Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 209 of 316
Found at i:68249199 original size:6 final size:6
Alignment explanation
Indices: 68249190--68249249 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
68249180 AATAAAATTG
* * *
68249190 AAATGA AAATAA AAATAA AAAGAA AAAGAA AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
68249237 AAATAA GAATAA A
1 AAATAA AAATAA A
68249250 TAAATCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:68249214 original size:17 final size:17
Alignment explanation
Indices: 68249180--68249242 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
68249170 AAAATAAAAT
* * *
68249180 AATAAAATTGAAATGAA
1 AATAAAAATAAAAAGAA
68249197 AATAAAAATAAAAAGAAA
1 AATAAAAATAAAAAG-AA
*
68249215 AAGAAAAATAAAATA-AA
1 AATAAAAATAAAA-AGAA
68249232 AATAAAAATAA
1 AATAAAAATAA
68249243 GAATAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 24 0.62
18 14 0.36
19 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (17 bp):
AATAAAAATAAAAAGAA
Found at i:68249220 original size:23 final size:23
Alignment explanation
Indices: 68249194--68249249 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
68249184 AAATTGAAAT
68249194 GAAAATAAAAATAAAAAGAAAAA
1 GAAAATAAAAATAAAAAGAAAAA
*
68249217 GAAAA-ATAAAATAAAAATAAAAA
1 GAAAATA-AAAATAAAAAGAAAAA
*
68249240 TAAGAATAAA
1 GAA-AATAAA
68249250 TAAATCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 22 0.79
24 4 0.14
25 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (23 bp):
GAAAATAAAAATAAAAAGAAAAA
Found at i:68249250 original size:22 final size:22
Alignment explanation
Indices: 68249201--68249266 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
68249191 AATGAAAATA
* *
68249201 AAAATAAAAAGAAAAAGAAAAAT
1 AAAATAAAAA-AAAAATAAGAAT
68249224 AAAATAAAAATAAAAATAAGAAT
1 AAAATAAAAA-AAAAATAAGAAT
*
68249247 -AAATAAATCAAAAAATAAGA
1 AAAATAAA-AAAAAAATAAGA
68249267 GGATCCAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.14
Consensus pattern (22 bp):
AAAATAAAAAAAAAATAAGAAT
Found at i:68255020 original size:14 final size:14
Alignment explanation
Indices: 68255001--68255027 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68254991 TAACTCAAGC
68255001 ATTAAGAACAAATA
1 ATTAAGAACAAATA
68255015 ATTAAGAACAAAT
1 ATTAAGAACAAAT
68255028 CAAGTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTAAGAACAAATA
Found at i:68261315 original size:29 final size:25
Alignment explanation
Indices: 68261254--68261308 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
68261244 GGTTCAAGTC
*
68261254 TTGCTGTGTGCAAGTGCGTTTATTT
1 TTGCAGTGTGCAAGTGCGTTTATTT
*
68261279 TTGCAGTGTGCAAGTGTGTTTATTT
1 TTGCAGTGTGCAAGTGCGTTTATTT
68261304 TTGCA
1 TTGCA
68261309 AGCAGTGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.27, T:0.47
Consensus pattern (25 bp):
TTGCAGTGTGCAAGTGCGTTTATTT
Found at i:68263207 original size:34 final size:34
Alignment explanation
Indices: 68263142--68263211 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
68263132 TTGATATGTT
* * *
68263142 AACGGGCTTAGGCCCAGACTGTTACTGTTACTGA
1 AACGGGCTTAGACCCAGACTGCTACTATTACTGA
*
68263176 AACGGGCTTAGACCCCGACTGCTA-TAATTACTGA
1 AACGGGCTTAGACCCAGACTGCTACT-ATTACTGA
68263210 AA
1 AA
68263212 TAGGCTATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
AACGGGCTTAGACCCAGACTGCTACTATTACTGA
Found at i:68273878 original size:16 final size:16
Alignment explanation
Indices: 68273857--68273897 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
68273847 ACACATCACC
68273857 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
68273873 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
68273889 GGCACGAAG
1 GGCACGAAG
68273898 GCCCGAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.34, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:68273920 original size:43 final size:43
Alignment explanation
Indices: 68273873--68274164 Score: 512
Period size: 43 Copynumber: 6.8 Consensus size: 43
68273863 AAGCCTGCTA
*
68273873 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACGCATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
* *
68273916 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATATACATCACT
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
68273959 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
*
68274002 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATATACATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
* *
68274045 GGCACGAAGCCTGCTAGGCACGAAGGCTCGAATATACATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
*
68274088 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACT
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
*
68274131 GGCACGAAGCCTGCTAGGCACGAAGGCCTGAATA
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
68274165 TAATACCAGC
Statistics
Matches: 238, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 238 1.00
ACGTcount: A:0.30, C:0.32, G:0.27, T:0.12
Consensus pattern (43 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
Found at i:68274204 original size:38 final size:38
Alignment explanation
Indices: 68274160--68274302 Score: 214
Period size: 38 Copynumber: 3.8 Consensus size: 38
68274150 ACGAAGGCCT
* * *
68274160 GAATATAATACCAGCACTAGGCCTGCGGGATTTATCCC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
*
68274198 TAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
*
68274236 GGATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
* **
68274274 GGATATTTTACCAGCACGAAGCCTGCGGG
1 GAATATAATACCAGCACGAAGCCTGCGGG
68274303 TCTTTAAGCC
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
Found at i:68277208 original size:54 final size:54
Alignment explanation
Indices: 68277150--68277326 Score: 248
Period size: 54 Copynumber: 3.3 Consensus size: 54
68277140 ACATAGGGAT
* * *
68277150 AAAATAGTCATCTTACCAT-AAAAGGTCAAAACAATCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACC-TCAAAAGGGCAAAACAGTCATTTTACCACATAAGGGC
* *
68277204 AAAATAGTCATTTTACCTCAAAAGGGAAAAACAGTTATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCACATAAGGGC
* * * * *
68277258 AAAACAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCCCATAAGGGA
1 AAAATAGTCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCACATAAGGGC
68277312 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
68277327 TTGATTAAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 108 0.99
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (54 bp):
AAAATAGTCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCACATAAGGGC
Found at i:68277297 original size:81 final size:81
Alignment explanation
Indices: 68277144--68277326 Score: 267
Period size: 81 Copynumber: 2.2 Consensus size: 81
68277134 TAAATCACAT
* * *
68277144 AGGGATAAAATAGTCATCTTACCATAAAAGGTCAAAACAATCATTTTACCACATAAGGGCAAAAT
1 AGGGA-AAAATAGTCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAT
*
68277209 AGTCATTTTACCTCAAA
65 AGTCATTTTACCCCAAA
* * * * *
68277226 AGGGAAAAACAGTTATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAATA
1 AGGGAAAAATAGTCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAATA
*
68277291 GTCATTTTACCCCATA
66 GTCATTTTACCCCAAA
68277307 AGGGAAAAATAGTCATTTTA
1 AGGGAAAAATAGTCATTTTA
68277327 TTGATTAAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 84 0.94
82 5 0.06
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (81 bp):
AGGGAAAAATAGTCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAATA
GTCATTTTACCCCAAA
Found at i:68277337 original size:27 final size:27
Alignment explanation
Indices: 68277150--68277326 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
68277140 ACATAGGGAT
* * *
68277150 AAAATAGTCATCTTACCAT-AAAAGGTC
1 AAAATAGTCATTTTACC-TCATAAGGGC
* * *
68277177 AAAACAATCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCTCATAAGGGC
* *
68277204 AAAATAGTCATTTTACCTCAAAAGGGA
1 AAAATAGTCATTTTACCTCATAAGGGC
* * *
68277231 AAAACAGTTATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCTCATAAGGGC
*
68277258 AAAACAGTCATTTTACCTCATAAGGGC
1 AAAATAGTCATTTTACCTCATAAGGGC
* *
68277285 AAAATAGTCATTTTACCCCATAAGGGA
1 AAAATAGTCATTTTACCTCATAAGGGC
68277312 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
68277327 TTGATTAAGG
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAATAGTCATTTTACCTCATAAGGGC
Found at i:68282823 original size:68 final size:67
Alignment explanation
Indices: 68282751--68282900 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
68282741 CATCATGTGT
* * * *
68282751 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
68282813 ATGTAG
62 ATGTAG
** * *
68282819 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
68282884 AG
66 AG
68282886 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
68282901 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:68282856 original size:64 final size:64
Alignment explanation
Indices: 68282775--68282946 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
68282765 AGACATTATG
* *
68282775 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
68282839 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
68282904 AA
63 AA
* * * *
68282906 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
68282947 GTACAGGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 21 0.24
65 8 0.09
66 16 0.18
67 31 0.36
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:68285286 original size:46 final size:46
Alignment explanation
Indices: 68285118--68285328 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
68285108 TGTGTGAGCT
* * * * * *
68285118 AGTGTAAGACATGTCTGGGACATGCATCAGTCAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTAAGCC
* * * *
68285164 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACG-AAGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAA-GCC
*
68285212 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
* * * * *
68285258 AGTGTAAGACATGTCTGGAACATGCATCGGCTTTGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
68285304 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
68285329 GTATCTACTT
Statistics
Matches: 137, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 73 0.53
47 45 0.33
48 18 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
Found at i:68285341 original size:47 final size:49
Alignment explanation
Indices: 68285160--68285380 Score: 226
Period size: 46 Copynumber: 4.7 Consensus size: 49
68285150 ACATTATGAA
* *
68285160 AGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATG
* * *
68285209 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATG
* * *
68285254 AGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCTTTGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATG
* * ** *
68285300 AGTCAGTGTAAGACCATGTCTGGGACATGGTATCTAC-TTGAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATG
* * * *
68285347 AGCCACTGTAAGACCGTTTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
68285381 AACACCTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.46
47 62 0.43
48 16 0.11
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATG
Found at i:68285349 original size:93 final size:93
Alignment explanation
Indices: 68285115--68285360 Score: 252
Period size: 93 Copynumber: 2.6 Consensus size: 93
68285105 TTCTGTGTGA
* * *
68285115 GCTAGTGTAAGACATGTCTGGGACATGCATC--AGTC-ACATTATGAAAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGA-CATG--AGCCAGTGTAAGA-CAT
*
68285177 GTCTGGGACATGGAATCGGCATTGAGACGAAG
62 GTCTGGAACATGGAATCGGCATTGAGACGAAG
* *
68285209 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACATGTCT
* * *
68285274 GGAACAT-GCATCGGCTTTGAGATGATAG
66 GGAACATGGAATCGGCATTGAGACGA-AG
* * * * * *
68285302 TC-AGTGTAAGACCATGTCTGGGACATGGTATC-TACTTGAGATATGAGCCACTGTAAGAC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGACATGAGCCAGTGTAAGAC
68285361 CGTTTCTAGG
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
92 24 0.19
93 51 0.40
94 48 0.37
96 4 0.03
97 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACATGTCT
GGAACATGGAATCGGCATTGAGACGAAG
Found at i:68285373 original size:140 final size:141
Alignment explanation
Indices: 68285111--68285380 Score: 314
Period size: 140 Copynumber: 1.9 Consensus size: 141
68285101 GTCATTCTGT
* * *
68285111 GTGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGTCACATTATGAAAGCCAGTGTAAGACCA
1 GTGAGCCAGTGTAAGACATGTCTGGAACATGCATCAGTCACATGATGAAAGCCAGTGTAAGACCA
* * * *
68285176 TGTCTGGGACATGGAATCGGCATTGAGACGAAGGCTAGTGTAAGACATGTCTGGGACAT-GCATC
66 TGTCTGGGACATGGAATCGACATTGAGACGAAGGCCACTGTAAGACATGTCTAGGACATGGCATC
68285240 GGCCTCGAGAC
131 GGCCTCGAGAC
* *** * *
68285251 GTGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCTTTGA-GATGATAGTCAGTGTAAGACC
1 GTGAGCCAGTGTAAGACATGTCTGGAACATGCATCAG-TCACATGATGAAAGCCAGTGTAAGACC
* * * * * *
68285315 ATGTCTGGGACATGGTATCTAC-TTGAGA-TATGAGCCACTGTAAGACCGTTTCTAGGACATGGC
65 ATGTCTGGGACATGGAATCGACATTGAGACGAAG-GCCACTGTAAGA-CATGTCTAGGACATGGC
68285378 ATC
128 ATC
68285381 AACACCTTAC
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
138 2 0.02
139 16 0.15
140 82 0.77
141 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
GTGAGCCAGTGTAAGACATGTCTGGAACATGCATCAGTCACATGATGAAAGCCAGTGTAAGACCA
TGTCTGGGACATGGAATCGACATTGAGACGAAGGCCACTGTAAGACATGTCTAGGACATGGCATC
GGCCTCGAGAC
Found at i:68288510 original size:27 final size:27
Alignment explanation
Indices: 68288457--68288512 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
68288447 ATCTCATATC
* * *
68288457 TGTAGGCTAGTATTACTAAAATGCCCT
1 TGTAGGATAGAATTACTAAAATACCCT
68288484 TGTAGGATAGAATTACTGAAAA-ACCCT
1 TGTAGGATAGAATTACT-AAAATACCCT
68288511 TG
1 TG
68288513 GTTTACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
TGTAGGATAGAATTACTAAAATACCCT
Found at i:68288560 original size:27 final size:27
Alignment explanation
Indices: 68288530--68288827 Score: 328
Period size: 27 Copynumber: 11.1 Consensus size: 27
68288520 AAAAATATTG
* **
68288530 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
68288557 AATACCCTCGATTAGTAAAATTCCCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
68288584 AATACCC-TGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
68288610 AATACCCTTGATTTGTGAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
** *
68288637 AATACCCTTGACCTGTAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * * *
68288664 AATACTCTCGACTTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
*
68288691 AATATCCTTGATTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
68288718 AATACCCCTAATTTGGAAAATTACCTA
1 AATACCCTTGATTTGTAAAATTACCAA
*
68288745 AATACCCATGATTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
68288772 AATACCCCTGATTTGGAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
68288799 AATACCATTAATTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
68288826 AA
1 AA
68288828 CACCATTGTA
Statistics
Matches: 223, Mismatches: 47, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 22 0.10
27 201 0.90
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:68289118 original size:41 final size:41
Alignment explanation
Indices: 68289073--68289152 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
68289063 GGAGGAAGAA
*
68289073 ATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCACCG
* *
68289114 ATTGAGGATCGCATGGTTGCTTGACGACAGTGGCTCCAC
1 ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCAC
68289153 TAATGGCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCACCG
Found at i:68296939 original size:28 final size:28
Alignment explanation
Indices: 68296899--68296955 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
68296889 TCTGAGTAAA
68296899 ACTCTTATGAGTTTCTTGATTAGCCCAG
1 ACTCTTATGAGTTTCTTGATTAGCCCAG
68296927 ACTCTTATGAGTTTCTTGATTAGCCCAG
1 ACTCTTATGAGTTTCTTGATTAGCCCAG
68296955 A
1 A
68296956 TAATTGTCAT
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:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (28 bp):
ACTCTTATGAGTTTCTTGATTAGCCCAG
Found at i:68298658 original size:21 final size:20
Alignment explanation
Indices: 68298634--68298672 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
68298624 GAGTATTTTG
68298634 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
68298655 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
68298673 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:68299891 original size:21 final size:21
Alignment explanation
Indices: 68299861--68299900 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
68299851 TGATTCTGGC
68299861 CATTTGTG-TTGGCTTGTGAA
1 CATTTGTGTTTGGCTTGTGAA
68299881 CATTTAGTGTTTGGCTTGTG
1 CATTT-GTGTTTGGCTTGTG
68299901 TTAGCCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.12, C:0.10, G:0.30, T:0.47
Consensus pattern (21 bp):
CATTTGTGTTTGGCTTGTGAA
Found at i:68306730 original size:38 final size:38
Alignment explanation
Indices: 68306687--68306832 Score: 211
Period size: 38 Copynumber: 3.8 Consensus size: 38
68306677 AGCTTAAAGA
* **
68306687 CCCGCAGGCTTCGTGCTAGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
68306725 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
* * *
68306763 CCCGCAGGCTTCGTGCTGGTATTACATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
* * *
68306801 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
68306833 CCTTCGTGCC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
Found at i:68306873 original size:43 final size:43
Alignment explanation
Indices: 68306825--68307323 Score: 811
Period size: 43 Copynumber: 11.6 Consensus size: 43
68306815 GCTGGTATTA
* *
68306825 TATTCGGGCCTTCGTGCCTAGCAGGTTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
68306868 TATTCGGGCCTTCGTGCCAAGCAGGGTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
68306911 TACTT-GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TA-TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
68306954 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
68306997 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
68307040 TTTTCGAGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
68307083 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGAGGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
68307126 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTTATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
68307169 TATTCGGGCCTTCGTGCCTAGCAAGCCTCGTGCTGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
68307212 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
68307255 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTAATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
68307298 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
68307324 GTAATGCCGG
Statistics
Matches: 421, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
42 2 0.00
43 417 0.99
44 2 0.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:68313437 original size:46 final size:46
Alignment explanation
Indices: 68313365--68313537 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
68313355 TGTAACCCGC
68313365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCATTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCATTTGTAT
* * * *
68313411 CCATGAGTGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCATTTGTAT
* * * * *
68313457 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGTAT
68313504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
68313538 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.05
46 62 0.60
47 33 0.32
48 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGTAT
Found at i:68313536 original size:93 final size:93
Alignment explanation
Indices: 68313373--68313543 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
68313363 GCCCATAAGT
* * *
68313373 GAACTCGGACTCAACTCAACGAGCTTGGGCATTTGTATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
68313438 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
68313466 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
68313530 ACGAGTTCAGATGC
65 ACGAGTTCAGATGC
68313544 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:68313559 original size:46 final size:45
Alignment explanation
Indices: 68313416--68313559 Score: 109
Period size: 46 Copynumber: 3.1 Consensus size: 45
68313406 TGTATCCATG
* *
68313416 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT
* * * * *
68313463 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCT
68313509 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CT
68313555 AGTGA
1 AGTGA
68313560 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.41
47 28 0.37
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCT
Found at i:68315277 original size:38 final size:38
Alignment explanation
Indices: 68315235--68315418 Score: 269
Period size: 38 Copynumber: 4.8 Consensus size: 38
68315225 GGCTTAAAGA
* ** *
68315235 CCCGCAGGCTTCGTGATGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
68315273 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
68315311 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* **
68315349 CCCGCAGGCTTCATGCTGGTATTATATTAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
68315387 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
68315419 CCTTCGTGCC
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 135 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:68315535 original size:43 final size:43
Alignment explanation
Indices: 68315411--68315521 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
68315401 GCTGGTATTA
68315411 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
68315454 CATTCGGCCCTTCGGGCCTAGCAGGCTTCGCGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
68315497 TATTCGGGCCTTTGTGCCTAGCAGG
1 TATTCGGGCCTTCGTGCCTAGCAGG
68315522 TGTAATGCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.10, C:0.28, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:68317935 original size:45 final size:47
Alignment explanation
Indices: 68317858--68317959 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 47
68317848 GAGCCATGTG
*
68317858 TCAGGAAGCTTATCCGAGCTAAACAGGAAACT-CATAAGAGTT-TTAA
1 TCAGGAAGCTCATCCGAGCTAAACAGGAAACTCCA-AAGAGTTATTAA
* * *
68317904 TCAGGAAGCTCAT-TGAGCTTAACAGGTAACTCCAAAGAGTTATTAA
1 TCAGGAAGCTCATCCGAGCTAAACAGGAAACTCCAAAGAGTTATTAA
*
68317950 T-AGGGAGCTC
1 TCAGGAAGCTC
68317960 TGGATAGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
45 30 0.61
46 19 0.39
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (47 bp):
TCAGGAAGCTCATCCGAGCTAAACAGGAAACTCCAAAGAGTTATTAA
Found at i:68320088 original size:25 final size:25
Alignment explanation
Indices: 68320060--68320109 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
68320050 TGCAAGATTG
* *
68320060 ATACGCTATGTCATGTGCAAATACT
1 ATACACTATGTCATGTGAAAATACT
*
68320085 ATACACTATGTTATGTGAAAATACT
1 ATACACTATGTCATGTGAAAATACT
68320110 TTCCTTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (25 bp):
ATACACTATGTCATGTGAAAATACT
Found at i:68322400 original size:11 final size:11
Alignment explanation
Indices: 68322384--68322409 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68322374 AGCAGCTTGT
68322384 TTTTATTTTTA
1 TTTTATTTTTA
68322395 TTTTATTTTTA
1 TTTTATTTTTA
68322406 TTTT
1 TTTT
68322410 CTTATATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:68323643 original size:31 final size:33
Alignment explanation
Indices: 68323608--68323691 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 33
68323598 TTATATTATG
* *
68323608 TAATACCATAATGTTTAATTTAATTCAAAAATAA
1 TAATAACAAAATGTTTAATTTAATTC-AAAATAA
68323642 TAAATTAACAAAATGTTTAATTTAATTCAAAAATAA
1 T-AA-TAACAAAATGTTTAATTTAATTC-AAAATAA
68323678 TAAATTAACAAAAT
1 T-AA-TAACAAAAT
68323692 TATTAGAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 1 0.02
35 2 0.04
36 43 0.93
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (33 bp):
TAATAACAAAATGTTTAATTTAATTCAAAATAA
Found at i:68323647 original size:20 final size:20
Alignment explanation
Indices: 68323624--68323683 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
68323614 CATAATGTTT
68323624 AATTTAATTCAAAAATAATA
1 AATTTAATTCAAAAATAATA
** *
68323644 AA-TTAA--C-AAAATGTTT
1 AATTTAATTCAAAAATAATA
68323660 AATTTAATTCAAAAATAATA
1 AATTTAATTCAAAAATAATA
68323680 AATT
1 AATT
68323684 AACAAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 8 0.27
17 5 0.17
19 5 0.17
20 12 0.40
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTAATTCAAAAATAATA
Found at i:68323654 original size:16 final size:16
Alignment explanation
Indices: 68323635--68323691 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
68323625 ATTTAATTCA
68323635 AAAATAATAAATTAAC
1 AAAATAATAAATTAAC
** *
68323651 AAAATGTTTAATTTAATTC
1 AAAAT-AATAAATTAA--C
68323670 AAAAATAATAAATTAAC
1 -AAAATAATAAATTAAC
68323687 AAAAT
1 AAAAT
68323692 TATTAGAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 10 0.32
17 8 0.26
19 8 0.26
20 5 0.16
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAATAATAAATTAAC
Found at i:68323657 original size:36 final size:36
Alignment explanation
Indices: 68323617--68323691 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
68323607 GTAATACCAT
68323617 AATGTTTAATTTAATTCAAAAATAATAAATTAACAA
1 AATGTTTAATTTAATTCAAAAATAATAAATTAACAA
68323653 AATGTTTAATTTAATTCAAAAATAATAAATTAACAA
1 AATGTTTAATTTAATTCAAAAATAATAAATTAACAA
68323689 AAT
1 AAT
68323692 TATTAGAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (36 bp):
AATGTTTAATTTAATTCAAAAATAATAAATTAACAA
Found at i:68323685 original size:19 final size:19
Alignment explanation
Indices: 68323627--68323685 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
68323617 AATGTTTAAT
68323627 TTAATTCAAAAATAATAAA
1 TTAATTCAAAAATAATAAA
** *
68323646 TTAA--C-AAAATGTTTAAT
1 TTAATTCAAAAAT-AATAAA
68323663 TTAATTCAAAAATAATAAA
1 TTAATTCAAAAATAATAAA
68323682 TTAA
1 TTAA
68323686 CAAAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.17
17 8 0.27
19 12 0.40
20 5 0.17
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
TTAATTCAAAAATAATAAA
Found at i:68326650 original size:29 final size:30
Alignment explanation
Indices: 68326613--68326684 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
68326603 GTAAAATAAT
* * *
68326613 TTTAAAATCAATTAAGTTGTTAGT-CAAAA
1 TTTATAATCAATTAAGTTCTTAATACAAAA
* *
68326642 TTTATAATCACTTAATTTCTTAATACAAAA
1 TTTATAATCAATTAAGTTCTTAATACAAAA
*
68326672 TTAATTAATCAAT
1 TTTA-TAATCAAT
68326685 CATAAATTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 19 0.56
30 8 0.24
31 7 0.21
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTATAATCAATTAAGTTCTTAATACAAAA
Found at i:68326949 original size:17 final size:17
Alignment explanation
Indices: 68326922--68326961 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
68326912 ACTAAAACAT
*
68326922 TATAAAAAAATTTAGAAA
1 TATATAAAAATTTA-AAA
68326940 T-TATAAAAATTTAAAA
1 TATATAAAAATTTAAAA
68326956 TATATA
1 TATATA
68326962 TAGTAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TATATAAAAATTTAAAA
Found at i:68327033 original size:20 final size:20
Alignment explanation
Indices: 68327008--68327046 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
68326998 AACATAAAAC
68327008 ATAAAACTGT-TTAAAAAATT
1 ATAAAA-TGTATTAAAAAATT
*
68327028 ATAAAATTTATTAAAAAAT
1 ATAAAATGTATTAAAAAAT
68327047 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAAATGTATTAAAAAATT
Found at i:68327686 original size:17 final size:16
Alignment explanation
Indices: 68327664--68327706 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
68327654 TTTATTTAAT
68327664 AATATATTAACATATAG
1 AATATATTAA-ATATAG
*
68327681 AATATATTTAAATATAT
1 AATATA-TTAAATATAG
68327698 AATATATTA
1 AATATATTA
68327707 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 17 0.71
18 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AATATATTAAATATAG
Found at i:68331093 original size:42 final size:41
Alignment explanation
Indices: 68331025--68331133 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 41
68331015 CAGTGGTTTT
68331025 CACACGGCTTGGCACACGCCCGTGTGCCTGGCCCGTGTCTTCC
1 CACACGGCTT-G-ACACGCCCGTGTGCCTGGCCCGTGTCTTCC
*
68331068 CACACGGCTTCGACATGCCCGTGTGCCTGGCCCGTGTCTTCC
1 CACACGGCTT-GACACGCCCGTGTGCCTGGCCCGTGTCTTCC
68331110 CACACGGCCTTGACACGCCCGTGT
1 CACACGG-CTTGACACGCCCGTGT
68331134 CTTCCCATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
42 48 0.77
43 14 0.23
ACGTcount: A:0.11, C:0.41, G:0.27, T:0.21
Consensus pattern (41 bp):
CACACGGCTTGACACGCCCGTGTGCCTGGCCCGTGTCTTCC
Found at i:68331139 original size:29 final size:29
Alignment explanation
Indices: 68331097--68331162 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
68331087 CGTGTGCCTG
*
68331097 GCCCGTGTCTTCCCACACGGCCTTGACAC
1 GCCCGTGTCTTCCCACACGGCCTCGACAC
*
68331126 GCCCGTGTCTTCCCATACGGCCTCGACAC
1 GCCCGTGTCTTCCCACACGGCCTCGACAC
68331155 GCCCGTGT
1 GCCCGTGT
68331163 ACCTGGCCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.12, C:0.44, G:0.23, T:0.21
Consensus pattern (29 bp):
GCCCGTGTCTTCCCACACGGCCTCGACAC
Found at i:68331171 original size:71 final size:71
Alignment explanation
Indices: 68331055--68331207 Score: 225
Period size: 71 Copynumber: 2.2 Consensus size: 71
68331045 CGTGTGCCTG
* * *
68331055 GCCCGTGTCTTCCCACACGGCTTCGACATGCCCGTGTGCCTGGCCCGTGTCTTCCCACACGGCCT
1 GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGTACCTGGCCCGTGTCTTCCCACACGGCCT
*
68331120 TGACAC
66 CGACAC
* ** *
68331126 GCCCGTGTCTTCCCATACGGCCTCGACACGCCCGTGTACCTGGCCCGTGTCTTCTTACATGGCCT
1 GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGTACCTGGCCCGTGTCTTCCCACACGGCCT
68331191 CGACAC
66 CGACAC
*
68331197 GCTCGTGTCTT
1 GCCCGTGTCTT
68331208 GGCCCATGTC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.11, C:0.41, G:0.24, T:0.25
Consensus pattern (71 bp):
GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGTACCTGGCCCGTGTCTTCCCACACGGCCT
CGACAC
Found at i:68331172 original size:42 final size:41
Alignment explanation
Indices: 68331126--68331217 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
68331116 GCCTTGACAC
*
68331126 GCCCGTGTCTTCCCATACGGCCTCGACACGCCCGTGTACCTG
1 GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGT-CCTG
** * * *
68331168 GCCCGTGTCTTCTTACATGGCCTCGACACGCTCGTGTCTTG
1 GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGTCCTG
*
68331209 GCCCATGTC
1 GCCCGTGTC
68331218 CAAAAACTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 11 0.26
42 32 0.74
ACGTcount: A:0.11, C:0.39, G:0.24, T:0.26
Consensus pattern (41 bp):
GCCCGTGTCTTCCCACACGGCCTCGACACGCCCGTGTCCTG
Found at i:68332238 original size:47 final size:48
Alignment explanation
Indices: 68332169--68332385 Score: 196
Period size: 47 Copynumber: 4.6 Consensus size: 48
68332159 TAAGGTGCCA
* * ** *
68332169 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCATATCTC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAGCCG
* * * *
68332216 ATGCCATGTCCCAGACATGGTCTTGCACTGACT-ATTATTTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCA-TATCTCGAAGCCG
* * * * *
68332264 ATG-CATGTCCGAGACAT-GTCTTACACTAACTTACATCTCTAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAGCCG
* * * * *
68332310 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTTGTCTC-AGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGA-AGCCG
68332356 ATGCCATGTCCCAGACATGGTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
68332386 GCTTCCATAA
Statistics
Matches: 141, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 62 0.44
48 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAGCCG
Found at i:68332313 original size:46 final size:45
Alignment explanation
Indices: 68332214--68332431 Score: 201
Period size: 46 Copynumber: 4.7 Consensus size: 45
68332204 TATCTCAAGT
* * * *
68332214 CGATGCCATGTCCCAGACATGGTCTTGCACTGACTATTATTTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACT-TCATCTC-TAGGC
*
68332262 CGATGCATGTCCGAGACATGTCTTACACTAACTTACATCTCTAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAACTT-CATCTCTAGGC
*
68332308 CGATGCATGTCCCAGACATGTCTTACACTAGCACTT-GTCTC-AGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTA--ACTTCATCTCTAG-GC
* * * *
68332354 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGT-GGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACTT-CAT-CTCTAGGC
*
68332402 CGATGCATGTCCCAGACTTGTCTTACACTA
1 CGATGCATGTCCCAGACATGTCTTACACTA
68332432 GCACACACAA
Statistics
Matches: 146, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
45 5 0.03
46 72 0.49
47 40 0.27
48 27 0.18
49 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAACTTCATCTCTAGGC
Found at i:68332427 original size:94 final size:92
Alignment explanation
Indices: 68332260--68332435 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 92
68332250 TTATTTCGTA
* *
68332260 GCCGATGCATGTCCGAGACATGTCTTACACTAACTTACATCTCTAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACTTACATATCTAGGCCGATGCATGTCCCAGAC
68332325 ATGTCTTACACTAGCACTTGTCTCAGT
66 ATGTCTTACACTAGCACTTGTCTCAGT
* * * *
68332352 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGT-GGTCGATGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTTACAT-ATCTAGGCCGATGCATGTCCCA
*
68332416 GACTTGTCTTACACTAGCAC
63 GACATGTCTTACACTAGCAC
68332436 ACACAAGTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 7 0.09
93 13 0.18
94 52 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTTACATATCTAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTTGTCTCAGT
Found at i:68333935 original size:46 final size:46
Alignment explanation
Indices: 68333885--68334057 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
68333875 TGGTTGAGCA
*
68333885 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
68333931 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
68333978 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
68334024 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68334058 GGGGCGGTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:68334041 original size:93 final size:93
Alignment explanation
Indices: 68333882--68334052 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
68333872 GGATGGTTGA
* *
68333882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
68333947 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
68333975 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
68334040 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
68334053 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68334318 original size:19 final size:20
Alignment explanation
Indices: 68334281--68334318 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
68334271 ATAAGGTGGT
68334281 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
68334301 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
68334319 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:68341064 original size:46 final size:46
Alignment explanation
Indices: 68341014--68341183 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
68341004 TTGAGCATCC
*
68341014 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * * *
68341060 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCT
* * *
68341107 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* *
68341153 GAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68341184 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.55
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:68341167 original size:93 final size:93
Alignment explanation
Indices: 68341008--68341178 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
68340998 GGATGGTTGA
* * *
68341008 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCATTGAGT
68341073 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
68341101 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCTGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCATTGAGT
68341166 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
68341179 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68341445 original size:19 final size:20
Alignment explanation
Indices: 68341408--68341445 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
68341398 ATAAGGTGGT
68341408 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
68341428 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
68341446 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:68349081 original size:47 final size:46
Alignment explanation
Indices: 68348973--68349103 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 46
68348963 TATGGGTAAG
* * *
68348973 GTGCCGATGGCATGTCCCAGACATGGTCTTACTCT-GACTATCTTTTC
1 GTGCCGAT-GCATGTCCCAGACATGGTCTTACACTAGAC-ATCGTCTC
*
68349020 GTAGTCGATGCATGTCCCAGACAT-GTCTTACACTAG-CACTCGTCTC
1 GT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGACA-TCGTCTC
68349066 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 -GTGCCGATG-CATGTCCCAGACATGGTCTTACACTAG
68349104 TTTCCAGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
45 1 0.01
46 21 0.29
47 34 0.47
48 17 0.23
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GTGCCGATGCATGTCCCAGACATGGTCTTACACTAGACATCGTCTC
Found at i:68349857 original size:12 final size:12
Alignment explanation
Indices: 68349840--68349864 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68349830 CAAAAATGTA
68349840 AAAATCATCAAG
1 AAAATCATCAAG
68349852 AAAATCATCAAG
1 AAAATCATCAAG
68349864 A
1 A
68349865 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:68350794 original size:18 final size:18
Alignment explanation
Indices: 68350771--68350816 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 18
68350761 ACTATGATTA
68350771 TCAACTTACCAATTAATC
1 TCAACTTACCAATTAATC
68350789 TCAACTTAAACCAATTAATC
1 TCAACTT--ACCAATTAATC
68350809 TCAACTTA
1 TCAACTTA
68350817 ATCATCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.31
20 18 0.69
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (18 bp):
TCAACTTACCAATTAATC
Found at i:68350803 original size:20 final size:20
Alignment explanation
Indices: 68350778--68350817 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
68350768 TTATCAACTT
68350778 ACCAATTAATCTCAACTTAA
1 ACCAATTAATCTCAACTTAA
68350798 ACCAATTAATCTCAACTTAA
1 ACCAATTAATCTCAACTTAA
68350818 TCATCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCAATTAATCTCAACTTAA
Found at i:68350819 original size:11 final size:11
Alignment explanation
Indices: 68350783--68350824 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
68350773 AACTTACCAA
68350783 TTAATCTCAAC
1 TTAATCTCAAC
*
68350794 TTAAAC-CAA-
1 TTAATCTCAAC
68350803 TTAATCTCAAC
1 TTAATCTCAAC
68350814 TTAATCATCAA
1 TTAATC-TCAA
68350825 ACATTCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 5 0.19
10 6 0.23
11 11 0.42
12 4 0.15
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAATCTCAAC
Found at i:68351120 original size:37 final size:37
Alignment explanation
Indices: 68351048--68351121 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
68351038 AACCCATAAC
* *
68351048 CAATATAAGCCACATCTCATGGCTATATATAATGAAT
1 CAATATAAGCCACATCTCATGGCCAAATATAATGAAT
*
68351085 CAATATAAGCCAACATCT-TTGGCCAAAT-TATATGAAT
1 CAATATAAGCC-ACATCTCATGGCCAAATATA-ATGAAT
68351122 ACATATCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.06
37 24 0.75
38 6 0.19
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (37 bp):
CAATATAAGCCACATCTCATGGCCAAATATAATGAAT
Found at i:68351853 original size:48 final size:48
Alignment explanation
Indices: 68351778--68351873 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
68351768 TACATGGTAG
* *
68351778 GATGCCAATGCCATATCCCAGATATGGTCTTACATTGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
*
68351826 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
68351874 ACATGCTGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:68361950 original size:24 final size:24
Alignment explanation
Indices: 68361907--68361953 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
68361897 CGGGAAAGGA
***
68361907 ACAAAGTTCTAAATGTACCAACCT
1 ACAAAGTTCTAAACACACCAACCT
68361931 ACAAAGTTCTAAACACACCAACC
1 ACAAAGTTCTAAACACACCAACC
68361954 CGAGGTCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.19
Consensus pattern (24 bp):
ACAAAGTTCTAAACACACCAACCT
Found at i:68369380 original size:79 final size:80
Alignment explanation
Indices: 68369238--68369418 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
68369228 TACTCGTTCA
* **
68369238 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
68369303 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
68369318 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
68369380 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
68369397 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
68369419 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:68369420 original size:40 final size:40
Alignment explanation
Indices: 68369217--68369420 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
68369207 CGCAATTTAA
** *
68369217 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68369257 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68369297 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68369336 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
68369376 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
68369416 CCGGA
1 CCGGA
68369421 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 91 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:68370616 original size:56 final size:56
Alignment explanation
Indices: 68370549--68370668 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
68370539 TATTAGTTTA
68370549 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
68370605 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
68370661 TTGCCCAT
1 TTGCCCAT
68370669 CATCCCTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:68372944 original size:40 final size:42
Alignment explanation
Indices: 68372867--68372989 Score: 119
Period size: 40 Copynumber: 3.0 Consensus size: 42
68372857 AGCTATAACG
* * *
68372867 ATATCGCACACTTAGTGCCATCACATTAAACCTAAGTTATCTC-A
1 ATATCGCACACTTAGTGCCA-CATA-T-AGCCGAAGTTATCTCTA
*
68372911 GTATCGCACACTTA-TGCCACATATAGCCGAAGTTAT-TCTA
1 ATATCGCACACTTAGTGCCACATATAGCCGAAGTTATCTCTA
* * * *
68372951 AT-TCGCACACTAAGTGCTATATATAGCCGAAGCTATCTC
1 ATATCGCACACTTAGTGCCACATATAGCCGAAGTTATCTC
68372990 GAAACACACA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
39 12 0.18
40 31 0.46
41 3 0.04
42 3 0.04
43 5 0.07
44 13 0.19
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
ATATCGCACACTTAGTGCCACATATAGCCGAAGTTATCTCTA
Found at i:68377713 original size:15 final size:16
Alignment explanation
Indices: 68377693--68377724 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
68377683 GTGTTCTGAG
68377693 CATTATCTTT-TTCAA
1 CATTATCTTTATTCAA
68377708 CATTATCTTTATTCAA
1 CATTATCTTTATTCAA
68377724 C
1 C
68377725 TGTAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (16 bp):
CATTATCTTTATTCAA
Found at i:68378294 original size:40 final size:40
Alignment explanation
Indices: 68378230--68378336 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
68378220 AAATCGAACT
* * *
68378230 TATCTCAGTATCGCACACTTAGTGCCACATATAGCCGAAGT
1 TATCTCA-AATCGCACACTAAGTGCCACATATAGCCGAAGC
* * *
68378271 TAT-TCTAATTCGCACACTAAGTGCTATATATAGCCGAAGC
1 TATCTC-AAATCGCACACTAAGTGCCACATATAGCCGAAGC
*
68378311 TATCTCAAAACGCACACTAAGTGCCA
1 TATCTCAAATCGCACACTAAGTGCCA
68378337 AACTTAGTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 49 0.89
41 6 0.11
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
TATCTCAAATCGCACACTAAGTGCCACATATAGCCGAAGC
Found at i:68382587 original size:18 final size:18
Alignment explanation
Indices: 68382564--68382602 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
68382554 TATAGATTCC
68382564 TTAGTGAGCCTATTTTCA
1 TTAGTGAGCCTATTTTCA
*
68382582 TTAGTGAGTCTATTTTCA
1 TTAGTGAGCCTATTTTCA
68382600 TTA
1 TTA
68382603 AAAAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (18 bp):
TTAGTGAGCCTATTTTCA
Found at i:68388939 original size:29 final size:29
Alignment explanation
Indices: 68388900--68388978 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
68388890 CTTAATAATC
*
68388900 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
68388930 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
68388959 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
68388979 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:68390877 original size:25 final size:24
Alignment explanation
Indices: 68390839--68390908 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
68390829 AGGAAGTGCT
*
68390839 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
68390863 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
68390888 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
68390909 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:68390921 original size:24 final size:24
Alignment explanation
Indices: 68390839--68390921 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
68390829 AGGAAGTGCT
* * *
68390839 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTACCCCAGTTTATC
*
68390863 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTACCCCAGTTTATC
*
68390888 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
68390912 AAAAGAGGCT
1 AAAAG-GGCT
68390922 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:68391177 original size:31 final size:31
Alignment explanation
Indices: 68391128--68391210 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
68391118 CCCTTACAGT
68391128 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68391158 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
68391189 AAAGGCTTCGGCGCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
68391211 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:68392358 original size:27 final size:27
Alignment explanation
Indices: 68392328--68392433 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
68392318 TACTGAAATG
* *
68392328 CCCTC-AATTAGTAGAATTACCATTTTA
1 CCCTCGAATTA-TAAAATTACCATTTCA
*
68392355 CCCTCGATTTATAAAATTACCATTTCA
1 CCCTCGAATTATAAAATTACCATTTCA
* * * * *
68392382 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGAATTATAAAATTACCATTTCA
* *
68392409 CCCTCGATTTACAAAATTACCATTT
1 CCCTCGAATTATAAAATTACCATTT
68392434 AACCTTCAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 65 0.94
28 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (27 bp):
CCCTCGAATTATAAAATTACCATTTCA
Found at i:68392408 original size:54 final size:54
Alignment explanation
Indices: 68392342--68392471 Score: 199
Period size: 54 Copynumber: 2.4 Consensus size: 54
68392332 CAATTAGTAG
* * * *
68392342 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTTGA-TTTACAA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCATTT-AACCTTCAGTTTACAA
68392396 AATTACCGTTTTACCCTCGATTTACAAAATTACCATTTAACCTTCAGTTTACAA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCATTTAACCTTCAGTTTACAA
*
68392450 AATTACTGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
68392472 GTGAAATTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 6 0.09
54 64 0.91
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTACAAAATTACCATTTAACCTTCAGTTTACAA
Found at i:68392446 original size:27 final size:27
Alignment explanation
Indices: 68392342--68392471 Score: 154
Period size: 27 Copynumber: 4.8 Consensus size: 27
68392332 CAATTAGTAG
* *
68392342 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCATTTAACCCTCGATTTACAA
* *
68392369 AATTACCATTTCACCCTTGATTTACAA
1 AATTACCATTTAACCCTCGATTTACAA
* *
68392396 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCATTTAACCCTCGATTTACAA
*
68392423 AATTACCATTTAACCTTC-AGTTTACAA
1 AATTACCATTTAACCCTCGA-TTTACAA
** *
68392450 AATTACTGTTTTACCCTCGATT
1 AATTACCATTTAACCCTCGATT
68392472 GTGAAATTAC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (27 bp):
AATTACCATTTAACCCTCGATTTACAA
Found at i:68392533 original size:27 final size:27
Alignment explanation
Indices: 68392503--68392626 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
68392493 TGTAGGATAG
68392503 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
68392530 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
68392557 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
68392584 AATTACCAAAATA-CCCTTGATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
68392611 AATTACAAAAATACCC
1 AATTACCAAAATACCC
68392627 TTGACTTTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.04
27 75 0.94
28 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:68392614 original size:54 final size:54
Alignment explanation
Indices: 68392353--68392712 Score: 194
Period size: 54 Copynumber: 6.6 Consensus size: 54
68392343 ATTACCATTT
* * ** ***
68392353 TACCCTCGATTTATAAAATTACC-ATTTCACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCAATTTGTAAAATTACCAAAAT-ACCCTTGATTTACAAAATTACCGAAA
* ** ** * * * ***
68392407 TACCCTCGATTTACAAAATTACC-ATTTAACCTTCAGTTTACAAAATTACTGTTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGA-TTTACAAAATTACCGAAA
* * * ** * * *
68392461 TACCCTCGA-TTGTGAAATTACTAAAATACCCTTG-TAGGATAGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGAT-TTACAAAATTACCGAAA
* * ***
68392514 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTTGATTTACAAAATTACCGAAA
**
68392568 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCGAAA
* * * * * * *
68392622 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGATTTACAAAATTACCGAAA
* * * * *
68392678 TACCCTTAGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTG
68392713 TAGGATGAAA
Statistics
Matches: 239, Mismatches: 54, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
52 2 0.01
53 29 0.12
54 153 0.64
55 17 0.07
56 38 0.16
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCGAAA
Found at i:68392689 original size:27 final size:27
Alignment explanation
Indices: 68392503--68392689 Score: 110
Period size: 27 Copynumber: 6.9 Consensus size: 27
68392493 TGTAGGATAG
* * **
68392503 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTACAA
* * ***
68392530 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTAGTTTACAA
* * **
68392557 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTAGTTTACAA
*
68392584 AATTACCAAAATACCCTT-GATTTACAA
1 AATTACCGAAATACCCTTAG-TTTACAA
** *
68392611 AATTACAAAAATACCCTTGACTTT-CTAAA
1 AATTACCGAAATACCCTT-AGTTTAC--AA
** * *
68392640 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTAGTTTACAA
*
68392667 AATTACTGAAATACCCTTAGTTT
1 AATTACCGAAATACCCTTAGTTT
68392690 GTAGATTTAC
Statistics
Matches: 129, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 7 0.05
29 18 0.14
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCGAAATACCCTTAGTTTACAA
Found at i:68392732 original size:110 final size:107
Alignment explanation
Indices: 68392442--68392735 Score: 263
Period size: 110 Copynumber: 2.7 Consensus size: 107
68392432 TTAACCTTCA
* *** * * *
68392442 GTTTACAAAATTACTGTTTTACCCTCGA-TTGTGAAATTACTAAAATACCCTTGTAGGATAGAAT
1 GTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGTAGGATA-AAT
* * *
68392506 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTG
65 TACAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTG
*** *
68392549 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTA-CA-AA
1 GTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTG---TAGGATAA
* * *
68392612 ATTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTG
63 ATTACAAAAATACCCCT-ACTTTCT-AAAATTACCA-AAATACCACTG
* * * * * *
68392659 GTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAACACCCTTGTAGGATGAAAT
1 GTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGTAGGAT-AAAT
* *
68392724 GACTAAAATACC
65 TACAAAAATACC
68392736 TCTAATAGGT
Statistics
Matches: 148, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
107 22 0.15
108 40 0.27
109 7 0.05
110 77 0.52
111 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (107 bp):
GTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGTAGGATAAATT
ACAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTG
Found at i:68393646 original size:25 final size:24
Alignment explanation
Indices: 68393608--68393677 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
68393598 AGGAAGTGCT
*
68393608 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
68393632 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
68393657 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
68393678 ATTAAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:68393690 original size:24 final size:24
Alignment explanation
Indices: 68393608--68393704 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
68393598 AGGAAGTGCT
* * *
68393608 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTATCA
68393633 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
* *
68393658 GAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATCA
* **
68393682 AAAAAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTTGCC-CCAGTTAT
68393705 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 15 0.24
25 47 0.76
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:68393949 original size:31 final size:30
Alignment explanation
Indices: 68393897--68393979 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
68393887 CCCTTACAGT
68393897 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
68393927 AAAGGCTTCGGCCCAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
*
68393958 AAAGGCTTCGGCACAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
68393980 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 16 0.32
31 34 0.68
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTTATGA
Found at i:68396316 original size:27 final size:27
Alignment explanation
Indices: 68396286--68396423 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
68396276 TACTGAAATG
** *
68396286 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
68396313 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
**
68396340 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
68396367 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
68396394 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
68396421 CCC
1 CCC
68396424 AAGATTGTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 100 0.99
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:68396491 original size:27 final size:27
Alignment explanation
Indices: 68396461--68396583 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
68396451 TGTAGGATAG
*
68396461 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
68396488 AATTACCGAAA-ACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
68396514 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
68396541 AATTACCAAAATACCCCTAATTTAAAA
1 AATTACCAAAATACCCCTAATTTGTAA
68396568 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
68396584 TTGACTTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 27 0.34
27 48 0.61
28 4 0.05
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:68396512 original size:80 final size:80
Alignment explanation
Indices: 68396428--68396578 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
68396418 TTACCCAAGA
** * * **
68396428 TTGTGAAATTA-CTGAAATACCC-CTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAAT
1 TTGTGAAATTATC-GAAATACCCTCAATAGG-TAAAATTACCAAAATACCCCTAATTTAAAAAAT
*
68396491 TACCGAAAACCACTGGT
64 TACAGAAAACCACTGGT
**
68396508 TTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTAAAAAATTA
1 TTGTGAAATTATCGAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTAAAAAATTA
68396573 CAGAAA
66 CAGAAA
68396579 TACCCTTGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 56 0.93
81 4 0.07
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (80 bp):
TTGTGAAATTATCGAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTAAAAAATTA
CAGAAAACCACTGGT
Found at i:68396634 original size:27 final size:26
Alignment explanation
Indices: 68396591--68396646 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
68396581 CCCTTGACTT
68396591 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
* *
68396617 TTTACAAAATTATTGAAATACCCTTGG
1 TTTA-AAAATTATAGAAATACCATTGG
68396644 TTT
1 TTT
68396647 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:68398600 original size:25 final size:25
Alignment explanation
Indices: 68398571--68398622 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
68398561 GGCCGTGGAA
*
68398571 AATGAAGACTATATCATGTAAGACC
1 AATGAAGACTACATCATGTAAGACC
*
68398596 AATGAATACTACATCATGTAAGACC
1 AATGAAGACTACATCATGTAAGACC
68398621 AA
1 AA
68398623 GTCTGAGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (25 bp):
AATGAAGACTACATCATGTAAGACC
Found at i:68400499 original size:26 final size:26
Alignment explanation
Indices: 68400463--68400522 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
68400453 TATTTCCATA
*
68400463 ATCAA-GCAATTCATAC-TATAATAATT
1 ATCAATGCAATTCAAACGTAT-AT-ATT
68400489 -TCAATGCAATTCAAACGTATATATT
1 ATCAATGCAATTCAAACGTATATATT
68400514 ATCAATGCA
1 ATCAATGCA
68400523 GCTGTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.23
26 20 0.67
27 3 0.10
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCAATGCAATTCAAACGTATATATT
Found at i:68404302 original size:30 final size:30
Alignment explanation
Indices: 68404268--68404328 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68404258 TCCTTAACTC
68404268 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
68404298 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
68404328 A
1 A
68404329 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:68411390 original size:46 final size:46
Alignment explanation
Indices: 68411340--68411475 Score: 134
Period size: 47 Copynumber: 2.9 Consensus size: 46
68411330 ATTGACTTAT
* *
68411340 GTCTCAAGGTCGACGCATGTCCCAGACATGTCTTACACTAGCACTC
1 GTCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTC
* * * *
68411386 GTCTCAATGCCGATGCCATATCCCAGACATGGTATTACACT-G-GCTC
1 GTCTCAAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC
* *
68411432 TTAT-AATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GTCTCAA---GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
68411476 TCACACAAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
45 2 0.03
46 26 0.36
47 28 0.39
48 16 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (46 bp):
GTCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTC
Found at i:68416622 original size:42 final size:42
Alignment explanation
Indices: 68416559--68416722 Score: 159
Period size: 42 Copynumber: 3.9 Consensus size: 42
68416549 ATTTGGGTTG
* * * * * * *
68416559 ATGAGATCCCGTATAAAACCATAACTGGGATATGACATTGAT
1 ATGAGATCTCATATAAGACCATATCTGGGACATGGCATCGAT
* * *
68416601 ATGAGATCTCATGTAAGACCATATTTGGGACATGGCATCGAA
1 ATGAGATCTCATATAAGACCATATCTGGGACATGGCATCGAT
* * *
68416643 ATGAGAAT-TCGTATAAGACCATATTTGGGATATGGCATCGAT
1 ATGAG-ATCTCATATAAGACCATATCTGGGACATGGCATCGAT
** * *
68416685 GCGAGATCTGATATAAGACCATGTCTGGGACATGGCAT
1 ATGAGATCTCATATAAGACCATATCTGGGACATGGCAT
68416723 TGGCATCTTA
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.02
42 95 0.96
43 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAGATCTCATATAAGACCATATCTGGGACATGGCATCGAT
Found at i:68416702 original size:84 final size:84
Alignment explanation
Indices: 68416568--68416722 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
68416558 GATGAGATCC
* * * *
68416568 CGTATAAAACCATAACTGGGATATGACATTGATATGAGATCTCATGTAAGACCATATTTGGGACA
1 CGTATAAAACCATAACTGGGATATGACATCGATACGAGATCTCATATAAGACCATATCTGGGACA
68416633 TGGCATCGAAATGAGAATT
66 TGGCATCGAAATGAGAATT
* ** * * * *
68416652 CGTATAAGACCATATTTGGGATATGGCATCGATGCGAGATCTGATATAAGACCATGTCTGGGACA
1 CGTATAAAACCATAACTGGGATATGACATCGATACGAGATCTCATATAAGACCATATCTGGGACA
68416717 TGGCAT
66 TGGCAT
68416723 TGGCATCTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (84 bp):
CGTATAAAACCATAACTGGGATATGACATCGATACGAGATCTCATATAAGACCATATCTGGGACA
TGGCATCGAAATGAGAATT
Found at i:68418006 original size:20 final size:20
Alignment explanation
Indices: 68417981--68418019 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
68417971 TGGGCTGAAG
68417981 AACGGGCGTGTCCCAAGCCA
1 AACGGGCGTGTCCCAAGCCA
68418001 AACGGGCGTGTCCCAAGCC
1 AACGGGCGTGTCCCAAGCC
68418020 TACCTCTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.36, G:0.31, T:0.10
Consensus pattern (20 bp):
AACGGGCGTGTCCCAAGCCA
Found at i:68418680 original size:29 final size:29
Alignment explanation
Indices: 68418636--68418797 Score: 80
Period size: 30 Copynumber: 5.5 Consensus size: 29
68418626 AGACAACCAT
68418636 AAGGCTTCCACATATAATAGATTCCACCACA
1 AAGGCTT--ACATATAATAGATTCCACCACA
* ***
68418667 AAGGCTTACATATACTAGATTTTGCCACA
1 AAGGCTTACATATAATAGATTCCACCACA
* * * *
68418696 ACGGCTCACATGTAACTAG-TTCCCACAACA
1 AAGGCTTACATATAA-TAGATT-CCACCACA
* * * *
68418726 ATGTCTCACATATAACACG-TTCCTACCACA
1 AAGGCTTACATATAATA-GATTCC-ACCACA
* * * *
68418756 AGGGCTTACATGT--TAGATTACAACCATA
1 AAGGCTTACATATAATAGATT-CCACCACA
*
68418784 AAGGCTTATATATA
1 AAGGCTTACATATA
68418798 CCAAGTACCC
Statistics
Matches: 97, Mismatches: 27, Indels: 16
0.69 0.19 0.11
Matches are distributed among these distances:
27 1 0.01
28 18 0.19
29 35 0.36
30 36 0.37
31 7 0.07
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (29 bp):
AAGGCTTACATATAATAGATTCCACCACA
Found at i:68432181 original size:17 final size:17
Alignment explanation
Indices: 68432143--68432181 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
68432133 CACTTTCTGG
*
68432143 CTTTTCAGCCTTTCAGT
1 CTTTTCAGCCTTTCAGC
* *
68432160 TTTTTCAGCTTTTCAGC
1 CTTTTCAGCCTTTCAGC
68432177 CTTTT
1 CTTTT
68432182 GTAGTTTTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.10, T:0.54
Consensus pattern (17 bp):
CTTTTCAGCCTTTCAGC
Found at i:68432550 original size:184 final size:184
Alignment explanation
Indices: 68432228--68432596 Score: 632
Period size: 184 Copynumber: 2.0 Consensus size: 184
68432218 ATTTACGAGA
* * *
68432228 ACGCGCTGAAAAGCACGACCACCAACCTATATCTAATCAAGACCCTCAATTAGTCTTATAATCAA
1 ACGCGCCGAAAACCACGACCACCAACCTATATCCAATCAAGACCCTCAATTAGTCTTATAATCAA
* *
68432293 CAAGATTAACACCCTCATTTAAGCATCCATCTCTAAACTATACTGATACTTGCCTTGACTGAATG
66 CAAGATTAACACCCTCATTTAAGCACCCATCTCTAAAATATACTGATACTTGCCTTGACTGAATG
* *
68432358 AGTGTGGTTTCAGCCTACCCAACACGCTGACAAAGATTGTTAACAACCTCCTTG
131 AGTGTGGTTTCAGCCCACCCAACACGCTGACAAAGATTGCTAACAACCTCCTTG
*
68432412 ACGCGCCGAAAACCACGACCACCAACCTATATCCAATCAAGACCCTCGATTAGTCTTATAATCAA
1 ACGCGCCGAAAACCACGACCACCAACCTATATCCAATCAAGACCCTCAATTAGTCTTATAATCAA
*
68432477 CAAGATTAACATCCTCATTTAAGCACCCATCTCTAAAATATA-TCGATACTTGCCTTGACTGAAT
66 CAAGATTAACACCCTCATTTAAGCACCCATCTCTAAAATATACT-GATACTTGCCTTGACTGAAT
*
68432541 GAGTGTGGTTTCAGCCCACCCAACATGCTGACAAAGATTGCTAACAACCTCCTTG
130 GAGTGTGGTTTCAGCCCACCCAACACGCTGACAAAGATTGCTAACAACCTCCTTG
68432596 A
1 A
68432597 TGGTTATCTG
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
183 1 0.01
184 173 0.99
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.25
Consensus pattern (184 bp):
ACGCGCCGAAAACCACGACCACCAACCTATATCCAATCAAGACCCTCAATTAGTCTTATAATCAA
CAAGATTAACACCCTCATTTAAGCACCCATCTCTAAAATATACTGATACTTGCCTTGACTGAATG
AGTGTGGTTTCAGCCCACCCAACACGCTGACAAAGATTGCTAACAACCTCCTTG
Found at i:68434893 original size:6 final size:6
Alignment explanation
Indices: 68434883--68434917 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
68434873 ACAAATGGAT
*
68434883 CATTTT CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
68434918 TTGGAAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:68439084 original size:48 final size:48
Alignment explanation
Indices: 68439013--68439544 Score: 920
Period size: 48 Copynumber: 11.0 Consensus size: 48
68439003 CAAGATAAAT
*
68439013 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
68439061 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
68439109 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
68439157 ATATGTATATGTGGTAAAGCGGAGTGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
68439205 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
68439253 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
68439301 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
68439349 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
68439397 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
68439447 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
68439495 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
68439543 AT
1 AT
68439545 GTGTGTATAT
Statistics
Matches: 463, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 415 0.90
49 4 0.01
50 44 0.10
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:68439793 original size:37 final size:37
Alignment explanation
Indices: 68439685--68439793 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
68439675 GGAAATATAT
*
68439685 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
68439722 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
68439759 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
68439794 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:68443307 original size:28 final size:28
Alignment explanation
Indices: 68443267--68443331 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
68443257 ATGTACTAGA
*
68443267 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
68443295 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
68443323 ATACCCCTA
1 ATACCCCTA
68443332 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:68443495 original size:27 final size:27
Alignment explanation
Indices: 68443437--68443524 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 27
68443427 AGGAAGCGTC
68443437 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
68443465 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
68443492 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
68443521 CTGG
1 CTGG
68443525 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 23 0.43
28 25 0.47
29 5 0.09
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:68445067 original size:3 final size:3
Alignment explanation
Indices: 68445057--68445105 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
68445047 TTTAAGAAGA
*
68445057 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
68445102 TAT T
1 TAT T
68445106 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:68445077 original size:11 final size:11
Alignment explanation
Indices: 68445061--68445099 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
68445051 AGAAGATATT
68445061 TTATTATTTTA
1 TTATTATTTTA
*
68445072 TTATTATTTCA
1 TTATTATTTTA
68445083 TTATTATTTTA
1 TTATTATTTTA
68445094 TTATTA
1 TTATTA
68445100 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:68445085 original size:19 final size:19
Alignment explanation
Indices: 68445057--68445098 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
68445047 TTTAAGAAGA
*
68445057 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
68445076 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
68445095 TATT
1 TATT
68445099 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:68445517 original size:123 final size:123
Alignment explanation
Indices: 68445298--68445545 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 123
68445288 AAGGAGACCA
68445298 TGGGGAGTTAGAATATCAAGTTGGATTCAAGAAATAGAAGCTGAAGGAGAGAGAAAATCAAGTTA
1 TGGGGAGTTAGAATATCAAGTTGGATTCAAGAAATAGAAGCTGAAGGAGAGAGAAAATCAAGTTA
68445363 AAGATTAGTATCAATAGAACAAGGTAAGTATATCAAGATTTCAATATGTTTTTAAGTT
66 AAGATTAGTATCAATAGAACAAGGTAAGTATATCAAGATTTCAATATGTTTTTAAGTT
*
68445421 TGGGGAGTTAGAATATCAAGTTGGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTA
1 TGGGGAGTTAGAATATCAAGTTGGATTCAAGAAATAGAAGCTGAAGGAGAGAGAAAATCAAGTTA
68445486 AAGATTAGTATCAATAGAACAAGGTAAGTATATCAAGATTTCAATATGTTTTTAAGTT
66 AAGATTAGTATCAATAGAACAAGGTAAGTATATCAAGATTTCAATATGTTTTTAAGTT
68445544 TG
1 TG
68445546 TTATTATTGA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (123 bp):
TGGGGAGTTAGAATATCAAGTTGGATTCAAGAAATAGAAGCTGAAGGAGAGAGAAAATCAAGTTA
AAGATTAGTATCAATAGAACAAGGTAAGTATATCAAGATTTCAATATGTTTTTAAGTT
Found at i:68447415 original size:46 final size:46
Alignment explanation
Indices: 68447363--68447498 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
68447353 AGTGTGCTCT
*
68447363 CTGATATGAAATATGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATGTAAGACCATAGTTGAAAGATACCATGGCAAC
* *
68447409 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATGTAAGACCATAGTTGAAAGATACCATGGCAAC
* ** * *
68447455 GTGATATGAAATGA-ACAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAAT-ATGTAAGACCATAGTTGAAAGATACCATGGCA
68447499 TCATGTCAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATATGTAAGACCATAGTTGAAAGATACCATGGCAAC
Found at i:68447799 original size:16 final size:17
Alignment explanation
Indices: 68447778--68447810 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68447768 ATGATGGAGC
*
68447778 ATGAAAT-ATTGATATA
1 ATGAAATGAGTGATATA
68447794 ATGAAATGAGTGATATA
1 ATGAAATGAGTGATATA
68447811 TGCTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
ATGAAATGAGTGATATA
Found at i:68450144 original size:14 final size:14
Alignment explanation
Indices: 68450125--68450154 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
68450115 GTTGCATTCG
68450125 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
68450139 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
68450153 TA
1 TA
68450155 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:68454522 original size:57 final size:57
Alignment explanation
Indices: 68454417--68454573 Score: 153
Period size: 57 Copynumber: 2.8 Consensus size: 57
68454407 TAGACAATAG
* *
68454417 GATTACCAGTCCAGGCTAAATCCTGTCTATAATATATTCTCAATAGAGCTTCG-TCAA
1 GATTACCAGTCCAGGCTAAATCCTGTCTATAACATATGCTCAATAGAGCTT-GATCAA
* * * * *
68454474 GATTACCAGTCCAGGGTAAATCCTTTTTATGACATATGCTCTAA-AGAGCTTGATCTA
1 GATTACCAGTCCAGGCTAAATCCTGTCTATAACATATGCTC-AATAGAGCTTGATCAA
* *
68454531 GATTACCCA-TCC-GTACTAAATCC-GATCCATAACATATGCTCAA
1 GATTA-CCAGTCCAG-GCTAAATCCTG-TCTATAACATATGCTCAA
68454574 GAGGATTTAT
Statistics
Matches: 82, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
56 4 0.05
57 73 0.89
58 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCCTGTCTATAACATATGCTCAATAGAGCTTGATCAA
Found at i:68470254 original size:14 final size:14
Alignment explanation
Indices: 68470235--68470261 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68470225 CCGAAACTAG
68470235 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
68470249 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
68470262 TGCTTATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:68471509 original size:116 final size:118
Alignment explanation
Indices: 68471333--68471552 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 118
68471323 TTGAATGATG
*
68471333 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACATATCCGGACTAAGATCCGAAGGCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTGT
*
68471398 ACGAGA-TACTA-ATCC-GGCTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT
66 ACGA-ATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * **
68471448 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AAATCCGGACTAAGAT-CCGAAGGCAT
* *
68471510 TTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTG
62 TTGTACGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
68471553 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
114 9 0.10
115 18 0.20
116 39 0.44
117 3 0.03
118 7 0.08
119 13 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTGT
ACGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:68471514 original size:40 final size:40
Alignment explanation
Indices: 68471333--68471552 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
68471323 TTGAATGATG
* * *
68471333 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
68471371 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68471410 TCC-GGCTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
68471448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68471487 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68471528 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68471553 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
37 24 0.15
38 28 0.18
39 51 0.32
40 53 0.34
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68471574 original size:79 final size:75
Alignment explanation
Indices: 68471384--68471585 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 75
68471374 GGACTAAGAT
* * *
68471384 CCGAAGGCATTTGTACGAGATACTAATCCGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGAAGGCATTTGTACGAG-GACTAATCCGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATA
68471449 CCGGGCTAAGC
65 CCGGGCTAAGC
* *
68471460 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGTACGAG-GACT-AATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGA-TACT
*
68471524 -ATAACCGGGCTATGTC
61 AAT-ACCGGGCTAAG-C
* *
68471540 CCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTACGAGGA-CTA-ATCCGGTT-AAGTCCGAAGG
68471586 TACGTGATTT
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
76 22 0.20
77 5 0.05
78 10 0.09
79 44 0.41
80 27 0.25
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (75 bp):
CCGAAGGCATTTGTACGAGGACTAATCCGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATAC
CGGGCTAAGC
Found at i:68479314 original size:39 final size:40
Alignment explanation
Indices: 68479219--68479480 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
68479209 TTGAATGATG
*
68479219 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
68479257 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
68479298 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
68479337 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
68479376 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
68479415 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
68479454 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
68479481 AACGAGGAGA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 131 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:68484050 original size:6 final size:6
Alignment explanation
Indices: 68484030--68484065 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
68484020 AAAATTAACC
68484030 AAAT-A AAAT-A AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
68484066 CCAATACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:68486163 original size:20 final size:20
Alignment explanation
Indices: 68486140--68486256 Score: 110
Period size: 20 Copynumber: 5.8 Consensus size: 20
68486130 CATCAGTAAT
* *
68486140 AACAATAATTTATCCATATC
1 AACAGTAATTCATCCATATC
* *
68486160 AACAGTAATTCATCTATATT
1 AACAGTAATTCATCCATATC
* * *
68486180 AATAGTAATTCATTCATTTC
1 AACAGTAATTCATCCATATC
* *
68486200 AATAGTAATTCACCCATATC
1 AACAGTAATTCATCCATATC
* *
68486220 AACAATAATTCATTCA-ATTC
1 AACAGTAATTCATCCATA-TC
*
68486240 AATAGTAATTCATCCAT
1 AACAGTAATTCATCCAT
68486257 TAATAAAATA
Statistics
Matches: 76, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
19 1 0.01
20 75 0.99
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (20 bp):
AACAGTAATTCATCCATATC
Done.