Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 142 of 145
Found at i:47222017 original size:30 final size:30
Alignment explanation
Indices: 47221982--47222039 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47221972 CCTCGACTCT
*
47221982 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
47222012 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
47222040 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:47222605 original size:285 final size:284
Alignment explanation
Indices: 47222091--47222660 Score: 1050
Period size: 285 Copynumber: 2.0 Consensus size: 284
47222081 ATGACATGAT
*
47222091 GAAAATTTTTCTCTTCTATGCCAACATCAAATTCCCACTCTAACATGTACTTATGAACATTAGGT
1 GAAAATTTTTCCCTTCTATGCCAACATCAAATTCCCACTCTAACATGTACTTATGAACATTAGGT
* *
47222156 ATTTTTACCGATTATGTCGTTTTACTCGTTTTCACTTAAAATCGCTTAGCAAAAGTTGTTTAACA
66 ATTTTTACCGATTATGTCGTTTTACTCGTTTTCACTTAAAATCGCTTAACAAAAATTGTTTAACA
*
47222221 TAATTTCTAGCTTCATATTCTATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTTT
131 TAATTTCTAGCTTCATATTATATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTTT
47222286 TCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTACCGGGATCTCAA
196 TCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTACCGGGATCTCAA
47222351 AAACGTAAAGAACATTAAAAACGG
261 AAACGTAAAGAACATTAAAAACGG
**
47222375 GAAACATTTTTCCCTTCTATGGGAACATCAAATTCCCACTCTAACATGTACTTATGAACATTAGG
1 GAAA-ATTTTTCCCTTCTATGCCAACATCAAATTCCCACTCTAACATGTACTTATGAACATTAGG
*
47222440 TATTTTTACCGATTATGTCGTTTTACTCGTTTTCGCTTAAAATCGCTTAACAAAAATTGTTTAAC
65 TATTTTTACCGATTATGTCGTTTTACTCGTTTTCACTTAAAATCGCTTAACAAAAATTGTTTAAC
* *
47222505 ATAATTTCTAGCTTCATATTATATCATTAAACATCAAAATAAACACTTTTCACCTATGTGTATTT
130 ATAATTTCTAGCTTCATATTATATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTT
47222570 TTCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTACCGGGATCTCA
195 TTCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTACCGGGATCTCA
47222635 AAAACGTAAAGAACATTAAAAACGG
260 AAAACGTAAAGAACATTAAAAACGG
47222660 G
1 G
47222661 GCTTGGGATC
Statistics
Matches: 276, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
284 4 0.01
285 272 0.99
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (284 bp):
GAAAATTTTTCCCTTCTATGCCAACATCAAATTCCCACTCTAACATGTACTTATGAACATTAGGT
ATTTTTACCGATTATGTCGTTTTACTCGTTTTCACTTAAAATCGCTTAACAAAAATTGTTTAACA
TAATTTCTAGCTTCATATTATATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTTT
TCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTACCGGGATCTCAA
AAACGTAAAGAACATTAAAAACGG
Found at i:47223942 original size:23 final size:23
Alignment explanation
Indices: 47223913--47223985 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
47223903 ATAAGTGCCA
*
47223913 CACTGATATGCAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47223936 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
47223959 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
47223982 CACT
1 CACT
47223986 AATCAATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:47224177 original size:46 final size:46
Alignment explanation
Indices: 47224124--47224411 Score: 576
Period size: 46 Copynumber: 6.3 Consensus size: 46
47224114 CTTGTATCCA
47224124 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224170 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224216 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224262 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224308 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224354 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
1 CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
47224400 CACTTGATCAGA
1 CACTTGATCAGA
47224412 AGTACTCAAA
Statistics
Matches: 242, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 242 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (46 bp):
CACTTGATCAGATAAGTGTAGCTGATGCTACCACTTATCACTTTGT
Found at i:47232594 original size:21 final size:21
Alignment explanation
Indices: 47232569--47232626 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
47232559 CGAAATATAT
47232569 ATTAAATATATATATTTTATT-
1 ATTAAATATATATATTTT-TTA
* *
47232590 -TTTAATCAAATATATTTTTTA
1 ATTAAAT-ATATATATTTTTTA
*
47232611 ATCAAATATATATATT
1 ATTAAATATATATATT
47232627 AAATATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 7 0.24
21 18 0.62
22 4 0.14
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTAAATATATATATTTTTTA
Found at i:47232608 original size:331 final size:331
Alignment explanation
Indices: 47232006--47232610 Score: 1210
Period size: 331 Copynumber: 1.8 Consensus size: 331
47231996 TTATTTCCGG
47232006 TACTTCCTCAACTTGGTGAGAAAGGTATACATACCACTTTAATATTTTGTTGCAACAAGTTCTAT
1 TACTTCCTCAACTTGGTGAGAAAGGTATACATACCACTTTAATATTTTGTTGCAACAAGTTCTAT
47232071 TAGAGGTGATCATGGGTTGGGCAGCCCGGTCCGGCCCGACAGCTTACCCGAAAAATAAGAGGTTT
66 TAGAGGTGATCATGGGTTGGGCAGCCCGGTCCGGCCCGACAGCTTACCCGAAAAATAAGAGGTTT
47232136 CGAATAAAAATAAAGGCTCGAAATATGGGTTTGAGTAAAAAAAGAGGCTCGTTTTTTGGGTAAGA
131 CGAATAAAAATAAAGGCTCGAAATATGGGTTTGAGTAAAAAAAGAGGCTCGTTTTTTGGGTAAGA
47232201 ATTTTTTAGTCCGGGCCCAACCCGGCCCGAAATATATATTAAATATATATATTTTATTTTTAATC
196 ATTTTTTAGTCCGGGCCCAACCCGGCCCGAAATATATATTAAATATATATATTTTATTTTTAATC
47232266 AAATATATTTTTTATATATTAAATATATATTTAATATGAGCCACGCAGCGCCGTGCTCGAGCTTA
261 AAATATATTTTTTATATATTAAATATATATTTAATATGAGCCACGCAGCGCCGTGCTCGAGCTTA
47232331 GCAATT
326 GCAATT
47232337 TACTTCCTCAACTTGGTGAGAAAGGTATACATACCACTTTAATATTTTGTTGCAACAAGTTCTAT
1 TACTTCCTCAACTTGGTGAGAAAGGTATACATACCACTTTAATATTTTGTTGCAACAAGTTCTAT
47232402 TAGAGGTGATCATGGGTTGGGCAGCCCGGTCCGGCCCGACAGCTTACCCGAAAAATAAGAGGTTT
66 TAGAGGTGATCATGGGTTGGGCAGCCCGGTCCGGCCCGACAGCTTACCCGAAAAATAAGAGGTTT
47232467 CGAATAAAAATAAAGGCTCGAAATATGGGTTTGAGTAAAAAAAGAGGCTCGTTTTTTGGGTAAGA
131 CGAATAAAAATAAAGGCTCGAAATATGGGTTTGAGTAAAAAAAGAGGCTCGTTTTTTGGGTAAGA
47232532 ATTTTTTAGTCCGGGCCCAACCCGGCCCGAAATATATATTAAATATATATATTTTATTTTTAATC
196 ATTTTTTAGTCCGGGCCCAACCCGGCCCGAAATATATATTAAATATATATATTTTATTTTTAATC
47232597 AAATATATTTTTTA
261 AAATATATTTTTTA
47232611 ATCAAATATA
Statistics
Matches: 274, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
331 274 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (331 bp):
TACTTCCTCAACTTGGTGAGAAAGGTATACATACCACTTTAATATTTTGTTGCAACAAGTTCTAT
TAGAGGTGATCATGGGTTGGGCAGCCCGGTCCGGCCCGACAGCTTACCCGAAAAATAAGAGGTTT
CGAATAAAAATAAAGGCTCGAAATATGGGTTTGAGTAAAAAAAGAGGCTCGTTTTTTGGGTAAGA
ATTTTTTAGTCCGGGCCCAACCCGGCCCGAAATATATATTAAATATATATATTTTATTTTTAATC
AAATATATTTTTTATATATTAAATATATATTTAATATGAGCCACGCAGCGCCGTGCTCGAGCTTA
GCAATT
Found at i:47232623 original size:19 final size:17
Alignment explanation
Indices: 47232588--47232621 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47232578 ATATATTTTA
47232588 TTTTTAATCAAATATAT
1 TTTTTAATCAAATATAT
47232605 TTTTTAATCAAATATAT
1 TTTTTAATCAAATATAT
47232622 ATATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTAATCAAATATAT
Found at i:47232628 original size:17 final size:17
Alignment explanation
Indices: 47232591--47232628 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47232581 TATTTTATTT
* *
47232591 TTAATCAAATATATTTT
1 TTAATCAAATATATATA
47232608 TTAATCAAATATATATA
1 TTAATCAAATATATATA
47232625 TTAA
1 TTAA
47232629 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATCAAATATATATA
Found at i:47235497 original size:98 final size:98
Alignment explanation
Indices: 47235371--47235567 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
47235361 AAACAATAAA
*
47235371 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
47235436 CCTTTAGAAT-TCCAAACTCGGAATAGTTCCTTT
66 CCTTTAGAATCT-CAAACTCGGAAAAGTTCCTTT
* * *
47235469 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
47235534 CCTTTAGAATCTCAAACTCGGAAAATTTCCTTT
66 CCTTTAGAATCTCAAACTCGGAAAAGTTCCTTT
47235567 A
1 A
47235568 TGATTTTTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 91 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCTCAAACTCGGAAAAGTTCCTTT
Found at i:47237219 original size:14 final size:14
Alignment explanation
Indices: 47237200--47237232 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47237190 CCATGTTTGG
47237200 TTTGGGCCACTGAA
1 TTTGGGCCACTGAA
*
47237214 TTTGGGCCATTGAA
1 TTTGGGCCACTGAA
47237228 TTTGG
1 TTTGG
47237233 TTTTAGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.36
Consensus pattern (14 bp):
TTTGGGCCACTGAA
Found at i:47241068 original size:13 final size:13
Alignment explanation
Indices: 47241050--47241080 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47241040 GCACCCAGGG
47241050 TTTGACTTTAGAT
1 TTTGACTTTAGAT
47241063 TTTGACTTTAGAT
1 TTTGACTTTAGAT
47241076 TTTGA
1 TTTGA
47241081 TATCCTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (13 bp):
TTTGACTTTAGAT
Found at i:47241137 original size:83 final size:83
Alignment explanation
Indices: 47240998--47241233 Score: 463
Period size: 83 Copynumber: 2.8 Consensus size: 83
47240988 GGAATCTCAG
47240998 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
1 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
47241063 TTTGACTTTAGATTTTGA
66 TTTGACTTTAGATTTTGA
47241081 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
1 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
47241146 TTTGACTTTAGATTTTGA
66 TTTGACTTTAGATTTTGA
*
47241164 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGTTTTGACTTTAGAT
1 TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
47241229 TTTGA
66 TTTGA
47241234 TACCCGTTGT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 152 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
TATCCTTCCTAAAGGCACCAAAAGCAACTCAGTTATGGTTCAGCACCCAGGGTTTGACTTTAGAT
TTTGACTTTAGATTTTGA
Found at i:47241151 original size:13 final size:13
Alignment explanation
Indices: 47241133--47241163 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47241123 GCACCCAGGG
47241133 TTTGACTTTAGAT
1 TTTGACTTTAGAT
47241146 TTTGACTTTAGAT
1 TTTGACTTTAGAT
47241159 TTTGA
1 TTTGA
47241164 TATCCTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (13 bp):
TTTGACTTTAGAT
Found at i:47245977 original size:31 final size:31
Alignment explanation
Indices: 47245942--47246000 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
47245932 AAATTGTCAC
47245942 TGAATTATTC-AAAAGTTTTCATTTAAGTTAT
1 TGAATTATTCGAAAA-TTTTCATTTAAGTTAT
* *
47245973 TGAATTGTTCGAAAATTTTTATTTAAGT
1 TGAATTATTCGAAAATTTTCATTTAAGT
47246001 CACTAGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (31 bp):
TGAATTATTCGAAAATTTTCATTTAAGTTAT
Found at i:47250183 original size:2 final size:2
Alignment explanation
Indices: 47250176--47250207 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47250166 ATTGATGATT
47250176 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
47250208 AAAGGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47262751 original size:9 final size:9
Alignment explanation
Indices: 47262735--47262767 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
47262725 TTAATTAGAA
47262735 AATTAATTT
1 AATTAATTT
*
47262744 AGTTAATTT
1 AATTAATTT
47262753 AATTAATTT
1 AATTAATTT
47262762 AATTAA
1 AATTAA
47262768 CCAAATCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:47263932 original size:9 final size:9
Alignment explanation
Indices: 47263916--47263948 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
47263906 TTAATTAGAA
47263916 AATTAATTT
1 AATTAATTT
*
47263925 AGTTAATTT
1 AATTAATTT
47263934 AATTAATTT
1 AATTAATTT
47263943 AATTAA
1 AATTAA
47263949 CCAAATCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:47265887 original size:21 final size:21
Alignment explanation
Indices: 47265863--47265907 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47265853 AAATTACAAA
47265863 AAAAAATTCAAAATAATTTTT
1 AAAAAATTCAAAATAATTTTT
* * *
47265884 AAAAGATTTAAATTAATTTTT
1 AAAAAATTCAAAATAATTTTT
47265905 AAA
1 AAA
47265908 TTTCAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTT
Found at i:47265930 original size:20 final size:20
Alignment explanation
Indices: 47265869--47265934 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
47265859 CAAAAAAAAA
47265869 TTCAAAATAATTTTTAAAAGAT
1 TTCAAAATAA-TTTT-AAAGAT
* *
47265891 TT-AAATTAATTTTTAA-AT
1 TTCAAAATAATTTTAAAGAT
47265909 TTCAAAAT-ATTTATAAAGAT
1 TTCAAAATAATTT-TAAAGAT
47265929 TTCAAA
1 TTCAAA
47265935 TTTTATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.22
19 9 0.24
20 12 0.32
21 6 0.16
22 2 0.05
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
TTCAAAATAATTTTAAAGAT
Found at i:47265988 original size:16 final size:17
Alignment explanation
Indices: 47265960--47265991 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47265950 AAATTTATAT
47265960 AAATTCTTAAAAAATAA
1 AAATTCTTAAAAAATAA
47265977 AAATTC-TAAAAAATA
1 AAATTCTTAAAAAATA
47265992 TATAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTCTTAAAAAATAA
Found at i:47271834 original size:19 final size:19
Alignment explanation
Indices: 47271810--47271847 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47271800 ATTAATGTGC
*
47271810 TCTTTGATCTAATATATAA
1 TCTTTGATCTAATAAATAA
47271829 TCTTTGATCTAATAAATAA
1 TCTTTGATCTAATAAATAA
47271848 GTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
TCTTTGATCTAATAAATAA
Found at i:47286776 original size:31 final size:31
Alignment explanation
Indices: 47286741--47286802 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
47286731 ATTTTTTTAA
*
47286741 GTTCAATTGGTACTAATTATTTTATTGCCAT
1 GTTCAATTGGTACTAATTATTTTACTGCCAT
47286772 GTTCAATTGGTACTAATTATTTTACTGCCAT
1 GTTCAATTGGTACTAATTATTTTACTGCCAT
47286803 CAGGCTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTCAATTGGTACTAATTATTTTACTGCCAT
Found at i:47287627 original size:34 final size:34
Alignment explanation
Indices: 47287584--47287652 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
47287574 GTTTGACTTG
*
47287584 TTAGATATGTATGTGTCTGACATTGATATGTTTA
1 TTAGATATGTATGTGTCCGACATTGATATGTTTA
*
47287618 TTAGCTATGTATGTGTCCGACATTGATATGTTTA
1 TTAGATATGTATGTGTCCGACATTGATATGTTTA
47287652 T
1 T
47287653 GTTCTTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (34 bp):
TTAGATATGTATGTGTCCGACATTGATATGTTTA
Found at i:47289463 original size:29 final size:30
Alignment explanation
Indices: 47289415--47289473 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
47289405 TATGTTTTCA
* *
47289415 TGTGCAATTGTATATATAAACTTT-GATTT
1 TGTGCAATTGTATACATAAAATTTGGATTT
* *
47289444 TGTGCAATTTTATACGTAAAATTTGGATTT
1 TGTGCAATTGTATACATAAAATTTGGATTT
47289474 GATCTAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATAAAATTTGGATTT
Found at i:47289696 original size:29 final size:31
Alignment explanation
Indices: 47289649--47289716 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 31
47289639 TTTAAACCAC
* *
47289649 AATTAGAGTTTCATGTATACAATTGCAC-TA
1 AATTAAAGTTTCATATATACAATTGCACATA
47289679 AATTAAAG-TTCATATATACAATTGCACATTA
1 AATTAAAGTTTCATATATACAATTGCACA-TA
47289710 AATTAAA
1 AATTAAA
47289717 ATTTATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 18 0.53
30 7 0.21
31 9 0.26
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (31 bp):
AATTAAAGTTTCATATATACAATTGCACATA
Found at i:47289715 original size:31 final size:30
Alignment explanation
Indices: 47289617--47289716 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
47289607 GAATAAATTA
* * * ** *
47289617 AAATTAAAATTTCAAATATACATTTAAACC
1 AAATTAAAGTTTCATATATACAATTGCACT
* *
47289647 ACAATTAGAGTTTCATGTATACAATTGCACT
1 A-AATTAAAGTTTCATATATACAATTGCACT
47289678 AAATTAAAG-TTCATATATACAATTGCACATT
1 AAATTAAAGTTTCATATATACAATTGCAC--T
47289709 AAATTAAA
1 AAATTAAA
47289717 ATTTATGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
29 18 0.32
30 8 0.14
31 31 0.54
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCATATATACAATTGCACT
Found at i:47290053 original size:16 final size:16
Alignment explanation
Indices: 47290032--47290063 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47290022 TTCAAAAACA
*
47290032 AAAAAATATCTAAAAT
1 AAAAAATATATAAAAT
47290048 AAAAAATATATAAAAT
1 AAAAAATATATAAAAT
47290064 TTTGCAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAATATATAAAAT
Found at i:47304482 original size:20 final size:21
Alignment explanation
Indices: 47304459--47304501 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47304449 TTTAAAATTC
47304459 AAAAA-ATAAA-AAAAATATTT
1 AAAAATATAAACAAAAAT-TTT
47304479 AAAAATATAAACAAAAATTTT
1 AAAAATATAAACAAAAATTTT
47304500 AA
1 AA
47304502 TGTTCAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATATAAACAAAAATTTT
Found at i:47304919 original size:17 final size:18
Alignment explanation
Indices: 47304888--47304924 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47304878 TTCATACACA
47304888 TTAAAAATATATAATTTT
1 TTAAAAATATATAATTTT
*
47304906 TTAAAAAT-TTTAATTTT
1 TTAAAAATATATAATTTT
47304923 TT
1 TT
47304925 CTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAAAATATATAATTTT
Found at i:47306772 original size:6 final size:6
Alignment explanation
Indices: 47306761--47306792 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
47306751 CTATTCTTCT
47306761 TACATA TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TACATA TA
47306793 TATTCTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:47337611 original size:27 final size:27
Alignment explanation
Indices: 47337576--47337635 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
47337566 GATATGAGTG
**
47337576 AAAAAATTATGTAACAAATATATTTAT
1 AAAAAATTAAATAACAAATATATTTAT
47337603 AAAAAATTAAATAACAAATATATTTAT
1 AAAAAATTAAATAACAAATATATTTAT
47337630 AAAAAA
1 AAAAAA
47337636 ATATTTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAAATTAAATAACAAATATATTTAT
Found at i:47337639 original size:16 final size:15
Alignment explanation
Indices: 47337591--47337642 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
47337581 ATTATGTAAC
47337591 AAATATATTTATAAA
1 AAATATATTTATAAA
* *
47337606 AAAT-TA--AATAAC
1 AAATATATTTATAAA
47337618 AAATATATTTATAAA
1 AAATATATTTATAAA
47337633 AAA-ATATTTA
1 AAATATATTTA
47337643 AAGATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
12 8 0.27
13 2 0.07
14 9 0.30
15 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATATTTATAAA
Found at i:47344200 original size:23 final size:23
Alignment explanation
Indices: 47344159--47344221 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
47344149 GATTAGGAAG
** *
47344159 CAAATACAGACACAAATGCATAA
1 CAAATACAGATTCAGATGCATAA
*
47344182 CAAATATAGATTCAGATGCATAA
1 CAAATACAGATTCAGATGCATAA
* *
47344205 CAGATACAGATTTAGAT
1 CAAATACAGATTCAGAT
47344222 CCTACCCCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (23 bp):
CAAATACAGATTCAGATGCATAA
Found at i:47347588 original size:21 final size:19
Alignment explanation
Indices: 47347537--47347588 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
47347527 AATATTTAAA
47347537 TAATTATTTTAA-AAACTAT
1 TAATT-TTTTAAGAAACTAT
**
47347556 TAATTTAATAAGAAATCTGAT
1 TAATTTTTTAAGAAA-CT-AT
47347577 TAATTTTTTAAG
1 TAATTTTTTAAG
47347589 TTTGAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.15
19 8 0.31
20 2 0.08
21 12 0.46
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (19 bp):
TAATTTTTTAAGAAACTAT
Found at i:47349121 original size:3 final size:3
Alignment explanation
Indices: 47349115--47349151 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
47349105 AGAAATCATC
47349115 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47349152 ACCAAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47370839 original size:3 final size:3
Alignment explanation
Indices: 47370831--47370868 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
47370821 ATTGTTGCTC
47370831 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
47370869 GGTATCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:47371334 original size:21 final size:22
Alignment explanation
Indices: 47371298--47371355 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
47371288 TTGACTATAA
*
47371298 AATTCAATAATCTAAACTTAT-CT
1 AATTCAA-AAT-TAAACTTATCCG
* *
47371321 AATTTAAAATTAAATTTATCCG
1 AATTCAAAATTAAACTTATCCG
47371343 AATTCAAAATTAA
1 AATTCAAAATTAA
47371356 TTTGAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 16 0.53
23 6 0.20
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTCAAAATTAAACTTATCCG
Found at i:47371657 original size:10 final size:10
Alignment explanation
Indices: 47371642--47371670 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
47371632 AATTGTCCCA
47371642 AAAAAAATTT
1 AAAAAAATTT
47371652 AAAAAAATTT
1 AAAAAAATTT
47371662 AAAAAAATT
1 AAAAAAATT
47371671 ATATTATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:47372376 original size:220 final size:221
Alignment explanation
Indices: 47371983--47372424 Score: 877
Period size: 220 Copynumber: 2.0 Consensus size: 221
47371973 TTCTCCAAAT
47371983 TAAGTCTATATAAGTTTTTATAATTAAACTATGGACTATTTGGACTATGAACCCAAATATTGAAG
1 TAAGTCTATATAAGTTTTTATAATTAAACTATGGACTATTTGGACTATGAACCCAAATATTGAAG
47372048 GTCGATGCTAATTATGCAAATACAAAAAAATTTCTTATACCATATCGTGGGGTATGATACTATTT
66 GTCGATGCTAATTATGCAAATACAAAAAAATTTCTTATACCATATCGTGGGGTATGATACTATTT
47372113 GAGAGAATGATGCCAGACACAAGCACTATAGTTAGCTCATGAACTCTTTAGTTTAAGACATTCAA
131 GAGAGAATGATGCCAGACACAAGCACTATAGTTAGCTCATGAACTCTTTAGTTTAAGACATTCAA
47372178 TGCTTCGAAATGTGATTAAGAAGACA
196 TGCTTCGAAATGTGATTAAGAAGACA
47372204 TAAGTCTATA-AAGTTTTTATAATTAAACTATGGACTATTTGGACTATGAACCCAAATATTGAAG
1 TAAGTCTATATAAGTTTTTATAATTAAACTATGGACTATTTGGACTATGAACCCAAATATTGAAG
47372268 GTCGATGCTAATTATGCAAATACAAAAAAATTTCTTATACCATATCGTGGGGTATGATACTATTT
66 GTCGATGCTAATTATGCAAATACAAAAAAATTTCTTATACCATATCGTGGGGTATGATACTATTT
47372333 GAGAGAATGATGCCAGACACAAGCACTATAGTTAGCTCATGAACTCTTTAGTTTAAGACATTCAA
131 GAGAGAATGATGCCAGACACAAGCACTATAGTTAGCTCATGAACTCTTTAGTTTAAGACATTCAA
47372398 TGCTTCGAAATGTGATTAAGAAGACA
196 TGCTTCGAAATGTGATTAAGAAGACA
47372424 T
1 T
47372425 TTGTTGTTCT
Statistics
Matches: 221, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 211 0.95
221 10 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (221 bp):
TAAGTCTATATAAGTTTTTATAATTAAACTATGGACTATTTGGACTATGAACCCAAATATTGAAG
GTCGATGCTAATTATGCAAATACAAAAAAATTTCTTATACCATATCGTGGGGTATGATACTATTT
GAGAGAATGATGCCAGACACAAGCACTATAGTTAGCTCATGAACTCTTTAGTTTAAGACATTCAA
TGCTTCGAAATGTGATTAAGAAGACA
Found at i:47373913 original size:16 final size:16
Alignment explanation
Indices: 47373894--47373970 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
47373884 AGTCATTATG
*
47373894 GGTTTAGGTCATTTTA
1 GGTTTAGATCATTTTA
*
47373910 GGTTCTA-ATCACTTT-
1 GGTT-TAGATCATTTTA
47373925 GCGTTTAGATCATTTTA
1 G-GTTTAGATCATTTTA
* *
47373942 GGCTTT-GATAACTTTA
1 GG-TTTAGATCATTTTA
* *
47373958 GATTCAGATCATT
1 GGTTTAGATCATT
47373971 CCGATTTACT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
15 5 0.11
16 35 0.76
17 6 0.13
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.45
Consensus pattern (16 bp):
GGTTTAGATCATTTTA
Found at i:47373956 original size:32 final size:32
Alignment explanation
Indices: 47373895--47373956 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
47373885 GTCATTATGG
* *
47373895 GTTTAGGTCATTTTAGGTTCTAATCACTTTGC
1 GTTTAGATCATTTTAGGTTCTAATAACTTTGC
*
47373927 GTTTAGATCATTTTAGGCTT-TGATAACTTT
1 GTTTAGATCATTTTAGG-TTCTAATAACTTT
47373957 AGATTCAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (32 bp):
GTTTAGATCATTTTAGGTTCTAATAACTTTGC
Found at i:47377159 original size:16 final size:15
Alignment explanation
Indices: 47377135--47377190 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
47377125 AACTTAATCA
*
47377135 AAACCTAAAATACTCT
1 AAACTTAAAATA-TCT
*
47377151 AAACTTAAAATAATCC
1 AAACTTAAAAT-ATCT
*
47377167 AAAC-TCAAATAT-T
1 AAACTTAAAATATCT
47377180 AAACTTAAAAT
1 AAACTTAAAAT
47377191 GACGAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 4 0.12
14 7 0.21
15 5 0.15
16 16 0.48
17 1 0.03
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACTTAAAATATCT
Found at i:47380573 original size:35 final size:36
Alignment explanation
Indices: 47380527--47380601 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
47380517 TAATTTGAAT
* *
47380527 GTTTTTAACTTTTTGAAACTTTGGAAAATTTTATTA
1 GTTTTTAACTTTTTAAAACTTTGGAAAATTTTATAA
** *
47380563 GTTTTT-ACTTTTTAAAACTTTTTAAGATTTTATAA
1 GTTTTTAACTTTTTAAAACTTTGGAAAATTTTATAA
47380598 GTTT
1 GTTT
47380602 ATTCATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 28 0.82
36 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.56
Consensus pattern (36 bp):
GTTTTTAACTTTTTAAAACTTTGGAAAATTTTATAA
Found at i:47381862 original size:9 final size:9
Alignment explanation
Indices: 47381848--47381884 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
47381838 TGAGTTTTTG
47381848 AATTCGAAT
1 AATTCGAAT
47381857 AATTCGAAT
1 AATTCGAAT
47381866 AATTCGAAT
1 AATTCGAAT
47381875 AATTCGAAT
1 AATTCGAAT
47381884 A
1 A
47381885 TCAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47382627 original size:5 final size:5
Alignment explanation
Indices: 47382617--47382642 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47382607 GAACAAATAT
47382617 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
47382643 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:47386288 original size:30 final size:30
Alignment explanation
Indices: 47386245--47386312 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
47386235 AGGTGGTGGG
* *
47386245 GGAGGAACTTGTTCATTATCAGGAGGAGGT
1 GGAGGAATTTGTTCAGTATCAGGAGGAGGT
* *
47386275 GGTGGAATTTGTTCAGTATCAGGAGGTGGT
1 GGAGGAATTTGTTCAGTATCAGGAGGAGGT
47386305 GGAGGAAT
1 GGAGGAAT
47386313 CCACTCCTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.07, G:0.40, T:0.28
Consensus pattern (30 bp):
GGAGGAATTTGTTCAGTATCAGGAGGAGGT
Found at i:47389658 original size:31 final size:31
Alignment explanation
Indices: 47389597--47389669 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
47389587 TAATTTTTTT
* *
47389597 AAAAT-TTTATTTATGATATTTTAAAATAAA
1 AAAATATTTATTTATGATAATGTAAAATAAA
*
47389627 AAAATATTTATTTGATGATAATGT-AATTAAA
1 AAAATATTTATTT-ATGATAATGTAAAATAAA
* *
47389658 ATAACATTTATT
1 AAAATATTTATT
47389670 ACTTATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 5 0.14
31 23 0.64
32 8 0.22
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (31 bp):
AAAATATTTATTTATGATAATGTAAAATAAA
Found at i:47391713 original size:16 final size:16
Alignment explanation
Indices: 47391692--47391727 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47391682 ATTATCATAT
47391692 ATATACACATATATGC
1 ATATACACATATATGC
* *
47391708 ATATACATATATATGT
1 ATATACACATATATGC
47391724 ATAT
1 ATAT
47391728 GTATATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATACACATATATGC
Found at i:47391726 original size:6 final size:6
Alignment explanation
Indices: 47391717--47391758 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
47391707 CATATACATA
47391717 TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG
47391759 CATGTATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:47393685 original size:42 final size:43
Alignment explanation
Indices: 47393623--47393709 Score: 167
Period size: 42 Copynumber: 2.0 Consensus size: 43
47393613 TCTGAACTCA
47393623 TACATTTTGGTGGGGAGCCTTCATACTAATGACCAAGGAACTG
1 TACATTTTGGTGGGGAGCCTTCATACTAATGACCAAGGAACTG
47393666 TACATTTTGG-GGGGAGCCTTCATACTAATGACCAAGGAACTG
1 TACATTTTGGTGGGGAGCCTTCATACTAATGACCAAGGAACTG
47393708 TA
1 TA
47393710 ATTGGTAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 34 0.77
43 10 0.23
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
TACATTTTGGTGGGGAGCCTTCATACTAATGACCAAGGAACTG
Found at i:47401876 original size:13 final size:13
Alignment explanation
Indices: 47401858--47401882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47401848 GAGTATTATT
47401858 ATTTAAAAAAATA
1 ATTTAAAAAAATA
47401871 ATTTAAAAAAAT
1 ATTTAAAAAAAT
47401883 TTAACTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTTAAAAAAATA
Found at i:47407328 original size:46 final size:44
Alignment explanation
Indices: 47407246--47407331 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
47407236 TAGCATCATC
*
47407246 CCATTCAACCAAGCAAACGAATACTATTACAGTTCTATTCTATT
1 CCATTCAACCAAACAAACGAATACTATTACAGTTCTATTCTATT
** *
47407290 CCATTCAACCAAACAATTGAATTATTGATTACAGTTCTATTC
1 CCATTCAACCAAACAAACGAA-TACT-ATTACAGTTCTATTC
47407332 CATTAGAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 18 0.50
45 3 0.08
46 15 0.42
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (44 bp):
CCATTCAACCAAACAAACGAATACTATTACAGTTCTATTCTATT
Found at i:47407372 original size:16 final size:16
Alignment explanation
Indices: 47407317--47407372 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
47407307 TGAATTATTG
* *
47407317 ATTACAGTTCTATTCC
1 ATTACAGTCCTATTCA
* *
47407333 ATTAGAGCCCTATTCA
1 ATTACAGTCCTATTCA
*
47407349 ATTACAGTCCTATTCT
1 ATTACAGTCCTATTCA
47407365 ATTACAGT
1 ATTACAGT
47407373 GAATCAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (16 bp):
ATTACAGTCCTATTCA
Found at i:47409245 original size:16 final size:16
Alignment explanation
Indices: 47409204--47409239 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47409194 ATTATCATAT
*
47409204 ATATACACATATATGC
1 ATATACATATATATGC
*
47409220 ATATACATATATATGT
1 ATATACATATATATGC
47409236 ATAT
1 ATAT
47409240 GTATATGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATACATATATATGC
Found at i:47412725 original size:23 final size:23
Alignment explanation
Indices: 47412698--47412762 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
47412688 TAGATTATAT
47412698 ATTAAAATTAAATTTCACAAATA
1 ATTAAAATTAAATTTCACAAATA
* *
47412721 ATTAATATT-AATTACTTACAAATA
1 ATTAAAATTAAATT--TCACAAATA
* *
47412745 TTTAAAATTTATATTTCA
1 ATTAAAA-TTAAATTTCA
47412763 TACATTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 15 0.47
25 2 0.06
26 3 0.09
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAATTTCACAAATA
Found at i:47413813 original size:122 final size:123
Alignment explanation
Indices: 47413664--47413909 Score: 485
Period size: 122 Copynumber: 2.0 Consensus size: 123
47413654 ATGGAAAAAA
47413664 AAGAGTTAAAAGAACATAAAAGAAAAAATTAAATTGTTCAAAATGAAAAAATATAAGGACTAATT
1 AAGAGTTAAAAGAACATAAAAGAAAAAATTAAATTGTTCAAAATGAAAAAATATAAGGACTAATT
47413729 GTAGAATTTAACCAAAAATTTTCATTTGAAATGATGATTTAACGTGTCACGTCAACTT
66 GTAGAATTTAACCAAAAATTTTCATTTGAAATGATGATTTAACGTGTCACGTCAACTT
47413787 AAGAGTT-AAAGAACATAAAAGAAAAAATTAAATTGTTCAAAATGAAAAAATATAAGGACTAATT
1 AAGAGTTAAAAGAACATAAAAGAAAAAATTAAATTGTTCAAAATGAAAAAATATAAGGACTAATT
47413851 GTAGAATTTAACCAAAAATTTTCATTTGAAATGATGATTTAACGTGTCACGTCAACTT
66 GTAGAATTTAACCAAAAATTTTCATTTGAAATGATGATTTAACGTGTCACGTCAACTT
47413909 A
1 A
47413910 CCGTTACACC
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 116 0.94
123 7 0.06
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (123 bp):
AAGAGTTAAAAGAACATAAAAGAAAAAATTAAATTGTTCAAAATGAAAAAATATAAGGACTAATT
GTAGAATTTAACCAAAAATTTTCATTTGAAATGATGATTTAACGTGTCACGTCAACTT
Found at i:47426816 original size:17 final size:19
Alignment explanation
Indices: 47426776--47426818 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
47426766 TTGTAGAACA
47426776 AAATGATCAAAAATTAATAG
1 AAATGATC-AAAATTAATAG
47426796 AAATGATC-AAATTAA-AG
1 AAATGATCAAAATTAATAG
47426813 AAATGA
1 AAATGA
47426819 ATCGGATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
20 8 0.35
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (19 bp):
AAATGATCAAAATTAATAG
Found at i:47430360 original size:42 final size:42
Alignment explanation
Indices: 47430294--47430378 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 42
47430284 CTTACAAAAA
47430294 AATAGATAAAAAACTTAATAAAAAATTAATTTACTCATTGAT
1 AATAGATAAAAAACTTAATAAAAAATTAATTTACTCATTGAT
47430336 AATAGATAAAAAAACTTAATAAAAAATTAATTTACTCATTGAT
1 AATAGAT-AAAAAACTTAATAAAAAATTAATTTACTCATTGAT
47430379 GTAATGTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (42 bp):
AATAGATAAAAAACTTAATAAAAAATTAATTTACTCATTGAT
Found at i:47432649 original size:18 final size:18
Alignment explanation
Indices: 47432613--47432666 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
47432603 CTTCATTCTG
*
47432613 TTCCTCTTCCT-TCTCTTC
1 TTCCTCCTCCTCT-TCTTC
* **
47432631 TTCTTCCTTTTCTTCTTC
1 TTCCTCCTCCTCTTCTTC
47432649 TTCCTCCTCCTCTTCTTC
1 TTCCTCCTCCTCTTCTTC
47432667 AGACTCATCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCTCCTCTTCTTC
Found at i:47432652 original size:15 final size:15
Alignment explanation
Indices: 47432599--47432666 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
47432589 TTCATTTTTC
* *
47432599 TCTTCTTCATTCTGT
1 TCTTCTTCCTTCTCT
*
47432614 TCCTCTTCCTTCTCT
1 TCTTCTTCCTTCTCT
*
47432629 TCTTCTTCCTTTTCT
1 TCTTCTTCCTTCTCT
* *
47432644 TCTTCTTCCTCCTCC
1 TCTTCTTCCTTCTCT
47432659 TCTTCTTC
1 TCTTCTTC
47432667 AGACTCATCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.01, C:0.40, G:0.01, T:0.57
Consensus pattern (15 bp):
TCTTCTTCCTTCTCT
Found at i:47435246 original size:21 final size:21
Alignment explanation
Indices: 47435220--47435269 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
47435210 CTTCTTGTTC
47435220 CTCTTCATCATCCCCATCCTT
1 CTCTTCATCATCCCCATCCTT
*
47435241 CTCTTCATCATCTCCATCCTT
1 CTCTTCATCATCCCCATCCTT
*
47435262 TTCTTCAT
1 CTCTTCAT
47435270 GCTCCTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCTTCATCATCCCCATCCTT
Found at i:47437464 original size:22 final size:24
Alignment explanation
Indices: 47437439--47437489 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
47437429 TTATTTATAA
47437439 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
47437459 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
47437485 ATAAA
1 ATAAA
47437490 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:47440378 original size:6 final size:6
Alignment explanation
Indices: 47440367--47440402 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
47440357 GGTGTCAAGC
* *
47440367 GAAGGG GAAGGG GAAGGG GAAGGG AAAGGG AAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
47440403 AAGATCGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:47440397 original size:17 final size:17
Alignment explanation
Indices: 47440371--47440405 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47440361 TCAAGCGAAG
* *
47440371 GGGAAGGGGAAGGGGAA
1 GGGAAAGGGAAAGGGAA
47440388 GGGAAAGGGAAAGGGAA
1 GGGAAAGGGAAAGGGAA
47440405 G
1 G
47440406 ATCGGTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (17 bp):
GGGAAAGGGAAAGGGAA
Found at i:47440873 original size:8 final size:8
Alignment explanation
Indices: 47440856--47440915 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
47440846 TATGTTGATT
*
47440856 TTTTTGAA
1 TTTTTAAA
47440864 TTTTTAAA
1 TTTTTAAA
47440872 TTTTTAAA
1 TTTTTAAA
*
47440880 ATTTTAAA
1 TTTTTAAA
**
47440888 TTTTTTATT
1 -TTTTTAAA
*
47440897 TTTTTGTAA
1 TTTTT-AAA
47440906 TTTTTAAA
1 TTTTTAAA
47440914 TT
1 TT
47440916 ATATTATTGG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 31 0.76
9 10 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTTAAA
Found at i:47448192 original size:72 final size:71
Alignment explanation
Indices: 47448109--47448281 Score: 186
Period size: 72 Copynumber: 2.4 Consensus size: 71
47448099 CCGGGCTATA
* ** *
47448109 TAACGGGAAGCTCATAAGAGCCATA-ATCAGGAAGTTCGTGCGAGCCAATAACGGGTAGCTCCGA
1 TAACAGGAAGCTCA-AAGAGCCATATATCAGGAAGTTCAAGCGAG-CAATAACGGGAAGCTCCGA
47448173 AGAGACAT
64 AGAGACAT
* * * * * *
47448181 TAACAGGAAGCTCCAGATAGCCATATATCGGGAAGTTCAAGCGAGCTATATCGGGAAGCTCCGGA
1 TAACAGGAAGCT-CAAAGAGCCATATATCAGGAAGTTCAAGCGAGCAATAACGGGAAGCTCCGAA
*
47448246 GAGCCAT
65 GAGACAT
47448253 TAATCAGGAAGCTCACAAAGAGCCATATA
1 TAA-CAGGAAGCT--CAAAGAGCCATATA
47448282 ACGGGACGCT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
72 44 0.53
73 27 0.33
74 12 0.14
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.17
Consensus pattern (71 bp):
TAACAGGAAGCTCAAAGAGCCATATATCAGGAAGTTCAAGCGAGCAATAACGGGAAGCTCCGAAG
AGACAT
Found at i:47448249 original size:23 final size:24
Alignment explanation
Indices: 47448186--47448292 Score: 74
Period size: 25 Copynumber: 4.3 Consensus size: 24
47448176 GACATTAACA
*
47448186 GGAAGCTCCAGATAGCCATATATCG
1 GGAAGCTCCAGAGAG-CATATATCG
* * *
47448211 GGAAGTTCAAGCGAGC-TATATCG
1 GGAAGCTCCAGAGAGCATATATCG
* *
47448234 GGAAGCTCCGGAGAGCCAT-TAATCA
1 GGAAGCTCCAGAGAG-CATAT-ATCG
* *
47448259 GGAAGCTCACAAAGAGCCATATAACG
1 GGAAGCTC-CAGAGAG-CATATATCG
*
47448285 GGACGCTC
1 GGAAGCTC
47448293 AAAATAACTG
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
23 18 0.29
24 3 0.05
25 23 0.37
26 18 0.29
27 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (24 bp):
GGAAGCTCCAGAGAGCATATATCG
Found at i:47450804 original size:15 final size:14
Alignment explanation
Indices: 47450747--47450807 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
47450737 TATATACTTG
47450747 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* *
47450762 TAATCACAATT-AT
1 TAATTAAAATTAAT
*
47450775 TGAATTAAACTTTAAT
1 T-AATTAAA-ATTAAT
47450791 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
47450806 TA
1 TA
47450808 CAATTAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 3 0.08
14 6 0.17
15 24 0.67
16 3 0.08
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (14 bp):
TAATTAAAATTAAT
Found at i:47451298 original size:109 final size:110
Alignment explanation
Indices: 47451119--47451337 Score: 431
Period size: 109 Copynumber: 2.0 Consensus size: 110
47451109 TTTTTAAAAT
47451119 TTATTTTTATATAAAAAATTAAAAAATTTAATACGGGCGGGCCAACTCAATTTTAGCATTTTTTG
1 TTATTTTTATATAAAAAATTAAAAAATTTAATACGGGCGGGCCAACTCAATTTTAGCATTTTTTG
47451184 TCTGGGTCAGACTTAAATAACAAATTTAGGCCTATTTTTCGAGTC
66 TCTGGGTCAGACTTAAATAACAAATTTAGGCCTATTTTTCGAGTC
47451229 TTATTTTTAT-TAAAAAATTAAAAAATTTAATACGGGCGGGCCAACTCAATTTTAGCATTTTTTG
1 TTATTTTTATATAAAAAATTAAAAAATTTAATACGGGCGGGCCAACTCAATTTTAGCATTTTTTG
47451293 TCTGGGTCAGACTTAAATAACAAATTTAGGCCTATTTTTCGAGTC
66 TCTGGGTCAGACTTAAATAACAAATTTAGGCCTATTTTTCGAGTC
47451338 GGACCCGTGC
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 99 0.91
110 10 0.09
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (110 bp):
TTATTTTTATATAAAAAATTAAAAAATTTAATACGGGCGGGCCAACTCAATTTTAGCATTTTTTG
TCTGGGTCAGACTTAAATAACAAATTTAGGCCTATTTTTCGAGTC
Found at i:47451818 original size:2 final size:2
Alignment explanation
Indices: 47451811--47451845 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47451801 TCTTTTCATA
47451811 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47451846 AAGGTTCCAA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47459094 original size:25 final size:26
Alignment explanation
Indices: 47459066--47459116 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
47459056 TAAACAAAGC
47459066 AATTTAAATAAATTAT-ATAAAAATA
1 AATTTAAATAAATTATAATAAAAATA
* * *
47459091 AATTTTAATTAATTTTAATAAAAATA
1 AATTTAAATAAATTATAATAAAAATA
47459117 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTTAAATAAATTATAATAAAAATA
Found at i:47459899 original size:6 final size:6
Alignment explanation
Indices: 47459888--47459931 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
47459878 ACCTTTTCCA
* * * *
47459888 CCACCG CCACCG CCACCG CCACTG CCCCCT CCACCT CCACCG CC
1 CCACCG CCACCG CCACCG CCACCG CCACCG CCACCG CCACCG CC
47459932 GTTGCAACCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.14, C:0.68, G:0.11, T:0.07
Consensus pattern (6 bp):
CCACCG
Found at i:47461895 original size:28 final size:28
Alignment explanation
Indices: 47461863--47461921 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
47461853 TCAAAATATC
47461863 ACACCAACAAATTTAATAAACAATATTA
1 ACACCAACAAATTTAATAAACAATATTA
*
47461891 ACACCAGCAAATTTAATAAACAATATTA
1 ACACCAACAAATTTAATAAACAATATTA
47461919 ACA
1 ACA
47461922 GTTAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.24
Consensus pattern (28 bp):
ACACCAACAAATTTAATAAACAATATTA
Found at i:47464789 original size:23 final size:22
Alignment explanation
Indices: 47464745--47464789 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
47464735 TTGAAAGGTT
**
47464745 GATGGTAGTTTTAGGGGCTATG
1 GATGGTAGTTTTAGGCACTATG
*
47464767 GATGAGTAGTTTTAGGCATTATG
1 GATG-GTAGTTTTAGGCACTATG
47464790 TTAAAAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.22, C:0.04, G:0.36, T:0.38
Consensus pattern (22 bp):
GATGGTAGTTTTAGGCACTATG
Found at i:47464902 original size:19 final size:19
Alignment explanation
Indices: 47464862--47464903 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
47464852 TTTTTATACT
* *
47464862 TTTTCCTTGAAAAATAGTA
1 TTTTCCTTAAAAAATAGAA
47464881 TTTTCCTTTAAAAAATA-AA
1 TTTTCC-TTAAAAAATAGAA
47464900 TTTT
1 TTTT
47464904 AAAATTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (19 bp):
TTTTCCTTAAAAAATAGAA
Found at i:47467071 original size:3 final size:3
Alignment explanation
Indices: 47467063--47467094 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
47467053 TCAATATCTG
47467063 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
47467095 GGTTCATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:47467552 original size:15 final size:16
Alignment explanation
Indices: 47467524--47467553 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47467514 CTGAGTCAGA
47467524 TTTCTATGGAACTGAG
1 TTTCTATGGAACTGAG
47467540 TTTCTAT-GAACTGA
1 TTTCTATGGAACTGA
47467554 CTCATCAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (16 bp):
TTTCTATGGAACTGAG
Found at i:47468083 original size:56 final size:56
Alignment explanation
Indices: 47467997--47468109 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
47467987 AACGGGTGTT
47467997 TGATAAAAATTTTAATCACCGCTTCATATAAGTAAAATGAAGAACTAACTCATAAG
1 TGATAAAAATTTTAATCACCGCTTCATATAAGTAAAATGAAGAACTAACTCATAAG
47468053 TGATAAAAATTTTAATCACCGCTTCATATAAGTAAAATGAAGAACTAACTCATAAG
1 TGATAAAAATTTTAATCACCGCTTCATATAAGTAAAATGAAGAACTAACTCATAAG
47468109 T
1 T
47468110 AGTATATGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (56 bp):
TGATAAAAATTTTAATCACCGCTTCATATAAGTAAAATGAAGAACTAACTCATAAG
Found at i:47477290 original size:18 final size:17
Alignment explanation
Indices: 47477267--47477305 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
47477257 TAATAAAAAC
47477267 AAACAAAGAAAAAATATA
1 AAACAAA-AAAAAATATA
*
47477285 AAAC-AATAAAAATATA
1 AAACAAAAAAAAATATA
47477301 AAACA
1 AAACA
47477306 TATACATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (17 bp):
AAACAAAAAAAAATATA
Found at i:47478022 original size:11 final size:11
Alignment explanation
Indices: 47478006--47478031 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47477996 TAAATATTAG
47478006 AAAAAACTAAA
1 AAAAAACTAAA
47478017 AAAAAACTAAA
1 AAAAAACTAAA
47478028 AAAA
1 AAAA
47478032 TCAGATTCAT
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:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAACTAAA
Found at i:47479205 original size:15 final size:16
Alignment explanation
Indices: 47479187--47479221 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47479177 TTTAATTTTT
*
47479187 TTTTA-GTTTGGATCA
1 TTTTAGGTTTGAATCA
47479202 TTTTAGGTTTGAATCA
1 TTTTAGGTTTGAATCA
47479218 TTTT
1 TTTT
47479222 GATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.20, C:0.06, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTTAGGTTTGAATCA
Found at i:47484215 original size:2 final size:2
Alignment explanation
Indices: 47484208--47484239 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47484198 AGGCTTAATA
47484208 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
47484240 GAGATAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47487127 original size:7 final size:7
Alignment explanation
Indices: 47487115--47487152 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
47487105 AGCAAGTTGT
47487115 GGTTTAG
1 GGTTTAG
47487122 GGTTTAG
1 GGTTTAG
47487129 GGTTTAG
1 GGTTTAG
47487136 GGTTTAG
1 GGTTTAG
47487143 GGTTTAG
1 GGTTTAG
47487150 GGT
1 GGT
47487153 CGAGTCGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:47489674 original size:20 final size:20
Alignment explanation
Indices: 47489649--47489735 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
47489639 CACTCAACAA
47489649 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
*
47489669 AAAAAATCACAATAATTTTT
1 AAAAAATCAAAATAATTTTT
* *
47489689 -AAAATTCAAAAT-ATTTAT
1 AAAAAATCAAAATAATTTTT
* * *
47489707 AAAAATTTCAAAATTTATATTT
1 AAAAA-ATCAAAA-TAATTTTT
47489729 AAAAAAT
1 AAAAAAT
47489736 TTCAAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.09
19 14 0.25
20 26 0.46
21 2 0.04
22 9 0.16
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTT
Found at i:47489737 original size:23 final size:24
Alignment explanation
Indices: 47489699--47489745 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
47489689 AAAATTCAAA
47489699 ATATTTATAAAAATTTCAAAATTT
1 ATATTTATAAAAATTTCAAAATTT
47489723 ATATTTA-AAAAATTTCAAAATTT
1 ATATTTATAAAAATTTCAAAATTT
47489746 TCTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTATAAAAATTTCAAAATTT
Found at i:47489753 original size:20 final size:19
Alignment explanation
Indices: 47489662--47489755 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
47489652 AAATCAAAAT
**
47489662 AATTTTTAAAAAATCACAA
1 AATTTTTAAAAAATTTCAA
47489681 TAATTTTT--AAAA-TTCAA
1 -AATTTTTAAAAAATTTCAA
*
47489698 AATATTTATAAAAATTTCAA
1 AATTTTTA-AAAAATTTCAA
47489718 AATTTATATTTAAAAAATTTCAA
1 AA--T-T-TTTAAAAAATTTCAA
47489741 AATTTTCTAAAAAAT
1 AATTTT-TAAAAAAT
47489756 ATATAAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
16 6 0.10
17 3 0.05
18 4 0.07
19 6 0.10
20 23 0.38
21 1 0.02
22 1 0.02
23 13 0.21
24 4 0.07
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTTTAAAAAATTTCAA
Found at i:47495812 original size:23 final size:24
Alignment explanation
Indices: 47495777--47495827 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47495767 ACAAGGTAAG
*
47495777 AAAAGAAATAAAG-AAATAAAAGA
1 AAAAGAAACAAAGAAAATAAAAGA
*
47495800 AAAAGGAACAAAGAAAATAAAAGA
1 AAAAGAAACAAAGAAAATAAAAGA
47495824 AAAA
1 AAAA
47495828 AAATTGAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (24 bp):
AAAAGAAACAAAGAAAATAAAAGA
Found at i:47496263 original size:7 final size:7
Alignment explanation
Indices: 47496247--47496286 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
47496237 CAATCACAAC
47496247 AAAAAA-
1 AAAAAAG
47496253 AAAAAAG
1 AAAAAAG
47496260 AAAAAAG
1 AAAAAAG
47496267 AAAAAAG
1 AAAAAAG
47496274 AAAAAAG
1 AAAAAAG
47496281 AAAAAA
1 AAAAAA
47496287 AGAAGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:47499848 original size:21 final size:21
Alignment explanation
Indices: 47499822--47499863 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47499812 GGAATTCAAA
*
47499822 AATTGAAAAAATTTGCAATGT
1 AATTGAAAAAATCTGCAATGT
47499843 AATTGAAAAAATCTGCAATGT
1 AATTGAAAAAATCTGCAATGT
47499864 TTCAAGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
AATTGAAAAAATCTGCAATGT
Found at i:47506129 original size:21 final size:21
Alignment explanation
Indices: 47506103--47506148 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
47506093 GCAAATGATG
47506103 TTCAAGCATTTCTGTTGTATT
1 TTCAAGCATTTCTGTTGTATT
47506124 TTCAAGCATTTCTGTTGTATT
1 TTCAAGCATTTCTGTTGTATT
47506145 TTCA
1 TTCA
47506149 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (21 bp):
TTCAAGCATTTCTGTTGTATT
Found at i:47507451 original size:20 final size:19
Alignment explanation
Indices: 47507426--47507528 Score: 68
Period size: 19 Copynumber: 5.3 Consensus size: 19
47507416 CTCAACAAAA
47507426 AAAAATTCAAAATATTTTTT
1 AAAAATTCAAAATA-TTTTT
*
47507446 AAAAATT-ACAATAATTTTT
1 AAAAATTCAAAAT-ATTTTT
* * *
47507465 -AAATTTTAAAATATTTAT
1 AAAAATTCAAAATATTTTT
47507483 AAAAATGTCAAAATTTATATTTT
1 AAAAAT-TCAAAA--TAT-TTTT
* * *
47507506 AAAATTTTAAAAT-TTTCT
1 AAAAATTCAAAATATTTTT
47507524 AAAAA
1 AAAAA
47507529 AATAAAAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
18 17 0.26
19 18 0.28
20 14 0.22
22 8 0.12
23 8 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:47507538 original size:42 final size:43
Alignment explanation
Indices: 47507458--47507557 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 43
47507448 AAATTACAAT
* * ** *
47507458 AATTTTTAAATTTTAAAATATTTATAAAAATGTCAAAAT-TTA
1 AATTTTAAAATTTTAAAATATTTAAAAAAATGAAAAAATCTAA
* *
47507500 TATTTTAAAATTTTAAAATTTTCTAAAAAAAT-AAAAAATCTAA
1 AATTTTAAAATTTTAAAATATT-TAAAAAAATGAAAAAATCTAA
47507543 AATTTTAAAAATTTT
1 AATTTT-AAAATTTT
47507558 CTAAAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
42 24 0.51
43 15 0.32
44 8 0.17
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (43 bp):
AATTTTAAAATTTTAAAATATTTAAAAAAATGAAAAAATCTAA
Found at i:47511684 original size:21 final size:21
Alignment explanation
Indices: 47511638--47511684 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
47511628 ATAAATTAAT
* *
47511638 GTTAAATAAGTTCATATAAAA
1 GTTAAATAAGATCAAATAAAA
*
47511659 TTTAAA-AAGATCAAATACAAA
1 GTTAAATAAGATCAAATA-AAA
47511680 GTTAA
1 GTTAA
47511685 GATTGGAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (21 bp):
GTTAAATAAGATCAAATAAAA
Found at i:47527422 original size:40 final size:40
Alignment explanation
Indices: 47527367--47527447 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
47527357 CTATCAAACT
47527367 CCTCAATCAATTCTAGAATCAACTTCCGATATTGAACTAA
1 CCTCAATCAATTCTAGAATCAACTTCCGATATTGAACTAA
47527407 CCTCAATCAATTCTAGAATCAACTTCCGATATTGAACTAA
1 CCTCAATCAATTCTAGAATCAACTTCCGATATTGAACTAA
47527447 C
1 C
47527448 TTTGGGTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (40 bp):
CCTCAATCAATTCTAGAATCAACTTCCGATATTGAACTAA
Found at i:47547437 original size:50 final size:49
Alignment explanation
Indices: 47547383--47547941 Score: 279
Period size: 50 Copynumber: 11.2 Consensus size: 49
47547373 GCAGCGGAAC
*
47547383 AGATTGAAGCTACGACGGTGAATCTTGCTTACCCGACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTTAAA
* * ** * **** *
47547433 AGATTGAAGCCACAACGGCGAATCTTAATTCCCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCTACGACGGCGAATCTTGCTTCCC-GAC-ATTGCAATTTAAA
*
47547483 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTTAAA
* * * * * ****
47547533 AGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
1 AGATTGAAGCTACGACGGCGAATCTTGCTTCCC-GAC-ATTGCAATTTAA-A
* * *
47547584 TG-TTGAAGCTACGACGACGAATCTTGCTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTTAAA
* * ** * **** *
47547633 AGATTGAAGCCACAACGGCGAATCTTAATTCCCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCTACGACGGCGAATCTTGCTTCCC-GAC-ATTGCAATTTAAA
*
47547683 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTTAAA
* * * * * * **** *
47547733 ATATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCTACGACGGCGAATCTTGCTTCCC-GAC-ATTGCAATTTAAA
* * * * * * *
47547783 AGATTTATGCTACAACGACGAATCTTCCTTCCCCGACATTGC-AGTCAAA
1 AGATTGAAGCTACGACGGCGAATCTTGCTT-CCCGACATTGCAATTTAAA
* * * ** * * * ** *
47547832 TAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGA-TACAGTGGAAC
1 -AGATTGAAGCTACGACGGCGAATCTTGCTTCCC-GAC-ATTGCAATTTAAA
* * * * *
47547883 AGATTGAAGCTACGATGGCAAATCTTGCTTTTCTGACATTGCAA-CTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGC-TTCCCGACATTGCAATTTAAA
47547932 AGATTGAAGC
1 AGATTGAAGC
47547942 CGCAACGACG
Statistics
Matches: 365, Mismatches: 120, Indels: 49
0.68 0.22 0.09
Matches are distributed among these distances:
49 36 0.10
50 306 0.84
51 23 0.06
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (49 bp):
AGATTGAAGCTACGACGGCGAATCTTGCTTCCCGACATTGCAATTTAAA
Found at i:47547491 original size:100 final size:100
Alignment explanation
Indices: 47547318--47547963 Score: 857
Period size: 100 Copynumber: 6.5 Consensus size: 100
47547308 AAGAAACTAT
* * * * * *
47547318 ACATTGCAATTTAAAAAATTAAAGCCACAACGGTGAATCTTACTTCTCAAGCGATGCAGCGGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * *
47547383 AGATTGAAGCTACGACGGTGAATCTTGCTTACCCG
66 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
*
47547418 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAATTCCCAGGCGATGCAGCAGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
47547483 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
66 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
* *
47547518 ACATTGCAATTTAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
*
47547583 ATG-TTGAAGCTACGACGACGAATCTTGCTTCCCCA
66 A-GATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
*
47547618 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAATTCCCAGGCGATGCAGCAGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
47547683 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
66 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
* *
47547718 ACATTGCAATTTAAAATATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGATGCAGCAGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * * * * *
47547783 AGATTTATGCTACAACGACGAATCTTCCTTCCCCG
66 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
* * * * * * * * * * **
47547818 ACATTGC-AGTCAAATAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATACAGTGGAA
1 ACATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAA
* * ** **
47547882 CAGATTGAAGCTACGATGGCAAATCTTGCTTTTCTG
65 CAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
* * * *
47547918 ACATTGCAA-CTAAAAGATTGAAGCCGCAACGACGAATCTTATTTCC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
47547964 TCGATAAGAC
Statistics
Matches: 481, Mismatches: 61, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
99 30 0.06
100 449 0.93
101 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCA
Found at i:47548317 original size:20 final size:20
Alignment explanation
Indices: 47548294--47548344 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
47548284 CCCTAGCCCT
**
47548294 GCCACCGCCATGGTCACGTC
1 GCCACCGCCACAGTCACGTC
47548314 GCCACCGCCACAGTCACGTC
1 GCCACCGCCACAGTCACGTC
* *
47548334 ACCACCACCAC
1 GCCACCGCCAC
47548345 TTGCGCCGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.51, G:0.18, T:0.10
Consensus pattern (20 bp):
GCCACCGCCACAGTCACGTC
Found at i:47549247 original size:3 final size:3
Alignment explanation
Indices: 47549239--47549312 Score: 58
Period size: 3 Copynumber: 24.7 Consensus size: 3
47549229 CATTACTTTC
* * * * * * *
47549239 ATT ATT ATT ATT ATT ATT GTT ATC CTC ACT ATT ATT GTT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
47549287 ATT AAT ATT ATT GTT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
47549313 GTTTTCGCTT
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:47550041 original size:7 final size:7
Alignment explanation
Indices: 47550025--47550099 Score: 73
Period size: 7 Copynumber: 10.3 Consensus size: 7
47550015 GCCCGTATGA
*
47550025 TTATTTT
1 TTATTGT
47550032 TTATTGT
1 TTATTGT
47550039 TTATTGT
1 TTATTGT
47550046 TTATTTGT
1 TTA-TTGT
47550054 TTCATT-T
1 TT-ATTGT
*
47550061 CATT-TTAT
1 --TTATTGT
47550069 TTATTGT
1 TTATTGT
47550076 TTATTGT
1 TTATTGT
47550083 TTATTGT
1 TTATTGT
47550090 TTATTTGT
1 TTA-TTGT
47550098 TT
1 TT
47550100 CATTTTATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
6 2 0.03
7 39 0.66
8 15 0.25
9 3 0.05
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (7 bp):
TTATTGT
Found at i:47550079 original size:44 final size:44
Alignment explanation
Indices: 47550025--47550109 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
47550015 GCCCGTATGA
*
47550025 TTATTTTTTATTGTTTATTGTTTATTTGTTTCATTTCATTTTAT
1 TTATTGTTTATTGTTTATTGTTTATTTGTTTCATTTCATTTTAT
*
47550069 TTATTGTTTATTGTTTATTGTTTATTTGTTTCATTTTATTT
1 TTATTGTTTATTGTTTATTGTTTATTTGTTTCATTTCATTT
47550110 ACATTGTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (44 bp):
TTATTGTTTATTGTTTATTGTTTATTTGTTTCATTTCATTTTAT
Found at i:47550131 original size:44 final size:44
Alignment explanation
Indices: 47550032--47550128 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
47550022 TGATTATTTT
* **
47550032 TTATTGTTTATTGTTTATTTGTTTCATTTCATTTTATTTATTGT
1 TTATTGTTTATTGTTTATTTGTTTCATTTCATTTCATTTATTCA
*
47550076 TTATTGTTTATTGTTTATTTGTTTCATTTTATTTACATTGTA-TCA
1 TTATTGTTTATTGTTTATTTGTTTCATTTCATTT-CATT-TATTCA
47550121 TTATTGTT
1 TTATTGTT
47550129 ATTTTACACT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
44 33 0.70
45 12 0.26
46 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.09, T:0.68
Consensus pattern (44 bp):
TTATTGTTTATTGTTTATTTGTTTCATTTCATTTCATTTATTCA
Found at i:47556372 original size:72 final size:72
Alignment explanation
Indices: 47555847--47556355 Score: 785
Period size: 72 Copynumber: 7.1 Consensus size: 72
47555837 TCAGGAACGG
* ** **
47555847 TTCCAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGAGGTGGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
47555912 GGACAAA
66 GGACAAA
47555919 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAG-AGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTC-GCAGAACCAATTGAG
47555983 TGGACAAA
65 TGGACAAA
* *
47555991 TTCCAAGATCATTGGGGAACCTCTTGCAAGTCACTCATTTAGACTTGTCAG-GGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTC-GCAGAACCAATTGAG
47556055 TGGACAAA
65 TGGACAAA
* *
47556063 TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTATACTTGGT-GCAGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT-GTCGCAGAACCAATTGAG
47556127 TGGACAAA
65 TGGACAAA
* *
47556135 TTCCAAGATCATTGGGGAACCTCTTGCAACTCATTCATTTACG-CTTGTCGCTGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTA-GACTTGTCGCAGAACCAATTGAG
47556199 TGGACAAA
65 TGGACAAA
* *
47556207 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGACTTGTCGGAGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
* *
47556272 CGAAAAA
66 GGACAAA
* *
47556279 TTCCAAGATCATTAGGGAACCTGC-TGCAACTCACTCAGTTAGACTTGTCGCAGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCT-CTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAG
47556343 TGGACAAA
65 TGGACAAA
47556351 TTCCA
1 TTCCA
47556356 TCGTCAATTC
Statistics
Matches: 404, Mismatches: 26, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
71 4 0.01
72 396 0.98
73 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (72 bp):
TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
GGACAAA
Found at i:47558829 original size:3 final size:3
Alignment explanation
Indices: 47558821--47558865 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
47558811 GAAGTGGTGT
47558821 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47558866 AGCAATTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47560443 original size:17 final size:17
Alignment explanation
Indices: 47560421--47560453 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47560411 TATACTAATG
*
47560421 AATACAAATAATCAATT
1 AATACAAATAAGCAATT
47560438 AATACAAATAAGCAAT
1 AATACAAATAAGCAAT
47560454 ACAATACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AATACAAATAAGCAATT
Found at i:47561092 original size:32 final size:33
Alignment explanation
Indices: 47561030--47561096 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
47561020 AAAATAAGTA
*
47561030 AATATATAAACTAATAATAGTAATACCAATAAT
1 AATATATAAACTAATAATACTAATACCAATAAT
* *
47561063 AATA-ATAAACTAAATAATTCT-ATAGCAATAAT
1 AATATATAAACT-AATAATACTAATACCAATAAT
47561095 AA
1 AA
47561097 CAAACAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (33 bp):
AATATATAAACTAATAATACTAATACCAATAAT
Found at i:47563464 original size:12 final size:12
Alignment explanation
Indices: 47563447--47563471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47563437 TTAACAAGAG
47563447 ATGCTATTGTAA
1 ATGCTATTGTAA
47563459 ATGCTATTGTAA
1 ATGCTATTGTAA
47563471 A
1 A
47563472 ATTTAATGAA
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGCTATTGTAA
Found at i:47564035 original size:13 final size:13
Alignment explanation
Indices: 47564012--47564072 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
47564002 ACACTCACAT
*
47564012 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
*
47564025 TTCTCAAAAGTAC
1 TTTTCAAAAGTAC
* *
47564038 TTTTCCACAA-CAC
1 TTTT-CAAAAGTAC
47564051 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
47564064 TTTTCAAAA
1 TTTTCAAAA
47564073 ATAATGAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.10
13 31 0.79
14 4 0.10
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:47571156 original size:57 final size:56
Alignment explanation
Indices: 47571074--47571367 Score: 333
Period size: 57 Copynumber: 5.4 Consensus size: 56
47571064 GCAAGTGTGA
* *
47571074 AGTCAATAGACAATTGATAGTCTTAGTCTTGGTCTTTTTTTTGTCGAGTTAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTC-TTTTTTTGTCGAGTTAAAGTAT
* * *
47571131 AGTCAATAGACAACTGAT-G-----GTCTTAGTCTTTGTTTGTGGAGTTAAAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTT--AAAGTAT
* * * *
47571183 AGTCAATAGGCAATGGATAGTCCTAGTCTTAAGTCTTTTTTTGTCGAGTTAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTCTT-AGTCTTTTTTTGTCGAGTTAAAGTAT
* * *
47571240 AGTCAATAGACAA--G-T-G--ATAGTCTTAGTCTTTGTTTGTAGAGTTAAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTT-AAAGTAT
* *
47571291 AGTCAATAGACAATTGATAGTCTTCGTCTTAGTCTTTTTTTGTGGAGTTAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTAT
47571347 AGTCAATAGACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
47571368 TAAATCTGTA
Statistics
Matches: 201, Mismatches: 20, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
50 30 0.15
51 34 0.17
52 21 0.10
53 3 0.01
54 2 0.01
55 2 0.01
56 29 0.14
57 58 0.29
58 5 0.02
59 17 0.08
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (56 bp):
AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTAT
Found at i:47571265 original size:109 final size:107
Alignment explanation
Indices: 47571074--47571367 Score: 462
Period size: 109 Copynumber: 2.7 Consensus size: 107
47571064 GCAAGTGTGA
*
47571074 AGTCAATAGACAATTGATAGTCTTAGTCTTGGTCTTTTTTTTGTCGAGTTAAAGTGTAGTCAATA
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTC-TTTTTTTGTCGAGTTAAAGTGTAGTCAATA
* *
47571139 GACAACTGATGGTCTTAGTCTTTGTTTGTGGAGTTAAAAAGTAT
65 GACAACTGATAGTCTTAGTCTTTGTTTGTAGAGTT-AAAAGTAT
* * *
47571183 AGTCAATAGGCAATGGATAGTCCTAGTCTTAAGTCTTTTTTTGTCGAGTTAAAGTGTAGTCAATA
1 AGTCAATAGACAATTGATAGTCTTAGTCTT-AGTCTTTTTTTGTCGAGTTAAAGTGTAGTCAATA
*
47571248 GACAAGTGATAGTCTTAGTCTTTGTTTGTAGAGTTAAAAGTAT
65 GACAACTGATAGTCTTAGTCTTTGTTTGTAGAGTTAAAAGTAT
* * *
47571291 AGTCAATAGACAATTGATAGTCTTCGTCTTAGTCTTTTTTTGTGGAGTTAAAGTATAGTCAATAG
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTGTAGTCAATAG
*
47571356 ACAATTGATAGT
66 ACAACTGATAGT
47571368 TAAATCTGTA
Statistics
Matches: 170, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
107 44 0.26
108 34 0.20
109 89 0.52
110 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (107 bp):
AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTGTAGTCAATAG
ACAACTGATAGTCTTAGTCTTTGTTTGTAGAGTTAAAAGTAT
Found at i:47571288 original size:51 final size:50
Alignment explanation
Indices: 47571206--47571367 Score: 207
Period size: 51 Copynumber: 3.1 Consensus size: 50
47571196 TGGATAGTCC
* * *
47571206 TAGTCTTAAGTCTTTTTTTGTCGAGTTAAAGTGTAGTCAATAGACAAGTGA
1 TAGTCTT-AGTCTTTTTTTGTAGAGTTAAAGTATAGTCAATAGACAATTGA
*
47571257 TAGTCTTAGTCTTTGTTTGTAGAGTTAAAAGTATAGTCAATAGACAATTGA
1 TAGTCTTAGTCTTTTTTTGTAGAGTT-AAAGTATAGTCAATAGACAATTGA
*
47571308 TAGTCTTCGTCTTAGTCTTTTTTTGTGGAGTTAAAGTATAGTCAATAGACAATTGA
1 TA------GTCTTAGTCTTTTTTTGTAGAGTTAAAGTATAGTCAATAGACAATTGA
47571364 TAGT
1 TAGT
47571368 TAAATCTGTA
Statistics
Matches: 98, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
50 19 0.19
51 31 0.32
56 26 0.27
57 22 0.22
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (50 bp):
TAGTCTTAGTCTTTTTTTGTAGAGTTAAAGTATAGTCAATAGACAATTGA
Found at i:47573788 original size:72 final size:72
Alignment explanation
Indices: 47573579--47573793 Score: 310
Period size: 72 Copynumber: 3.0 Consensus size: 72
47573569 CCAAAATCAC
* **
47573579 TGGGGAACCTCTTGCAACTCACTCGTTTAGACTTGTCGTGGAACCAATTGAGTGGACAAATTCCA
1 TGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGTGGACAAATTCCA
*
47573644 -AGATCAT
66 TTG-TCAT
*
47573651 TGGGAAACCTCTTGCAACTCACTCATTTACG-CTTGTCGCAGAACCAATTGAGTGGACAAATTCC
1 TGGGGAACCTCTTGCAACTCACTCATTTA-GACTTGTCGCAGAACCAATTGAGTGGACAAATTCC
47573715 ATTGTCAT
65 ATTGTCAT
* * *
47573723 TGGGGAACCTCCTGCAACTCACTTC-TTTAGACTTCTCGCAGAACCAACTGAGTGGACAAATTCC
1 TGGGGAACCTCTTGCAACTCAC-TCATTTAGACTTGTCGCAGAACCAATTGAGTGGACAAATTCC
47573787 ATTGTCA
65 ATTGTCA
47573794 ATTCTAAACC
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
71 1 0.01
72 125 0.96
73 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (72 bp):
TGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGTGGACAAATTCCA
TTGTCAT
Found at i:47579992 original size:29 final size:29
Alignment explanation
Indices: 47579950--47580005 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
47579940 TTTTTTCATC
47579950 TGATAAACAATGTAAGTTTAAGGGTTATT
1 TGATAAACAATGTAAGTTTAAGGGTTATT
* *
47579979 TGATAAATAATGTAGGTTTAAGGGTTA
1 TGATAAACAATGTAAGTTTAAGGGTTA
47580006 AAAAAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (29 bp):
TGATAAACAATGTAAGTTTAAGGGTTATT
Found at i:47582968 original size:72 final size:71
Alignment explanation
Indices: 47582880--47583100 Score: 318
Period size: 72 Copynumber: 3.1 Consensus size: 71
47582870 TCAGGACCGG
* * * * * * *
47582880 TTCCAAAATCACTGGGGAATCTCTTGCAACTCACTCATTTAGACTTATCCGG-GAACCAGTTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGT--GGAGAACCAATTGAG
47582944 TGGACAAA
64 TGGACAAA
*
47582952 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGTGGCAAAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGTGG-AGAACCAATTGAGT
47583017 GGACAAA
65 GGACAAA
*
47583024 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGTGGCAGAACCAATTGAAT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGTGG-AGAACCAATTGAGT
47583089 GGACAAA
65 GGACAAA
47583096 TTCCA
1 TTCCA
47583101 TTGTCAATTC
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
70 2 0.01
72 135 0.99
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (71 bp):
TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTAGGCTTGTGGAGAACCAATTGAGTG
GACAAA
Found at i:47588730 original size:25 final size:25
Alignment explanation
Indices: 47588698--47588763 Score: 100
Period size: 24 Copynumber: 2.7 Consensus size: 25
47588688 TTTTAGATTT
47588698 ATTATGTATTATTACTTTAAAATTC
1 ATTATGTATTATTACTTTAAAATTC
*
47588723 ATTATGTATTATTA-TTTAAAATTT
1 ATTATGTATTATTACTTTAAAATTC
47588747 ATTATGT-TTCATTACTT
1 ATTATGTATT-ATTACTT
47588764 AAATTTATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
23 2 0.05
24 20 0.53
25 16 0.42
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
ATTATGTATTATTACTTTAAAATTC
Found at i:47588908 original size:16 final size:15
Alignment explanation
Indices: 47588887--47588957 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 15
47588877 GTATTAAAGA
47588887 TTTATATGAAAATATT
1 TTTATAT-AAAATATT
*
47588903 TTTATATAATACTATT
1 TTTATATAA-AATATT
* *
47588919 TTATATATATACATATAA
1 TT-TATATA-AAATAT-T
*
47588937 TTTATATTAAATTATT
1 TTTATA-TAAAATATT
47588953 TTTAT
1 TTTAT
47588958 TCTATATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
15 2 0.05
16 19 0.44
17 17 0.40
18 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (15 bp):
TTTATATAAAATATT
Found at i:47588929 original size:19 final size:19
Alignment explanation
Indices: 47588903--47588943 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 19
47588893 TGAAAATATT
47588903 TTTATATA-ATAC-TAT--
1 TTTATATATATACATATAA
47588918 TTTATATATATACATATAA
1 TTTATATATATACATATAA
47588937 TTTATAT
1 TTTATAT
47588944 TAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 3 0.14
19 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATATATATACATATAA
Found at i:47591142 original size:16 final size:16
Alignment explanation
Indices: 47591101--47591152 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
47591091 TGGTTCACTA
*
47591101 TAATGGAATAGAGTTG
1 TAATGGAATAGAGCTG
**
47591117 TAATTTAATAGAGCTG
1 TAATGGAATAGAGCTG
* *
47591133 TAATGGAATAAAGCTA
1 TAATGGAATAGAGCTG
47591149 TAAT
1 TAAT
47591153 CTATAATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:47592560 original size:36 final size:36
Alignment explanation
Indices: 47592452--47592636 Score: 94
Period size: 36 Copynumber: 5.1 Consensus size: 36
47592442 CTTGGGAGAC
47592452 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
* ** * ** ** * * *
47592488 AATCTCTTGCAATTCACTCATT--TAGACTTATCGGGG
1 AACCAATTG-AGTGGACAAATTCCAAGA-TCATTGGGG
47592524 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
** * * ** * *
47592560 AACCTCTTGCAACT-CACTCATT--TAGA-CTTGTCGGGG
1 AACCAATTG--AGTGGACAAATTCCAAGATCAT-T-GGGG
*
47592596 AATCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
47592632 AACCA
1 AACCA
47592637 CTTGCAACTC
Statistics
Matches: 97, Mismatches: 40, Indels: 24
0.60 0.25 0.15
Matches are distributed among these distances:
34 4 0.04
35 19 0.20
36 51 0.53
37 19 0.20
38 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (36 bp):
AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
Found at i:47592707 original size:36 final size:36
Alignment explanation
Indices: 47592452--47592707 Score: 91
Period size: 36 Copynumber: 7.1 Consensus size: 36
47592442 CTTGGGAGAC
*
47592452 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
* ** * ** ** * *
47592488 AATCTCTTGCAATTCACTCATT-T-AGACTTATCGGGG
1 AACCAATTG-AGTGGACAAATTCTAAGA-TCATTGGGG
*
47592524 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
** * * ** *
47592560 AACCTCTTGCAACT-CACTCATT-T-AGA-CTTGTCGGGG
1 AACCAATTG--AGTGGACAAATTCTAAGATCAT-T-GGGG
* *
47592596 AATCAATTGAGTGGACAAATTCCAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
* * * ** * **
47592632 AACCACTTGCAACT-CACTCATT-T-AGACTTC-TCGCAG
1 AACCAATTG--AGTGGACAAATTCTAAGA--TCATTGGGG
47592668 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
1 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
47592704 AACC
1 AACC
47592708 TCTTGCAACT
Statistics
Matches: 143, Mismatches: 57, Indels: 40
0.60 0.24 0.17
Matches are distributed among these distances:
34 6 0.04
35 29 0.20
36 73 0.51
37 29 0.20
38 6 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (36 bp):
AACCAATTGAGTGGACAAATTCTAAGATCATTGGGG
Found at i:47592996 original size:72 final size:72
Alignment explanation
Indices: 47592452--47592979 Score: 867
Period size: 72 Copynumber: 7.3 Consensus size: 72
47592442 CTTGGGAGAC
* *
47592452 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAATCTCTTGCAATTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
* **
47592517 ATCGGGG
66 CTCGCAG
47592524 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
* **
47592589 GTCGGGG
66 CTCGCAG
* *
47592596 AATCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCACTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
47592661 CTCGCAG
66 CTCGCAG
*
47592668 AACCAATTGAGTGGACAAATTCTAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
* *
47592733 GTGGCAG
66 CTCGCAG
* * *
47592740 AACCAATTGAGTGGACAAATTTCAAGATCATTGGGCAACCTCTTGCAACTCACTTATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
* * *
47592805 GTCACAA
66 CTCGCAG
*
47592812 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCACTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
47592877 CTCACAG
66 CTCGCAG
47592884 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
47592949 CTCGCAG
66 CTCGCAG
47592956 AACCAATTGAGTGGACAAATTCCA
1 AACCAATTGAGTGGACAAATTCCA
47592980 TTGTCAATTC
Statistics
Matches: 428, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 428 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (72 bp):
AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
CTCGCAG
Done.