTGTTCATGACAAATTGGCAGAATGTCTA
1 GGACACGGGCGTGTGCCTTGGCTGTGTGGCTTCAATTTGTTCATGACAAATTGGCAGAATGTCTA
71673017 GAGTTTTGGACACGAGTTCG
66 GAGTTTTGGACACGAGTTCG
71673037 GGACACGGGC
1 GGACACGGGC
71673047 ATGTCCCTAG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (85 bp):
GGACACGGGCGTGTGCCTTGGCTGTGTGGCTTCAATTTGTTCATGACAAATTGGCAGAATGTCTA
GAGTTTTGGACACGAGTTCG
Found at i:71678624 original size:33 final size:33
Alignment explanation
Indices: 71678514--71678647 Score: 153
Period size: 33 Copynumber: 4.0 Consensus size: 33
71678504 GCCCACATTA
* * * *
71678514 TTACTACATAGGGCTTAGGCCTAGACGGTACGG
1 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
* * *
71678547 TTACTGCATCGAGCTTAGGCCCAGACTGTACTA
1 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
71678580 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
1 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
* * *
71678613 TTACTGAATAGGG-TTCAGGCCTAGACCTTTACTG
1 TTACTGCATAGGGCTT-AGGCCCAGA-CTGTACTG
71678647 T
1 T
71678648 ATGCATTGTT
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 2 0.02
33 76 0.88
34 8 0.09
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
Found at i:71682767 original size:18 final size:17
Alignment explanation
Indices: 71682730--71682770 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
71682720 GAGACACAAG
*
71682730 AAAAATAAAGTCAGTAA
1 AAAAATAAAGTCAATAA
71682747 AAAAATAAAGTCAAATGAA
1 AAAAATAAAGTC-AAT-AA
71682766 AAAAA
1 AAAAA
71682771 ATGCAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 2 0.10
19 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (17 bp):
AAAAATAAAGTCAATAA
Found at i:71684814 original size:42 final size:42
Alignment explanation
Indices: 71684709--71684870 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
71684699 CAGAAAGCTC
* *
71684709 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
* * *
71684751 ATATCGATGCC-ACTATCCCAGACAG-GGTCTTAAACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAA
* *
71684794 ATACGATGCCAATGTCCCAGATGTGGTCTTACATGTAAATCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA-A
*
71684838 AGT-CGATGCCAACGTCCCAGGCGTGGTCTTACA
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACA
71684871 CGATAACACA
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 39 0.39
44 30 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
Found at i:71687654 original size:21 final size:21
Alignment explanation
Indices: 71687629--71687765 Score: 130
Period size: 21 Copynumber: 6.5 Consensus size: 21
71687619 AAGCTCGAAG
* *
71687629 GCTAAACAGAAGCTTATGAGA
1 GCTAAACAGAAGCTCATAAGA
71687650 GCTAAACAGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
71687671 GCTAAACGGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
* * *
71687692 GTTAAACAGAAGCTCAAAATA
1 GCTAAACAGAAGCTCATAAGA
* * * *
71687713 GCTGAACGGAAACTCATATGA
1 GCTAAACAGAAGCTCATAAGA
* * *
71687734 GTTAAACAGAAGCTCGTGAGA
1 GCTAAACAGAAGCTCATAAGA
71687755 GCTAAACAGAA
1 GCTAAACAGAA
71687766 AGTAAACACA
Statistics
Matches: 88, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 88 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
GCTAAACAGAAGCTCATAAGA
Found at i:71688259 original size:23 final size:23
Alignment explanation
Indices: 71688229--71688277 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
71688219 AACTAATTAA
71688229 TCTTATCAAATTAACTAATATTT
1 TCTTATCAAATTAACTAATATTT
*
71688252 TCTTATCAAATTAACTAATTTTT
1 TCTTATCAAATTAACTAATATTT
71688275 TCT
1 TCT
71688278 CAATTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (23 bp):
TCTTATCAAATTAACTAATATTT
Found at i:71688284 original size:19 final size:21
Alignment explanation
Indices: 71688217--71688290 Score: 82
Period size: 23 Copynumber: 3.5 Consensus size: 21
71688207 AATTTAGTCC
*
71688217 TTAACTAATTAATCTTATCAAA
1 TTAACTAATT-TTCTTATCAAA
71688239 TTAACTAATATTTTCTTATCAAA
1 TTAACT-A-ATTTTCTTATCAAA
*
71688262 TTAACTAATTTT-TTCTC-AA
1 TTAACTAATTTTCTTATCAAA
71688281 TTAA-TAATTT
1 TTAACTAATTT
71688291 ATCTAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.12
19 6 0.12
20 4 0.08
21 5 0.10
22 7 0.15
23 17 0.35
24 3 0.06
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAACTAATTTTCTTATCAAA
Found at i:71689727 original size:6 final size:6
Alignment explanation
Indices: 71689718--71689761 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
71689708 AAAAAAAAAA
* * * *
71689718 CCTCTT CCTCTA CCTTTT TCTCTT CCTCTT CCTCTT CTTCTT CC
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CC
71689762 AACTTCTATG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (6 bp):
CCTCTT
Found at i:71689987 original size:148 final size:150
Alignment explanation
Indices: 71689798--71690110 Score: 440
Period size: 148 Copynumber: 2.1 Consensus size: 150
71689788 CACTAGAGAG
* * *
71689798 AATCTAAACTTTCTCATTTAAAAAAAAAATACTATTTTTCTTAAAT-ATTAAAGTTTTTATTTTG
1 AATCTAAACTTTCTCATTT-AAAAAAAAACACTATTTTTCTT-AATGATTAAAGCTTTTACTTTG
* * *
71689862 AAGTCGTT-AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAA
64 AAATAGTTGAAAAAAATC-AAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTA-AAA
71689926 AAAATAGAT-TTTTATTT-TTTAA
127 AAAATAGATATTTTATTTCTTTAA
*
71689948 AATCTAAACTTTCTCCTTT-AAAAAAAACACTATTTTTCTTAATGATTAAAGCTTTTACTTTGAA
1 AATCTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAATGATTAAAGCTTTTACTTTGAA
* * *
71690012 ATAGTTGAAAAAAATCAAACCTTGTTTTACAATTTTAAACTTTCCTTTAAAATAACTAAAAAATA
66 ATAGTTGAAAAAAATCAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAA
*
71690077 TATATATTTTATTTCTTTAA
131 TAGATATTTTATTTCTTTAA
*
71690097 ATTCT-AACTTTCTC
1 AATCTAAACTTTCTC
71690111 TTTTTTTTTA
Statistics
Matches: 147, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
147 13 0.09
148 98 0.67
149 18 0.12
150 18 0.12
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.43
Consensus pattern (150 bp):
AATCTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAATGATTAAAGCTTTTACTTTGAA
ATAGTTGAAAAAAATCAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAA
TAGATATTTTATTTCTTTAA
Found at i:71690148 original size:148 final size:146
Alignment explanation
Indices: 71689798--71690152 Score: 419
Period size: 148 Copynumber: 2.4 Consensus size: 146
71689788 CACTAGAGAG
* * * *
71689798 AATCTAAACTTTCTCATTTAAAAAAAAAATACTATTTTTCTTAAATATTAAAGTTTTTATTTTGA
1 AATCTAAACTTTCTCCTTT--AAAAAAAACACTATTTTTCTTAAA-A-TAAAGCTTTTACTTTGA
* * *
71689863 AGTCGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAAA
62 AATAGTTAAAAAAATCAAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAAA
71689928 AATAGATTTTTATTTTTTAA
127 AATAGATTTTTATTTTTTAA
*
71689948 AATCTAAACTTTCTCCTTTAAAAAAAACACTATTTTTCTTAATGATTAAAGCTTTTACTTTGAAA
1 AATCTAAACTTTCTCCTTTAAAAAAAACACTATTTTTCTTAA--AATAAAGCTTTTACTTTGAAA
* * *
71690013 TAGTTGAAAAAAATC-AAACCTTGTTTTACAATTTTAAACTTTCCTTTAAAATAACTA-AAAAAT
64 TAGTT-AAAAAAATCAAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAAAA
*
71690076 ATATATATTTTATTTCTTTAA
128 ATAGAT-TTTTATTT-TTTAA
* * *** * *
71690097 ATTCT-AACTTTCTCTTTTTTTTTAAAAACACTATTTTTCCTAAAATCAAGCTTTTA
1 AATCTAAACTTTCTC--CTTTAAAAAAAACACTATTTTTCTTAAAATAAAGCTTTTA
71690153 AAAAAAACCT
Statistics
Matches: 178, Mismatches: 20, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
147 10 0.06
148 109 0.61
149 18 0.10
150 41 0.23
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.44
Consensus pattern (146 bp):
AATCTAAACTTTCTCCTTTAAAAAAAACACTATTTTTCTTAAAATAAAGCTTTTACTTTGAAATA
GTTAAAAAAATCAAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAAAAATA
GATTTTTATTTTTTAA
Found at i:71695876 original size:14 final size:13
Alignment explanation
Indices: 71695847--71695875 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71695837 CTGAAGTTGA
71695847 CCCAAAAACTAAC
1 CCCAAAAACTAAC
71695860 CCCAAAAACTAAC
1 CCCAAAAACTAAC
71695873 CCC
1 CCC
71695876 CCCCCCCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (13 bp):
CCCAAAAACTAAC
Found at i:71703451 original size:29 final size:29
Alignment explanation
Indices: 71703393--71703549 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
71703383 ATAATAAGTC
*
71703393 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
71703421 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
71703450 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
71703479 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
71703507 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
71703536 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71703550 CAATCTCATG
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.33
29 76 0.65
30 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:71703500 original size:57 final size:58
Alignment explanation
Indices: 71703393--71703549 Score: 221
Period size: 57 Copynumber: 2.7 Consensus size: 58
71703383 ATAATAAGTC
*
71703393 CGCACACTTAGTG-TTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
*
71703450 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
* * * * *
71703507 TGCACACTTAGTGCTATGCA-ATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACTCGCACACTTAGTGC
71703550 CAATCTCATG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 60 0.66
58 31 0.34
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (58 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
Found at i:71707577 original size:42 final size:43
Alignment explanation
Indices: 71707507--71707608 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
71707497 TCCCGGACGT
* * **
71707507 GGTCTTACATGTAAATCAATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGTAAATCAATATCAATGCCGATATCCCAGACAG
* *
71707550 GGTCTTACACG-AAATCAGATA-CAATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCAATGCCGATATCCCAGACAG
*
71707592 GGTCTTATACGTAAATC
1 GGTCTTACACGTAAATC
71707609 TCAATCGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCAATGCCGATATCCCAGACAG
Found at i:71714892 original size:42 final size:41
Alignment explanation
Indices: 71714815--71714953 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 41
71714805 TCCCGGACGT
* * * *
71714815 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAATA-CGATGCC-GTGTCCCAGACAC
*
71714858 GGTCTTACACG-AAATCAGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATACGATGCCG-TGTCCCAGACAC
* *
71714900 GGTCTTATACGTAAATCTCAAT-CGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGTAAA--TCAATACGATGCC-GTGTCCCAGACAC
71714943 GGTCTTACACG
1 GGTCTTACACG
71714954 ATATCTCAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
42 33 0.40
43 43 0.52
44 3 0.04
45 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
GGTCTTACACGTAAATCAATACGATGCCGTGTCCCAGACAC
Found at i:71721431 original size:7 final size:7
Alignment explanation
Indices: 71721421--71721445 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71721411 TACATCAAAG
71721421 TCATGTT
1 TCATGTT
71721428 TCATGTT
1 TCATGTT
71721435 TCATGTT
1 TCATGTT
71721442 TCAT
1 TCAT
71721446 AAATCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (7 bp):
TCATGTT
Found at i:71721879 original size:40 final size:39
Alignment explanation
Indices: 71721775--71721882 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 39
71721765 ATCTCGGTAT
* *
71721775 CGCACACTTAGTGCCTCAAATAGCCGAAGCTATTACAAATC
1 CGCACACTTAGTGCC-AAAATAGTCGAAGCTATTACAAA-C
* ** **
71721816 CGCACACTTAGTGCTATTTATAGTCGAAGCTATTTTGAAA-
1 CGCACACTTAGTGCCA-AAATAGTCGAAGCTA-TTACAAAC
71721856 CGCACACTTAGTGCCAAACATAGTCGA
1 CGCACACTTAGTGCCAAA-ATAGTCGA
71721883 CTTAACATCG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
40 23 0.43
41 26 0.48
42 5 0.09
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
CGCACACTTAGTGCCAAAATAGTCGAAGCTATTACAAAC
Found at i:71729426 original size:67 final size:67
Alignment explanation
Indices: 71729318--71729453 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
71729308 GTCACAAACT
71729318 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
1 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
71729383 AG
66 AG
71729385 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
1 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
71729450 AG
66 AG
71729452 CC
1 CC
71729454 AAATCCAATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (67 bp):
CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
AG
Found at i:71730561 original size:22 final size:24
Alignment explanation
Indices: 71730536--71730584 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
71730526 TAAGCTTATC
71730536 TAAAATACAT-TTTAAATT-TTTT
1 TAAAATACATGTTTAAATTATTTT
* *
71730558 TAAAATATATGTTTATATTATTTT
1 TAAAATACATGTTTAAATTATTTT
71730582 TAA
1 TAA
71730585 TTTTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 7 0.30
24 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TAAAATACATGTTTAAATTATTTT
Found at i:71730581 original size:23 final size:22
Alignment explanation
Indices: 71730536--71730581 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
71730526 TAAGCTTATC
*
71730536 TAAAATACATTTTAAATTTTTT
1 TAAAATACATTTTAAATTATTT
* *
71730558 TAAAATATATGTTTATATTATTT
1 TAAAATACAT-TTTAAATTATTT
71730581 T
1 T
71730582 TAATTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAAATACATTTTAAATTATTT
Found at i:71730591 original size:17 final size:16
Alignment explanation
Indices: 71730569--71730614 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
71730559 AAAATATATG
71730569 TTTATATTATTTTTAAT
1 TTTATA-TATTTTTAAT
**
71730586 TTTATAT-TTAATAAT
1 TTTATATATTTTTAAT
71730601 TTTATATATTTTTA
1 TTTATATATTTTTA
71730615 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:71730595 original size:23 final size:24
Alignment explanation
Indices: 71730569--71730633 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
71730559 AAAATATATG
*
71730569 TTTATATTATTTT-TA-ATTTTATA
1 TTTATATAATTTTATATATTTT-TA
71730592 TTTA-ATAATTTTATATATTTTTA
1 TTTATATAATTTTATATATTTTTA
*
71730615 TTTATTAAAATTTTATATA
1 TTTA-TATAATTTTATATA
71730634 CAATCATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.19
23 12 0.33
24 5 0.14
25 12 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATATAATTTTATATATTTTTA
Found at i:71730613 original size:25 final size:25
Alignment explanation
Indices: 71730585--71730633 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
71730575 TTATTTTTAA
71730585 TTTTATAT-TTAATAATTTTATATAT
1 TTTTATATATTAA-AATTTTATATAT
*
71730610 TTTTATTTATTAAAATTTTATATA
1 TTTTATATATTAAAATTTTATATA
71730634 CAATCATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATATATTAAAATTTTATATAT
Found at i:71732542 original size:53 final size:54
Alignment explanation
Indices: 71732485--71732614 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
71732475 CTCTGATGCT
* *
71732485 ATAGCCCAGCTATGGTCTTATAC-GG-ATCGCTTGTATCACTT-TAATCTAAAGCC
1 ATAGCCCAGCTATGGTCTTATACGGGAATC-ATT-TATCACTTGTAATCCAAAGCC
* ** * *
71732538 ATAGCCCAGCTATGATCTTATACGGGAATCATTTATCACTTGTTTTCCGATGCC
1 ATAGCCCAGCTATGGTCTTATACGGGAATCATTTATCACTTGTAATCCAAAGCC
*
71732592 ATAGCCCAGCCATGGTCTTATAC
1 ATAGCCCAGCTATGGTCTTATAC
71732615 AGATATTGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
53 30 0.46
54 32 0.49
55 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (54 bp):
ATAGCCCAGCTATGGTCTTATACGGGAATCATTTATCACTTGTAATCCAAAGCC
Found at i:71732611 original size:54 final size:52
Alignment explanation
Indices: 71732447--71732614 Score: 176
Period size: 53 Copynumber: 3.2 Consensus size: 52
71732437 CCCGAATATA
* * * * *
71732447 GTCTTATACGGGAGCACTTATCACATTTCTCTGATGCTATAGCCCAGCTATG
1 GTCTTATACGGGATCATTTATCACTTTTATCTGATGCCATAGCCCAGCTATG
* * * *
71732499 GTCTTATAC-GGATCGCTTGTATCACTTTAATCTAAAGCCATAGCCCAGCTATG
1 GTCTTATACGGGATC-ATT-TATCACTTTTATCTGATGCCATAGCCCAGCTATG
* * * *
71732552 ATCTTATACGGGAATCATTTATCACTTGTTTTCCGATGCCATAGCCCAGCCATG
1 GTCTTATACGGG-ATCATTTATCACTT-TTATCTGATGCCATAGCCCAGCTATG
71732606 GTCTTATAC
1 GTCTTATAC
71732615 AGATATTGCT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
51 4 0.04
52 10 0.11
53 44 0.47
54 32 0.34
55 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
GTCTTATACGGGATCATTTATCACTTTTATCTGATGCCATAGCCCAGCTATG
Found at i:71732660 original size:38 final size:38
Alignment explanation
Indices: 71732614--71732689 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
71732604 TGGTCTTATA
71732614 CAGATATTGCTTATCACTTTTTGCCATGGTCCAACCAT
1 CAGATATTGCTTATCACTTTTTGCCATGGTCCAACCAT
71732652 CAGATATTGCTTATCACTTTTTGCCATGGTCCAACCAT
1 CAGATATTGCTTATCACTTTTTGCCATGGTCCAACCAT
71732690 GTTTGTCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (38 bp):
CAGATATTGCTTATCACTTTTTGCCATGGTCCAACCAT
Found at i:71748021 original size:44 final size:44
Alignment explanation
Indices: 71747954--71748181 Score: 179
Period size: 44 Copynumber: 5.2 Consensus size: 44
71747944 GATCCAAGAT
* * * *
71747954 GATTTGGCATCTTTATATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATCGTCAGAGAGCAGATCCAAGATAGCA
* * *
71747998 GATTTGGCGTCTCTGTATCGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATCGTCAGAGAGCAGATCCAAGATAGCA
* * *
71748042 GATTTGGCATCT-TCGTAT-TTGATGAGGAGCAAATCCAAGA-AGCA
1 GATTTGGCATCTCT-GTATCGTCA-GA-GAGCAGATCCAAGATAGCA
* * *
71748086 GATTTGGCATCTCCGTATTCGACAGGGAGCAGATCCAAGAT----
1 GATTTGGCATCTCTGTA-TCGTCAGAGAGCAGATCCAAGATAGCA
* * *
71748127 GATTTGGCATCT-TCGTAT-TTTACGATGAGCAAATCCAAGA-AGCA
1 GATTTGGCATCTCT-GTATCGTCA-GA-GAGCAGATCCAAGATAGCA
71748171 GATTTGGCATC
1 GATTTGGCATC
71748182 AGGGAGCAGA
Statistics
Matches: 147, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 28 0.19
43 3 0.02
44 98 0.67
45 14 0.10
46 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATCGTCAGAGAGCAGATCCAAGATAGCA
Found at i:71748088 original size:88 final size:85
Alignment explanation
Indices: 71747943--71748357 Score: 344
Period size: 89 Copynumber: 4.9 Consensus size: 85
71747933 ACGCTGAAGT
* * *
71747943 AGATCCAAGATGATTTGGCATCTT--TATATTG-TCAGAGAGCAGATCGAAGATAGCAGATTTGG
1 AGATCCAAGATGATTTGGCATCTTCGTAT-TTGATGAG-GAGCAAATCCAAGA-AGCAGATTTGG
* * *
71748005 CGTCTCTGTA-TCGTCAGAGAGC
63 CATCTCCGTATTCGACAGAGAGC
*
71748027 AGATCGAAGATAGTAGATTTGGCATCTTCGTATTTGATGAGGAGCAAATCCAAGAAGCAGATTTG
1 AGATCCAAG--A-T-GATTTGGCATCTTCGTATTTGATGAGGAGCAAATCCAAGAAGCAGATTTG
*
71748092 GCATCTCCGTATTCGACAGGGAGC
62 GCATCTCCGTATTCGACAGAGAGC
* * *
71748116 AGATCCAAGATGATTTGGCATCTTCGTATTTTACGATGAGCAAATCCAAGAAGCAGATTTGGCA-
1 AGATCCAAGATGATTTGGCATCTTCGTATTTGATGAGGAGCAAATCCAAGAAGCAGATTTGGCAT
71748180 -T-C--A---G---G-GAGC
66 CTCCGTATTCGACAGAGAGC
* * *
71748189 AGATCCAAGAAGATTTGGCATCTTCGTATTTGATGAGGAGTAAATCCAAGAAGCAGATTTGGTAT
1 AGATCCAAGATGATTTGGCATCTTCGTATTTGATGAGGAGCAAATCCAAGAAGCAGATTTGGCAT
* * ** *
71748254 CCCCGTATTTGATGGGGAGC
66 CTCCGTATTCGACAGAGAGC
** * * * *
71748274 AGATCCAAGATGACAGATTTGGCATCCCCGTATTCGACCG-GTAGCAAAACCAAGAAG-ATGATT
1 AGATCCAAGAT----GATTTGGCATCTTCGTATTTGA-TGAGGAGCAAATCCAAGAAGCA-GATT
* *
71748337 TGGCATCTCTGTATTTGACAG
60 TGGCATCTCCGTATTCGACAG
71748358 GAAGCAAATT
Statistics
Matches: 273, Mismatches: 32, Indels: 47
0.78 0.09 0.13
Matches are distributed among these distances:
73 62 0.23
74 1 0.00
76 1 0.00
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
82 1 0.00
83 1 0.00
84 9 0.03
85 64 0.23
86 2 0.01
87 2 0.01
88 33 0.12
89 86 0.32
90 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (85 bp):
AGATCCAAGATGATTTGGCATCTTCGTATTTGATGAGGAGCAAATCCAAGAAGCAGATTTGGCAT
CTCCGTATTCGACAGAGAGC
Found at i:71748234 original size:73 final size:73
Alignment explanation
Indices: 71748108--71748250 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 73
71748098 CCGTATTCGA
* * *
71748108 CAGGGAGCAGATCCAAGATGATTTGGCATCTTCGTATTTTACGATGAGCAAATCCAAGAAGCAGA
1 CAGGGAGCAGATCCAAGAAGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGAAGCAGA
71748173 TTTGGCAT
66 TTTGGCAT
* *
71748181 CAGGGAGCAGATCCAAGAAGATTTGGCATCTTCGTATTTGATGAGGAGTAAATCCAAGAAGCAGA
1 CAGGGAGCAGATCCAAGAAGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGAAGCAGA
71748246 TTTGG
66 TTTGG
71748251 TATCCCCGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (73 bp):
CAGGGAGCAGATCCAAGAAGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGAAGCAGA
TTTGGCAT
Found at i:71748247 original size:44 final size:45
Alignment explanation
Indices: 71748195--71748354 Score: 157
Period size: 44 Copynumber: 3.6 Consensus size: 45
71748185 GAGCAGATCC
** *
71748195 AAGA-AGATTTGGCATCTTCGTATTTGATGAGGAGTAAATCCAAG
1 AAGACAGATTTGGCATCCCCGTATTTGATGAGGAGCAAATCCAAG
* * *
71748239 AAG-CAGATTTGGTATCCCCGTATTTGATGGGGAGCAGATCCAAG
1 AAGACAGATTTGGCATCCCCGTATTTGATGAGGAGCAAATCCAAG
* * * * *
71748283 ATGACAGATTTGGCATCCCCGTATTCGACCG-GTAGCAAAACCAAG
1 AAGACAGATTTGGCATCCCCGTATTTGA-TGAGGAGCAAATCCAAG
* * *
71748328 AAGA-TGATTTGGCATCTCTGTATTTGA
1 AAGACAGATTTGGCATCCCCGTATTTGA
71748355 CAGGAAGCAA
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 58 0.61
45 36 0.38
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (45 bp):
AAGACAGATTTGGCATCCCCGTATTTGATGAGGAGCAAATCCAAG
Found at i:71748522 original size:80 final size:79
Alignment explanation
Indices: 71748328--71748531 Score: 230
Period size: 80 Copynumber: 2.6 Consensus size: 79
71748318 CAAAACCAAG
* * * * *
71748328 AAGATGATTT-GGCATCTCTGTATTTGACAGGAAGCAAATTGAAGATATAGCAGATCTGATCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACAGGGAGCAAATCGAAGACATAGCAGATCTGATCTTC
* *
71748392 GTCGAGGCAAATCC
66 ATCAAGGCAAATCC
* * * * *
71748406 AAGATAATTTGGGCATCTCTGTAATGGACAGAGAGCAAATCGAAGACATTAGTAGATCTGATCTT
1 AAGATGATTTGGGCATCTCTGTATTCGACAGGGAGCAAATCGAAGACA-TAGCAGATCTGATCTT
* *
71748471 CATCAAGGCTAATTC
65 CATCAAGGCAAATCC
* * * *
71748486 AAGATGATTTGGGCGTCTCTGTATTCAACGGGGAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACAGGGAGCAAATCGAAGA
71748532 ACTTAAGACT
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 9 0.09
79 31 0.30
80 63 0.61
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACAGGGAGCAAATCGAAGACATAGCAGATCTGATCTTC
ATCAAGGCAAATCC
Found at i:71749991 original size:16 final size:15
Alignment explanation
Indices: 71749952--71749995 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
71749942 TTAATCCATT
*
71749952 TTTATATATTTCTAAA
1 TTTATTTATTT-TAAA
*
71749968 TTTTTTTATTTTAAA
1 TTTATTTATTTTAAA
71749983 TATTATTTATTTT
1 T-TTATTTATTTT
71749996 GCTATAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATTTATTTTAAA
Found at i:71750062 original size:16 final size:16
Alignment explanation
Indices: 71750034--71750130 Score: 62
Period size: 16 Copynumber: 6.1 Consensus size: 16
71750024 TTATTTGTCG
*
71750034 TATA-TTATTTTATTA
1 TATATTTATATTATTA
71750049 TATATTTATATTATTA
1 TATATTTATATTATTA
* *
71750065 TGTTATGTTAT-CTATTA
1 T-ATAT-TTATATTATTA
71750082 TATA--TACTATCTATTA
1 TATATTTA-TAT-TATTA
*
71750098 TTTATTTATATT-TTA
1 TATATTTATATTATTA
71750113 TCATATATTAT-TTATTA
1 T-ATAT-TTATATTATTA
71750130 T
1 T
71750131 GTTGTTTATC
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 8 0.12
16 27 0.42
17 20 0.31
18 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TATATTTATATTATTA
Found at i:71750084 original size:33 final size:32
Alignment explanation
Indices: 71750044--71750145 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 32
71750034 TATATTATTT
71750044 TATTATATATTTATATTATTATGTTATGTTATC
1 TATTATATATTTATATTATTATGTTAT-TTATC
*
71750077 TATTATATA--TACTATCTATTAT-TTATTTATA
1 TATTATATATTTA-TAT-TATTATGTTATTTATC
* *
71750108 TTTTATCATATATTAT-TTATTATGTTGTTTATC
1 TATTAT-ATAT-TTATATTATTATGTTATTTATC
71750141 T-TTAT
1 TATTAT
71750146 CTTTATTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
31 11 0.19
32 20 0.34
33 24 0.41
34 1 0.02
35 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (32 bp):
TATTATATATTTATATTATTATGTTATTTATC
Found at i:71762828 original size:25 final size:25
Alignment explanation
Indices: 71762778--71762842 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
71762768 AGAAGTGCAC
*
71762778 AAGGGCTTTG-CCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
71762802 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
71762827 AAGTGCTTTGCCCCAG
1 AAGGGCTTTGCCCCAG
71762843 CTATTAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 10 0.27
25 27 0.73
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Found at i:71763135 original size:29 final size:30
Alignment explanation
Indices: 71763062--71763143 Score: 107
Period size: 29 Copynumber: 2.7 Consensus size: 30
71763052 CATTTACAGT
71763062 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATTATGA
*
71763093 AAAGGCTTCGGCCCAGTA-ATCG-TTTAATG-
1 AAAGGCTTCGGCCCAGTATAT-GAATT-ATGA
71763122 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
71763144 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 23 0.49
30 7 0.15
31 17 0.36
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATTATGA
Found at i:71770553 original size:20 final size:21
Alignment explanation
Indices: 71770517--71770564 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
71770507 ATTTTGATAT
*
71770517 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
71770538 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
71770558 ACATGAT
1 ACATGAT
71770565 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:71770649 original size:25 final size:25
Alignment explanation
Indices: 71770615--71770680 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
71770605 GGAACTACAC
* *
71770615 AAGGGCTTTGCCCTAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
71770640 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
71770665 AAGGGCTTTGCCCCAG
1 AAGGGCTTTGCCCCAG
71770681 CTATTAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Found at i:71770695 original size:24 final size:25
Alignment explanation
Indices: 71770618--71770695 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
71770608 ACTACACAAG
* * *
71770618 GGCTTTGCCCTAGTTTACCGAAAAG-
1 GGCTTTGCCCCAGTCTATC-AAAAGA
*
71770643 GGCTTTGCCCCAGTTTATCAAAA-A
1 GGCTTTGCCCCAGTCTATCAAAAGA
*
71770667 GGGCTTTGCCCCAG-CTATTAAAAGA
1 -GGCTTTGCCCCAGTCTATCAAAAGA
71770692 GGCT
1 GGCT
71770696 AGGCCTTCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 15 0.33
25 31 0.67
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
GGCTTTGCCCCAGTCTATCAAAAGA
Found at i:71772760 original size:42 final size:42
Alignment explanation
Indices: 71772642--71772760 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
71772632 CGTACCAATG
* *
71772642 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCCATG
1 CCATATCCCAGATATGGTCTTACACGTAATCTCATATCCATA
* * *
71772684 CCAATAGT-CCAGCTATGGTCTTACAC-AAAGTCTCATATCGATA
1 CC-ATA-TCCCAGATATGGTCTTACACGTAA-TCTCATATCCATA
* *
71772727 CCATATCCCAAATGTGGTCTTACACGTAATCTCA
1 CCATATCCCAGATATGGTCTTACACGTAATCTCA
71772761 ATAACCCTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.43
43 34 0.54
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGTAATCTCATATCCATA
Found at i:71778765 original size:17 final size:19
Alignment explanation
Indices: 71778723--71778766 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
71778713 ATGAAATTTT
*
71778723 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
71778742 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
71778760 AA-TATTA
1 AATTATTA
71778767 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:71781174 original size:25 final size:25
Alignment explanation
Indices: 71781141--71781189 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
71781131 TTATAATATG
* *
71781141 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71781166 AAAATGACCATTATACCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
71781190 TTTAAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71781255 original size:20 final size:20
Alignment explanation
Indices: 71781232--71781289 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
71781222 TAAACATGGT
71781232 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
71781252 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
71781272 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
71781290 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:71781272 original size:11 final size:11
Alignment explanation
Indices: 71781236--71781289 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
71781226 CATGGTATGT
71781236 ATGATATGCAC
1 ATGATATGCAC
* *
71781247 ATGACATG--T
1 ATGATATGCAC
71781256 ATGATATGCAC
1 ATGATATGCAC
*
71781267 ATGATATG--T
1 ATGATATGCAC
71781276 ATGATATGCAC
1 ATGATATGCAC
71781287 ATG
1 ATG
71781290 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71781370 original size:23 final size:23
Alignment explanation
Indices: 71781340--71782170 Score: 1628
Period size: 23 Copynumber: 36.1 Consensus size: 23
71781330 AGGAAGTGCA
71781340 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781363 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781386 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781409 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781432 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781455 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781478 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781501 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781524 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781547 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781570 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781593 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781616 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781639 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781662 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781685 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781708 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781731 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781754 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781777 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781800 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781823 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781846 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781869 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781892 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781915 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781938 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781961 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71781984 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71782007 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71782030 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71782053 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71782076 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71782099 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71782122 AAAGGGCATATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71782144 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
71782168 AAA
1 AAA
71782171 AGAGGCTAGG
Statistics
Matches: 803, Mismatches: 3, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
22 10 0.01
23 783 0.98
24 10 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71782420 original size:31 final size:31
Alignment explanation
Indices: 71782385--71782448 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71782375 CATTTACAGT
71782385 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
71782416 AAAGGCTTCGGCCCCGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71782447 AA
1 AA
71782449 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71787006 original size:19 final size:20
Alignment explanation
Indices: 71786970--71787026 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
71786960 TAAACATGGT
*
71786970 ATGTATGATATACACATGAC
1 ATGTATGATATGCACATGAC
*
71786990 ATGTATG-TATGCACATGAT
1 ATGTATGATATGCACATGAC
71787009 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
71787027 GTGTATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:71787107 original size:23 final size:23
Alignment explanation
Indices: 71787077--71787977 Score: 1775
Period size: 23 Copynumber: 39.1 Consensus size: 23
71787067 AGGAAGTGCA
71787077 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787100 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787123 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787146 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787169 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787192 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787215 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787238 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787261 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787284 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787307 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787330 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787353 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787376 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787399 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787422 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787445 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787468 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787491 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787514 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787537 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787560 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787583 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787606 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787629 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787652 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787675 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787698 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787721 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787744 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787767 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787790 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787813 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787836 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787859 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787882 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787905 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71787928 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
71787951 AAAAGGGCTTTTTCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
71787975 AAA
1 AAA
71787978 AGAGGCTAGG
Statistics
Matches: 875, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
23 854 0.98
24 21 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71790092 original size:57 final size:57
Alignment explanation
Indices: 71790030--71790167 Score: 224
Period size: 56 Copynumber: 2.4 Consensus size: 57
71790020 GTTACAATTG
* *
71790030 GGATTTAGCCTGGACTAGTAATCCTAATTGAGTTCTTCTAAGCATACGTTACATAAA
1 GGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTAAGCATACGTTACATAAA
* * *
71790087 TGATTTAGCCT-AAATGGTAATCCTAATTGAGCTCTTCTAAGCATACGTTACATAAA
1 GGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTAAGCATACGTTACATAAA
71790143 GGATTTAGCCTGGACTGGTAATCCT
1 GGATTTAGCCTGGACTGGTAATCCT
71790168 GTAATACGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 51 0.71
57 21 0.29
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (57 bp):
GGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTAAGCATACGTTACATAAA
Found at i:71799106 original size:40 final size:39
Alignment explanation
Indices: 71799070--71799158 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 39
71799060 ACCGAAGTGT
* * *
71799070 AAATAGGGCTCGTATGTGCAATTCAGTGGTATCGAAGTAC
1 AAATAGGGCACGGATGTGCAATTCAATGGTA-CGAAGTAC
*
71799110 AAACAGGGGCACGGATGTGCAATTCAATGGTACTGAAGTAC
1 AAATA-GGGCACGGATGTGCAATTCAATGGTAC-GAAGTAC
71799151 AAATAGGG
1 AAATAGGG
71799159 GATAATTAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 8 0.19
41 34 0.81
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (39 bp):
AAATAGGGCACGGATGTGCAATTCAATGGTACGAAGTAC
Found at i:71800288 original size:15 final size:16
Alignment explanation
Indices: 71800268--71800297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71800258 GCATAGTTAC
71800268 TAAGGA-AAATTTTTT
1 TAAGGAGAAATTTTTT
71800283 TAAGGAGAAATTTTT
1 TAAGGAGAAATTTTT
71800298 GCACTGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (16 bp):
TAAGGAGAAATTTTTT
Found at i:71803805 original size:27 final size:27
Alignment explanation
Indices: 71803787--71803848 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
71803777 TATGTCGGTC
* *
71803787 ATTTTACACTACAATGGTATTTCAATA
1 ATTTTACACTACAAGGGTATGTCAATA
* *
71803814 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCAATA
*
71803841 AATTTACA
1 ATTTTACA
71803849 AATCGGGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCAATA
Found at i:71803858 original size:27 final size:27
Alignment explanation
Indices: 71803802--71804034 Score: 229
Period size: 27 Copynumber: 8.6 Consensus size: 27
71803792 ACACTACAAT
* * *
71803802 GGTATTTCAATAATTTTAC-ACTACAAG
1 GGTATTTCGATAATTTTACAAAT-CGAG
* *
71803829 GGTATTTCGATAAATTTACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
71803856 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * * *
71803883 GGCATTTAGGTAATTTTACAGATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
71803910 GGTATTTC-AGTAATTTTAAAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* * *
71803937 GGTGTTTCAATAATTTTACAAATTGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
71803964 GGTGTTTC-AGTAATTTTTCAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* * *
71803991 GGTGTTCCGATAATTTCACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
71804018 GGTATTTCGGTAATTTT
1 GGTATTTCGATAATTTT
71804035 CTCTTCATTA
Statistics
Matches: 171, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 166 0.97
28 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:71803897 original size:81 final size:81
Alignment explanation
Indices: 71803805--71804034 Score: 252
Period size: 81 Copynumber: 2.8 Consensus size: 81
71803795 CTACAATGGT
* * * *
71803805 ATTTCAATAATTTTAC-ACTACAAGGGTATTTCGATAAATTTACAAATCGGGGGTGTTTCGGTAA
1 ATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGATAAATTTACAAATCGAGGGTGTTTCGGTAA
71803869 TTTTACAAATCGAGGGC
65 TTTTACAAATCGAGGGC
* * * **
71803886 ATTT-AGGTAATTTTACAGATCGAGGGTATTTC-AGTAATTTTAAAAATCGAGGGTGTTTCAATA
1 ATTTCA-GTAATTTTACAAATCGAGGGTATTTCGA-TAAATTTACAAATCGAGGGTGTTTCGGTA
* *
71803949 ATTTTACAAATTGAGGGT
64 ATTTTACAAATCGAGGGC
* * * * *
71803967 GTTTCAGTAATTTTTCAAATCGAGGGTGTTCCGAT-AATTTCACAAATCGAGGGTATTTCGGTAA
1 ATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAAATTT-ACAAATCGAGGGTGTTTCGGTAA
71804031 TTTT
65 TTTT
71804035 CTCTTCATTA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
80 6 0.05
81 113 0.93
82 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (81 bp):
ATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAAATTTACAAATCGAGGGTGTTTCGGTAAT
TTTACAAATCGAGGGC
Found at i:71804382 original size:28 final size:28
Alignment explanation
Indices: 71804350--71804468 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
71804340 TGGCCCCTTT
* * * **
71804350 AGGCCCAATCTCGTTCACATGTTCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
71804378 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
71804406 AAGCCCAATCACATTCATATGGCCCAT-
1 AGGCCCAATCACATTCATATGGCCCATC
71804433 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
71804461 AGGGCCAA
1 AGGCCCAA
71804469 CTACTTCCCG
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 26 0.32
28 56 0.68
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:71808563 original size:20 final size:17
Alignment explanation
Indices: 71808521--71808554 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71808511 TTCTTGTCGA
*
71808521 AAAATAATTAATTTTAT
1 AAAATAATTAATTATAT
71808538 AAAATAATTCAATTATA
1 AAAATAATT-AATTATA
71808555 CTTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATTATAT
Done.