Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 33 of 345
Found at i:10074950 original size:92 final size:92
Alignment explanation
Indices: 10074790--10075007 Score: 330
Period size: 92 Copynumber: 2.3 Consensus size: 92
10074780 GCTAAAGCTA
*
10074790 CCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCATTTAT
1 CCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTAT
* *
10074855 CACTTGTCACTGATCAGATAAGTGTAG
66 CACTTATCACTAATCAGATAAGTGTAG
* *
10074882 CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGT
1 CCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTAT
10074947 CACTTATCACTAATCAGATAAGTGTAG
66 CACTTATCACTAATCAGATAAGTGTAG
* * *
10074974 CTGAGGC-TACCACTTATCACTTGTCATTGATCAG
1 C-CA--CTTATCACTTATCACTTGTCACTGATCAG
10075008 GAGTACTCAA
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
92 88 0.77
93 1 0.01
94 24 0.21
95 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (92 bp):
CCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTAT
CACTTATCACTAATCAGATAAGTGTAG
Found at i:10078785 original size:24 final size:23
Alignment explanation
Indices: 10078754--10078799 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
10078744 AATTTTGGGC
*
10078754 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
10078777 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
10078800 ACCCAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:10080263 original size:3 final size:3
Alignment explanation
Indices: 10080204--10080249 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
10080194 ACGTATACAT
10080204 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10080250 GTTTTGATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10092889 original size:43 final size:42
Alignment explanation
Indices: 10092839--10092989 Score: 140
Period size: 44 Copynumber: 3.5 Consensus size: 42
10092829 TTCACCAGGC
10092839 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCG-AGAT
* * * ** *
10092882 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCGA-GAT
* * * * *
10092925 CTTTAGCCCCCTAAGCAGTAGGGTAACAAGCTAAAGTTCATAGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTC-GAGAT
* *
10092970 CTTATCACCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
10092990 TGAAGAAGAT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.42
44 43 0.51
45 4 0.05
46 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (42 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCGAGAT
Found at i:10092946 original size:44 final size:43
Alignment explanation
Indices: 10092839--10092952 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
10092829 TTCACCAGGC
* * **
10092839 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGGCGCAGAT
* *
10092882 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCG-ACGAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGGCGCA-GAT
*
10092925 CTTTAGCCCCCTAAGCAGTAGGGTAACA
1 C-TTAACCCCCTAAGCAGTAGGGTAACA
10092953 AGCTAAAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 36 0.59
44 24 0.39
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGGCGCAGAT
Found at i:10093113 original size:44 final size:43
Alignment explanation
Indices: 10093065--10093305 Score: 143
Period size: 44 Copynumber: 5.5 Consensus size: 43
10093055 CCAAGCCTTA
10093065 AACCCCCTAAGCAGTAGGGTAACCAGCTAAAGTTTACAGATCTT
1 AACCCCCTAAGCAGTAGGGTAA-CAGCTAAAGTTTACAGATCTT
* * * * *
10093109 AACCCCCTAAGTAGTAGGG-ATATAGATTAAAGATGACA-AGTCTT
1 AACCCCCTAAGCAGTAGGGTA-ACAG-CTAAAGTTTACAGA-TCTT
* * *
10093153 AA-CCCCTAAGCAGTAGGATAACAGGCTGAAGATCTACAGATCTT
1 AACCCCCTAAGCAGTAGGGTAACA-GCTAAAG-TTTACAGATCTT
* * * * * * * * * *
10093197 ATCACCCTAAGCAGTAGGGAAATAGATCGAAGATGA-TGAGCTTT
1 AACCCCCTAAGCAGTAGGGTAACAGCT-AAAGTTTACAGATC-TT
* * * * *
10093241 AACCACCTAAGTAGTAGGGTAAGAAGCCAAA-TTTACA-AGCCTT
1 AACCCCCTAAGCAGTAGGGTAA-CAGCTAAAGTTTACAGA-TCTT
10093284 AACCCCCTAAGCAGTAGGGTAA
1 AACCCCCTAAGCAGTAGGGTAA
10093306 TAGGATGAAA
Statistics
Matches: 145, Mismatches: 39, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
43 52 0.36
44 69 0.48
45 24 0.17
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (43 bp):
AACCCCCTAAGCAGTAGGGTAACAGCTAAAGTTTACAGATCTT
Found at i:10093167 original size:87 final size:86
Alignment explanation
Indices: 10093068--10093308 Score: 254
Period size: 87 Copynumber: 2.8 Consensus size: 86
10093058 AGCCTTAAAC
* *
10093068 CCCCTAAGCAGTAGGGTAACCAGCTAAAGTTTACAGATCTTAACCCCCTAAGTAGTAGGGATATA
1 CCCCTAAGCAGTAGGGTAA-CAGCTAAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATA
*
10093133 GATTAAAGATGACAAG-TCTTAA
65 GATCAAAGATGACAAGCT-TTAA
* * * * *
10093155 CCCCTAAGCAGTAGGATAACAGGCTGAAGATCTACAGATCTTATCACCCTAAGCAGTAGGGAAAT
1 CCCCTAAGCAGTAGGGTAACA-GCTAAAG-TTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAT
* **
10093220 AGATCGAAGATGATGAGCTTTAA
64 AGATCAAAGATGACAAGCTTTAA
* * * * *
10093243 CCACCTAAGTAGTAGGGTAAGAAGCCAAA-TTTACA-AGCCTTAACCCCCTAAGCAGTAGGGTAA
1 CC-CCTAAGCAGTAGGGTAA-CAGCTAAAGTTTACAGA-TCTTAACCCCCTAAGCAGTAGGGAAA
10093306 TAG
63 TAG
10093309 GATGAAAACT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
86 3 0.02
87 54 0.43
88 49 0.39
89 20 0.16
90 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (86 bp):
CCCCTAAGCAGTAGGGTAACAGCTAAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAG
ATCAAAGATGACAAGCTTTAA
Found at i:10093229 original size:45 final size:43
Alignment explanation
Indices: 10093098--10093230 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 43
10093088 CAGCTAAAGT
* * **
10093098 TTACAGATCTTAACCCCCTAAGTAGTAGGGATATAGATTAAAGA
1 TTACAGATCTTAA-CCCCTAAGCAGTAGGGAAATAGATCGAAGA
* * *
10093142 TGACA-AGTCTTAACCCCTAAGCAGTA-GGATAACAG-GCTGAAGA
1 TTACAGA-TCTTAACCCCTAAGCAGTAGGGA-AATAGATC-GAAGA
*
10093185 TCTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGA
1 T-TACAGATCTTAAC-CCCTAAGCAGTAGGGAAATAGATCGAAGA
10093230 T
1 T
10093231 GATGAGCTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
42 3 0.04
43 21 0.30
44 19 0.27
45 23 0.33
46 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (43 bp):
TTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGA
Found at i:10093521 original size:217 final size:220
Alignment explanation
Indices: 10093184--10093661 Score: 646
Period size: 217 Copynumber: 2.2 Consensus size: 220
10093174 CAGGCTGAAG
*
10093184 ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGATGATGAGCTTTAACCACCT
1 ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCACCT
* * *
10093249 AAGTAGTAGGGTAAGAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGATGA
66 AAGCAGTAAGGTAAGAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAATAGGGTAATAGGATGA
* * *
10093314 AAACTACAAATCTAGCCTTCCTGAAGTTGCAGT-GAAGCAGATTGCAGT-CA-CTAGTCCTATCT
131 AAACTACAAATCTAGCCTCCCTGAAGTTGCAGTAGAA-CAGATTG-AATCCAGCAAGTCCTATCT
* *
10093376 CCCTGAAGTTGCAGTGGAGCAGACTGA
194 CCCTGAAGTTGCAATGGAACAGACTGA
* * * * *
10093403 ATTTATAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGC-TTAACCCCCT
1 ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCACCT
* *
10093466 AAGCAGTAAGGT-AGCAAGCCAAATTTAC-AGACCTTAACCCCCTAAGTAATAGGGTAATAGGCT
66 AAGCAGTAAGGTAAG-AAGCCAAATTTACAAG-CCTTAACCCCCTAAGCAATAGGGTAATAGGAT
** * * * * *
10093529 GAAAGTTACAGATCTTGTCTCCCTGAAGTTGCAGTAGAACATATTGAATCCAGCAAGTCTTATCT
129 GAAAACTACAAATCTAGCCTCCCTGAAGTTGCAGTAGAACAGATTGAATCCAGCAAGTCCTATCT
* *
10093594 CCTTGAAGTTGTAATGGAACAGACTGA
194 CCCTGAAGTTGCAATGGAACAGACTGA
10093621 ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
1 ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
10093662 ACAGATCACA
Statistics
Matches: 225, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
216 6 0.03
217 98 0.44
218 84 0.37
219 37 0.16
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (220 bp):
ATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCACCT
AAGCAGTAAGGTAAGAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAATAGGGTAATAGGATGA
AAACTACAAATCTAGCCTCCCTGAAGTTGCAGTAGAACAGATTGAATCCAGCAAGTCCTATCTCC
CTGAAGTTGCAATGGAACAGACTGA
Found at i:10094056 original size:24 final size:23
Alignment explanation
Indices: 10094025--10094070 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
10094015 AATTTTGGGC
*
10094025 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
10094048 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
10094071 ACCTAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:10096388 original size:48 final size:48
Alignment explanation
Indices: 10096317--10096602 Score: 477
Period size: 48 Copynumber: 6.0 Consensus size: 48
10096307 TGTTACAACC
* * * * *
10096317 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
10096365 TTCACATTCGCCATTCGGCTTTACGACATATACATAT--CTCATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
10096411 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
10096459 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
10096507 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
10096555 TTCACATTCGCCATTCGGATTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
10096603 ATATTTATCT
Statistics
Matches: 225, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
46 42 0.19
48 183 0.81
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:10099410 original size:93 final size:93
Alignment explanation
Indices: 10099251--10099423 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
10099241 CGCCCATAAG
* *
10099251 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
10099316 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
10099344 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
10099409 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
10099424 CAAATATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:10099419 original size:46 final size:46
Alignment explanation
Indices: 10099244--10099419 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
10099234 TGTAACCCGC
* * *
10099244 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
10099290 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
10099340 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
10099383 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
10099420 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:10099438 original size:46 final size:46
Alignment explanation
Indices: 10099288--10099438 Score: 130
Period size: 46 Copynumber: 3.2 Consensus size: 46
10099278 GGGCGTTCGC
* * *
10099288 ATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGT
1 ATCC-TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAT
* * * * * **
10099335 -TACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GC
1 AT-C--CTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAT
10099381 ATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAAT
1 ATCC-TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCC-AAT
10099429 ATCCT-AGTGA
1 ATCCTAAGTGA
10099439 CACGTCACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 39 0.48
47 32 0.40
48 6 0.07
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
ATCCTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAT
Found at i:10101401 original size:15 final size:15
Alignment explanation
Indices: 10101333--10101408 Score: 75
Period size: 15 Copynumber: 5.1 Consensus size: 15
10101323 CAAAGATAAC
*
10101333 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
10101347 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
10101362 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
10101377 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
10101392 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
10101407 AA
1 AA
10101409 TAAACCCAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
14 9 0.18
15 40 0.80
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.18, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:10101408 original size:30 final size:30
Alignment explanation
Indices: 10101342--10101421 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
10101332 CAAGAAAACC
* *
10101342 GAATAAAGAAATCCAAGATAGAGAAACCCG
1 GAATAAAGAAATCCAAGATAAAGAAACCAG
*
10101372 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGA-AACCAG
* *
10101403 G-ATAAATAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
10101422 CGATACTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 2 0.05
30 33 0.79
31 7 0.17
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCAG
Found at i:10104986 original size:46 final size:46
Alignment explanation
Indices: 10104936--10105111 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10104926 TGGTTGAGCA
10104936 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10104982 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10105027 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10105075 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10105112 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10105092 original size:93 final size:93
Alignment explanation
Indices: 10104933--10105104 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10104923 GGATGGTTGA
* *
10104933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10104998 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10105026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10105091 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10105105 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10112493 original size:46 final size:46
Alignment explanation
Indices: 10112443--10112618 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10112433 TGGTTGAGCA
10112443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10112489 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10112534 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10112582 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10112619 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10112599 original size:93 final size:93
Alignment explanation
Indices: 10112440--10112611 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10112430 GGATGGTTGA
* *
10112440 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10112505 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10112533 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10112598 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10112612 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10114686 original size:93 final size:93
Alignment explanation
Indices: 10114573--10114745 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
10114563 CGCCCATAAG
* * * *
10114573 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
10114638 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
10114666 CGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
10114731 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
10114746 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:10114741 original size:46 final size:46
Alignment explanation
Indices: 10114566--10114741 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
10114556 TGTAACCCGC
* * *
10114566 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
10114612 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
10114662 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
10114705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
10114742 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:10114760 original size:46 final size:45
Alignment explanation
Indices: 10114617--10114760 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
10114607 CGCATCCATA
* * *
10114617 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
10114665 A-CGAACTCGGACTCAACTCAACAAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
10114710 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
10114756 AGTGA
1 AGTGA
10114761 CATGTCACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.48
47 29 0.39
48 5 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:10117133 original size:44 final size:45
Alignment explanation
Indices: 10117043--10117171 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
10117033 GACAGAACGA
*
10117043 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
10117089 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
10117133 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10117172 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:10124521 original size:44 final size:45
Alignment explanation
Indices: 10124431--10124559 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
10124421 GACAGAACGA
*
10124431 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
10124477 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
10124521 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10124560 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:10132897 original size:21 final size:20
Alignment explanation
Indices: 10132873--10132917 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
10132863 AAGTTTAATA
10132873 TTATGACTATTATTCTTATT
1 TTATGACTATTATTCTTATT
***
10132893 CTTATTTTTATTATTCTTATT
1 -TTATGACTATTATTCTTATT
10132914 TTAT
1 TTAT
10132918 TCTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATGACTATTATTCTTATT
Found at i:10132898 original size:15 final size:15
Alignment explanation
Indices: 10132880--10132924 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10132870 ATATTATGAC
10132880 TATTATTCTTATTCT
1 TATTATTCTTATTCT
* *
10132895 TATTTTTATTATTCT
1 TATTATTCTTATTCT
10132910 TATTTTATTCTTATT
1 TA--TTATTCTTATT
10132925 TTTTACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 15 0.62
17 9 0.38
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTCTTATTCT
Found at i:10132939 original size:27 final size:26
Alignment explanation
Indices: 10132880--10132941 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
10132870 ATATTATGAC
*
10132880 TATTATTCTTATTCTTATTTTTATTAT
1 TATTATT-TTATTCTTATTTTTACTAT
*
10132907 TCTTATTTTATTCTTATTTTTTACTAT
1 TATTATTTTATTCTTA-TTTTTACTAT
10132934 TATTATTT
1 TATTATTT
10132942 AATGTACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTATTTTATTCTTATTTTTACTAT
Found at i:10144191 original size:45 final size:44
Alignment explanation
Indices: 10144132--10144220 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 44
10144122 TTCACCTGAG
10144132 AAAAGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCGCTTTGAAA
1 AAAAGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCGCTTTGAAA
10144176 AAAATGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCGCTTTGAAA
1 AAAA-GGAGAGGCCAAGGCGAAAACCCGCAAAGGGCGCTTTGAAA
10144221 CCAAATGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.09
45 40 0.91
ACGTcount: A:0.40, C:0.20, G:0.31, T:0.08
Consensus pattern (44 bp):
AAAAGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCGCTTTGAAA
Found at i:10145092 original size:44 final size:44
Alignment explanation
Indices: 10145043--10145357 Score: 158
Period size: 44 Copynumber: 7.2 Consensus size: 44
10145033 CCTTAACCCT
10145043 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
1 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
* * * * * * * *
10145087 TTAAGCAGTAGCGG-AGCA-GATCGAAGACAGT-GAG-CCTTAAC-CAT
1 CTAAGCAGTAG-GGTAACAGGCT-GAA-A-ATTACAGATCTTATCTC-C
** * *
10145131 CTAAATAGTAGGGTAACAAGCTGAAAATTATAGATCTTATCTCC
1 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
* ** * *
10145175 CTAAGCAGTAGTGG-AGCAGATTG--AA--ACGAGTTCCTATAC-CC
1 CTAAGCAGTAG-GGTAACAGGCTGAAAATTAC-AGATCTTAT-CTCC
* *
10145216 CTAAGTAGTAGGGTAACATGCTGAAAATTACAGATCTTATCTCC
1 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
* * * * * * *
10145260 CTAAGCAGTAGCGG-AGCA-GATCGAAGA--CCATGAGCCTTAACCCC
1 CTAAGCAGTAG-GGTAACAGGCT-GAAAATTACA-GA-TCTTATCTCC
*
10145304 CTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT-TTATCTCC
1 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
*
10145347 CTAAACAGTAG
1 CTAAGCAGTAG
10145358 TGGAGTAGAT
Statistics
Matches: 193, Mismatches: 51, Indels: 55
0.65 0.17 0.18
Matches are distributed among these distances:
40 3 0.02
41 24 0.12
42 7 0.04
43 33 0.17
44 104 0.54
45 18 0.09
46 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (44 bp):
CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCC
Found at i:10145127 original size:88 final size:88
Alignment explanation
Indices: 10144978--10145631 Score: 840
Period size: 88 Copynumber: 7.5 Consensus size: 88
10144968 AACATCGGTA
* * *
10144978 AAAATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACTGTGAGCCTTAACCCT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
10145043 CTAAGCAGTAGGGTAACAGGCTG
66 CTAAGCAGTAGGGTAACAGGCTG
* * **
10145066 AAAATTACAGATCTTATCTCCTTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTAACCAT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
** *
10145131 CTAAATAGTAGGGTAACAAGCTG
66 CTAAGCAGTAGGGTAACAGGCTG
* * *
10145154 AAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA-ACGAGT--TCC-TATA-C
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAGCCTTA-ACC
* *
10145214 CCCTAAGTAGTAGGGTAACATGCTG
64 CCCTAAGCAGTAGGGTAACAGGCTG
*
10145239 AAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACCA-TGAGCCTTAACCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGTGAGCCTTAACCC
*
10145303 CCTAAGCAGTAGGGTAACAGGCTA
65 CCTAAGCAGTAGGGTAACAGGCTG
* * * *
10145327 AAAATTACAGAT-TTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGACAGTGAACCTTAACCCT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
10145391 CTAAGCAGTAGGGTAACAGGCT-
66 CTAAGCAGTAGGGTAACAGGCTG
* * * * * *
10145413 AGAAATTACAAATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATTGAAGACGGTGAGCCTTAACCC
1 A-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
** *
10145478 CCTAAGCAGTAGGAAAACAGGCTA
65 CCTAAGCAGTAGGGTAACAGGCTG
** * * * *
10145502 AAAATTACAGATCTTATCTCTTTAAACAATAGTGGAGTAGATCAAAGACAGTGAGCCTTAACCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
*
10145567 CTAAGCAGTAGAGTAACAGG-TAG
66 CTAAGCAGTAGGGTAACAGGCT-G
* * *
10145590 AAAATTACGGATTTTATCTCCCTAAGCGGTAGTGGAGCAGAT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
10145632 TGAAACGAGT
Statistics
Matches: 488, Mismatches: 65, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
85 68 0.14
86 8 0.02
87 83 0.17
88 328 0.67
89 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (88 bp):
AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGCTG
Found at i:10146927 original size:14 final size:14
Alignment explanation
Indices: 10146908--10146952 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
10146898 ATTATTACTA
*
10146908 TTATTTTTATTTTT
1 TTATTTTTATTATT
10146922 TTATTTTTATTATT
1 TTATTTTTATTATT
*
10146936 TTATTTACTATTATT
1 TTATTT-TTATTATT
10146951 TT
1 TT
10146953 TTAATGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:10146949 original size:18 final size:18
Alignment explanation
Indices: 10146909--10146973 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
10146899 TTATTACTAT
* *
10146909 TATTTTTATTTT-TTTAT
1 TATTATTATTTTATTTAC
*
10146926 TTTTATTATTTTATTTAC
1 TATTATTATTTTATTTAC
*
10146944 TATTATT-TTTTAATGTAC
1 TATTATTATTTT-ATTTAC
10146962 TATTATTATTTT
1 TATTATTATTTT
10146974 TTAATTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 14 0.35
18 22 0.55
19 4 0.10
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTATTATTTTATTTAC
Found at i:10146983 original size:18 final size:18
Alignment explanation
Indices: 10146908--10146989 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 18
10146898 ATTATTACTA
* *
10146908 TTATTTTTATTTTTTTAT
1 TTATTATTATTTTTTAAT
10146926 TT-TTATTA--TTTT-AT
1 TTATTATTATTTTTTAAT
*
10146940 TTACTATTATTTTTTAAT
1 TTATTATTATTTTTTAAT
10146958 GTACTATTATTATTTTTTAAT
1 -T--TATTATTATTTTTTAAT
*
10146979 TTATTGTTATT
1 TTATTATTATT
10146990 ATCACTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 4 0.08
15 9 0.17
17 9 0.17
18 13 0.25
19 1 0.02
20 1 0.02
21 16 0.30
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTATTATTTTTTAAT
Found at i:10147323 original size:14 final size:14
Alignment explanation
Indices: 10147304--10147350 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
10147294 ATTATTTGTG
10147304 CTATTAATTATGTT
1 CTATTAATTATGTT
* *
10147318 CTATT-ATTTTGTG
1 CTATTAATTATGTT
10147331 CTATTAATTATGTT
1 CTATTAATTATGTT
10147345 CTATTA
1 CTATTA
10147351 TTCTTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (14 bp):
CTATTAATTATGTT
Found at i:10147332 original size:27 final size:27
Alignment explanation
Indices: 10147293--10147352 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
10147283 ATTGACATTG
10147293 TATTA-TTTGTGCTATTAATTATGTTC
1 TATTATTTTGTGCTATTAATTATGTTC
10147319 TATTATTTTGTGCTATTAATTATGTTC
1 TATTATTTTGTGCTATTAATTATGTTC
10147346 TATTATT
1 TATTATT
10147353 CTTTCTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (27 bp):
TATTATTTTGTGCTATTAATTATGTTC
Found at i:10147336 original size:13 final size:13
Alignment explanation
Indices: 10147293--10147352 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
10147283 ATTGACATTG
10147293 TATTATT-TGTGC
1 TATTATTATGTGC
*
10147305 TATTAATTATGTTC
1 TATT-ATTATGTGC
*
10147319 TATTATTTTGTGC
1 TATTATTATGTGC
*
10147332 TATTAATTATGTTC
1 TATT-ATTATGTGC
10147346 TATTATT
1 TATTATT
10147353 CTTTCTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 4 0.10
13 17 0.43
14 19 0.47
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (13 bp):
TATTATTATGTGC
Found at i:10149758 original size:23 final size:24
Alignment explanation
Indices: 10149730--10149775 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10149720 ACGCTAATTT
10149730 CATTAG-C-AAAACTTTTAATTTAC
1 CATTAGACTAAAA-TTTTAATTTAC
*
10149753 CATTAGACTAAAATTTTATTTTA
1 CATTAGACTAAAATTTTAATTTA
10149776 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (24 bp):
CATTAGACTAAAATTTTAATTTAC
Found at i:10151388 original size:79 final size:80
Alignment explanation
Indices: 10151294--10151472 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 80
10151284 CGTTCAAATA
* *
10151294 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT-T
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATAT
* *
10151356 TAGT-AATTCGCACCAATG
64 T-GTCAATTAGCA-CAAAG
**
10151374 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATTG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATTG
*
10151438 TCACTTAGCACAAAG
66 TCAATTAGCACAAAG
10151453 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
10151473 CATCATTCGA
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATTG
TCAATTAGCACAAAG
Found at i:10151472 original size:40 final size:41
Alignment explanation
Indices: 10151288--10151472 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
10151278 GCTACTCGTT
* * *
10151288 CAAATACCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
10151328 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
10151368 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
10151407 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
10151448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10151473 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:10154709 original size:2 final size:2
Alignment explanation
Indices: 10154702--10154744 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10154692 GATTATTCAT
10154702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10154744 T
1 T
10154745 GAATTTGCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10159823 original size:2 final size:2
Alignment explanation
Indices: 10159816--10159857 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10159806 TAAAACATTA
10159816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10159858 GTCATGTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10163221 original size:6 final size:6
Alignment explanation
Indices: 10163205--10163233 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10163195 TATCTCACAC
10163205 TCCCA- TCCCAT TCCCAT TCCCAT TCCCAT
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT
10163234 ATGCCATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.52, G:0.00, T:0.31
Consensus pattern (6 bp):
TCCCAT
Found at i:10179763 original size:40 final size:41
Alignment explanation
Indices: 10179705--10179795 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 41
10179695 TAAAATTAGA
* * * *
10179705 TTTAATACAATAAGATATTTGTTATATTTAT-TTGTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTTT
10179745 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTAT-GTAGTGTTTT
10179787 TTT-ATATAA
1 TTTAATATAA
10179796 ATACTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 28 0.62
41 6 0.13
42 11 0.24
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTTT
Found at i:10181411 original size:33 final size:33
Alignment explanation
Indices: 10181374--10181465 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
10181364 TTCTGACCCA
** * *
10181374 TATCCACCGCTGTACTCTACTCCTCTCGGCCCG
1 TATCCACCGCCATACTCCACTCCTCCCGGCCCG
* **
10181407 TATCCACCGCCATACTCCACTCTTCCCGGCTTG
1 TATCCACCGCCATACTCCACTCCTCCCGGCCCG
10181440 TATCCACCGCCATACTCCACTCCTCC
1 TATCCACCGCCATACTCCACTCCTCC
10181466 TGGCTTAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.15, C:0.48, G:0.11, T:0.26
Consensus pattern (33 bp):
TATCCACCGCCATACTCCACTCCTCCCGGCCCG
Found at i:10197381 original size:5 final size:5
Alignment explanation
Indices: 10197373--10197397 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10197363 TTTCTTTCCC
10197373 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
10197398 TTATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:10205933 original size:21 final size:19
Alignment explanation
Indices: 10205908--10205962 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
10205898 TGTTTGGGTT
10205908 TTTTTTATAATTTTTAATATA
1 TTTTTTA-AATTTTTAATA-A
*
10205929 TTTTTAACAATTATTT-ATAA
1 TTTTTTA-AATT-TTTAATAA
10205949 -TTTTTAAATTTTTA
1 TTTTTTAAATTTTTA
10205963 TAGGTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 3 0.10
18 4 0.14
19 5 0.17
20 1 0.03
21 13 0.45
22 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAATTTTTAATAA
Found at i:10205950 original size:10 final size:9
Alignment explanation
Indices: 10205909--10205964 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 9
10205899 GTTTGGGTTT
10205909 TTTTTATAA
1 TTTTTATAA
10205918 TTTTTAATATA
1 TTTTT-ATA-A
*
10205929 TTTTTAACAA
1 TTTTT-ATAA
10205939 TTATTTATAA
1 TT-TTTATAA
10205949 TTTTTA-AA
1 TTTTTATAA
10205957 TTTTTATA
1 TTTTTATA
10205965 GGTTTATACT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 8 0.20
9 10 0.24
10 11 0.27
11 12 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10209133 original size:20 final size:20
Alignment explanation
Indices: 10209110--10209153 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
10209100 TTTTCTCTCA
10209110 TTCATT-AACTCTTTCTTTT
1 TTCATTCAACTCTTTCTTTT
* *
10209129 CTTCATTCATCTTTTTCTTTT
1 -TTCATTCAACTCTTTCTTTT
10209150 TTCA
1 TTCA
10209154 GTTTAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCATTCAACTCTTTCTTTT
Found at i:10212014 original size:1 final size:1
Alignment explanation
Indices: 10212008--10212034 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10211998 AGATCAAGCC
10212008 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10212035 GAACAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10234852 original size:17 final size:17
Alignment explanation
Indices: 10234814--10234850 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
10234804 TAAATTGTAA
10234814 TTTTATTATTTTAATAG
1 TTTTATTATTTTAATAG
*
10234831 TTTTA-TATTTTTATAG
1 TTTTATTATTTTAATAG
10234847 TTTT
1 TTTT
10234851 TAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTATTATTTTAATAG
Found at i:10238008 original size:15 final size:14
Alignment explanation
Indices: 10237975--10238026 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
10237965 TTAATAAGTT
*
10237975 TAAAAATAGTGATA
1 TAAAAATAATGATA
*
10237989 AAAAAATAATGATA
1 TAAAAATAATGATA
*
10238003 TTAAAAATAAATAATA
1 -TAAAAAT-AATGATA
10238019 TAAAAATA
1 TAAAAATA
10238027 TGCAATACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 13 0.41
15 13 0.41
16 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (14 bp):
TAAAAATAATGATA
Found at i:10240115 original size:2 final size:2
Alignment explanation
Indices: 10240108--10240143 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10240098 CAAAAATTCT
10240108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10240144 CAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10245833 original size:13 final size:13
Alignment explanation
Indices: 10245815--10245842 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10245805 TTGAATATAG
10245815 AAAAAAACAAAAA
1 AAAAAAACAAAAA
10245828 AAAAAAACAAAAA
1 AAAAAAACAAAAA
10245841 AA
1 AA
10245843 TTGAGCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:10252401 original size:17 final size:17
Alignment explanation
Indices: 10252376--10252409 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10252366 ATTGAATTGG
10252376 TTTTTATAATTT-TTTA
1 TTTTTATAATTTATTTA
10252392 TTTTTAATAATTTATTTA
1 TTTTT-ATAATTTATTTA
10252410 CTTTGAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATAATTTATTTA
Found at i:10261333 original size:17 final size:17
Alignment explanation
Indices: 10261281--10261335 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
10261271 GAAATTTTTG
*
10261281 TTTATATTTTAAAATCATTT
1 TTTAT-TTTTAAAA--ATTA
* *
10261301 TTTATTTTTCATAATTA
1 TTTATTTTTAAAAATTA
10261318 TTTATTTTTAAAAATTA
1 TTTATTTTTAAAAATTA
10261335 T
1 T
10261336 AATTATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 19 0.63
19 6 0.20
20 5 0.17
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTTTTAAAAATTA
Found at i:10267781 original size:46 final size:47
Alignment explanation
Indices: 10267721--10268005 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 47
10267711 TTTGACATGA
* * * * * *
10267721 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
10267767 TGCCATGGTATCTTTCAA-CATGGTCTTGTTCATTTCATATCACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTC---TT-A---C--A-CA-TTTTCATATCAGGT
*
10267824 TGCCATGGTATCTTTCAACCATGGTCTCACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
10267870 TGCCATGGTATCTTTCAACCATGGTCTTACATA-TTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
10267916 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
10267962 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
10268006 AGAGCACACT
Statistics
Matches: 213, Mismatches: 13, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
45 6 0.03
46 160 0.75
48 4 0.02
49 2 0.01
51 1 0.00
52 1 0.00
54 1 0.00
55 3 0.01
56 4 0.02
57 24 0.11
58 7 0.03
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:10269929 original size:20 final size:20
Alignment explanation
Indices: 10269904--10269941 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10269894 TTCTCTCTCC
10269904 TCCAACTTTGA-ATTCTTGAA
1 TCCAAC-TTGATATTCTTGAA
10269924 TCCAACTTGATATTCTTG
1 TCCAACTTGATATTCTTG
10269942 CTCCCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (20 bp):
TCCAACTTGATATTCTTGAA
Found at i:10277354 original size:26 final size:24
Alignment explanation
Indices: 10277324--10277389 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
10277314 AATAAAATAT
10277324 TTTATTCTCTATTTTTTT-TCATA
1 TTTATTCTCTATTTTTTTCTCATA
10277347 TACATTATT-T-TATTTTCTTTCTCATA
1 T---TTATTCTCTATTTT-TTTCTCATA
10277373 TTTAATTCTCTATTTTT
1 TTT-ATTCTCTATTTTT
10277390 CATTTACTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
23 3 0.09
24 9 0.26
25 6 0.17
26 17 0.49
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTATTCTCTATTTTTTTCTCATA
Found at i:10279303 original size:18 final size:19
Alignment explanation
Indices: 10279264--10279304 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10279254 ATTACAAAAA
*
10279264 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
10279283 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
10279301 AAAA
1 AAAA
10279305 AGTCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:10279305 original size:19 final size:19
Alignment explanation
Indices: 10279263--10279311 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10279253 TATTACAAAA
10279263 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
10279282 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
10279301 AAAAAGTCAAA
1 AAAAATTCAAA
10279312 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:10282495 original size:10 final size:10
Alignment explanation
Indices: 10282480--10282506 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10282470 TTAGTTGATA
10282480 TTTTATATAT
1 TTTTATATAT
10282490 TTTTATATAT
1 TTTTATATAT
10282500 TTTTATA
1 TTTTATA
10282507 ATTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATATAT
Found at i:10283343 original size:21 final size:20
Alignment explanation
Indices: 10283313--10283359 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
10283303 AATCTCATTT
*
10283313 TTTA-TTTTATTTTTTTAATA
1 TTTATTTTTATGTTTTTAA-A
10283333 TTTATTTTTATGTTTTTAAA
1 TTTATTTTTATGTTTTTAAA
*
10283353 TATATTT
1 TTTATTT
10283360 GATTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTTTTATGTTTTTAAA
Found at i:10283354 original size:22 final size:20
Alignment explanation
Indices: 10283313--10283355 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
10283303 AATCTCATTT
*
10283313 TTTATTTTATTTTTTTAATA
1 TTTATTTTATTTTTTAAATA
10283333 TTTATTTTTATGTTTTTAAATA
1 TTTA-TTTTAT-TTTTTAAATA
10283355 T
1 T
10283356 ATTTGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 6 0.30
22 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTTTATTTTTTAAATA
Found at i:10283375 original size:25 final size:24
Alignment explanation
Indices: 10283330--10283377 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10283320 TATTTTTTTA
*
10283330 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATGATTTTAAAT
10283354 ATATTTGATTTATTAT-ATTTTAAA
1 ATATTT-ATTT-TTATGATTTTAAA
10283378 GTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 11 0.52
26 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
ATATTTATTTTTATGATTTTAAAT
Found at i:10283999 original size:19 final size:20
Alignment explanation
Indices: 10283975--10284020 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10283965 AACATGATTC
10283975 TTTAAATCTAATT-TTAAAA
1 TTTAAATCTAATTATTAAAA
* * *
10283994 TTTAAATTTAATTATTTAAT
1 TTTAAATCTAATTATTAAAA
10284014 TTTAAAT
1 TTTAAAT
10284021 AATATATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAATCTAATTATTAAAA
Found at i:10284070 original size:15 final size:14
Alignment explanation
Indices: 10284050--10284080 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
10284040 ATAACTTCAA
10284050 TTTAATATTTAATAT
1 TTTAATATTTAA-AT
10284065 TTTAATATTTAAAT
1 TTTAATATTTAAAT
10284079 TT
1 TT
10284081 CATCACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATATTTAAAT
Found at i:10289471 original size:16 final size:16
Alignment explanation
Indices: 10289450--10289486 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10289440 TACTGGAATT
10289450 GAATAGGGCTATAATA
1 GAATAGGGCTATAATA
* *
10289466 GAATAGGGTTATAATG
1 GAATAGGGCTATAATA
10289482 GAATA
1 GAATA
10289487 AAACTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (16 bp):
GAATAGGGCTATAATA
Found at i:10289706 original size:44 final size:44
Alignment explanation
Indices: 10289657--10289782 Score: 109
Period size: 44 Copynumber: 2.8 Consensus size: 44
10289647 ATTTTTGTTG
10289657 TTATAAAATATAA-TAAGAT-TATTATTAAATATAATTTAATA-AAA
1 TTATAAAATATAATTAA-ATATATT-TT-AATATAATTTAATAGAAA
*
10289701 TTATAATAA-ATAATTTAATCATATTTTAATATAATTTAATAGAAA
1 TTATAA-AATATAATTAAAT-ATATTTTAATATAATTTAATAGAAA
* * *
10289746 -TAAAAATATATAATTTAATAACATTCTTAATATAATT
1 TTATAAA-ATATAATTAAAT-ATATT-TTAATATAATT
10289783 ATTTTTATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
43 1 0.01
44 31 0.44
45 23 0.33
46 15 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (44 bp):
TTATAAAATATAATTAAATATATTTTAATATAATTTAATAGAAA
Found at i:10289728 original size:11 final size:10
Alignment explanation
Indices: 10289684--10289741 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
10289674 ATTATTATTA
10289684 AATATAATTT
1 AATATAATTT
*
10289694 AATAAAATTAT
1 AATATAATT-T
10289705 AATAAATAATTT
1 AAT--ATAATTT
*
10289717 AATCATATTTT
1 AAT-ATAATTT
10289728 AATATAATTT
1 AATATAATTT
10289738 AATA
1 AATA
10289742 GAAATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 18 0.45
11 13 0.32
12 4 0.10
13 5 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
AATATAATTT
Found at i:10291146 original size:27 final size:27
Alignment explanation
Indices: 10291115--10291210 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 27
10291105 TTAGTTTACC
*
10291115 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
10291142 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
10291169 AAATTACTGAAATACCTTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
10291196 AAATTACTGAAATAC
1 AAATTACTAAAATAC
10291211 TCCTGTAAGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:10291250 original size:27 final size:27
Alignment explanation
Indices: 10291224--10291353 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
10291214 TGTAAGATAG
* * *
10291224 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAA
* *
10291251 AATTACTGTTTTACTCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
*
10291278 AATTACCATTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAA
*
10291305 AATTATCGTTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAA
*
10291332 AATTACCATTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
10291354 GTGAAATTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAA
Found at i:10291271 original size:81 final size:79
Alignment explanation
Indices: 10291154--10291389 Score: 194
Period size: 81 Copynumber: 2.9 Consensus size: 79
10291144 ATTACCAAAG
* ***
10291154 TACCCCCGATTTATAAAATTACTGAAATACCTTCGATTTGTAAAATTACTGAAATACTCCTGTAA
1 TACCCTCGATTTATAAAATTACTGTTTTACC-TCGATTTGTAAAATTACTGAAATAC-CCTGTAA
10291219 GATAGAATTATCGTTT
64 GATAGAATTATCGTTT
* ** * **
10291235 TACCCTCGATTTATAGAATTACTGTTTTACTCTCGATTTACAAAATTAC-CATTTTACCCTCAGT
1 TACCCTCGATTTATAAAATTACTGTTTTAC-CTCGATTTGTAAAATTACTGA-AATACCCT--G-
* *
10291299 TTACA-A-AATTATCGTTT
61 TAAGATAGAATTATCGTTT
* ** *
10291316 TACCCTC-AGTTTACAAAATTACCATTTTACCCTCGA-TTGTGAAATTACTGAAATACCCCTGTA
1 TACCCTCGA-TTTATAAAATTACTGTTTTA-CCTCGATTTGTAAAATTACTGAAATA-CCCTGTA
*
10291379 GGATAGAATTA
63 AGATAGAATTA
10291390 CCAAAATACC
Statistics
Matches: 119, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
78 2 0.02
79 2 0.02
80 21 0.18
81 87 0.73
82 4 0.03
83 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (79 bp):
TACCCTCGATTTATAAAATTACTGTTTTACCTCGATTTGTAAAATTACTGAAATACCCTGTAAGA
TAGAATTATCGTTT
Found at i:10291375 original size:27 final size:26
Alignment explanation
Indices: 10291345--10291514 Score: 121
Period size: 27 Copynumber: 6.3 Consensus size: 26
10291335 TACCATTTTA
* **
10291345 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
10291372 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
10291399 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * *
10291426 CCATAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * *
10291453 CACTGGTTTGTGAAATTA-CATAAATA-
1 CCCT-GATTGTAAAATTACCA-AAATAC
*
10291479 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
10291507 CCCTGATT
1 CCCTGATT
10291515 TACAAAATTA
Statistics
Matches: 115, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.01
26 8 0.07
27 97 0.84
28 8 0.07
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:10291426 original size:54 final size:54
Alignment explanation
Indices: 10291352--10291507 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 54
10291342 TTACCCTCGA
** * * *
10291352 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCATAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * *
10291406 TTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
* **
10291460 TTGTGAAATTA-CATAAATACCC-TCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCA-AAATACCCAT-AGTAGGTAAAATTACCAAAATACC
10291508 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 3 0.03
54 80 0.93
55 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:10291515 original size:27 final size:26
Alignment explanation
Indices: 10291385--10291524 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 26
10291375 TGTAGGATAG
10291385 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
*
10291412 AATTACCAAAATACCCATAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
* * * *
10291439 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCT-ATTTGTAA
*
10291466 AATTA-CATAAATACCCTCAATTTGTAA
1 AATTACCA-AAATACCC-CTATTTGTAA
**
10291493 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
10291520 AATTA
1 AATTA
10291525 TAGAAATACC
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 89 0.95
28 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:10291523 original size:54 final size:53
Alignment explanation
Indices: 10291385--10291534 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 53
10291375 TGTAGGATAG
*
10291385 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCATAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTA-CAAAATACCCATAATTTGTAA
* * * *
10291439 AATTACCGAAATACCACTGGTTTGTGAAATTACATAAATACCC-TCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACA-AAATACCCAT-AATTTGTAA
** *
10291493 AATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACC
1 AATTACCAAAATACCCCTGATTTGTAAAATTACA-AAATACC
10291535 ATTGACTTTC
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 77 0.96
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (53 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACAAAATACCCATAATTTGTAA
Found at i:10291531 original size:27 final size:27
Alignment explanation
Indices: 10291501--10291590 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
10291491 AAAATTACCA
**
10291501 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCATTGATTTACAAAATTATAG
10291528 AAATACCATTGACTTT-CTAAAAATTATAG
1 AAATACCATTGA-TTTAC--AAAATTATAG
* *
10291557 AAATATCATTGGTTTACAAAATTACT-G
1 AAATACCATTGATTTACAAAATTA-TAG
10291584 AAATACC
1 AAATACC
10291591 CTTGGTTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 25 0.47
28 7 0.13
29 21 0.40
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATACCATTGATTTACAAAATTATAG
Found at i:10291595 original size:27 final size:27
Alignment explanation
Indices: 10291513--10291598 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
10291503 ATACCCCTGA
*
10291513 TTTACAAAATTATAGAAATACCATTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
*
10291541 TTT-CTAAAAATTATAGAAATATCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
10291569 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
10291596 TTT
1 TTT
10291599 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 7 0.14
29 21 0.42
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:10292970 original size:9 final size:9
Alignment explanation
Indices: 10292958--10293014 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
10292948 TTTGATAAAC
10292958 ATGATATGT
1 ATGATATGT
*
10292967 ATGATATGCAC
1 ATGATATG--T
*
10292978 ATGACATGT
1 ATGATATGT
*
10292987 ATGATATGCAC
1 ATGATATG--T
10292998 ATGATATGT
1 ATGATATGT
10293007 ATGATATG
1 ATGATATG
10293015 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:10292981 original size:20 final size:20
Alignment explanation
Indices: 10292956--10293026 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
10292946 ATTTTGATAA
10292956 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
10292976 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
10292996 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
10293016 ACATGAGATGT
1 ACATGATATGT
10293027 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:10293003 original size:11 final size:11
Alignment explanation
Indices: 10292967--10293021 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
10292957 CATGATATGT
10292967 ATGATATGCAC
1 ATGATATGCAC
* *
10292978 ATGACATG--T
1 ATGATATGCAC
10292987 ATGATATGCAC
1 ATGATATGCAC
*
10292998 ATGATATG--T
1 ATGATATGCAC
10293007 ATGATATGCAC
1 ATGATATGCAC
10293018 ATGA
1 ATGA
10293022 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:10293181 original size:23 final size:24
Alignment explanation
Indices: 10293072--10293176 Score: 160
Period size: 23 Copynumber: 4.4 Consensus size: 24
10293062 GAGGAAGTGC
10293072 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10293096 AAAA-GGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
10293119 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
*
10293144 AAAAGGGCTT-TGCCCCAGTCATT
1 AAAAGGGCTTATGCCCCAGTTATT
10293167 AAAAGAGGCT
1 AAAAG-GGCT
10293177 AGCCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
23 36 0.48
24 20 0.27
25 19 0.25
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10293190 original size:48 final size:48
Alignment explanation
Indices: 10293073--10293165 Score: 161
Period size: 48 Copynumber: 1.9 Consensus size: 48
10293063 AGGAAGTGCA
*
10293073 AAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTCATGAT
10293121 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTCAT
1 AAAGGGCTTATGCCCCAGTTATTAAAA-GGCTTATGCCCCAGTCAT
10293166 TAAAAGAGGC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
48 38 0.88
49 5 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTCATGAT
Found at i:10293388 original size:31 final size:31
Alignment explanation
Indices: 10293353--10293416 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
10293343 CGTTTACAGT
*
10293353 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
10293384 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
10293415 AA
1 AA
10293417 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:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:10296743 original size:22 final size:22
Alignment explanation
Indices: 10296683--10296749 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
10296673 TGCACTATTG
*
10296683 AACAGAAAGCACTAAAGTGCTA
1 AACAGAAAGCACTAATGTGCTA
* * *
10296705 TACAGAGAGCACGAATGTGCTA
1 AACAGAAAGCACTAATGTGCTA
* *
10296727 AACGGAAAGCACTAATGTACTA
1 AACAGAAAGCACTAATGTGCTA
10296749 A
1 A
10296750 TAATCGTAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (22 bp):
AACAGAAAGCACTAATGTGCTA
Found at i:10298300 original size:2 final size:2
Alignment explanation
Indices: 10298293--10298327 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10298283 CCTCTACTAT
10298293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10298328 CCCAACTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10307877 original size:11 final size:11
Alignment explanation
Indices: 10307861--10307888 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10307851 TTGTGAAAAT
10307861 AATAAAAATAA
1 AATAAAAATAA
10307872 AATAAAAATAA
1 AATAAAAATAA
10307883 AATAAA
1 AATAAA
10307889 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:10312273 original size:56 final size:56
Alignment explanation
Indices: 10312186--10312313 Score: 229
Period size: 56 Copynumber: 2.3 Consensus size: 56
10312176 AGAGAGCTAC
10312186 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
1 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
* *
10312242 CTTATATCTTTAATTTTGTTTTCTCTGAAAATGAGCTGAGATATCAGATTCACTAC
1 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
*
10312298 CTTGTATCTTTAATTT
1 CTTATATCTTTAATTT
10312314 GCCTTGCTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (56 bp):
CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
Found at i:10320920 original size:24 final size:24
Alignment explanation
Indices: 10320876--10320922 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10320866 TATAGTATTA
*
10320876 GAAATATATACATGGGATAATATG
1 GAAATATATACATGAGATAATATG
*
10320900 GAAATATGTACAT-AGAGTAATAT
1 GAAATATATACATGAGA-TAATAT
10320923 ATACAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (24 bp):
GAAATATATACATGAGATAATATG
Found at i:10320952 original size:21 final size:21
Alignment explanation
Indices: 10320928--10321009 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 21
10320918 AATATATACA
10320928 AAAATATAACTAATAATATTT
1 AAAATATAACTAATAATATTT
*** *
10320949 AAAATAATAA-TAGGGATATTA
1 AAAAT-ATAACTAATAATATTT
* *
10320970 AAAATACTTAGTATATAATATTT
1 AAAATA-TAACTA-ATAATATTT
10320993 AAAATATATACATAATA
1 AAAATATA-AC-TAATA
10321010 CAAAAACATA
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.43
22 7 0.16
23 15 0.34
24 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAATATAACTAATAATATTT
Found at i:10321015 original size:42 final size:39
Alignment explanation
Indices: 10320917--10321015 Score: 92
Period size: 44 Copynumber: 2.4 Consensus size: 39
10320907 GTACATAGAG
*
10320917 TAATATATACAAAAATATAACTAATAATATTTAAAATAA
1 TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
* * *
10320956 TAATAGGGATATTAAAAATACTTAGTATATAATATTTAAAATATA
1 TAATA--GATA-CAAAAATA-TAACTA-ATAATATTTAAAATA-A
10321001 TACATA-ATACAAAAA
1 TA-ATAGATACAAAAA
10321016 CATATATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 5 0.10
41 3 0.06
42 12 0.25
43 7 0.15
44 15 0.31
45 3 0.06
46 3 0.06
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (39 bp):
TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
Found at i:10322021 original size:8 final size:8
Alignment explanation
Indices: 10322008--10322035 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10321998 TTGTTGTTAT
10322008 TTATTTTA
1 TTATTTTA
10322016 TTATTTTA
1 TTATTTTA
10322024 TTATTTTA
1 TTATTTTA
10322032 TTAT
1 TTAT
10322036 ATTTTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:10323467 original size:88 final size:86
Alignment explanation
Indices: 10323215--10323547 Score: 431
Period size: 88 Copynumber: 3.8 Consensus size: 86
10323205 AGTTTGAAAG
* *
10323215 ACAGAATTTGAAAATACCTCGGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 ACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
10323279 ATTTTTGAAAA-ATATAGATTGGAAAAA
63 ATTTTTGAAAACATA-A-ATT--AAAAA
*
10323306 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
10323371 TTTGAAAACATGAATTAAAAA
66 TTTGAAAACATAAATTAAAAA
* * *
10323392 ACAGAAATTGGAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 ACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
10323456 ATTTTTGAAAACA-AAATTGAAAA
63 ATTTTTGAAAACATAAATTAAAAA
* ** *
10323479 ATAGAAATTGAAGTTACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGACT
1 ACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
10323544 TTTT
65 TTTT
10323548 TCTTCTCCTT
Statistics
Matches: 221, Mismatches: 14, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
84 2 0.01
85 36 0.16
86 32 0.14
87 27 0.12
88 52 0.24
89 49 0.22
90 2 0.01
91 21 0.10
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (86 bp):
ACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAACATAAATTAAAAA
Found at i:10335798 original size:21 final size:21
Alignment explanation
Indices: 10335774--10335855 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 21
10335764 AATATATACA
10335774 AAAATATAACTAATAATATTT
1 AAAATATAACTAATAATATTT
*** *
10335795 AAAATAATAA-TAGGGATATTA
1 AAAAT-ATAACTAATAATATTT
* *
10335816 AAAATACTTAGTATATAATATTT
1 AAAATA-TAACTA-ATAATATTT
10335839 AAAATATATACATAATA
1 AAAATATA-AC-TAATA
10335856 CAAAAACATA
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.43
22 7 0.16
23 15 0.34
24 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAATATAACTAATAATATTT
Found at i:10335861 original size:42 final size:39
Alignment explanation
Indices: 10335763--10335861 Score: 92
Period size: 44 Copynumber: 2.4 Consensus size: 39
10335753 GTACATAGGG
*
10335763 TAATATATACAAAAATATAACTAATAATATTTAAAATAA
1 TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
* * *
10335802 TAATAGGGATATTAAAAATACTTAGTATATAATATTTAAAATATA
1 TAATA--GATA-CAAAAATA-TAACTA-ATAATATTTAAAATA-A
10335847 TACATA-ATACAAAAA
1 TA-ATAGATACAAAAA
10335862 CATATATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 5 0.10
41 3 0.06
42 12 0.25
43 7 0.15
44 15 0.31
45 3 0.06
46 3 0.06
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (39 bp):
TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
Found at i:10336279 original size:20 final size:20
Alignment explanation
Indices: 10336243--10336280 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10336233 TGAAACAAAA
*
10336243 TAAATTTGAAAATAAGGCAG
1 TAAATTTGAAAAAAAGGCAG
10336263 TAAA-TTGACAAAAAAGGC
1 TAAATTTGA-AAAAAAGGC
10336281 TAAATCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATTTGAAAAAAAGGCAG
Found at i:10338767 original size:19 final size:19
Alignment explanation
Indices: 10338744--10338781 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10338734 TGTCACTAGT
*
10338744 ATTTTTTA-GTACTAATAA
1 ATTTTTTATATACTAATAA
*
10338762 ATTTTTTATATATTAATAA
1 ATTTTTTATATACTAATAA
10338781 A
1 A
10338782 AATTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTTTATATACTAATAA
Found at i:10338794 original size:18 final size:17
Alignment explanation
Indices: 10338771--10338806 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10338761 AATTTTTTAT
*
10338771 ATATTAATAAAAATTAAA
1 ATATTAA-AAAAAATAAA
10338789 ATATTAAAAAAAATAAA
1 ATATTAAAAAAAATAAA
10338806 A
1 A
10338807 CAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATATTAAAAAAAATAAA
Found at i:10339230 original size:19 final size:20
Alignment explanation
Indices: 10339208--10339250 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10339198 TTTAGTATGT
10339208 AAAAATAG-TATTTT-ATATC
1 AAAAATAGAT-TTTTCATATC
*
10339227 AAAAATTGATTTTTCATATC
1 AAAAATAGATTTTTCATATC
10339247 AAAA
1 AAAA
10339251 TTTAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAAATAGATTTTTCATATC
Found at i:10339258 original size:20 final size:19
Alignment explanation
Indices: 10339218--10339259 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
10339208 AAAAATAGTA
*
10339218 TTTTATATCAAAAATTGAT
1 TTTTATATCAAAAATTAAT
*
10339237 TTTTCATATCAAAATTTAAT
1 TTTT-ATATCAAAAATTAAT
10339257 TTT
1 TTT
10339260 GAAAGCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATCAAAAATTAAT
Found at i:10339259 original size:19 final size:19
Alignment explanation
Indices: 10339217--10339259 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10339207 TAAAAATAGT
10339217 ATTTTATATCAAAAATTGA
1 ATTTTATATCAAAAATTGA
* *
10339236 TTTTTCATATC-AAAATTTA
1 ATTTT-ATATCAAAAATTGA
10339255 ATTTT
1 ATTTT
10339260 GAAAGCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTATATCAAAAATTGA
Found at i:10345389 original size:11 final size:10
Alignment explanation
Indices: 10345372--10345414 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
10345362 CAAAACTGTG
10345372 ATTTTATATT
1 ATTTTATATT
10345382 ATTTT-TATT
1 ATTTTATATT
*
10345391 CTTTTATATT
1 ATTTTATATT
10345401 ATTTT-TATT
1 ATTTTATATT
*
10345410 CTTTT
1 ATTTT
10345415 TTAATAGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTATATT
Found at i:10345397 original size:19 final size:19
Alignment explanation
Indices: 10345373--10345414 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10345363 AAAACTGTGA
10345373 TTTTATATTATTTTTATTC
1 TTTTATATTATTTTTATTC
10345392 TTTTATATTATTTTTATTC
1 TTTTATATTATTTTTATTC
10345411 TTTT
1 TTTT
10345415 TTAATAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATATTATTTTTATTC
Found at i:10345866 original size:28 final size:28
Alignment explanation
Indices: 10345804--10345860 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10345794 TGTCGCATCG
10345804 AGTTGTTGGCAATGATACCAACGAATCC
1 AGTTGTTGGCAATGATACCAACGAATCC
10345832 AGTTGTTGGCAATGATACCAACGAATCC
1 AGTTGTTGGCAATGATACCAACGAATCC
10345860 A
1 A
10345861 TCTGTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
AGTTGTTGGCAATGATACCAACGAATCC
Found at i:10348289 original size:14 final size:14
Alignment explanation
Indices: 10348270--10348297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10348260 AAATACTGCT
10348270 TCTGAGACAAGCTA
1 TCTGAGACAAGCTA
10348284 TCTGAGACAAGCTA
1 TCTGAGACAAGCTA
10348298 ACTCTGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
TCTGAGACAAGCTA
Found at i:10352552 original size:17 final size:17
Alignment explanation
Indices: 10352527--10352561 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10352517 AAAATTCCAC
10352527 ATTTAGATAAATTTATAA
1 ATTTAGATAAATTT-TAA
10352545 ATTT-GATAAATTTTAA
1 ATTTAGATAAATTTTAA
10352561 A
1 A
10352562 CAAAGATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTTAGATAAATTTTAA
Found at i:10353094 original size:3 final size:3
Alignment explanation
Indices: 10353086--10353161 Score: 59
Period size: 3 Copynumber: 25.0 Consensus size: 3
10353076 ATTTTCGGCA
* *
10353086 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG -AAG
* *
10353131 AAAG AAG -AG AAG AAA AAG AAAG AAA AAG AAG
1 -AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
10353162 GAGAGGAGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 5 0.08
3 41 0.69
4 13 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10353111 original size:16 final size:15
Alignment explanation
Indices: 10353085--10353160 Score: 77
Period size: 16 Copynumber: 5.0 Consensus size: 15
10353075 CATTTTCGGC
10353085 AAAGAAGAAGAAGAA
1 AAAGAAGAAGAAGAA
10353100 AAAGAGAGAAGAAGGAA
1 AAAGA-AGAAGAA-GAA
*
10353117 AGAAG-AGAAGAA-AG
1 A-AAGAAGAAGAAGAA
10353131 AAAGAAG-AGAAGAA
1 AAAGAAGAAGAAGAA
*
10353145 AAAGAAAGAAAAAGAA
1 AAAG-AAGAAGAAGAA
10353161 GGAGAGGAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
13 7 0.14
14 9 0.18
15 8 0.16
16 20 0.39
17 4 0.08
18 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAGAA
Found at i:10353130 original size:27 final size:28
Alignment explanation
Indices: 10353089--10353155 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
10353079 TTCGGCAAAG
* *
10353089 AAGAAGAAGAA-AAAGAGAGAAGA-AGGA
1 AAGAAG-AGAAGAAAGAAAGAAGAGAAGA
10353116 AAGAAGAGAAGAAAGAAAGAAGAGAAGA
1 AAGAAGAGAAGAAAGAAAGAAGAGAAGA
10353144 AA-AAGA-AAGAAA
1 AAGAAGAGAAGAAA
10353156 AAGAAGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 10 0.28
27 21 0.58
28 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (28 bp):
AAGAAGAGAAGAAAGAAAGAAGAGAAGA
Found at i:10353166 original size:27 final size:31
Alignment explanation
Indices: 10353085--10353166 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
10353075 CATTTTCGGC
10353085 AAAGAAGAAGAAG-AA-AAA-GAGAGAAGAAGG
1 AAAGAAG-AGAAGAAAGAAAGGAGAGAAGAA-G
*
10353115 AAAGAAGAGAAGAAAGAAAGAAGAGAAGAA-
1 AAAGAAGAGAAGAAAGAAAGGAGAGAAGAAG
10353145 AAAGAA-AGAA-AAAG-AAGGAGAG
1 AAAGAAGAGAAGAAAGAAAGGAGAG
10353167 GAGGAGAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
27 7 0.15
28 4 0.09
29 9 0.19
30 15 0.32
31 3 0.06
32 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (31 bp):
AAAGAAGAGAAGAAAGAAAGGAGAGAAGAAG
Found at i:10353247 original size:14 final size:14
Alignment explanation
Indices: 10353206--10353260 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
10353196 GAAAAAAGAA
10353206 AAAGAAAAAGAGAAGG
1 AAAGAAAAAGAG--GG
*
10353222 AGAAGAAGAAGAGGG
1 A-AAGAAAAAGAGGG
* *
10353237 AAGGAAAAAGATGG
1 AAAGAAAAAGAGGG
10353251 AAAGAAAAAG
1 AAAGAAAAAG
10353261 GTAATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 19 0.58
15 3 0.09
16 1 0.03
17 10 0.30
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAGAGGG
Found at i:10353745 original size:30 final size:31
Alignment explanation
Indices: 10353705--10353763 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
10353695 TTTTGTTAAA
*
10353705 ATAATATAAAAAAATAAAATATGAAAATAGT
1 ATAATATAAAAAAATAAAATACGAAAATAGT
*
10353736 ATAAT-TAAAAAAATAAAATCCGAAAATA
1 ATAATATAAAAAAATAAAATACGAAAATA
10353764 AAAAAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (31 bp):
ATAATATAAAAAAATAAAATACGAAAATAGT
Found at i:10353869 original size:137 final size:133
Alignment explanation
Indices: 10353715--10353972 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 133
10353705 ATAATATAAA
** * * *
10353715 AAAATAAAATATGAAAATAGTATAATTAAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACCAAAATAATATAATTAAAAAAATAAAATACG-----AAAAAAATACGAACAAA
* **
10353780 GTGCCAAAGTC-AGGTTACTTATTAAATTAATATAAAAAAAACTTAAATAATACATTTGAAAGAT
61 GTGCCAAAATCAAGGTTACTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAAAGAT
10353844 TTTATGCT
126 TTTATGCT
* * * * * * *
10353852 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAACAATATGAATAAAGTGCT
1 AAAATAAAATACCAAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCC
* *
10353917 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAA
66 AAAATCAAGGTTACTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAA
10353973 GCATTATGTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 22 0.21
133 45 0.44
137 36 0.35
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.28
Consensus pattern (133 bp):
AAAATAAAATACCAAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCC
AAAATCAAGGTTACTTATTAAAAAAATATAAAAAAAACTTAAATAATACATTTGAAAGATTTTAT
GCT
Found at i:10353959 original size:133 final size:140
Alignment explanation
Indices: 10353763--10354571 Score: 608
Period size: 146 Copynumber: 5.5 Consensus size: 140
10353753 ATCCGAAAAT
* * * * * ** *
10353763 AAAAAAATACGAACAAGGTGCCAAAGTC-AGGTTACTTATTAAATTAATATAAAAAAAACTTAAA
1 AAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
* *
10353827 TAATACATTTGAAAGA-T-T-T-T-AT-GCT-A-AAATAAAATACCAAAATAATATATTTTAAAA
66 TAATACATTTG-AAGATTATGTATAATAGATAAGAAATAAAATACGAAAATAATATATTTTAAAA
10353884 AATAATATACG
130 AATAATATACG
* *
10353895 AAAACAATATGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
1 AAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
*
10353960 TAATACATTTGAAGCATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTT
66 TAATACATTTGAAG-ATTATGTA-T--AAT-AGAT-AAGAAATAAAATACGAAAATAATATATTT
10354025 TAAAAAATAATATACG
125 TAAAAAATAATATACG
* * *
10354041 AAAATAAAAAAATTACGAAGAAAGT-ATCAAAATCAAGGTTATTTAGTAAAAAACCCCTTAATAT
1 -----AAAAAAA-TACGAATAAAGTGCT-AAAATCAAGGTTATTTA-TTAAAAA------AATAT
* * * ** * * * * *
10354105 ATAGAAACAGTTAATTAATACATTTGAATTTTTTTTGCTAAAATAATATAAAAAATAAAATAAGA
52 A-AAAAACACTTAAATAATACATTTGAA--GATTATG-TATAAT-AGATAAGAAATAAAATACGA
10354170 AAATAATATATTTTAAAAAATAATATACG
112 AAATAATATATTTTAAAAAATAATATACG
* * * *
10354199 AAAAAAATACGAATAAAGTGCTAAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAA
1 AAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
* * *
10354264 TAATACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATAGGAAAATAATATATTT
66 TAATACATTTG-AAGATTATGTA-T--AAT-AGAT-AAGAAATAAAATACGAAAATAATATATTT
* *
10354329 TTAAAAATAAGATACG
125 TAAAAAATAATATACG
* * * * *
10354345 -AAAAAATCCAAATAAAGTGCTAAAATC-AGGTTATTTATTAAAAAAATATTAAAAATATTTAAA
1 AAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
* * * *
10354408 TAATACATTTAAAACATTATGTACTAA-A-ATAAGGGTTTTAAAATAAAATAATATGAAAGTAAT
66 TAATACATTT-GAAGATTATGTA-TAATAGATAA--G-----AAAT--AA-AATACGAAAATAAT
*
10354471 ATATTTTAAAAAATAAGATACG
119 ATATTTTAAAAAATAATATACG
** *
10354493 AAAATAAAAAATACGAA-AAAGTG-TCAAAATC-AGTGTTATTTATTAAATTAATATAAAAAAAT
1 ---A-AAAAAATACGAATAAAGTGCT-AAAATCAAG-GTTATTTATTAAAAAAATAT-AAAAAAC
10354555 ACTTAAATAATACATTT
59 ACTTAAATAATACATTT
10354572 AAAACATTTT
Statistics
Matches: 557, Mismatches: 62, Indels: 94
0.78 0.09 0.13
Matches are distributed among these distances:
132 25 0.04
133 44 0.08
134 1 0.00
135 1 0.00
136 1 0.00
138 3 0.01
139 2 0.00
140 2 0.00
141 2 0.00
142 4 0.01
143 5 0.01
144 74 0.13
145 46 0.08
146 82 0.15
147 2 0.00
148 33 0.06
151 13 0.02
152 67 0.12
153 42 0.08
154 22 0.04
158 43 0.08
159 14 0.03
160 23 0.04
161 4 0.01
162 2 0.00
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (140 bp):
AAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAA
TAATACATTTGAAGATTATGTATAATAGATAAGAAATAAAATACGAAAATAATATATTTTAAAAA
ATAATATACG
Found at i:10354003 original size:146 final size:145
Alignment explanation
Indices: 10353852--10354616 Score: 837
Period size: 144 Copynumber: 5.1 Consensus size: 145
10353842 ATTTTATGCT
* * *
10353852 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAACAATATGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
10353917 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAGCATTATGT
66 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
10353982 ACTAAAATAATATAA
131 ACTAAAATAATATAA
*
10353997 AGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGA
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAA-TACGAATA
* * * * * *
10354062 AAGT-ATCAAAATCAAGGTTATTTAGTAAAAAACCCCTTAATATATAGAAACAGTTAATTAATAC
59 AAGTGCT-AAAATCAAGGTTATTTA-TTAAAAA------AATATA-AAAAATACTTAAATAATAC
** * * *
10354126 ATTTG-AATTTTTTTTGCTAAAATAATATAA
115 ATTTGAAACATTATGTACTAAAATAATATAA
*
10354156 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
10354221 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
10354286 ACTAAAATAATATGAA
131 ACTAAAATAATAT-AA
* * * * * *
10354302 GAAATAAAATAGGAAAATAATATATTTTTAAAAATAAGATACG-AAAAAATCCAAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
10354366 AAAATC-AGGTTATTTATTAAAAAAATATTAAAAATATTTAAATAATACATTTAAAACATTATGT
66 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
*
10354430 ACTAAAATAAGGGTTTTAA
131 ACTAAAATAA----TATAA
* * *
10354449 AATAA-AATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAATACGAA-AA
1 AA-AATAA-AATACGAAAATAATATATTTTAAAAAATAATATACG---A-AAAAAATACGAATAA
** *
10354512 AGTG-TCAAAATC-AGTGTTATTTATTAAATTAATATAAAAAAATACTTAAATAATACATTTAAA
60 AGTGCT-AAAATCAAG-GTTATTTATTAAAAAAATAT-AAAAAATACTTAAATAATACATTTGAA
* *
10354575 ACATT-TTTGCTAAAATAATATAA
122 ACATTATGTACTAAAATAATATAA
*
10354598 AAAATAATATACGAAAATA
1 AAAATAAAATACGAAAATA
10354617 TTTCACTTAT
Statistics
Matches: 526, Mismatches: 60, Indels: 65
0.81 0.09 0.10
Matches are distributed among these distances:
144 82 0.16
145 50 0.10
146 82 0.16
147 5 0.01
148 48 0.09
149 8 0.02
151 13 0.02
152 67 0.13
153 53 0.10
154 30 0.06
158 41 0.08
159 26 0.05
160 21 0.04
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (145 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAA
Found at i:10354161 original size:12 final size:13
Alignment explanation
Indices: 10354144--10354179 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
10354134 TTTTTTTGCT
10354144 AAAATAATATAA-
1 AAAATAATATAAG
*
10354156 AAAATAAAATAAG
1 AAAATAATATAAG
10354169 AAAATAATATA
1 AAAATAATATA
10354180 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:10354290 original size:304 final size:289
Alignment explanation
Indices: 10353852--10354616 Score: 862
Period size: 304 Copynumber: 2.6 Consensus size: 289
10353842 ATTTTATGCT
** * *
10353852 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAACAATATGAATAAAGTGCT
1 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
10353917 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAGCATTATGT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
*
10353982 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATA
130 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG------
* * *
10354047 AAAAAATTACGAAGAAAGT-ATCAAAATCAAGGTTATTTAGTAAAAAACCCCTTAATATATAGAA
189 AAAAAA-TACAAAGAAAGTGCT-AAAATC-AGGTTATTTA-TAAAAAA------AATAT-TAAAA
* * ** * * *
10354111 ACAGTTAATTAATACATTT-GAATTTTTTTTGCTAAAATAA-TATAA
243 ACAGTTAAATAATACATTTAAAACATTATGTACTAAAATAAGTATAA
10354156 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
*
10354221 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
* * *
10354286 ACTAAAATAATATGAAGAAATAAAATAGGAAAATAATATATTTTTAAAAATAAGATACGAAAAAA
130 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAA
* * * * *
10354351 TCCAAATAAAGTGCTAAAATCAGGTTATTTATTAAAAAAATATTAAAAATATTTAAATAATACAT
195 TACAAAGAAAGTGCTAAAATCAGGTTATTTATAAAAAAAATATTAAAAACAGTTAAATAATACAT
*
10354416 TTAAAACATTATGTACTAAAATAAGGGTTTTAA
260 TTAAAACATTATGTACTAAAATAA--G-TATAA
* * *
10354449 AATAA-AATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAATACGAA-AA
1 AA-AATAA-AATAAGAAAATAATATATTTTAAAAAATAATATACG---A-AAAAAATACGAATAA
* * *
10354512 AGTG-TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAATACTTAAATAATACATTTAAAA
60 AGTGCT-AAAATCAGGGTTATTTATTAAA-AAATAT-AAAAAATACTTAAATAATACATTTGAAA
* * *
10354576 CATT-TTTGCTAAAATAATATAAA-AAATAATATACGAAAATA
122 CATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATA
10354617 TTTCACTTAT
Statistics
Matches: 405, Mismatches: 41, Indels: 38
0.84 0.08 0.08
Matches are distributed among these distances:
288 20 0.05
289 20 0.05
293 8 0.02
294 35 0.09
295 6 0.01
296 30 0.07
297 60 0.15
298 50 0.12
304 176 0.43
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (289 bp):
AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTA
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAT
ACAAAGAAAGTGCTAAAATCAGGTTATTTATAAAAAAAATATTAAAAACAGTTAAATAATACATT
TAAAACATTATGTACTAAAATAAGTATAA
Found at i:10358744 original size:137 final size:137
Alignment explanation
Indices: 10358498--10358784 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
10358488 GAGTAGTCTC
10358498 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
10358563 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
10358628 ACTGTTA
131 ACTATTA
10358635 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
10358700 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
10358765 ACTATTA
131 ACTATTA
**
10358772 CCTGAATGGGCTT
1 CCCAAATGGGCTT
10358785 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:10362575 original size:26 final size:26
Alignment explanation
Indices: 10362540--10362699 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
10362530 TGATACAAAT
* *
10362540 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATAGGTTAGGTAAATGTTTCA
10362566 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10362591 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
10362617 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10362643 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10362669 TGATAATGGGTTAGGTAAAT-TTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
10362694 TGATAA
1 TGATAA
10362700 GAATTTCATG
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
25 33 0.26
26 95 0.74
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Done.