Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 34 of 129
Found at i:7004922 original size:2 final size:2
Alignment explanation
Indices: 7004905--7004942 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
7004895 GGTTTTCCGG
*
7004905 AT AT AC AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7004943 GATCAGCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7011089 original size:21 final size:21
Alignment explanation
Indices: 7011054--7011103 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7011044 AATTAAAATC
7011054 AATTAAATTAGTAAAATT-TTTA
1 AATT-AATTAGT-AAATTATTTA
*
7011076 AATTAATTATTAAATTATTTA
1 AATTAATTAGTAAATTATTTA
7011097 AA-TAATT
1 AATTAATT
7011104 TAAACCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 10 0.38
21 12 0.46
22 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTAATTAGTAAATTATTTA
Found at i:7026407 original size:36 final size:36
Alignment explanation
Indices: 7026360--7026430 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
7026350 GTTGCGGATG
* *
7026360 CACAGAAACCAGTAGTCTTGTAAT-GTGGGGAAAATA
1 CACAGAAACCAGTAATCTTATAATAG-GGGGAAAATA
7026396 CACAGAAACCAGTAATCTTATAATAGGGGGAAAAT
1 CACAGAAACCAGTAATCTTATAATAGGGGGAAAAT
7026431 TGTCCAAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (36 bp):
CACAGAAACCAGTAATCTTATAATAGGGGGAAAATA
Found at i:7027720 original size:2 final size:2
Alignment explanation
Indices: 7027713--7027768 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7027703 GATTTAACAA
7027713 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7027755 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
7027769 CTTTTGACCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7033621 original size:18 final size:17
Alignment explanation
Indices: 7033575--7033608 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
7033565 ATTTATTTTG
7033575 AAACAAAAATAAAAATA
1 AAACAAAAATAAAAATA
7033592 AAACAAATAATAAAAAT
1 AAACAAA-AATAAAAAT
7033609 TAAATAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACAAAAATAAAAATA
Found at i:7036747 original size:13 final size:13
Alignment explanation
Indices: 7036725--7036758 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7036715 TATCAATTTT
*
7036725 TTTTTTAAAAATA
1 TTTTTAAAAAATA
7036738 TTTTTAAAAAATA
1 TTTTTAAAAAATA
7036751 TTTTTAAA
1 TTTTTAAA
7036759 GAAAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:7036861 original size:58 final size:57
Alignment explanation
Indices: 7036782--7036894 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
7036772 TATTTTTTTT
* * *
7036782 TTAAAAATAAATTTTCAAAAGTGAATTTTTGAGGAAAAGTTGAAGGTATTAATTTTCC
1 TTAAAAATAAATTTTCAAAAGTGAA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
*
7036840 TTAAAAATAAGTTTTCAAAAGTGAATTTTGAGGAAAAGTTAAAAGTATCAATTTT
1 TTAAAAATAAATTTTCAAAAGTGAATTTTGAGGAAAAGTTAAAAGTATCAATTTT
7036895 TCTCTAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (57 bp):
TTAAAAATAAATTTTCAAAAGTGAATTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
Found at i:7036896 original size:58 final size:57
Alignment explanation
Indices: 7036694--7036956 Score: 220
Period size: 58 Copynumber: 4.6 Consensus size: 57
7036684 TTCGAACGAT
* ** *
7036694 ATTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTTTAAAAAT-ATTTTTAAAAAATA
1 ATTTTGAGGAAAAGTTGAAAGTATCAA-TTTTTCCTTAAAAATAAGTTTTAAAAAATA
* * * * ** * * *
7036751 TTTTTAAAGAAAAATTGAAAGTAT---TTTTTTTTTAAAAATAAATTTTCAAAAGTGA
1 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAGTTTTAAAAAAT-A
* * * *
7036806 ATTTTTGAGGAAAAGTTGAAGGTATTAA-TTTTCCTTAAAAATAAGTTTTCAAAAGTGA
1 A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAGTTTTAAAAAAT-A
*
7036864 ATTTTGAGGAAAAGTTAAAAGTATCAATTTTT-CTCTAAATTAA-AAGTTTCTAAAAAAT-
1 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCT-TAAA--AATAAGTTT-TAAAAAATA
7036922 ATTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCCT
1 ATTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCCT
7036957 GTACAAAAGC
Statistics
Matches: 173, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
53 15 0.09
54 10 0.06
55 1 0.01
56 19 0.11
57 48 0.28
58 64 0.37
59 8 0.05
60 8 0.05
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.41
Consensus pattern (57 bp):
ATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAGTTTTAAAAAATA
Found at i:7039343 original size:30 final size:29
Alignment explanation
Indices: 7039309--7039410 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 29
7039299 TATAATTTTA
* *
7039309 TTGTACCAAAATTAACTCTTAACCTTTAAT
1 TTGTACCTAAATAAACTCTTAA-CTTTAAT
* * *
7039339 TTGTACTTAAATAAACTATTAAGTATTAAT
1 TTGTACCTAAATAAACTCTTAACT-TTAAT
* *
7039369 TTGTAGCC-AAATAAACTCCTAATTTTTAAT
1 TTGTA-CCTAAATAAACTCTTAA-CTTTAAT
*
7039399 TTGTAGCTAAAT
1 TTGTACCTAAAT
7039411 TAGTCCTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 2 0.03
30 54 0.93
31 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
TTGTACCTAAATAAACTCTTAACTTTAAT
Found at i:7040393 original size:22 final size:21
Alignment explanation
Indices: 7040364--7040407 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
7040354 ATTCATTCAA
7040364 GAAAATAACATAGAA-TTAATT
1 GAAAATAACAT-GAAGTTAATT
*
7040385 GAAAGATAATATGAAGTTAATT
1 GAAA-ATAACATGAAGTTAATT
7040407 G
1 G
7040408 TTGTGAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.16, T:0.30
Consensus pattern (21 bp):
GAAAATAACATGAAGTTAATT
Found at i:7041069 original size:11 final size:11
Alignment explanation
Indices: 7041055--7041107 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
7041045 TAGTAATTAC
7041055 TAATAACTTAA
1 TAATAACTTAA
7041066 TAATTAA-TTAA
1 TAA-TAACTTAA
7041077 TAATAACTTAA
1 TAATAACTTAA
* **
7041088 TAGTAAAGT-A
1 TAATAACTTAA
7041098 TAATAACTTA
1 TAATAACTTA
7041108 GTAGCAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 10 0.30
11 20 0.61
12 3 0.09
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:7041138 original size:22 final size:22
Alignment explanation
Indices: 7041036--7041156 Score: 102
Period size: 22 Copynumber: 5.6 Consensus size: 22
7041026 CATAATCAAT
* * *
7041036 ATAATTTAGTAGT-AATTACTA
1 ATAACTTAATAGTAAATTAATA
* *
7041057 ATAACTTAATAATTAATTAATA
1 ATAACTTAATAGTAAATTAATA
*
7041079 ATAACTTAATAGTAAAGT-ATA
1 ATAACTTAATAGTAAATTAATA
* * * *
7041100 ATAACTTAGTAGCAAATTAGTG
1 ATAACTTAATAGTAAATTAATA
* * *
7041122 ATAACTTAATATTAAATGAATG
1 ATAACTTAATAGTAAATTAATA
*
7041144 ATAATTTAATAGT
1 ATAACTTAATAGT
7041157 CAATAATTGA
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
21 28 0.35
22 51 0.65
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:7041355 original size:22 final size:22
Alignment explanation
Indices: 7041304--7041400 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
7041294 ATGTAATTTT
*
7041304 GTAATAAAT-AATAA-AAAATTA
1 GTAATAAATCAATAATAATA-TA
* *
7041325 TGTAGTAAATCAATGATAATATA
1 -GTAATAAATCAATAATAATATA
*
7041348 GTAATAAAT-ATATAATAATACA
1 GTAATAAATCA-ATAATAATATA
* * *
7041370 ATAATAAATCACTAATAATTTA
1 GTAATAAATCAATAATAATATA
*
7041392 GTAGTAAAT
1 GTAATAAAT
7041401 TGATAACAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.02
22 48 0.81
23 7 0.12
24 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (22 bp):
GTAATAAATCAATAATAATATA
Found at i:7041477 original size:29 final size:31
Alignment explanation
Indices: 7041445--7041510 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
7041435 AGCAAATTAC
* *
7041445 TAATAATTTAGTT-GTAAATCAATAATAA-T
1 TAATAATTAAATTAGTAAATCAATAATAACT
*
7041474 TAAT-ATTAAATTAGTTAATCAATAATAACT
1 TAATAATTAAATTAGTAAATCAATAATAACT
*
7041504 TTATAAT
1 TAATAAT
7041511 AAGTCATCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.20
29 18 0.60
30 4 0.13
31 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (31 bp):
TAATAATTAAATTAGTAAATCAATAATAACT
Found at i:7041594 original size:22 final size:22
Alignment explanation
Indices: 7041497--7041619 Score: 93
Period size: 22 Copynumber: 5.6 Consensus size: 22
7041487 GTTAATCAAT
* * *
7041497 AATAACTTTATAATAAGTCATC
1 AATAACTTAATAGTAAATCATC
* * * *
7041519 GATAAATTAATAGTAAATTAGC
1 AATAACTTAATAGTAAATCATC
* * * *
7041541 TATAACTTTATAATATATCATC
1 AATAACTTAATAGTAAATCATC
*
7041563 AATAACTTAATAGTGAATCATC
1 AATAACTTAATAGTAAATCATC
* * *
7041585 AATAATTTAATATTAAATCATT
1 AATAACTTAATAGTAAATCATC
* *
7041607 TATAGCTTAATAG
1 AATAACTTAATAG
7041620 CAAGCCATTC
Statistics
Matches: 74, Mismatches: 27, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AATAACTTAATAGTAAATCATC
Found at i:7041667 original size:22 final size:22
Alignment explanation
Indices: 7041642--7041721 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
7041632 AATTTAATGG
* *
7041642 TAAATCATTCATAAATTAGTAA
1 TAAATCATTGATAATTTAGTAA
* * * *
7041664 TAAATTATGGATAATTTATTAG
1 TAAATCATTGATAATTTAGTAA
*
7041686 TAAATCATTGATAATTTAGTGA
1 TAAATCATTGATAATTTAGTAA
*
7041708 CAAATCATTGATAA
1 TAAATCATTGATAA
7041722 CATAAAAGTA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAATCATTGATAATTTAGTAA
Found at i:7041721 original size:44 final size:44
Alignment explanation
Indices: 7041632--7041747 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
7041622 AGCCATTCAA
* * *
7041632 AATTTAATGGTAAATCATTCATAAATTAGTAATAAATTATGGAT
1 AATTTAATAGTAAATCATTCATAAATTAGTAACAAATCATGGAT
* * * * *
7041676 AATTTATTAGTAAATCATTGATAATTTAGTGACAAATCATTGAT
1 AATTTAATAGTAAATCATTCATAAATTAGTAACAAATCATGGAT
** * * *
7041720 AACATAAAAGTAAATCAATAATAAATTA
1 AATTTAATAGTAAATCATTCATAAATTA
7041748 ATTGTCAATC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (44 bp):
AATTTAATAGTAAATCATTCATAAATTAGTAACAAATCATGGAT
Found at i:7041885 original size:13 final size:14
Alignment explanation
Indices: 7041869--7041901 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7041859 CTATAAATTT
7041869 ATTTAAT-AAAAAA
1 ATTTAATAAAAAAA
*
7041882 ATTTAGTAAAAAAA
1 ATTTAATAAAAAAA
7041896 ATTTAA
1 ATTTAA
7041902 ATTTGGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATTTAATAAAAAAA
Found at i:7042152 original size:23 final size:22
Alignment explanation
Indices: 7042109--7042362 Score: 87
Period size: 22 Copynumber: 11.6 Consensus size: 22
7042099 CAGCTTCAGT
* *
7042109 TTAATAGTAATTAACTGATAAAC
1 TTAATAGTAAATAACTAAT-AAC
7042132 TTAATAGTAAATAA-TAAATAAC
1 TTAATAGTAAATAACT-AATAAC
* * *
7042154 TTAATTA-TAAATTAGTAATAAT
1 TTAA-TAGTAAATAACTAATAAC
* * * * * *
7042176 TTAGTAATTAATTATTAAAAAC
1 TTAATAGTAAATAACTAATAAC
* *
7042198 TTAAAAGTAAATCAA-T-ATAAT
1 TTAATAGTAAAT-AACTAATAAC
7042219 TTAATTA-TAAATTAA-TAATAAC
1 TTAA-TAGTAAA-TAACTAATAAC
* * *
7042241 TTAATAGTTAATAAATGATAAC
1 TTAATAGTAAATAACTAATAAC
* * *
7042263 TTAATAATAAATTA-TAGATAAT
1 TTAATAGTAAATAACTA-ATAAC
* * *
7042285 TTAATA-TAAACCAA-TGATAAA
1 TTAATAGTAAA-TAACTAATAAC
* * ** *
7042306 TTAATAGTGAATTACGGATAAT
1 TTAATAGTAAATAACTAATAAC
* * *
7042328 TTAATA-TATATAAGTAATAAT
1 TTAATAGTAAATAACTAATAAC
*
7042349 TTTATAGTAAATAA
1 TTAATAGTAAATAA
7042363 TCGAACTATG
Statistics
Matches: 174, Mismatches: 42, Indels: 31
0.70 0.17 0.13
Matches are distributed among these distances:
21 51 0.29
22 104 0.60
23 19 0.11
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATAACTAATAAC
Found at i:7042252 original size:65 final size:64
Alignment explanation
Indices: 7042109--7042319 Score: 176
Period size: 65 Copynumber: 3.2 Consensus size: 64
7042099 CAGCTTCAGT
* * * *
7042109 TTAATAG-TAATTAACTGATAAACTTAATAGTAAATAATAAATAACTTAATTATAAATTAGTAAT
1 TTAATAGTTAATTAA-T-AAAAACTTAAAAGTAAATAAT--ATAATTTAATTATAAATTAATAAT
*
7042173 AAT
62 AAA
* * * *
7042176 TTAGTAATTAATTATTAAAAACTTAAAAGTAAATCAATATAATTTAATTATAAATTAATAATAAC
1 TTAATAGTTAATTAATAAAAACTTAAAAGTAAAT-AATATAATTTAATTATAAATTAATAATAAA
* * * * ** *
7042241 TTAATAGTTAATAAATGATAACTTAATAA-TAAATTATAGATAATTTAA-TATAAACCAATGATA
1 TTAATAGTTAATTAATAAAAACTTAA-AAGTAAA-TA-ATATAATTTAATTATAAATTAATAATA
7042304 AA
63 AA
*
7042306 TTAATAGTGAATTA
1 TTAATAGTTAATTA
7042320 CGGATAATTT
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
65 74 0.63
66 29 0.25
67 9 0.08
68 6 0.05
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (64 bp):
TTAATAGTTAATTAATAAAAACTTAAAAGTAAATAATATAATTTAATTATAAATTAATAATAAA
Found at i:7042311 original size:43 final size:43
Alignment explanation
Indices: 7042124--7042335 Score: 133
Period size: 43 Copynumber: 4.9 Consensus size: 43
7042114 AGTAATTAAC
* * * * * *
7042124 TGATAAACTTAATAGTAAATAATAAATAACTTAATTATAAATTAG
1 TGATAAA-TTAATAATAAATTATAGATAATTTAA-TATAAATCAA
* * * * * * *
7042169 TAATAATTTAGTAATTAATTATTA-AAAACTTAAAAGTAAATCAA
1 TGATAAATTAATAATAAATTA-TAGATAATTTAATA-TAAATCAA
* * * * *
7042213 T-ATAATTTAATTATAAATTAATA-ATAACTTAATAGTTAATAAA
1 TGATAAATTAATAATAAATT-ATAGATAATTTAATA-TAAATCAA
* *
7042256 TGATAACTTAATAATAAATTATAGATAATTTAATATAAACCAA
1 TGATAAATTAATAATAAATTATAGATAATTTAATATAAATCAA
* * **
7042299 TGATAAATTAATAGTGAATTACGGATAATTTAATATA
1 TGATAAATTAATAATAAATTATAGATAATTTAATATA
7042336 TATAAGTAAT
Statistics
Matches: 134, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
43 75 0.56
44 52 0.39
45 7 0.05
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.37
Consensus pattern (43 bp):
TGATAAATTAATAATAAATTATAGATAATTTAATATAAATCAA
Found at i:7042426 original size:19 final size:19
Alignment explanation
Indices: 7042404--7042441 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7042394 AAAACCTAAG
7042404 TAGTAAATAAATG-ATAATA
1 TAGT-AATAAATGCATAATA
7042423 TAGTAATAAATGCATAATA
1 TAGTAATAAATGCATAATA
7042442 ACATATTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (19 bp):
TAGTAATAAATGCATAATA
Found at i:7042665 original size:34 final size:33
Alignment explanation
Indices: 7042627--7042692 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
7042617 CATCAGTAAC
7042627 TTAATAATAAATCATCAATAATTTAGTAGATAAT
1 TTAATAATAAATCATCAATAATTTAGTA-ATAAT
* **
7042661 TTAATAGTAAATCATTGATAATTTAGTAATAA
1 TTAATAATAAATCATCAATAATTTAGTAATAA
7042693 ATCATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (33 bp):
TTAATAATAAATCATCAATAATTTAGTAATAAT
Found at i:7042680 original size:22 final size:22
Alignment explanation
Indices: 7042655--7042714 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
7042645 TAATTTAGTA
*
7042655 GATAATTTAATAGTAAATCATT
1 GATAATTTAGTAGTAAATCATT
*
7042677 GATAATTTAGTAATAAATCATT
1 GATAATTTAGTAGTAAATCATT
* *
7042699 TATAGTTTAGTAGTAA
1 GATAATTTAGTAGTAA
7042715 TCACTGACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCATT
Found at i:7042691 original size:56 final size:56
Alignment explanation
Indices: 7042600--7042715 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 56
7042590 TAAATAAATT
*
7042600 ATAATTTTATAATAAATCATCAGTAACTTAATAATAAATCATCAATAATTTAGTAG
1 ATAATTTAATAATAAATCATCAGTAACTTAATAATAAATCATCAATAATTTAGTAG
* * * * ** *
7042656 ATAATTTAATAGTAAATCAT-TGATAATTTAGTAATAAATCATTTATAGTTTAGTAG
1 ATAATTTAATAATAAATCATCAG-TAACTTAATAATAAATCATCAATAATTTAGTAG
7042712 -TAAT
1 ATAAT
7042716 CACTGACAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
55 5 0.10
56 46 0.90
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (56 bp):
ATAATTTAATAATAAATCATCAGTAACTTAATAATAAATCATCAATAATTTAGTAG
Found at i:7043328 original size:3 final size:3
Alignment explanation
Indices: 7043322--7043362 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
7043312 ATTGTTGTTG
*
7043322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7043363 TATTGAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7056058 original size:28 final size:28
Alignment explanation
Indices: 7055996--7056061 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
7055986 AAAAGTCTAC
7055996 TATTCTCATTTTTTTATTTGATTATTAAG
1 TATT-TCATTTTTTTATTTGATTATTAAG
7056025 TA-TTCATTTTTTTATTTGATTATTAAG
1 TATTTCATTTTTTTATTTGATTATTAAG
7056052 TATTTCATTT
1 TATTTCATTT
7056062 GTAACGAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 26 0.72
28 8 0.22
29 2 0.06
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (28 bp):
TATTTCATTTTTTTATTTGATTATTAAG
Found at i:7056283 original size:33 final size:36
Alignment explanation
Indices: 7056201--7056283 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
7056191 CAATTCAAAG
* *
7056201 TTCATACATATATATTAAATCTTCGATTATTTCTTT
1 TTCACACATATATAGTAAATCTTCGATTATTTCTTT
* *
7056237 TTCACACATATATAGTAAATCTTTGATTCTTT-TTT
1 TTCACACATATATAGTAAATCTTCGATTATTTCTTT
* *
7056272 TTCTCAAATATA
1 TTCACACATATA
7056284 CATAACAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 13 0.32
36 28 0.68
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (36 bp):
TTCACACATATATAGTAAATCTTCGATTATTTCTTT
Found at i:7058112 original size:23 final size:25
Alignment explanation
Indices: 7058086--7058142 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 25
7058076 CTTAATCAAA
*
7058086 TATTTATATT-TTAAAATA-TATTT
1 TATTTATATTATAAAAATATTATTT
7058109 TA-TTAT-TTAATAAAAATATTATTT
1 TATTTATATT-ATAAAAATATTATTT
7058133 TATCTTATAT
1 TAT-TTATAT
7058143 AACAATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 2 0.07
22 4 0.15
23 9 0.33
24 7 0.26
26 4 0.15
27 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTATATTATAAAAATATTATTT
Found at i:7058135 original size:21 final size:24
Alignment explanation
Indices: 7058097--7058144 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
7058087 ATTTATATTT
7058097 TAAAATATATTTTATTAT-TTA-A
1 TAAAATATATTTTATTATCTTATA
7058119 TAAAA-ATATTATT-TTATCTTATA
1 TAAAATATATT-TTATTATCTTATA
7058142 TAA
1 TAA
7058145 CAATTCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.39
22 10 0.43
23 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAATATATTTTATTATCTTATA
Found at i:7064531 original size:22 final size:22
Alignment explanation
Indices: 7064506--7064550 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7064496 AAATTACATC
*
7064506 AAAATTTTATATATTTTATAAA
1 AAAATTATATATATTTTATAAA
*
7064528 AAAATTATATATTTTTTATAAA
1 AAAATTATATATATTTTATAAA
7064550 A
1 A
7064551 TATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTATATATATTTTATAAA
Found at i:7064550 original size:20 final size:21
Alignment explanation
Indices: 7064506--7064555 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
7064496 AAATTACATC
*
7064506 AAAATTTTATATATTTTATAA
1 AAAATATTATATATTTTATAA
* *
7064527 AAAA-ATTATATATTTTTTAT
1 AAAATATTATATATTTTATAA
7064547 AAAATATTA
1 AAAATATTA
7064556 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATATTATATATTTTATAA
Found at i:7064628 original size:32 final size:30
Alignment explanation
Indices: 7064563--7064630 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
7064553 TTAAATTTAA
* *
7064563 AATTATATTTTTATATTTTTTATTGTAATAT
1 AATT-TATTTTTATATTTTTTATTGAAAAAT
7064594 AATTTATTATTTATATTTTTTTAATT-AAAAAT
1 AATTTATT-TTTATA-TTTTTT-ATTGAAAAAT
7064626 AATTT
1 AATTT
7064631 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 4 0.12
31 10 0.31
32 15 0.47
33 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
AATTTATTTTTATATTTTTTATTGAAAAAT
Found at i:7064689 original size:20 final size:21
Alignment explanation
Indices: 7064649--7064689 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7064639 TAAAATTAAG
*
7064649 TTAACAATTCAAAATCTTTTT
1 TTAACAATTCAAAATCATTTT
*
7064670 TTAA-AATTCAATATCATTTT
1 TTAACAATTCAAAATCATTTT
7064690 AAAAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAACAATTCAAAATCATTTT
Found at i:7065697 original size:14 final size:14
Alignment explanation
Indices: 7065678--7065704 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7065668 ATAATTTTAC
7065678 AAATAAAATAACTA
1 AAATAAAATAACTA
7065692 AAATAAAATAACT
1 AAATAAAATAACT
7065705 TTTGATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:7070926 original size:20 final size:20
Alignment explanation
Indices: 7070901--7070947 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
7070891 AAATTACTTA
7070901 ATAAAATA-TTC-AAATATTAT
1 ATAAAATATTTCTAAA-ATT-T
7070921 ATAAAA-ATTTCTAAAATTT
1 ATAAAATATTTCTAAAATTT
7070940 ATAAAATA
1 ATAAAATA
7070948 AAATTATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.33
20 13 0.54
21 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATATTTCTAAAATTT
Found at i:7078013 original size:31 final size:30
Alignment explanation
Indices: 7077946--7078014 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
7077936 ATTATGCTCA
* *
7077946 ATTTAATTTGAGACTATTTCAATTCGAATC
1 ATTTAATTTGAGACTATTTAAATTCAAATC
* * *
7077976 ATTTTAATTTTAGATTAATTTAAATTCAAATT
1 A-TTTAATTTGAGACT-ATTTAAATTCAAATC
7078008 ATTTAAT
1 ATTTAAT
7078015 GTTTGGATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 18 0.56
32 13 0.41
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (30 bp):
ATTTAATTTGAGACTATTTAAATTCAAATC
Found at i:7079775 original size:26 final size:25
Alignment explanation
Indices: 7079740--7079803 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
7079730 TCTTTCATTT
**
7079740 TTTTTATTTTTT-AAGCTTTTTTTA
1 TTTTTATTTTTTAAAAATTTTTTTA
7079764 GTTTTTATTTTTTAAAAATTTTTTTA
1 -TTTTTATTTTTTAAAAATTTTTTTA
*
7079790 CTTTTATTTTTTAA
1 TTTTTATTTTTTAA
7079804 TAGATAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 25 0.71
26 10 0.29
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTATTTTTTAAAAATTTTTTTA
Found at i:7081791 original size:33 final size:32
Alignment explanation
Indices: 7081681--7081791 Score: 79
Period size: 33 Copynumber: 3.4 Consensus size: 32
7081671 ACTTTTTAAC
* * *
7081681 ATAAA-AAATATAAAT-CAATAAAGATAAATAG
1 ATAAAGAAA-ATAAATAAAATAAAAATAAAAAG
* *
7081712 -TAAAGATAAACAAATAAAA-AGAAATGAAATAAG
1 ATAAAGA-AAATAAATAAAATAAAAAT-AAA-AAG
*
7081745 AGTAAA-AAGATAAATAAAAGTAAAAATAAAAAG
1 A-TAAAGAAAATAAATAAAA-TAAAAATAAAAAG
7081778 ATAAAGAAAATAAA
1 ATAAAGAAAATAAA
7081792 AAGTAAACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
30 4 0.07
31 10 0.16
32 11 0.18
33 23 0.38
34 4 0.07
35 9 0.15
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (32 bp):
ATAAAGAAAATAAATAAAATAAAAATAAAAAG
Found at i:7081798 original size:16 final size:17
Alignment explanation
Indices: 7081767--7081808 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7081757 AATAAAAGTA
*
7081767 AAAATAAAAAGATAAAG
1 AAAATAAAAAGATAAAC
7081784 AAAATAAAAAG-TAAAC
1 AAAATAAAAAGATAAAC
7081800 AAAGATAAA
1 AAA-ATAAA
7081809 TATAACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATAAAAAGATAAAC
Found at i:7081804 original size:50 final size:49
Alignment explanation
Indices: 7081700--7081810 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 49
7081690 ATAAATCAAT
* *
7081700 AAAGATAAATAGTAAAGATAAACAAATAAAAAGAAATGAAATAAGAGTAA
1 AAAGATAAATAG-AAAGATAAACAAATAAAAAGAAAAGAAATAAAAGTAA
7081750 AAAGATAAATA-AAAG-T-AA-AAATAAAAAGATAAAGAAAATAAAAAGTAAA
1 AAAGATAAATAGAAAGATAAACAAATAAAAAGA-AAAG-AAAT-AAAAGT-AA
7081799 CAAAGATAAATA
1 -AAAGATAAATA
7081811 TAACTTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
45 11 0.20
46 5 0.09
47 5 0.09
48 9 0.17
49 2 0.04
50 22 0.41
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (49 bp):
AAAGATAAATAGAAAGATAAACAAATAAAAAGAAAAGAAATAAAAGTAA
Found at i:7081821 original size:50 final size:45
Alignment explanation
Indices: 7081723--7081821 Score: 108
Period size: 50 Copynumber: 2.1 Consensus size: 45
7081713 AAAGATAAAC
* * *
7081723 AAATAAAAAGAAATGAAATAAGAGTAAAAAGATAAATAAAAGTAA
1 AAATAAAAAGAAAAGAAATAAAAGTAAAAAGATAAATAAAACTAA
* *
7081768 AAATAAAAAGATAAAGAAAATAAAAAGTAAACAAAGATAAATATAACTTA
1 AAATAAAAAGA-AAAG-AAAT-AAAAGT-AA-AAAGATAAATAAAACTAA
7081818 AAAT
1 AAAT
7081822 TATAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
45 11 0.25
46 3 0.07
47 4 0.09
48 5 0.11
49 2 0.05
50 19 0.43
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (45 bp):
AAATAAAAAGAAAAGAAATAAAAGTAAAAAGATAAATAAAACTAA
Found at i:7083553 original size:22 final size:21
Alignment explanation
Indices: 7083528--7083583 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
7083518 GCACAAAAGG
*
7083528 AATGATAAATGATAAAAAAAAA
1 AATGA-AAATGAGAAAAAAAAA
* *
7083550 AATGAAAGATAAGAAAATAAAA
1 AATGAAA-ATGAGAAAAAAAAA
7083572 AATGAAAATGAG
1 AATGAAAATGAG
7083584 TGATAAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (21 bp):
AATGAAAATGAGAAAAAAAAA
Found at i:7085915 original size:14 final size:14
Alignment explanation
Indices: 7085896--7085926 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7085886 AGATTTTATT
*
7085896 ATTATTTTTTGAAA
1 ATTATTTTTTCAAA
7085910 ATTATTTTTTCAAA
1 ATTATTTTTTCAAA
7085924 ATT
1 ATT
7085927 TCAAAACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTATTTTTTCAAA
Found at i:7086716 original size:14 final size:14
Alignment explanation
Indices: 7086697--7086748 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
7086687 AAATAATAAC
7086697 TAAAGATAAATCAA
1 TAAAGATAAATCAA
* *
7086711 TAAAGA-AAATTAG
1 TAAAGATAAATCAA
7086724 TAAAGATAAA-CAAA
1 TAAAGATAAATC-AA
*
7086738 TAAAAATAAAT
1 TAAAGATAAAT
7086749 GAAATAGGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (14 bp):
TAAAGATAAATCAA
Found at i:7108387 original size:15 final size:15
Alignment explanation
Indices: 7108367--7108395 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7108357 AAATTTTAAG
7108367 AATTTAAAATTTTTT
1 AATTTAAAATTTTTT
7108382 AATTTAAAATTTTT
1 AATTTAAAATTTTT
7108396 GTTAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTAAAATTTTTT
Found at i:7122216 original size:3 final size:3
Alignment explanation
Indices: 7122210--7122253 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7122200 GTTGTGTAAG
7122210 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7122254 GTTGTTGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7122258 original size:3 final size:3
Alignment explanation
Indices: 7122252--7122304 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
7122242 ATTATTATTA
* * *
7122252 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG TTA TTG TTA
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
7122300 TTG TT
1 TTG TT
7122305 ATTATTATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.04, C:0.02, G:0.28, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:7122305 original size:6 final size:6
Alignment explanation
Indices: 7122213--7122319 Score: 88
Period size: 6 Copynumber: 17.8 Consensus size: 6
7122203 GTGTAAGTTA
* * * * * * *
7122213 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTG TTGTTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
* * * * ** *
7122261 TTGTTG TTGTTG TTGTTG TTGTTG TTGCTG TTATTG TTATTG TTATTA
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
7122309 TTATTG TTATT
1 TTATTG TTATT
7122320 ATCTTGAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 94 1.00
ACGTcount: A:0.18, C:0.01, G:0.15, T:0.66
Consensus pattern (6 bp):
TTATTG
Found at i:7124247 original size:195 final size:195
Alignment explanation
Indices: 7123897--7124612 Score: 624
Period size: 195 Copynumber: 3.6 Consensus size: 195
7123887 ATATTATAAC
* * * * * *
7123897 GATTTACCTTTCATCATTAATATATTAGATTTAATCATTTATTTTAT-ACGATTATAGCCTTTAA
1 GATTTA-CTTTCATCACTAATATATCAAATTTTATCATTTATTTTGTGACGATTATA-ACTTTAA
** * *** *
7123961 TGA--AGTTT-TTTCATAAATA-ATGATTGAAAACTAATGTCACAAACAATAAAGCATAATGTGA
64 TGACCTTTTTCTTTCATAAATAGCT-AACAAAAACTAATATCACAAA-AA-AAAG----A-GTGA
* * * * *
7124022 CATTTGATTTTATCGGCACATTTAACATTATCTTACAATCATTTGTGACAATAATTGTGTCACCA
121 CATTTGATTTTATTGTCACATTTGACATTATCTTACAATCATTTGTGACAATAATTATATCACCA
7124087 ATACTATGAT
186 ATACTATGAT
* * * * *
7124097 AATTTATCTTTCATCACTAATATATCAAATTTTATTATTTGTTTTGTGATGATTATATTCTTTAA
1 GATTTA-CTTTCATCACTAATATATCAAATTTTATCATTTATTTTGTGACGATTATA-ACTTTAA
* * *
7124162 TGACCTTTTTCTTT-ATAAATAGTTAACAAAAACTAACATCATAAAAAAAAG-GTGACATTTGAT
64 TGACCTTTTTCTTTCATAAATAGCTAACAAAAACTAATATCACAAAAAAAAGAGTGACATTTGAT
* * * * *
7124225 TTAATTGTCACATTTGACATTATCTTATAATCATTGGTGACAATAATTATATCACCAAAATTATG
129 TTTATTGTCACATTTGACATTATCTTACAATCATTTGTGACAATAATTATATCACCAATACTATG
*
7124290 AC
194 AT
* * * * * *
7124292 GACTTACTTTTAGTCACTAATATATGAGATTTTTATCATTTATTTTGTGACAAGTATAACTTTTA
1 GATTTACTTTCA-TCACTAATATATCA-AATTTTATCATTTATTTTGTGACGATTATAAC-TTTA
* * * * *
7124357 ATAACC-TTTTCTTTTCATAAATAACTGACGAAAACTAATTTCACAAAAACTAAAGTATAAGATG
63 ATGACCTTTTTC-TTTCATAAATAGCTAACAAAAACTAATATCACAAAAA--AAAG----AG-TG
* * * * * *
7124421 ACATTTTATTTTATTATCACAGTAGACATTATCTTACAA-CTATTTGTGACAACAATTTTATCAC
120 ACATTTGATTTTATTGTCACATTTGACATTATCTTACAATC-ATTTGTGACAATAATTATATCAC
* *
7124485 GAATACTGTGAT
184 CAATACTATGAT
* * *
7124497 GATTTAGCTTTCGTCACTAATATATCATATTTTATCATTTATTTTATGACGATTATAACCTTTAA
1 GATTTA-CTTTCATCACTAATATATCAAATTTTATCATTTATTTTGTGACGATTATAA-CTTTAA
* *
7124562 TGA-CTTTTTTTTTCATAAATAGCTAACAAAAACTAATGTCACAAAAAAAAG
64 TGACCTTTTTCTTTCATAAATAGCTAACAAAAACTAATATCACAAAAAAAAG
7124613 TATAGGGTGA
Statistics
Matches: 414, Mismatches: 80, Indels: 43
0.77 0.15 0.08
Matches are distributed among these distances:
194 5 0.01
195 91 0.22
196 36 0.09
197 26 0.06
199 4 0.01
200 38 0.09
201 25 0.06
202 2 0.00
203 59 0.14
204 43 0.10
205 81 0.20
206 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (195 bp):
GATTTACTTTCATCACTAATATATCAAATTTTATCATTTATTTTGTGACGATTATAACTTTAATG
ACCTTTTTCTTTCATAAATAGCTAACAAAAACTAATATCACAAAAAAAAGAGTGACATTTGATTT
TATTGTCACATTTGACATTATCTTACAATCATTTGTGACAATAATTATATCACCAATACTATGAT
Found at i:7124472 original size:205 final size:200
Alignment explanation
Indices: 7123897--7124638 Score: 672
Period size: 205 Copynumber: 3.7 Consensus size: 200
7123887 ATATTATAAC
* * * * * * * *
7123897 GATTTACCTTTCA-TCATTAATATATTAGATTTAATCATTTATTTTAT-ACGATTATAGCCTTTA
1 GATTTAGCTTTTAGTCACTAATATATCA-ATTTTATCATTTATTTTGTGACGATTATAACTTTTA
** *** *
7123960 ATGA--AGTTTTTTCATAAATAA-TGATTGAAAACTAATGTCACAAACAATAAAGCATAATGTGA
65 ATGACCTTTTTTTTCATAAATAACT-AACAAAAACTAATGTCACAAA-AA-AAAGTATAA-GTGA
* * * *
7124022 CATTTGATTTTATCGGCACATTTA-ACATTATCTTACAATCATTTGTGACAATAATTGTGTCACC
126 CATTTGATTTTATTGTCACA-TTAGACATTATCTTACAATCATTTGTGACAATAATTATATCACC
7124086 AATACTATGAT
190 AATACTATGAT
* * * * * * *
7124097 AATTTATCTTTCA-TCACTAATATATCAAATTTTATTATTTGTTTTGTGATGATTAT-ATTCTTT
1 GATTTAGCTTTTAGTCACTAATATATC-AATTTTATCATTTATTTTGTGACGATTATAACT-TTT
** ** *
7124160 AATGACCTTTTTCTTT-ATAAATAGTTAACAAAAACTAACATCATAAAAAAAAG-----GTGACA
64 AATGACCTTTTT-TTTCATAAATAACTAACAAAAACTAATGTCACAAAAAAAAGTATAAGTGACA
* * * * *
7124219 TTTGATTTAATTGTCACATTTGACATTATCTTATAATCATTGGTGACAATAATTATATCACCAAA
128 TTTGATTTTATTGTCACATTAGACATTATCTTACAATCATTTGTGACAATAATTATATCACCAAT
* *
7124284 ATTATGAC
193 ACTATGAT
* * * *
7124292 GACTTA-CTTTTAGTCACTAATATATGAGATTTTTATCATTTATTTTGTGACAAGTATAACTTTT
1 GATTTAGCTTTTAGTCACTAATATATCA-A-TTTTATCATTTATTTTGTGACGATTATAACTTTT
* * * *
7124356 AATAACCTTTTCTTTTCATAAATAACTGACGAAAACTAATTTCACAAAAACTAAAGTATAAGATG
64 AATGACCTTTT-TTTTCATAAATAACTAACAAAAACTAATGTCACAAAAA--AAAGTATAAG-TG
* * * * *
7124421 ACATTTTATTTTATTATCACAGTAGACATTATCTTACAA-CTATTTGTGACAACAATTTTATCAC
125 ACATTTGATTTTATTGTCACATTAGACATTATCTTACAATC-ATTTGTGACAATAATTATATCAC
* *
7124485 GAATACTGTGAT
189 CAATACTATGAT
* * *
7124497 GATTTAGC-TTTCGTCACTAATATATCATATTTTATCATTTATTTTATGACGATTATAACCTTTA
1 GATTTAGCTTTTAGTCACTAATATATCA-ATTTTATCATTTATTTTGTGACGATTATAACTTTTA
* * *
7124561 ATGACTTTTTTTTTCATAAATAGCTAACAAAAACTAATGTCACAAAAAAAAGTATAGGGTGACAT
65 ATGACCTTTTTTTTCATAAATAACTAACAAAAACTAATGTCACAAAAAAAAGTATA-AGTGACAT
*
7124626 TTTATTTTATTGT
129 TTGATTTTATTGT
7124639 TACGATAGAT
Statistics
Matches: 437, Mismatches: 80, Indels: 49
0.77 0.14 0.09
Matches are distributed among these distances:
194 8 0.02
195 82 0.19
196 38 0.09
197 29 0.07
199 4 0.01
200 37 0.08
201 46 0.11
202 3 0.01
203 59 0.14
204 45 0.10
205 85 0.19
206 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (200 bp):
GATTTAGCTTTTAGTCACTAATATATCAATTTTATCATTTATTTTGTGACGATTATAACTTTTAA
TGACCTTTTTTTTCATAAATAACTAACAAAAACTAATGTCACAAAAAAAAGTATAAGTGACATTT
GATTTTATTGTCACATTAGACATTATCTTACAATCATTTGTGACAATAATTATATCACCAATACT
ATGAT
Found at i:7126350 original size:20 final size:20
Alignment explanation
Indices: 7126327--7126364 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7126317 TTATATAACA
*
7126327 TTTATTTTTAATTTATATTT
1 TTTAATTTTAATTTATATTT
7126347 TTTAATTTTAATTTATAT
1 TTTAATTTTAATTTATAT
7126365 ATATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTAATTTTAATTTATATTT
Found at i:7126373 original size:20 final size:20
Alignment explanation
Indices: 7126332--7126373 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7126322 TAACATTTAT
* * *
7126332 TTTTAATTTATATTTTTTAA
1 TTTTAATTTATATATATAAA
7126352 TTTTAATTTATATATATAAA
1 TTTTAATTTATATATATAAA
7126372 TT
1 TT
7126374 AAAGATAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAATTTATATATATAAA
Found at i:7129547 original size:24 final size:22
Alignment explanation
Indices: 7129472--7129566 Score: 72
Period size: 24 Copynumber: 4.2 Consensus size: 22
7129462 TCATTTAAAA
*
7129472 AATTATAATAATTTATTTATAAT
1 AATT-TAATAATTTATTGATAAT
*
7129495 AA-TTACATCATTGTATTTGATAA-
1 AATTTA-ATAATT-TA-TTGATAAT
7129518 ATATTTAATAATTTTATGTGATAAT
1 A-ATTTAATAA-TTTAT-TGATAAT
*
7129543 AATTT--TAAATTATTGATAAT
1 AATTTAATAATTTATTGATAAT
7129563 AATT
1 AATT
7129567 AAATCATTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
20 11 0.18
21 6 0.10
22 9 0.15
23 6 0.10
24 22 0.37
25 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (22 bp):
AATTTAATAATTTATTGATAAT
Found at i:7129916 original size:8 final size:8
Alignment explanation
Indices: 7129903--7129936 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
7129893 TAATAAAAAT
7129903 ATTTATTA
1 ATTTATTA
7129911 ATTTATTA
1 ATTTATTA
7129919 ATTTAATTA
1 ATTT-ATTA
7129928 TATTTATTA
1 -ATTTATTA
7129937 TAAAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 8 0.33
10 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATTA
Found at i:7131828 original size:15 final size:15
Alignment explanation
Indices: 7131791--7131846 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
7131781 TTATATCAAA
*
7131791 ATTTAATTTATATTTT
1 ATTTAATTT-TATTAT
7131807 A-TT-ATTTTATTAT
1 ATTTAATTTTATTAT
*
7131820 ATTTAATTTTATAAT
1 ATTTAATTTTATTAT
* *
7131835 ACTTATTTTTAT
1 ATTTAATTTTAT
7131847 ATCCAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 21 0.62
16 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTAATTTTATTAT
Found at i:7143998 original size:24 final size:25
Alignment explanation
Indices: 7143953--7144006 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
7143943 AAACAGTAAC
* *
7143953 AAAATTTACTATAATTACGATT-AA
1 AAAAATTACTATAACTACGATTGAA
**
7143977 AAAAATTACTATAACTGTGATTGAA
1 AAAAATTACTATAACTACGATTGAA
7144002 AAAAA
1 AAAAA
7144007 AAATTTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (25 bp):
AAAAATTACTATAACTACGATTGAA
Found at i:7144463 original size:20 final size:20
Alignment explanation
Indices: 7144440--7144477 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7144430 TTATATAACA
*
7144440 TTTATTTTTAATTTATATTT
1 TTTAATTTTAATTTATATTT
7144460 TTTAATTTTAATTTATAT
1 TTTAATTTTAATTTATAT
7144478 ATATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTAATTTTAATTTATATTT
Found at i:7147645 original size:24 final size:22
Alignment explanation
Indices: 7147570--7147664 Score: 72
Period size: 24 Copynumber: 4.2 Consensus size: 22
7147560 TCATTTAAAA
*
7147570 AATTATAATAATTTATTTATAAT
1 AATT-TAATAATTTATTGATAAT
*
7147593 AA-TTACATCATTGTATTTGATAA-
1 AATTTA-ATAATT-TA-TTGATAAT
7147616 ATATTTAATAATTTTATGTGATAAT
1 A-ATTTAATAA-TTTAT-TGATAAT
*
7147641 AATTT--TAAATTATTGATAAT
1 AATTTAATAATTTATTGATAAT
7147661 AATT
1 AATT
7147665 AAATCATTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
20 11 0.18
21 6 0.10
22 9 0.15
23 6 0.10
24 22 0.37
25 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (22 bp):
AATTTAATAATTTATTGATAAT
Found at i:7148013 original size:8 final size:8
Alignment explanation
Indices: 7148000--7148033 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
7147990 TTAATAAAAT
7148000 ATTTATTA
1 ATTTATTA
7148008 ATTTATTA
1 ATTTATTA
7148016 ATTTAATTA
1 ATTT-ATTA
7148025 TATTTATTA
1 -ATTTATTA
7148034 TAAAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 8 0.33
10 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATTA
Found at i:7149919 original size:16 final size:14
Alignment explanation
Indices: 7149890--7149945 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
7149880 TTATATCAAA
7149890 ATTTAA-TTTATAT
1 ATTTAATTTTATAT
*
7149903 -TTATTATTTTATAT
1 ATT-TAATTTTATAT
7149917 ATTTAATTTTATAAT
1 ATTTAATTTTAT-AT
* *
7149932 ACTTATTTTTATAT
1 ATTTAATTTTATAT
7149946 CCAAATACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
14 17 0.49
15 14 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTAATTTTATAT
Found at i:7149944 original size:27 final size:27
Alignment explanation
Indices: 7149890--7149945 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
7149880 TTATATCAAA
*
7149890 ATTTAATTTATATTTATTATTTTATAT
1 ATTTAATTTATATATATTATTTTATAT
7149917 ATTTAATTT-TATAATACTTATTTT-TAT
1 ATTTAATTTATAT-ATA-TTATTTTATAT
7149944 AT
1 AT
7149946 CCAAATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 16 0.62
28 7 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTAATTTATATATATTATTTTATAT
Found at i:7157753 original size:34 final size:33
Alignment explanation
Indices: 7157712--7157832 Score: 91
Period size: 34 Copynumber: 3.4 Consensus size: 33
7157702 TTCAGGAATA
7157712 ATTATATTTTAATAATAATATTTAATATTAAAGT
1 ATTATATTTTAATAATAATATTTAATATTAAA-T
* * * *
7157746 ATTATA-TTAATATAAAAATATTTAAAATAAAACT
1 ATTATATTTTA-ATAATAATATTTAATATTAAA-T
* *
7157780 ATTTATTATTTTTATATTAATATTTTAAAATATTAAAT
1 A-TTA-TATTTTAATAATAATA-TTT--AATATTAAAT
*
7157818 ATTATTTTATTAATA
1 ATTATATT-TTAATA
7157833 TTAAATAGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
33 3 0.05
34 26 0.39
35 3 0.05
36 12 0.18
37 13 0.20
38 2 0.03
39 7 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (33 bp):
ATTATATTTTAATAATAATATTTAATATTAAAT
Found at i:7157825 original size:20 final size:21
Alignment explanation
Indices: 7157800--7157839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7157790 TTTATATTAA
7157800 TATTTTA-AAATATTAAATAT
1 TATTTTATAAATATTAAATAT
*
7157820 TATTTTATTAATATTAAATA
1 TATTTTATAAATATTAAATA
7157840 GTAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTATAAATATTAAATAT
Found at i:7158104 original size:10 final size:11
Alignment explanation
Indices: 7158083--7158114 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
7158073 TAAAATAATA
7158083 ATATTATTATT
1 ATATTATTATT
7158094 ATATT-TTATT
1 ATATTATTATT
7158104 AT-TTATTATT
1 ATATTATTATT
7158114 A
1 A
7158115 AAATAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 13 0.65
11 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATTATTATT
Found at i:7161209 original size:23 final size:24
Alignment explanation
Indices: 7161183--7161227 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
7161173 TCAATAAAAA
7161183 CTTTTTT-ATATT-AAAAATATTAT
1 CTTTTTTGA-ATTCAAAAATATTAT
7161206 CTTTTTTGAATTCAAAAATATT
1 CTTTTTTGAATTCAAAAATATT
7161228 TTTTTTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (24 bp):
CTTTTTTGAATTCAAAAATATTAT
Found at i:7168479 original size:31 final size:30
Alignment explanation
Indices: 7168433--7168534 Score: 134
Period size: 30 Copynumber: 3.3 Consensus size: 30
7168423 TTAGTGTATT
7168433 TAAATTTTTTTAATTTTTATTTAGTATTTAAA
1 TAAA-TTTTTTAATTTTTATTTA-TATTTAAA
*
7168465 TAAATTTTTAAATTTTATATTTATATTTAAA
1 TAAATTTTTTAATTTT-TATTTATATTTAAA
*
7168496 T-AATTTTTTATTTTTTAATTTATATTTAAA
1 TAAATTTTTTAATTTTT-ATTTATATTTAAA
*
7168526 TAAAATTTT
1 TAAATTTTT
7168535 CATATAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
29 1 0.02
30 26 0.41
31 26 0.41
32 10 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TAAATTTTTTAATTTTTATTTATATTTAAA
Found at i:7168542 original size:17 final size:18
Alignment explanation
Indices: 7168521--7168565 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
7168511 TAATTTATAT
7168521 TTAAATAAAATTTTCATA
1 TTAAATAAAATTTTCATA
*
7168539 -TAAAT-TAATTTTCATA
1 TTAAATAAAATTTTCATA
7168555 TTAAAATAAAA
1 TT-AAATAAAA
7168566 ACATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 10 0.45
17 6 0.27
18 4 0.18
19 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAATAAAATTTTCATA
Found at i:7170564 original size:19 final size:20
Alignment explanation
Indices: 7170537--7170580 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7170527 AAGTTAATAT
*
7170537 TATCTACAAATCAATA-CTA
1 TATCAACAAATCAATATCTA
*
7170556 TATCAACAAATTAATATCTA
1 TATCAACAAATCAATATCTA
7170576 TATCA
1 TATCA
7170581 TCGAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
TATCAACAAATCAATATCTA
Found at i:7177383 original size:29 final size:29
Alignment explanation
Indices: 7177341--7177419 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
7177331 CAAAGATTCA
* *
7177341 ATAATCATTTAAATTTTTGATATT-TTATT
1 ATAATCAATTAAATTTTTAAT-TTGTTATT
*
7177370 ATAATCAATTAAATTTTAAATTTGTTATT
1 ATAATCAATTAAATTTTTAATTTGTTATT
7177399 -TCAAATCAATTAAATTTTTAA
1 AT--AATCAATTAAATTTTTAA
7177420 ACATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 3 0.07
29 23 0.53
30 17 0.40
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (29 bp):
ATAATCAATTAAATTTTTAATTTGTTATT
Found at i:7177428 original size:30 final size:31
Alignment explanation
Indices: 7177372--7177479 Score: 116
Period size: 30 Copynumber: 3.6 Consensus size: 31
7177362 ATTTTATTAT
*
7177372 AATCAATTAAA-TTTTAAATTTGTTA-TTTCA
1 AATCAATTAAACTTTTAAATAT-TTATTTTCA
* *
7177402 AATCAATTAAATTTTTAAACATTTATTTTCA
1 AATCAATTAAACTTTTAAATATTTATTTTCA
* * *
7177433 CA-CAATTAAACTCTTATATATTTATTTTC-
1 AATCAATTAAACTTTTAAATATTTATTTTCA
*
7177462 ACTCAATTAAACTTTTAA
1 AATCAATTAAACTTTTAA
7177480 TTGGATAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
30 50 0.78
31 14 0.22
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (31 bp):
AATCAATTAAACTTTTAAATATTTATTTTCA
Found at i:7181384 original size:14 final size:14
Alignment explanation
Indices: 7181365--7181391 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7181355 ATTGAAACTT
7181365 TAAAGATTTCAAGG
1 TAAAGATTTCAAGG
7181379 TAAAGATTTCAAG
1 TAAAGATTTCAAG
7181392 TTTAAACTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (14 bp):
TAAAGATTTCAAGG
Found at i:7182149 original size:90 final size:90
Alignment explanation
Indices: 7182045--7182211 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
7182035 TGAGATGTTC
*** * * *
7182045 TTTTTATAATTAATCATTTAAGGTGTTTTTATACGAAAACGCCTTAAATG-ATCATTTT-ATTTT
1 TTTTTATAATTAATCATTTAAGACATTTCTATACAAAAACACCTTAAATGAAT--TTTTCATTTT
7182108 TTTATGCCTTAATTAAGACATTTTATT
64 TTTATGCCTTAATTAAGACATTTTATT
*
7182135 TTTTTATAATTAATCATTTAAGACATTTCTCTACAAAAACACCTTAAATGAATTTTTCATTTTTT
1 TTTTTATAATTAATCATTTAAGACATTTCTATACAAAAACACCTTAAATGAATTTTTCATTTTTT
*
7182200 TATGCTTTAATT
66 TATGCCTTAATT
7182212 GATTAATCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 4 0.06
90 61 0.91
91 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (90 bp):
TTTTTATAATTAATCATTTAAGACATTTCTATACAAAAACACCTTAAATGAATTTTTCATTTTTT
TATGCCTTAATTAAGACATTTTATT
Found at i:7182623 original size:193 final size:194
Alignment explanation
Indices: 7182415--7182770 Score: 443
Period size: 193 Copynumber: 1.8 Consensus size: 194
7182405 TTAAATGATT
* * * **
7182415 ATTTTCTTCTTTTTTTACGCCTTAATTGATCGATCATTTAATATGTTTCTGTGTACAAACACCTT
1 ATTTTCTTCTTTTTTTACGCCTTAATTGATCAATCATTTAAGATGTTTCTATACACAAACACCTT
*
7182480 ATTTGAGACAATT-TTTTTATAACTAATAATTTAAGATATTTTTGTATAGAAACACCTT-ATATG
66 AATTGA-ACAATTCTTTTTATAACTAATAATTTAAGATATTTTTGTATAGAAACACCTTCA-ATG
*
7182543 ATGC-TTTTATCTTTTTTACG-CTTTAATTTATCAATTATTTAAGGTGTTTTTCTATACGCAAAT
129 AT-CATTTTATCTTTTTTACGTC-TTAATTGATCAATTATTTAAGGTGTTTTTCTATACGCAAAT
7182606 GCC
192 GCC
* * * * **
7182609 ATTTT-TTTTTTTTTTATGCTTTAATTGATCAATCATTTAAGGTGTTTCTATACACAAACGTCTT
1 ATTTTCTTCTTTTTTTACGCCTTAATTGATCAATCATTTAAGATGTTTCTATACACAAACACCTT
*** * * * * *
7182673 AATTGAATTTTTCTTTTTATAATTGATCATTTAAGGTGTTTTTGTATAGAAACACCTTCAATGAT
66 AATTGAACAATTCTTTTTATAACTAATAATTTAAGATATTTTTGTATAGAAACACCTTCAATGAT
*
7182738 CATTTTATTTTTTTTACGTCTTAATTGATCAAT
131 CATTTTATCTTTTTTACGTCTTAATTGATCAAT
7182771 CATTAAAGAC
Statistics
Matches: 136, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
192 4 0.03
193 125 0.92
194 7 0.05
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.50
Consensus pattern (194 bp):
ATTTTCTTCTTTTTTTACGCCTTAATTGATCAATCATTTAAGATGTTTCTATACACAAACACCTT
AATTGAACAATTCTTTTTATAACTAATAATTTAAGATATTTTTGTATAGAAACACCTTCAATGAT
CATTTTATCTTTTTTACGTCTTAATTGATCAATTATTTAAGGTGTTTTTCTATACGCAAATGCC
Found at i:7182862 original size:126 final size:129
Alignment explanation
Indices: 7182611--7182863 Score: 293
Period size: 126 Copynumber: 2.0 Consensus size: 129
7182601 CAAATGCCAT
* * * ** *
7182611 TTTTTTTTTTTTTATGCTTTAATTGATCAATCATTTAAGGTGTTTCTATACACAAACGTCTTAAT
1 TTTTATTTTTTTTACGCTTTAATTGATCAATCATTAAAGACGTTTCTATACACAAACGCCTTAAT
*** *** * *
7182676 TGAATTTTTCTTTTTATAATTGATCATTTAAGGTGTTTTTGTATAGAAACACCTTCAATGATCA
66 TGAAGACTTCTTTTTATAATTGATCATTTAAGAAATTTTTGTACAGAAACACCTTAAATGATCA
*
7182740 TTTTATTTTTTTTACG-TCTTAATTGATCAATCATTAAAGACGTTT-TTTACACAAACGCCTTAA
1 TTTTATTTTTTTTACGCT-TTAATTGATCAATCATTAAAGACGTTTCTATACACAAACGCCTTAA
*
7182803 TT-AAGACTT-TTTTTATAACTT-ATCATTTAAGAAATTTTTGTACATG-AACGCCTTAAATGAT
65 TTGAAGACTTCTTTTTATAA-TTGATCATTTAAGAAATTTTTGTACA-GAAACACCTTAAATGAT
7182864 AATCTTTTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
126 41 0.39
127 7 0.07
128 19 0.18
129 38 0.36
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (129 bp):
TTTTATTTTTTTTACGCTTTAATTGATCAATCATTAAAGACGTTTCTATACACAAACGCCTTAAT
TGAAGACTTCTTTTTATAATTGATCATTTAAGAAATTTTTGTACAGAAACACCTTAAATGATCA
Found at i:7189458 original size:14 final size:14
Alignment explanation
Indices: 7189435--7189473 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7189425 GATATTGGTG
*
7189435 TTTTACATTTTTTTT
1 TTTTA-ATTTTTGTT
7189450 TTTTAATTTTTGTT
1 TTTTAATTTTTGTT
*
7189464 TTTAAATTTT
1 TTTTAATTTT
7189474 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTTGTT
Found at i:7194764 original size:14 final size:15
Alignment explanation
Indices: 7194730--7194768 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
7194720 GTTTATGAAT
7194730 AATAAATAAATTATA
1 AATAAATAAATTATA
*
7194745 ATTAAATAAATT-TA
1 AATAAATAAATTATA
7194759 AATAAATAAA
1 AATAAATAAA
7194769 CCATAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATAAATTATA
Found at i:7194775 original size:15 final size:14
Alignment explanation
Indices: 7194730--7194811 Score: 58
Period size: 14 Copynumber: 5.6 Consensus size: 14
7194720 GTTTATGAAT
7194730 AATAAATAAATTATA
1 AATAAATAAA-TATA
* *
7194745 ATTAAATAAATTTA
1 AATAAATAAATATA
*
7194759 AATAAATAAACCATA
1 AATAAATAAA-TATA
*
7194774 AACAAATATAA-ATA
1 AATAAATA-AATATA
*
7194788 AATTCAAAAAAATATA
1 AA-T-AAATAAATATA
*
7194804 AACAAATA
1 AATAAATA
7194812 TTAAAATAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
14 21 0.40
15 20 0.38
16 11 0.21
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:7194784 original size:10 final size:10
Alignment explanation
Indices: 7194771--7194812 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7194761 TAAATAAACC
7194771 ATAAACAAAT
1 ATAAACAAAT
*
7194781 ATAAATAAAT
1 ATAAACAAAT
*
7194791 -TCAAAAAAAT
1 AT-AAACAAAT
7194801 ATAAACAAAT
1 ATAAACAAAT
7194811 AT
1 AT
7194813 TAAAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (10 bp):
ATAAACAAAT
Found at i:7194784 original size:21 final size:20
Alignment explanation
Indices: 7194760--7194810 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
7194750 ATAAATTTAA
7194760 ATAAATAAA-CCATAAACAAAT
1 ATAAATAAATCCA-AAA-AAAT
*
7194781 ATAAATAAATTCAAAAAAAT
1 ATAAATAAATCCAAAAAAAT
*
7194801 ATAAACAAAT
1 ATAAATAAAT
7194811 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 13 0.48
21 12 0.44
22 2 0.07
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.22
Consensus pattern (20 bp):
ATAAATAAATCCAAAAAAAT
Found at i:7194817 original size:20 final size:20
Alignment explanation
Indices: 7194772--7194823 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
7194762 AAATAAACCA
*
7194772 TAAACAAATATAAATAAATTC
1 TAAA-AAATATAAACAAATTC
*
7194793 AAAAAAATATAAACAAATAT-
1 TAAAAAATATAAACAAAT-TC
7194813 TAAAATAATAT
1 TAAAA-AATAT
7194824 TAAGATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAATATAAACAAATTC
Found at i:7194900 original size:11 final size:11
Alignment explanation
Indices: 7194886--7194920 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
7194876 AATAAATGAG
*
7194886 TTTAAATGAAT
1 TTTAAATAAAT
7194897 TTTAAATAAAT
1 TTTAAATAAAT
7194908 TTTAAATAAAT
1 TTTAAATAAAT
7194919 TT
1 TT
7194921 ATTCACGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TTTAAATAAAT
Found at i:7196615 original size:26 final size:26
Alignment explanation
Indices: 7196586--7196637 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7196576 ATTTTTATTT
* * * *
7196586 TATATATTTAGGTAATTTTTTATAAA
1 TATATATTAAGATAAATTTTAATAAA
7196612 TATATATTAAGATAAATTTTAATAAA
1 TATATATTAAGATAAATTTTAATAAA
7196638 AATACACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
TATATATTAAGATAAATTTTAATAAA
Found at i:7197135 original size:13 final size:14
Alignment explanation
Indices: 7197117--7197154 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
7197107 CTTTGATTTT
7197117 TTATATTTTA-AAA
1 TTATATTTTATAAA
*
7197130 TTATATTTTATATA
1 TTATATTTTATAAA
7197144 TATATATTTTA
1 T-TATATTTTA
7197155 CTTTTTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 3 0.14
15 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATTTTATAAA
Found at i:7198974 original size:71 final size:71
Alignment explanation
Indices: 7198892--7199334 Score: 240
Period size: 70 Copynumber: 6.2 Consensus size: 71
7198882 CAAATATTAC
* * * *
7198892 TTTTTAAGATAAAAATATAATGGTTGTTGAAACTATATTTTTAAAATTCTAAAATTTTTACTAAC
1 TTTTTAAGATAAAAACATAATGGATGTTGAAACTATATTTTTAAAATTCTAAAATTTTTACAAAA
*
7198957 ATCACG
66 ATCAAG
* * * * * * ** * *
7198963 TTTTTAAGATAAAAAAAAAATAAT-AAGTATTGAAACTTTATTTATAAAATTTTGGAATTTTAAT
1 TTTTTAAGAT---AAAAACATAATGGA-TGTTGAAACTATATTTTTAAAATTCTAAAATTTTTAC
* *
7199027 AAAGATTAAG
62 AAAAATCAAG
* ** * * * *
7199037 TTTTTAAAATAAAAAACATAATAAATGTTGAAACTTTATTTTCAAAATTTTGAAA-TTTTA-ATA
1 TTTTTAAGAT-AAAAACATAATGGATGTTGAAACTATATTTTTAAAATTCTAAAATTTTTACA-A
*
7199100 AAATCATAT
64 AAATCA-AG
* * * * * * * * * ** *
7199109 TTTTTAA-ATAAAAATATATTGTATTTTAAAATTTTATTTTCAAAATTCTAGAATTTGAACAAAG
1 TTTTTAAGATAAAAACATAATGGATGTTGAAACTATATTTTTAAAATTCTAAAATTTTTACAAAA
*
7199173 ATCATG
66 ATCAAG
* * * * * ** *
7199179 TTTTTAAAATAAAAACATAGTGGATGTTGAAATTATAATTTTTGATA-TCTTGAATTTTAACAAA
1 TTTTTAAGATAAAAACATAATGGATGTTGAAACTAT-ATTTTTAAAATTCTAAAATTTTTACAAA
7199243 AATCATA-
65 AATCA-AG
* * * * *
7199250 TTTTTAAGATAAAAA-ATAGTGAATGTAGAAAGTATATTTTGGAAAATT-T-AAATTTTTAACAA
1 TTTTTAAGATAAAAACATAATGGATGTTGAAACTATATTTT-TAAAATTCTAAAATTTTT-ACAA
7199312 AAATCACA-
64 AAATCA-AG
*
7199320 TTTTTTAGATAAAAA
1 TTTTTAAGATAAAAA
7199335 AAACATAGTT
Statistics
Matches: 293, Mismatches: 64, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
69 11 0.04
70 87 0.30
71 86 0.29
72 53 0.18
73 2 0.01
74 54 0.18
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (71 bp):
TTTTTAAGATAAAAACATAATGGATGTTGAAACTATATTTTTAAAATTCTAAAATTTTTACAAAA
ATCAAG
Found at i:7199022 original size:74 final size:72
Alignment explanation
Indices: 7198918--7199122 Score: 202
Period size: 72 Copynumber: 2.8 Consensus size: 72
7198908 ATAATGGTTG
* * * * *
7198918 TTGAAACTATATTTTTAAAATTCTAAAATTTTTACT-AACATCACGTTTTTAAGATAAAAAAAAA
1 TTGAAACTTTA-TTTTAAAATTTTGAAATTTTTAATAAACATCAAGTTTTTAA-A-AAAAAAAAA
*
7198982 ATAATAAGTA
63 ATAATAAATA
* * * * *
7198992 TTGAAACTTTATTTATAAAATTTTGGAA-TTTTAATAAAGATTAAGTTTTTAAAATAAAAAACAT
1 TTGAAACTTTATTT-TAAAATTTTGAAATTTTTAATAAACATCAAGTTTTTAAAAAAAAAAAAAT
*
7199056 AATAAATG
65 AATAAATA
* *
7199064 TTGAAACTTTATTTTCAAAATTTTGAAA-TTTTAATAAA-ATCATATTTTTTAAATAAAAA
1 TTGAAACTTTATTTT-AAAATTTTGAAATTTTTAATAAACATCA-AGTTTTTAAAAAAAAA
7199123 TATATTGTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
71 4 0.04
72 63 0.57
73 10 0.09
74 33 0.30
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (72 bp):
TTGAAACTTTATTTTAAAATTTTGAAATTTTTAATAAACATCAAGTTTTTAAAAAAAAAAAAATA
ATAAATA
Found at i:7199084 original size:72 final size:71
Alignment explanation
Indices: 7198972--7199197 Score: 237
Period size: 72 Copynumber: 3.2 Consensus size: 71
7198962 GTTTTTAAGA
* *
7198972 TAAAA-AAAAA-ATAATAAGTATTGAAACTTTATTTAT-AAAATTTTGGAATTTTAATAAAGATT
1 TAAAATAAAAACATAATAAATATTGAAACTTTATTT-TCAAAATTTTGGAATTTTAATAAAGATC
7199034 AAGTTTT
65 AAGTTTT
* *
7199041 TAAAATAAAAAACATAATAAATGTTGAAACTTTATTTTCAAAATTTTGAAATTTTAATAAA-ATC
1 TAAAAT-AAAAACATAATAAATATTGAAACTTTATTTTCAAAATTTTGGAATTTTAATAAAGATC
7199105 ATA-TTTT
65 A-AGTTTT
* * * ** * * * * * * *
7199112 TTAAATAAAAATATATTGTATTTTAAAATTTTATTTTCAAAATTCTAGAATTTGAACAAAGATCA
1 TAAAATAAAAACATAATAAATATTGAAACTTTATTTTCAAAATTTTGGAATTTTAATAAAGATCA
*
7199177 TGTTTT
66 AGTTTT
7199183 TAAAATAAAAACATA
1 TAAAATAAAAACATA
7199198 GTGGATGTTG
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
69 5 0.04
70 42 0.32
71 39 0.30
72 44 0.34
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (71 bp):
TAAAATAAAAACATAATAAATATTGAAACTTTATTTTCAAAATTTTGGAATTTTAATAAAGATCA
AGTTTT
Found at i:7199164 original size:70 final size:70
Alignment explanation
Indices: 7198999--7199334 Score: 206
Period size: 71 Copynumber: 4.7 Consensus size: 70
7198989 GTATTGAAAC
* * * * **
7198999 TTTATTTAT-AAAATT-TTGGAATTTTAATAAAGATTA-AGTTTTTAAAATAAAAAACATAATAA
1 TTTATTT-TCAAAATTCTT-GAATTTTAA-AAAAATCATA-TTTTTTAAAT-AAAAACATAGTGG
* *
7199061 ATGTTGAAAC
61 ATGTTAAAAT
* * * * *
7199071 TTTATTTTCAAAATT-TTGAAATTTTAATAAAATCATATTTTTTAAATAAAAATATATTGTATTT
1 TTTATTTTCAAAATTCTTG-AATTTTAAAAAAATCATATTTTTTAAATAAAAACATAGTGGATGT
7199135 TAAAAT
65 TAAAAT
* * * * *
7199141 TTTATTTTCAAAATTCTAGAATTTGAACAAAGATCATGTTTTTAAAATAAAAACATAGTGGATGT
1 TTTATTTTCAAAATTCTTGAATTTTAA-AAAAATCATATTTTTTAAATAAAAACATAGTGGATGT
*
7199206 TGAAAT
65 TAAAAT
* ** * *
7199212 TATAATTTTTGATA-TCTTGAATTTTAACAAAAATCATA-TTTTTAAGATAAAAA-ATAGTGAAT
1 T-TTATTTTCAAAATTCTTGAATTTTAA-AAAAATCATATTTTTTAA-ATAAAAACATAGTGGAT
*
7199274 G-TAGAAAG
63 GTTA-AAAT
* * * * *
7199282 TATATTTTGGAAAA-T-TTAAATTTTTAACAAAAATCACATTTTTTAGATAAAAA
1 TTTATTTT-CAAAATTCTTGAA-TTTTAA-AAAAATCATATTTTTTAAATAAAAA
7199335 AAACATAGTT
Statistics
Matches: 211, Mismatches: 42, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
69 10 0.05
70 83 0.39
71 86 0.41
72 32 0.15
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (70 bp):
TTTATTTTCAAAATTCTTGAATTTTAAAAAAATCATATTTTTTAAATAAAAACATAGTGGATGTT
AAAAT
Found at i:7199193 original size:142 final size:142
Alignment explanation
Indices: 7198999--7199264 Score: 326
Period size: 142 Copynumber: 1.9 Consensus size: 142
7198989 GTATTGAAAC
* * * * *
7198999 TTTATTTATAAAATTTTGGAATTTTAATAAAGATTAAGTTTTTAAAATAAAAAACATAATAAATG
1 TTTATTTATAAAATTCTAGAATTTGAACAAAGATCAAGTTTTTAAAAT-AAAAACATAATAAATG
* *
7199064 TTGAAACTT-T-ATTTTCAAAATTTTGAAATTTTAA-TAAAATCATATTTTTTAA-ATAAAAATA
65 TTGAAA-TTATAATTTTCAAAATCTTG-AATTTTAACAAAAATCATA-TTTTTAAGATAAAAATA
7199125 TATTGTATTTTAAAAT
127 TATTGTATTTTAAAAT
* * **
7199141 TTTATTT-TCAAAATTCTAGAATTTGAACAAAGATCATGTTTTTAAAATAAAAACATAGTGGATG
1 TTTATTTAT-AAAATTCTAGAATTTGAACAAAGATCAAGTTTTTAAAATAAAAACATAATAAATG
** *
7199205 TTGAAATTATAATTTTTGATATCTTGAATTTTAACAAAAATCATATTTTTAAGATAAAAA
65 TTGAAATTATAATTTTCAAAATCTTGAATTTTAACAAAAATCATATTTTTAAGATAAAAA
7199265 ATAGTGAATG
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
140 2 0.02
141 36 0.34
142 67 0.64
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (142 bp):
TTTATTTATAAAATTCTAGAATTTGAACAAAGATCAAGTTTTTAAAATAAAAACATAATAAATGT
TGAAATTATAATTTTCAAAATCTTGAATTTTAACAAAAATCATATTTTTAAGATAAAAATATATT
GTATTTTAAAAT
Found at i:7199296 original size:142 final size:141
Alignment explanation
Indices: 7199008--7199350 Score: 306
Period size: 142 Copynumber: 2.4 Consensus size: 141
7198998 CTTTATTTAT
* * * *
7199008 AAAATTTTGGAATTTTAATAAAGATTAAGTTTTTAAAATAAAAAACATAATAAATGTTGAAACTT
1 AAAA-TTTAGAATTTGAACAAAGATCAAGTTTTTAAAATAAAAAACATAATAAATGTTGAAACTT
* * * * *
7199073 TATTTTCAAAATTTTGAAATTTTAATAAAATCATATTTTTTAAATAAAAATATATTGTATTTTAA
65 TATTTTCAAAATCTTGAAATTTTAAAAAAATCATATTTTTTAAATAAAAATATAGTGTAATGTAA
* *
7199138 AATTTTATTTTC
130 AAGTATATTTTC
* * **
7199150 AAAATTCTAGAATTTGAACAAAGATCATGTTTTTAAAAT-AAAAACATAGTGGATGTTGAAA-TT
1 AAAATT-TAGAATTTGAACAAAGATCAAGTTTTTAAAATAAAAAACATAATAAATGTTGAAACTT
** *
7199213 ATAATTTTTGATATCTTG-AATTTTAACAAAAATCATA-TTTTTAAGATAAAAA-ATAGTG-AAT
65 -T-ATTTTCAAAATCTTGAAATTTTAA-AAAAATCATATTTTTTAA-ATAAAAATATAGTGTAAT
*
7199274 GTAGAAAGTATATTTTGG
126 GTA-AAAGTATATTTT-C
* * * * *
7199292 AAAATTTA-AATTTTTAACAAAAATCACATTTTTTAGATAA-AAAAAACATAGTTAATGTT
1 AAAATTTAGAA-TTTGAACAAAGATCA-AGTTTTTA-A-AATAAAAAACATAATAAATGTT
7199351 AAAAAAGATT
Statistics
Matches: 164, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
140 8 0.05
141 67 0.41
142 70 0.43
143 1 0.01
144 18 0.11
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.41
Consensus pattern (141 bp):
AAAATTTAGAATTTGAACAAAGATCAAGTTTTTAAAATAAAAAACATAATAAATGTTGAAACTTT
ATTTTCAAAATCTTGAAATTTTAAAAAAATCATATTTTTTAAATAAAAATATAGTGTAATGTAAA
AGTATATTTTC
Found at i:7199438 original size:185 final size:186
Alignment explanation
Indices: 7199177--7199520 Score: 448
Period size: 185 Copynumber: 1.9 Consensus size: 186
7199167 ACAAAGATCA
* * * * *
7199177 TGTTTTTAAAATAAAAACATAGTGGATGTTGAAATTATAATTTTTGATATCTTGAATTTTAACAA
1 TGTTTTTAAAATAAAAACATAGTGGATGTTAAAACTATAATTTTTAAAATCTTGAACTTTAACAA
* * *
7199242 AAATCATATTTTTAAGATAAAAA-ATAGTGAATGTAGAAAGTATATTTTGGAAAATTT-AAATTT
66 AAATCATATTTTTAAGATAAAAATATAATGAATCTAGAAACTATATTTTGGAAAATTTGAAA-TT
*
7199305 TTAACAAAAATCACATTTTTTAGATAAAAAAAACATAGTTAATGTTAAAAAAGATTG
130 TTAACAAAAATCACATTTTTAAGATAAAAAAAACATAGTTAATGTTAAAAAAGATTG
*
7199362 TGTTTTTAAAATAAAAATAT-GATGGATGTTAAAACTAT-ATTTTTAAAAT-TTCGAAACTTTAA
1 TGTTTTTAAAATAAAAACATAG-TGGATGTTAAAACTATAATTTTTAAAATCTT-G-AACTTTAA
* * * * *
7199424 C-AAAATCTATATTTTTAAGATAAAAATATAATGGATCTCGAAACTCTATTTTTGAAATTTTGAA
63 CAAAAATC-ATATTTTTAAGATAAAAATATAATGAATCTAGAAACTATATTTTGGAAAATTTGAA
* *
7199488 ATTTTAACAAATATCACATTTTTAATATAAAAA
127 ATTTTAACAAAAATCACATTTTTAAGATAAAAA
7199521 TGTAGTGATA
Statistics
Matches: 136, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
183 2 0.01
184 17 0.12
185 59 0.43
186 55 0.40
187 3 0.02
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (186 bp):
TGTTTTTAAAATAAAAACATAGTGGATGTTAAAACTATAATTTTTAAAATCTTGAACTTTAACAA
AAATCATATTTTTAAGATAAAAATATAATGAATCTAGAAACTATATTTTGGAAAATTTGAAATTT
TAACAAAAATCACATTTTTAAGATAAAAAAAACATAGTTAATGTTAAAAAAGATTG
Found at i:7199449 original size:71 final size:69
Alignment explanation
Indices: 7199364--7199596 Score: 238
Period size: 71 Copynumber: 3.3 Consensus size: 69
7199354 AAAGATTGTG
* * *
7199364 TTTTTAAAATAAAAATATGATGGATGTTAAAACTATATTTTTAAAATTTCGAAACTTTAACAAAA
1 TTTTTAATATAAAAATAT-ATGGATGTTGAAACTATATTTTTAAAATTT-GAAATTTTAACAAAA
*
7199429 TCTATA
64 TCTACA
* * * * *
7199435 TTTTTAAGATAAAAATATAATGGATCTCGAAACTCTATTTTTGAAATTTTGAAATTTTAACAAAT
1 TTTTTAATATAAAAATAT-ATGGATGTTGAAACTATATTTTT-AAAATTTGAAATTTTAACAAA-
7199500 ATC-ACA
63 ATCTACA
* * * * *
7199506 TTTTTAATATAAAAATGTA-GTGATAGTTGAAATTTTATTTTTAAAATTTTAGAATTTTAATAAA
1 TTTTTAATATAAAAATATATG-GAT-GTTGAAACTATATTTTTAAAATTTGA-AATTTTAA-CAA
7199570 AAT-TACA
62 AATCTACA
7199577 TTTTTAATATAAAAATATAT
1 TTTTTAATATAAAAATATAT
7199597 AGTGAATATC
Statistics
Matches: 135, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
69 1 0.01
70 11 0.08
71 111 0.82
72 12 0.09
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (69 bp):
TTTTTAATATAAAAATATATGGATGTTGAAACTATATTTTTAAAATTTGAAATTTTAACAAAATC
TACA
Found at i:7199618 original size:71 final size:70
Alignment explanation
Indices: 7199364--7199653 Score: 218
Period size: 71 Copynumber: 4.1 Consensus size: 70
7199354 AAAGATTGTG
* * * * * *
7199364 TTTTTAAAATAAAAATATGAT-G-GATGTTAAAACTATATTTTTAAAATTTCGAAACTTTAA-CA
1 TTTTTAATATAAAAATAT-ATAGTGATATCAAAACT-TATTTTTAAAATTTTG-AATTTTAATAA
*
7199426 AAATCTATA
63 AAAT-TACA
* * * * *
7199435 TTTTTAAGATAAAAATATA-A-TGGATCTCGAAACTCTATTTTTGAAATTTTGAAATTTTAACAA
1 TTTTTAATATAAAAATATATAGT-GATATCAAAACT-TATTTTTAAAATTTTG-AATTTTAATAA
* *
7199498 ATATCACA
63 AAATTACA
* * **
7199506 TTTTTAATAT-AAAA-ATGTAGTGATAGTTGAAATTTTATTTTTAAAATTTTAGAATTTTAATAA
1 TTTTTAATATAAAAATATATAGTGATA--TCAAAACTTATTTTTAAAATTTT-GAATTTTAATAA
7199569 AAATTACA
63 AAATTACA
* * *
7199577 TTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTTTTTTAAGTTCTTGAATTTTAAT-AA
1 TTTTTAATATAAAAATATATAGTG-ATATCAAAACTTATTTTTAAAATT-TTGAATTTTAATAAA
*
7199641 AACTACA
64 AATTACA
7199648 TTTTTA
1 TTTTTA
7199654 GAATTTTAAT
Statistics
Matches: 175, Mismatches: 31, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
69 2 0.01
70 9 0.05
71 114 0.65
72 38 0.22
73 9 0.05
74 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (70 bp):
TTTTTAATATAAAAATATATAGTGATATCAAAACTTATTTTTAAAATTTTGAATTTTAATAAAAA
TTACA
Found at i:7199658 original size:97 final size:97
Alignment explanation
Indices: 7199552--7199847 Score: 574
Period size: 97 Copynumber: 3.1 Consensus size: 97
7199542 ATTTTTAAAA
*
7199552 TTTTAGAATTTTAATAAAAATTACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
1 TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
7199617 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
66 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
*
7199649 TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAGTATATAGTGAATATCAAAACTTTTT
1 TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
7199714 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
66 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
7199746 TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
1 TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
7199811 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
66 TTTTAAGTTCTTGAATTTTAATAAAACTACAT
7199843 TTTTA
1 TTTTA
7199848 AGATAATAAA
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 196 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (97 bp):
TTTTAGAATTTTAATAAAAATCACATTTTTAATATAAAAATATATAGTGAATATCAAAACTTTTT
TTTTAAGTTCTTGAATTTTAATAAAACTACAT
Found at i:7199663 original size:25 final size:26
Alignment explanation
Indices: 7199629--7199679 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
7199619 TTAAGTTCTT
*
7199629 GAATTTTAATAAAACT-ACATTTTTA
1 GAATTTTAATAAAAATCACATTTTTA
7199654 GAATTTTAATAAAAATCACATTTTTA
1 GAATTTTAATAAAAATCACATTTTTA
7199680 ATATAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (26 bp):
GAATTTTAATAAAAATCACATTTTTA
Found at i:7199760 original size:25 final size:26
Alignment explanation
Indices: 7199726--7199776 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
7199716 TTAAGTTCTT
*
7199726 GAATTTTAATAAAACT-ACATTTTTA
1 GAATTTTAATAAAAATCACATTTTTA
7199751 GAATTTTAATAAAAATCACATTTTTA
1 GAATTTTAATAAAAATCACATTTTTA
7199777 ATATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (26 bp):
GAATTTTAATAAAAATCACATTTTTA
Found at i:7201460 original size:2 final size:2
Alignment explanation
Indices: 7201453--7201490 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7201443 TTACAATTAA
7201453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7201491 CAGCAATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7203775 original size:26 final size:27
Alignment explanation
Indices: 7203725--7203778 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
7203715 CTTTTTTATT
* *
7203725 TTTTTTAA-GTTATCA-TATTTAAATA
1 TTTTTTAATGTTATAATTAATTAAATA
7203750 TTTTTTAATGTTATAATTAATTAATATA
1 TTTTTTAATGTTATAATTAATTAA-ATA
7203778 T
1 T
7203779 ATTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 6 0.25
27 6 0.25
28 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
TTTTTTAATGTTATAATTAATTAAATA
Found at i:7203909 original size:7 final size:7
Alignment explanation
Indices: 7203899--7203923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7203889 TGTAAAAAAC
7203899 AAAAATT
1 AAAAATT
7203906 AAAAATT
1 AAAAATT
7203913 AAAAATT
1 AAAAATT
7203920 AAAA
1 AAAA
7203924 CAAAAAATAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:7208906 original size:10 final size:9
Alignment explanation
Indices: 7208879--7208938 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
7208869 AGTATTACAT
*
7208879 AAATTTTCA
1 AAATTTTAA
7208888 AAATTTTAA
1 AAATTTTAA
7208897 AAAGTTTTAA
1 AAA-TTTTAA
* *
7208907 GAAAATCTAA
1 -AAATTTTAA
7208917 AATATTTTAA
1 AA-ATTTTAA
*
7208927 AAATTATAA
1 AAATTTTAA
7208936 AAA
1 AAA
7208939 AATTAAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 22 0.52
10 17 0.40
11 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
AAATTTTAA
Found at i:7208947 original size:29 final size:30
Alignment explanation
Indices: 7208890--7208946 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
7208880 AATTTTCAAA
* *
7208890 ATTTTAAAAAGTTTTAAGAAAATCTAAAAT
1 ATTTTAAAAAGTTATAAAAAAATCTAAAAT
7208920 ATTTTAAAAA-TTATAAAAAAAT-TAAAA
1 ATTTTAAAAAGTTATAAAAAAATCTAAAA
7208947 AGAAGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 10 0.40
30 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTTTAAAAAGTTATAAAAAAATCTAAAAT
Found at i:7208983 original size:18 final size:18
Alignment explanation
Indices: 7208962--7209093 Score: 76
Period size: 18 Copynumber: 7.2 Consensus size: 18
7208952 AAATATTTTT
7208962 AAAATTATAAAATTTAAA
1 AAAATTATAAAATTTAAA
*
7208980 AAAATTATGAAAACTT-AA
1 AAAATTAT-AAAATTTAAA
7208998 AAAA-TATCAAAATTTTAATAA
1 AAAATTAT-AAAA-TTT-A-AA
* * *
7209019 AAAATCCAAAAAATTCAAA
1 AAAAT-TATAAAATTTAAA
* *
7209038 AAAATTA-AAATTTTATTA
1 AAAATTATAAAATTTA-AA
* *
7209056 AAAATCACAAAATTTTAAA
1 AAAATTATAAAA-TTTAAA
*
7209075 AAAATT-GAAAA-TTAAA
1 AAAATTATAAAATTTAAA
7209091 AAA
1 AAA
7209094 TAATTTTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
16 8 0.09
17 13 0.15
18 28 0.31
19 22 0.25
20 5 0.06
21 8 0.09
22 4 0.04
23 1 0.01
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAATTTAAA
Found at i:7208997 original size:19 final size:18
Alignment explanation
Indices: 7208962--7209001 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
7208952 AAATATTTTT
*
7208962 AAAATTATAAAATTTAAA
1 AAAATTATAAAACTTAAA
7208980 AAAATTATGAAAACTTAAA
1 AAAATTAT-AAAACTTAAA
7208999 AAA
1 AAA
7209002 TATCAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAACTTAAA
Found at i:7209076 original size:37 final size:38
Alignment explanation
Indices: 7208989--7209087 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 38
7208979 AAAAATTATG
* *
7208989 AAAACTTAAAAAATATCAAAATTTTAATAAAAAATCCAA
1 AAAATTTAAAAAA-ATTAAAATTTTAATAAAAAATCCAA
* *
7209028 AAAATTCAAAAAAATTAAAATTTT-ATTAAAAAT-CACA
1 AAAATTTAAAAAAATTAAAATTTTAATAAAAAATCCA-A
*
7209065 AAATTTTAAAAAAATTGAAAATT
1 AAAATTTAAAAAAATT-AAAATT
7209088 AAAAAATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
36 2 0.04
37 23 0.44
38 16 0.31
39 11 0.21
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (38 bp):
AAAATTTAAAAAAATTAAAATTTTAATAAAAAATCCAA
Found at i:7209077 original size:38 final size:37
Alignment explanation
Indices: 7208989--7209087 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 37
7208979 AAAAATTATG
* *
7208989 AAAACTTAAAAAATATCAAAATTTTAATAAAAAATCCA
1 AAAAATTAAAAAA-ATTAAAATTTTAATAAAAAATCCA
*
7209027 AAAAATTCAAAAAAATTAAAATTTT-ATTAAAAATCACA
1 AAAAATT-AAAAAAATTAAAATTTTAATAAAAAATC-CA
**
7209065 AAATTTTAAAAAAATTGAAAATT
1 AAAAATTAAAAAAATT-AAAATT
7209088 AAAAAATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 18 0.34
38 29 0.55
39 6 0.11
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (37 bp):
AAAAATTAAAAAAATTAAAATTTTAATAAAAAATCCA
Found at i:7209355 original size:21 final size:21
Alignment explanation
Indices: 7209327--7209373 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
7209317 AAATTACAAG
* *
7209327 TTTTAAAAAA-TTTTTATATT
1 TTTTAAAAAAGTTTTAAAATT
7209347 TTTTCAAAAAAGTTTTAAAATT
1 TTTT-AAAAAAGTTTTAAAATT
7209369 TTTTA
1 TTTTA
7209374 CTTTCAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTAAAAAAGTTTTAAAATT
Found at i:7209480 original size:28 final size:27
Alignment explanation
Indices: 7209399--7209490 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 27
7209389 AGAAAATTTT
7209399 ATTTTTATTAAAATTTT-ATTTTTTAGG
1 ATTTTTATTAAAATTTTAATTTTTT-GG
*
7209426 AATTTTTCA-TAAAGTTTTTTAATTTTTTGG
1 -ATTTTT-ATTAAA--ATTTTAATTTTTTGG
*
7209456 ATTTTTATTAAAATTTTGAGATTTTTTGA
1 ATTTTTATTAAAATTTT-A-ATTTTTTGG
7209485 ATTTTT
1 ATTTTT
7209491 TCAGTTTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 4 0.07
28 12 0.22
29 25 0.46
30 6 0.11
31 7 0.13
ACGTcount: A:0.28, C:0.01, G:0.09, T:0.62
Consensus pattern (27 bp):
ATTTTTATTAAAATTTTAATTTTTTGG
Found at i:7209573 original size:30 final size:30
Alignment explanation
Indices: 7209518--7209575 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7209508 TGAAATTTTT
* *
7209518 AAATATTTTAGTTTTTTTATAATTTTTTAC
1 AAATATTTTAGTTTTTTAAAAATTTTTTAC
7209548 AAATATTTTA-TTTTTTAAAATATTTTTT
1 AAATATTTTAGTTTTTTAAAA-ATTTTTT
7209576 GAACTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
AAATATTTTAGTTTTTTAAAAATTTTTTAC
Found at i:7209574 original size:18 final size:18
Alignment explanation
Indices: 7209539--7209573 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
7209529 TTTTTTTATA
7209539 ATTTTTTACAAATATTTT
1 ATTTTTTACAAATATTTT
7209557 ATTTTTTA-AAATATTTT
1 ATTTTTTACAAATATTTT
7209574 TTGAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTTACAAATATTTT
Found at i:7209593 original size:10 final size:9
Alignment explanation
Indices: 7209416--7209597 Score: 50
Period size: 9 Copynumber: 19.1 Consensus size: 9
7209406 TTAAAATTTT
7209416 ATTTTTTAGGA
1 ATTTTTTA--A
7209427 ATTTTTCATAA
1 ATTTTT--TAA
7209438 AGTTTTTT-A
1 A-TTTTTTAA
*
7209447 ATTTTTTGGA
1 ATTTTTT-AA
*
7209457 TTTTTATTAA
1 ATTTT-TTAA
* * *
7209467 AATTTTGAG
1 ATTTTTTAA
*
7209476 ATTTTTTGA
1 ATTTTTTAA
*
7209485 ATTTTTT-C
1 ATTTTTTAA
* * *
7209493 AGTTTTCAT
1 ATTTTTTAA
7209502 ATTTTTTGAA
1 ATTTTTT-AA
7209512 A-TTTTTAA
1 ATTTTTTAA
* *
7209520 ATATTTTAG
1 ATTTTTTAA
*
7209529 TTTTTTTATA
1 ATTTTTTA-A
7209539 ATTTTTTACAA
1 ATTTTTT--AA
*
7209550 ATATTTT--
1 ATTTTTTAA
7209557 ATTTTTTAAAA
1 ATTTTTT--AA
7209568 TATTTTTTGAA
1 -ATTTTTT-AA
* *
7209579 CTTTTGTAA
1 ATTTTTTAA
7209588 ATTTTTTAA
1 ATTTTTTAA
7209597 A
1 A
7209598 AAATTTTCTT
Statistics
Matches: 124, Mismatches: 30, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
7 6 0.05
8 14 0.11
9 47 0.38
10 23 0.19
11 19 0.15
12 13 0.10
13 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:7210483 original size:18 final size:19
Alignment explanation
Indices: 7210460--7210502 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
7210450 TCATTCTTTC
7210460 TCTTTTCTA-TTCTTTTTTT
1 TCTTTTCTAGTT-TTTTTTT
*
7210479 T-TTTTTTAGTTTTTTTTT
1 TCTTTTCTAGTTTTTTTTT
7210497 TCTTTT
1 TCTTTT
7210503 TTTAGTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (19 bp):
TCTTTTCTAGTTTTTTTTT
Found at i:7211860 original size:16 final size:16
Alignment explanation
Indices: 7211839--7211874 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7211829 GGTGCAAAAT
7211839 GATAAATATATAGGAA
1 GATAAATATATAGGAA
*
7211855 GATAAATATGTAGGAA
1 GATAAATATATAGGAA
7211871 GATA
1 GATA
7211875 CTGCTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (16 bp):
GATAAATATATAGGAA
Found at i:7222917 original size:36 final size:36
Alignment explanation
Indices: 7222869--7222942 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
7222859 TGGCTTCATC
*
7222869 GATGACGGTGACTGGTTCGATGGGCGCCCAAAGAAA
1 GATGACGGTGACTGGTTCGATGGGCACCCAAAGAAA
* *
7222905 GATGACGTTGACTGGTTCGATGGGCACCCAAATAAA
1 GATGACGGTGACTGGTTCGATGGGCACCCAAAGAAA
7222941 GA
1 GA
7222943 GGGAAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (36 bp):
GATGACGGTGACTGGTTCGATGGGCACCCAAAGAAA
Found at i:7223750 original size:14 final size:15
Alignment explanation
Indices: 7223715--7223750 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7223705 ACTGTCAATG
*
7223715 TCAAATAGATAAAAC
1 TCAAATAAATAAAAC
7223730 TCAAATAAATAAAAC
1 TCAAATAAATAAAAC
7223745 -CAAATA
1 TCAAATA
7223751 TCTCATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.64, C:0.14, G:0.03, T:0.19
Consensus pattern (15 bp):
TCAAATAAATAAAAC
Found at i:7224140 original size:12 final size:13
Alignment explanation
Indices: 7224125--7224157 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7224115 TAATATATTC
7224125 TCGTGATTTTAA-
1 TCGTGATTTTAAG
7224137 TCGTGATTTTAAG
1 TCGTGATTTTAAG
7224150 T-GTGATTT
1 TCGTGATTT
7224158 ATCTGCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.52
Consensus pattern (13 bp):
TCGTGATTTTAAG
Found at i:7227333 original size:6 final size:6
Alignment explanation
Indices: 7227324--7227380 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
7227314 GGGCGGCTCT
*
7227324 GGCTTG GGCTTG GGCGTG GGCTCT- GGCTTG GGCTCT- GGCTTG GGCTTG
1 GGCTTG GGCTTG GGCTTG GGCT-TG GGCTTG GGCT-TG GGCTTG GGCTTG
7227372 GGCTTG GGC
1 GGCTTG GGC
7227381 GGCTCTCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 2 0.04
6 41 0.91
7 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.49, T:0.30
Consensus pattern (6 bp):
GGCTTG
Found at i:7227343 original size:12 final size:12
Alignment explanation
Indices: 7227318--7227380 Score: 85
Period size: 12 Copynumber: 5.2 Consensus size: 12
7227308 TTGCTTGGGC
7227318 GGCTCTGGCTTG
1 GGCTCTGGCTTG
*
7227330 GGCT-TGGGCGTG
1 GGCTCT-GGCTTG
7227342 GGCTCTGGCTTG
1 GGCTCTGGCTTG
7227354 GGCTCTGGCTTG
1 GGCTCTGGCTTG
7227366 GGCT-TGGGCTTG
1 GGCTCT-GGCTTG
7227378 GGC
1 GGC
7227381 GGCTCTCCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
11 2 0.04
12 43 0.93
13 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.48, T:0.30
Consensus pattern (12 bp):
GGCTCTGGCTTG
Found at i:7229022 original size:10 final size:10
Alignment explanation
Indices: 7229003--7229033 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7228993 AAAAAAATTT
*
7229003 TATATCAAAA
1 TATATTAAAA
7229013 TATATTAAAA
1 TATATTAAAA
7229023 TATATTAAAA
1 TATATTAAAA
7229033 T
1 T
7229034 TTTATATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
TATATTAAAA
Found at i:7230659 original size:188 final size:187
Alignment explanation
Indices: 7230320--7230667 Score: 477
Period size: 188 Copynumber: 1.9 Consensus size: 187
7230310 GTTCATCCCC
** * *
7230320 AAAAAATTTATTTCATTTATAATATATCTTACTATTCAAATAAATCTTCGAATTTTATTTTAAAA
1 AAAAAATTTATTTCACATATAATATATCTTACTATTCAAATAAACCTTCGAATTTTACTTTAAAA
*
7230385 TATAAATAAATTCTCAATTTTTTATTACATGAAATTAAAATTATGAACTTTTATTCTATTGTAAT
66 TATAAATAAATTCTCAATCTTTTATTACATGAAATTAAAATTATGAACTTTTATTCTATTGTAAT
* *
7230450 TATTCTCATTAAATTTTAAAATTGAATGAATAAGATCATCCCCACTAAGCCTCTAAT
131 TATACTCATTAAATCTTAAAATTGAATGAATAAGATCATCCCCACTAAGCCTCTAAT
* *
7230507 AAAAGAATTTATTTCACATATAATATAGT-TTAGTATTTAAATAAACCCTT-GAATTTTACTTTA
1 AAAA-AATTTATTTCACATATAATATA-TCTTACTATTCAAATAAA-CCTTCGAATTTTACTTTA
* * ** * * *
7230570 AAATGTAAATAAGTTCTCAATCTTTTATTGTATGAAATTAAGATTATGAA-TATTTATTTTGTTG
63 AAATATAAATAAATTCTCAATCTTTTATTACATGAAATTAAAATTATGAACT-TTTATTCTATTG
* *
7230634 TAATTATACTCATTGAATCTTAAAATTGGATGAA
127 TAATTATACTCATTAAATCTTAAAATTGAATGAA
7230668 CAATATTATT
Statistics
Matches: 139, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
187 5 0.04
188 130 0.94
189 4 0.03
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (187 bp):
AAAAAATTTATTTCACATATAATATATCTTACTATTCAAATAAACCTTCGAATTTTACTTTAAAA
TATAAATAAATTCTCAATCTTTTATTACATGAAATTAAAATTATGAACTTTTATTCTATTGTAAT
TATACTCATTAAATCTTAAAATTGAATGAATAAGATCATCCCCACTAAGCCTCTAAT
Found at i:7231110 original size:1 final size:1
Alignment explanation
Indices: 7231104--7231128 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7231094 TAAAGAAGAT
7231104 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7231129 CCAAACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.