Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 98 of 276
Found at i:30904172 original size:50 final size:50
Alignment explanation
Indices: 30904113--30904213 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
30904103 TTCTTTTAGT
** *
30904113 TCTTTCCATATGATGCCATAACCCACC-AGTAATGGTCTTACACAATATGG
1 TCTTTCCATAAAATGCCATAACCCACCAACT-ATGGTCTTACACAATATGG
* *
30904163 TCTTTCCATAAAATGCCATAGCCCACCAACTATGGTCTTACTCAATATGG
1 TCTTTCCATAAAATGCCATAACCCACCAACTATGGTCTTACACAATATGG
30904213 T
1 T
30904214 GCCATGAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 43 0.96
51 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (50 bp):
TCTTTCCATAAAATGCCATAACCCACCAACTATGGTCTTACACAATATGG
Found at i:30916188 original size:12 final size:12
Alignment explanation
Indices: 30916171--30916200 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
30916161 CTTGCACACA
30916171 CGTGTGCTAGGC
1 CGTGTGCTAGGC
30916183 CGTGTGCTAGGC
1 CGTGTGCTAGGC
30916195 CGTGTG
1 CGTGTG
30916201 AAGCTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:30921532 original size:29 final size:30
Alignment explanation
Indices: 30921472--30921533 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
30921462 ATTTATTTTA
*
30921472 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
30921502 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
30921531 TTG
1 TTG
30921534 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:30926473 original size:27 final size:27
Alignment explanation
Indices: 30926442--30926495 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30926432 AAAATTATGC
30926442 CTTCAACTGTTTTAGAAATTTTAGTTT
1 CTTCAACTGTTTTAGAAATTTTAGTTT
30926469 CTTCAACTGTTTTAGAAATTTTAGTTT
1 CTTCAACTGTTTTAGAAATTTTAGTTT
30926496 TCACTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (27 bp):
CTTCAACTGTTTTAGAAATTTTAGTTT
Found at i:30927452 original size:38 final size:36
Alignment explanation
Indices: 30927410--30927489 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 36
30927400 ATTTTTAAAA
*
30927410 TAAAAATC-GATAAAAAAACAAGTTTTAACAAAATTATT
1 TAAAAATCTGATAAAAAAA-AA-TTATAACAAAA-TATT
*
30927448 TAAAAAATCTGATATAAAAAAATTATAACAAAATATT
1 T-AAAAATCTGATAAAAAAAAATTATAACAAAATATT
*
30927485 CAAAA
1 TAAAA
30927490 TGAGAGTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 4 0.11
37 4 0.11
38 11 0.30
39 9 0.24
40 9 0.24
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (36 bp):
TAAAAATCTGATAAAAAAAAATTATAACAAAATATT
Found at i:30928226 original size:21 final size:23
Alignment explanation
Indices: 30928201--30928254 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
30928191 TTATATTAGT
30928201 ATATTTTATATTG-TTT-AAATC
1 ATATTTTATATTGTTTTAAAATC
* *
30928222 GTATTTTA-ATTGTTTTAAAATT
1 ATATTTTATATTGTTTTAAAATC
30928244 ATATTTTATAT
1 ATATTTTATAT
30928255 AACTTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 11 0.41
23 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
ATATTTTATATTGTTTTAAAATC
Found at i:30929236 original size:22 final size:21
Alignment explanation
Indices: 30929207--30929261 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
30929197 TTTATAAGTT
30929207 ATATAAAATATAATTTTAAAACA
1 ATATAAAATATAA-TTT-AAACA
**
30929230 AT-TAAAATACGATTTAAACA
1 ATATAAAATATAATTTAAACA
30929250 ATATAAAATATA
1 ATATAAAATATA
30929262 CTAATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.26
21 10 0.37
22 8 0.30
23 2 0.07
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATATAAAATATAATTTAAACA
Found at i:30930114 original size:24 final size:22
Alignment explanation
Indices: 30930078--30930127 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
30930068 AATTAACTTA
*
30930078 AAAATCAATAAAA-TAAAATTATT
1 AAAATCAACAAAACT-AAATTA-T
30930101 AAAATCTAACAAAACTAAATTAT
1 AAAATC-AACAAAACTAAATTAT
30930124 AAAA
1 AAAA
30930128 CAAACTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 11 0.46
24 12 0.50
25 1 0.04
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATCAACAAAACTAAATTAT
Found at i:30932173 original size:47 final size:47
Alignment explanation
Indices: 30932100--30932381 Score: 168
Period size: 47 Copynumber: 5.8 Consensus size: 47
30932090 ATTTGTTTGT
* *
30932100 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TATGA
* *
30932146 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGACATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CATATGA
* * *
30932194 GAGCTAGTGTAAGA-CATGTTTGGGACATGTTTGGGACATGCATCGGCCTCA-A-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACA----T--G----GCATCGGCCACATATGA
* * * **
30932248 CGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATTT
1 -G--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATATGA
* * * ***
30932297 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGA
*
30932343 TGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
30932382 ACCTTACCCA
Statistics
Matches: 187, Mismatches: 25, Indels: 47
0.72 0.10 0.18
Matches are distributed among these distances:
46 33 0.18
47 80 0.43
48 33 0.18
49 1 0.01
51 1 0.01
53 2 0.01
54 2 0.01
55 2 0.01
56 1 0.01
57 31 0.17
58 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGA
Found at i:30932222 original size:11 final size:11
Alignment explanation
Indices: 30932206--30932233 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30932196 GCTAGTGTAA
30932206 GACATGTTTGG
1 GACATGTTTGG
30932217 GACATGTTTGG
1 GACATGTTTGG
30932228 GACATG
1 GACATG
30932234 CATCGGCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (11 bp):
GACATGTTTGG
Found at i:30938341 original size:19 final size:19
Alignment explanation
Indices: 30938310--30938360 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
30938300 CTATAGAAAC
30938310 TCACAATTT-CAA-TTATT
1 TCACAATTTACAATTTATT
30938327 TCACACATTTACAATTTATT
1 TCACA-ATTTACAATTTATT
*
30938347 TTACAACTTTACAA
1 TCACAA-TTTACAA
30938361 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
TCACAATTTACAATTTATT
Found at i:30941480 original size:41 final size:41
Alignment explanation
Indices: 30941434--30941648 Score: 159
Period size: 41 Copynumber: 5.1 Consensus size: 41
30941424 GCTTTAAGCT
* *
30941434 GGTGAATATTATTGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
* *** * * *
30941475 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAAGC-GTAATGCC
*
30941518 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
* *** * * *
30941559 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAAGC-GTAATGCC
*
30941602 GGTGAATATTATCGAGCTCCGAGCCTAGCAAGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
*
30941643 AGTGAA
1 GGTGAA
30941649 ATGATATCGG
Statistics
Matches: 128, Mismatches: 34, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
40 10 0.08
41 40 0.31
42 34 0.27
43 34 0.27
44 10 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
Found at i:30941491 original size:84 final size:84
Alignment explanation
Indices: 30941370--30941679 Score: 566
Period size: 84 Copynumber: 3.7 Consensus size: 84
30941360 TTCGAGCTTT
*
30941370 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTATCAAGCTTTAAGCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
*
30941435 GTGAATATTATTGGGCTCC
66 GTGAATATTATCGGGCTCC
30941454 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
30941519 GTGAATATTATCGGGCTCC
66 GTGAATATTATCGGGCTCC
30941538 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
*
30941603 GTGAATATTATCGAGCTCC
66 GTGAATATTATCGGGCTCC
* * *
30941622 GAGCCTAGCAAGCGTAATGCCAGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
30941680 ATTGCCAGTG
Statistics
Matches: 220, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 220 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (84 bp):
GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
GTGAATATTATCGGGCTCC
Found at i:30941690 original size:43 final size:43
Alignment explanation
Indices: 30941374--30941674 Score: 214
Period size: 42 Copynumber: 7.1 Consensus size: 43
30941364 AGCTTTGAGC
*
30941374 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * * * * *** *
30941417 CTATCAAGCTTTAA-GCTGGTG-AAT-ATTATTGGGCTCCGA-GC
1 CTAGCAAGC-GTAATGCCGGTGAAATGA-TATCGGACTTAAAGGT
*
30941458 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * * *** *
30941501 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCCGA-GC
1 CTAGCAAGC-GTAATGCCGGTGAAATGA-TATCGGACTTAAAGGT
*
30941542 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * *** *
30941585 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATC-GAGCTCCGA-GC
1 CTAGCAAGC-GTAATGCCGGTGAAATGA-TATCGGA-CTTAAAGGT
*
30941626 CTAGCAAGCGTAATGCCAGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
30941669 CTAGCA
1 CTAGCA
30941675 GGCTTATTGC
Statistics
Matches: 188, Mismatches: 50, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
40 9 0.05
41 49 0.26
42 66 0.35
43 55 0.29
44 9 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
CTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
Found at i:30946261 original size:42 final size:42
Alignment explanation
Indices: 30946214--30946365 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
30946204 AATCATACCA
* ** *
30946214 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
30946256 ATGCCA-ATACCCAGCTATGGTCTTATA-CAATTCTCATATCG
1 ATGCCATAT-CCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
30946297 ATGCCATGTCCTAGACATGGTCCTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCG
30946339 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
30946366 CGTAAACTCA
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 30 0.35
42 54 0.63
43 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:30949056 original size:23 final size:23
Alignment explanation
Indices: 30949030--30949287 Score: 189
Period size: 23 Copynumber: 10.7 Consensus size: 23
30949020 CAAAGTGCCA
* *
30949030 CACTGTAATATAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
30949053 CACTGTAACGTAGTCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
30949076 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
30949099 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
30949122 CGCTGTATTGTAGCCGAAGCTCAGTGCTAC
1 CACTGTAATGTAGCCG-A----A--GCTAC
* * *
30949152 CACTATATTGTAGCTGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
30949175 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
30949198 CACTATATTGTAGTCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
30949221 CACTACCACTGAGATGTAGCCAAAGCTAC
1 CACT----GT-A-ATGTAGCCGAAGCTAC
* *
30949250 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
30949273 CACTG-AGATGTAGCC
1 CACTGTA-ATGTAGCC
30949288 TATAGATTCC
Statistics
Matches: 187, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
22 3 0.02
23 139 0.74
24 4 0.02
25 2 0.01
27 1 0.01
28 2 0.01
29 18 0.10
30 18 0.10
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:30949197 original size:76 final size:76
Alignment explanation
Indices: 30949071--30949276 Score: 256
Period size: 76 Copynumber: 2.7 Consensus size: 76
30949061 CGTAGTCGAA
* * * *
30949071 GCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTACCGCTGTATTGTAGC
1 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGC
30949136 CGAAGCTCAGT
66 CGAAGCTCAGT
* *
30949147 GCTACCACTATATTGTAGCTGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGT
1 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGC
**
30949212 CGAAGCT-ACC
66 CGAAGCTCAGT
* * * * *
30949222 ACTACCACTGAGA-TGTAGCCAAAGCTACCACT-ATATTGTAGCCGAAGCTACCACT
1 GCTACCACT-ATATTGTAGCCGAAGCTACCACTGAGA-TGTAGCCAAAGCTACCACT
30949277 GAGATGTAGC
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
74 2 0.02
75 44 0.39
76 68 0.60
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (76 bp):
GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGC
CGAAGCTCAGT
Found at i:30949217 original size:46 final size:45
Alignment explanation
Indices: 30949147--30949287 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 45
30949137 GAAGCTCAGT
30949147 GCTACCACTATATTGTAGCTGAAGCTACCACTGAGATGTAGCCAAA
1 GCTACCACTATATTGTAGC-GAAGCTACCACTGAGATGTAGCCAAA
30949193 GCTACCACTATATTGTAGTCGAAGCTACCACTACCACTGAGATGTAGCCAAA
1 GCTACCACTATATTGTAG-CGAAG------CTACCACTGAGATGTAGCCAAA
30949245 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCC
1 GCTACCACTATATTGTAG-CGAAGCTACCACTGAGATGTAGCC
30949288 TATAGATTCC
Statistics
Matches: 87, Mismatches: 1, Indels: 14
0.85 0.01 0.14
Matches are distributed among these distances:
46 41 0.47
47 1 0.01
52 45 0.52
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (45 bp):
GCTACCACTATATTGTAGCGAAGCTACCACTGAGATGTAGCCAAA
Found at i:30949234 original size:52 final size:52
Alignment explanation
Indices: 30949171--30949276 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
30949161 GTAGCTGAAG
*
30949171 CTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGTCGAAGCTACCA
1 CTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCA
30949223 CTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCA
1 CTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCA
30949275 CT
1 CT
30949277 GAGATGTAGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (52 bp):
CTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCA
Found at i:30949238 original size:29 final size:29
Alignment explanation
Indices: 30949171--30949254 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
30949161 GTAGCTGAAG
30949171 CTACCACTGAGATGTAGCCAAAGCTACCA
1 CTACCACTGAGATGTAGCCAAAGCTACCA
* * *
30949200 CT---A-T-A-TTGTAGTCGAAGCTACCA
1 CTACCACTGAGATGTAGCCAAAGCTACCA
30949223 CTACCACTGAGATGTAGCCAAAGCTACCA
1 CTACCACTGAGATGTAGCCAAAGCTACCA
30949252 CTA
1 CTA
30949255 TATTGTAGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
23 17 0.40
24 1 0.02
25 1 0.02
26 2 0.05
27 1 0.02
28 1 0.02
29 20 0.47
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (29 bp):
CTACCACTGAGATGTAGCCAAAGCTACCA
Found at i:30949789 original size:29 final size:29
Alignment explanation
Indices: 30949752--30949808 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
30949742 CATATCAAAT
* * *
30949752 TTTTGAAAATTTACAATTTTGCCCCTAAC
1 TTTTCAAAAATTACAATTTTACCCCTAAC
*
30949781 TTTTCAAAAATTACACTTTTACCCCTAA
1 TTTTCAAAAATTACAATTTTACCCCTAA
30949809 GCTCGTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTCAAAAATTACAATTTTACCCCTAAC
Found at i:30953770 original size:46 final size:47
Alignment explanation
Indices: 30953621--30953843 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 47
30953611 GTTGTTGTTG
* * *
30953621 GCTAGTGTAAGACATGTCAGGGACATGCATCGGCC---ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATCAT-A-A
* *** *
30953667 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGATATTTGAGA-CGA-GA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG-GCCTTGAGATC-ATAA
*
30953716 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGA-CATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATCATAA
* * *
30953762 GCTAGTGTAAGACATGTATGGGACATGCATCGG-CTACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATCATAA
30953808 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
30953844 ACCTTACCCA
Statistics
Matches: 144, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.03
46 66 0.46
47 33 0.23
48 25 0.17
49 13 0.09
52 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATCATAA
Found at i:30959897 original size:20 final size:20
Alignment explanation
Indices: 30959849--30959890 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
30959839 ACTTCACACG
*
30959849 CCCTAGGCACATGCCCATGT
1 CCCTAGGCCCATGCCCATGT
30959869 CCCTAGGCCCATGCCCATGT
1 CCCTAGGCCCATGCCCATGT
30959889 CC
1 CC
30959891 TTGGGCCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.45, G:0.19, T:0.19
Consensus pattern (20 bp):
CCCTAGGCCCATGCCCATGT
Found at i:30969656 original size:55 final size:54
Alignment explanation
Indices: 30969521--30969711 Score: 132
Period size: 55 Copynumber: 3.5 Consensus size: 54
30969511 GTTTAAGGAT
* * * * * *
30969521 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACAACAAGGCAAAGAA
* * ** * * *
30969575 ATCATGTAAGACCCTGTTAAGACATGGCATTGATAAACTACAATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACAACAAGGCAAAGAA
* * * * * * * * * *
30969630 CCCATGTGAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACAACAAGGCAAAGAA
* * *
30969683 ACCACGTAAGACCATGTCAAGACATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
30969712 GTGGTAAGTT
Statistics
Matches: 105, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 36 0.34
54 30 0.29
55 39 0.37
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACAACAAGGCAAAGAA
Found at i:30969695 original size:53 final size:54
Alignment explanation
Indices: 30969515--30969721 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
30969505 ATTAGGGTTT
* * * *
30969515 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
* * * ** * * *
30969569 AAGGAAATCATGTAAGACCCTGTTAAGACATGGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTCAATAAGGC
* * * * * *
30969624 AAAGATCCCATGTGAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
* * *
30969677 AAGGATACCACGTAAGACCATGTCAAGACATGGCAGTGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
30969722 TAAAAAGTAA
Statistics
Matches: 118, Mismatches: 34, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 44 0.37
54 35 0.30
55 39 0.33
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
Found at i:30979948 original size:49 final size:50
Alignment explanation
Indices: 30979872--30980104 Score: 292
Period size: 49 Copynumber: 4.7 Consensus size: 50
30979862 ATCTACTGTG
* *
30979872 AGGTCA-AGTGTGTAGTACTAAGGGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
30979922 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
30979972 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
30980022 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
30980072 -GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
30980105 TGCGTACAAG
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
49 72 0.45
50 48 0.30
51 39 0.25
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:30980009 original size:28 final size:28
Alignment explanation
Indices: 30979977--30980060 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
30979967 AACTTCGATC
30979977 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
30980005 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
30980027 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
30980055 ACGTGT
1 ACGTGT
30980061 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:30980063 original size:101 final size:98
Alignment explanation
Indices: 30979879--30980104 Score: 317
Period size: 101 Copynumber: 2.3 Consensus size: 98
30979869 GTGAGGTCAA
* *
30979879 GTGTGTAGTACTAAGGGCAGGCTACTACGTGTATCGGATAATTGGTCACATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
* *
30979944 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAAGCTACTACGCGTACCCGATAA-TT-GATCAC
** *
30979979 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTAAG
* * *
30980044 TGCAAGCTACTACGTGTACCGGATAATTGGTCAC
65 TGCAAGCTACTACGCGTACCCGATAATTGATCAC
* *
30980078 ATGTGTAGTACTAAGTGCAAGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
30980105 TGCGTACAAG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
99 30 0.27
100 41 0.36
101 42 0.37
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAAGCTACTACGCGTACCCGATAATTGATCAC
Found at i:30984642 original size:48 final size:48
Alignment explanation
Indices: 30984571--30984889 Score: 299
Period size: 48 Copynumber: 6.6 Consensus size: 48
30984561 TATGTGCGCC
*
30984571 AGTGTAAGACAATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
* * *
30984619 AGTGTAAGACCATGTCTGGGACATGGCATC-AGTCACATTATAAGAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACATTATGAGAGCT
* **** * * *
30984667 AGTGTAAGACCATGTTTGGGACATGGCATCGGAATTGA-TATGTGCGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACCACATTATGAGAGCT
* *
30984715 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
*
30984763 AGTGTAAGACCATGTCTGGGACATGGCATTGA--A-ATTGA-GACGAGATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT-ATGA-GAG--CT
* * * * ** ** * *
30984811 AGAGTAAAACCATGTCTAGGACATGGCATCGGCTTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
* *
30984859 AGTGTACGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
30984890 GCAAATTACC
Statistics
Matches: 217, Mismatches: 42, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
45 5 0.02
46 5 0.02
47 3 0.01
48 196 0.90
49 1 0.00
50 5 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
Found at i:30984735 original size:96 final size:95
Alignment explanation
Indices: 30984568--30984890 Score: 345
Period size: 96 Copynumber: 3.4 Consensus size: 95
30984558 TGATATGTGC
* * *
30984568 GCCAGTGTAAGACAATGTCTGGGACATGGCATCGACCACATT-ATGA-GAG--CTAGTGTAAGAC
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG--GA-ATTGA-GACGAGATCTAGTGTAAGAC
*
30984629 CATGTCTGGGACATGGCATCAGTCACATTATAAGA
62 CATGTCTGGGACATGGCATCGGTCACATTAT-AGA
* * * * *
30984664 GCAAGTGTAAGACCATGTTTGGGACATGGCATCGGAATTGATATGTGCGT-TAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGAATTGAGACGAG-ATCTAGTGTAAGACCAT
*
30984728 GTCTGGGACATGGCATCGGCCACATTATGAGA
65 GTCTGGGACATGGCATCGGTCACATTAT-AGA
* * * * *
30984760 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGAAATTGAGACGAGATCTAGAGTAAAACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGAATTGAGACGAGATCTAGTGTAAGACCATG
* *
30984825 TCTAGGACATGGCATCGGCTTCAACA-TGT-GA
66 TCTGGGACATGGCATCGG--TC-ACATTATAGA
*
30984856 GCCAGTGTACGACCATGTTTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
30984891 CAAATTACCC
Statistics
Matches: 192, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
93 4 0.02
94 4 0.02
95 1 0.01
96 177 0.92
98 3 0.02
99 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGAATTGAGACGAGATCTAGTGTAAGACCATG
TCTGGGACATGGCATCGGTCACATTATAGA
Found at i:30984823 original size:144 final size:141
Alignment explanation
Indices: 30984558--30984891 Score: 418
Period size: 144 Copynumber: 2.3 Consensus size: 141
30984548 GACATTTGGG
* * *
30984558 TGATATGTGCGCCAGTGTAAGACAATGTCTGGGACATGGCATCGACCACATTATGAGAGCTAGTG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * * * * *
30984623 TAAGACCATGTCTGGGACATGGCATCAGTCACATTATAAGAGCAAGTGTAAGACCATGTTTGGGA
66 TAAGACCATGTCTGGGACATGGCAT-A-TCAAATTAGAAGAGCAAGAGTAAAACCATGTCTAGGA
30984688 CATGGCATCGGAAT
129 CATGGCATCGG-AT
**
30984702 TGATATGTGCGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * *
30984767 TAAGACCATGTCTGGGACATGGCAT-TGAAATTGAGACGAGATCTAGAGTAAAACCATGTCTAGG
66 TAAGACCATGTCTGGGACATGGCATATCAAATT-AGA--AGAGCAAGAGTAAAACCATGTCTAGG
*
30984831 ACATGGCATCGGCT
128 ACATGGCATCGGAT
* * * * *
30984845 TCAACATGTGAGCCAGTGTACGACCATGTTTGGGACATGGCATCGGC
1 T-GATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
30984892 AAATTACCCT
Statistics
Matches: 164, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
141 5 0.03
142 2 0.01
143 2 0.01
144 155 0.95
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (141 bp):
TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATATCAAATTAGAAGAGCAAGAGTAAAACCATGTCTAGGACA
TGGCATCGGAT
Found at i:30991071 original size:40 final size:40
Alignment explanation
Indices: 30990988--30991250 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30990978 TTGAATGCTG
* * * * * *
30990988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30991028 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30991068 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30991108 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30991148 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30991188 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30991227 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30991251 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30991270 original size:79 final size:80
Alignment explanation
Indices: 30991027--30991285 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30991017 AAGTGAATAT
* * * * * *
30991027 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30991091 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30991107 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30991172 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30991187 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30991251 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30991266 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30991286 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30999021 original size:40 final size:40
Alignment explanation
Indices: 30998938--30999200 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30998928 TTGAATGCTG
* * * * * *
30998938 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30998978 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30999018 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30999058 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30999098 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30999138 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30999177 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30999201 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30999220 original size:79 final size:80
Alignment explanation
Indices: 30998977--30999235 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30998967 AAGTGAATAT
* * * * * *
30998977 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30999041 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30999057 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30999122 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30999137 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30999201 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30999216 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30999236 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:31001751 original size:17 final size:18
Alignment explanation
Indices: 31001726--31001772 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
31001716 TCGTAAATCG
*
31001726 CAGTCTCACTA-CAGTTT
1 CAGTTTCACTAGCAGTTT
*
31001743 CAGTTTCACTAGCATTTT
1 CAGTTTCACTAGCAGTTT
31001761 CAGTTTACACTA
1 CAGTTT-CACTA
31001773 ACTAAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 11 0.42
19 5 0.19
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (18 bp):
CAGTTTCACTAGCAGTTT
Found at i:31003915 original size:29 final size:27
Alignment explanation
Indices: 31003883--31003937 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
31003873 CTAGATTACT
31003883 CCTCAATC-CCACAAAACACTCCCACTACC
1 CCTCAATCTCC-CAAAACA--CCCACTACC
31003912 CCTCAATCTCCCAAAACACCCACTAC
1 CCTCAATCTCCCAAAACACCCACTAC
31003938 TTCCACCACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
29 15 0.60
30 2 0.08
ACGTcount: A:0.35, C:0.51, G:0.00, T:0.15
Consensus pattern (27 bp):
CCTCAATCTCCCAAAACACCCACTACC
Found at i:31005249 original size:28 final size:28
Alignment explanation
Indices: 31005184--31005275 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
31005174 ATCCTCACTT
* * *
31005184 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCA-TCAGGCCCAATCAC
*
31005213 ATTCATATGGCCCGTCA-GCCTCAATCAC
1 ATTCATATGGCCCATCAGGCC-CAATCAC
*
31005241 ATTCGTATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
31005269 ATTCATA
1 ATTCATA
31005276 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.06
28 36 0.67
29 15 0.28
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:31005513 original size:16 final size:16
Alignment explanation
Indices: 31005489--31005523 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31005479 GTAGCCAAAC
* *
31005489 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
31005505 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
31005521 TTT
1 TTT
31005524 AGGATTTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:31011331 original size:56 final size:56
Alignment explanation
Indices: 31011240--31011362 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
31011230 GAGATTGGCG
* * * *
31011240 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAACA
* *
31011297 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAACA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAACA
*
31011352 CTGAGTGTGCG
1 CTAAGTGTGCG
31011363 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 22 0.37
56 22 0.37
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAACA
Found at i:31011353 original size:27 final size:28
Alignment explanation
Indices: 31011240--31011362 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
31011230 GAGATTGGCG
* * * *
31011240 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
31011269 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
31011297 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31011325 CTAAGTGTGCGAG-TTGATTATATAACA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31011352 CTGAGTGTGCG
1 CTAAGTGTGCG
31011363 GACTTAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 23 0.27
28 48 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:31011373 original size:27 final size:27
Alignment explanation
Indices: 31011267--31011375 Score: 94
Period size: 28 Copynumber: 4.0 Consensus size: 27
31011257 AATTGTACAG
* * * *
31011267 CACTAAGTGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGA-CTTGAATATATAA
* * *
31011295 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGA-CTTGAATATATAA
* *
31011323 CACTAAGTGTGCGAGTTGATTATATAA
1 CACTAAGTGTGCGACTTGAATATATAA
*
31011350 CACTGAGTGTGCGGACTT-AATATATA
1 CACTAAGTGTGC-GACTTGAATATATA
31011376 CTTTTGAATC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.39
28 45 0.61
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTGAATATATAA
Found at i:31016890 original size:47 final size:47
Alignment explanation
Indices: 31016824--31017156 Score: 585
Period size: 47 Copynumber: 7.1 Consensus size: 47
31016814 GAAATGATAG
31016824 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31016871 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31016918 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31016965 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31017012 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31017059 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
31017106 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31017153 TAAG
1 TAAG
31017157 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:31017331 original size:37 final size:37
Alignment explanation
Indices: 31017275--31017353 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31017265 CCGAGCTCTA
* * *
31017275 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31017312 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31017349 AAGAC
1 AAGAC
31017354 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31019294 original size:29 final size:29
Alignment explanation
Indices: 31019259--31019332 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
31019249 GTTGTGAGAT
* *
31019259 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
31019288 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
31019317 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31019333 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:31019766 original size:40 final size:40
Alignment explanation
Indices: 31019643--31019838 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
31019633 TCGAATGATG
** *
31019643 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
31019683 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
31019723 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
31019763 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
31019803 TCCGTGCTAAATCCCAAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
31019839 CGTGTATTCG
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.85
41 19 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:31019780 original size:80 final size:81
Alignment explanation
Indices: 31019643--31019839 Score: 206
Period size: 80 Copynumber: 2.5 Consensus size: 81
31019633 TCGAATGATG
**
31019643 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
31019705 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** *
31019723 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGAT-CCGAAGAGCA
* *
31019786 TTCGTGCTAGTGATATA
65 TTCGTGCGAGTGATAAA
* * * * *
31019803 TCCGTGCTAAATCCCAAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
31019840 GTGTATTCGG
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 71 0.72
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:31021271 original size:200 final size:200
Alignment explanation
Indices: 31020928--31021328 Score: 784
Period size: 200 Copynumber: 2.0 Consensus size: 200
31020918 GAAAATCCCT
31020928 AAAGGGGGGAGAGTTGTGACACCCCTAATTTGACCCTAGGCAGAAAGCGGTTTCGGGACCGCTAA
1 AAAGGGGGGAGAGTTGTGACACCCCTAATTTGACCCTAGGCAGAAAGCGGTTTCGGGACCGCTAA
31020993 ACCGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAG
66 ACCGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAG
31021058 CTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGACATTTTTGAAATGT
131 CTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGACATTTTTGAAATGT
31021123 GATAG
196 GATAG
* *
31021128 AAAGGGGGGAGAGTTGTGACACCCCTAATTTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAA
1 AAAGGGGGGAGAGTTGTGACACCCCTAATTTGACCCTAGGCAGAAAGCGGTTTCGGGACCGCTAA
31021193 ACCGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAG
66 ACCGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAG
31021258 CTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGACATTTTTGAAATGT
131 CTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGACATTTTTGAAATGT
31021323 GATAG
196 GATAG
31021328 A
1 A
31021329 TCAAAACATA
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (200 bp):
AAAGGGGGGAGAGTTGTGACACCCCTAATTTGACCCTAGGCAGAAAGCGGTTTCGGGACCGCTAA
ACCGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAG
CTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGACATTTTTGAAATGT
GATAG
Found at i:31022530 original size:49 final size:49
Alignment explanation
Indices: 31022458--31022557 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
31022448 CGACAAACTC
31022458 TTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAGATGAGTT
1 TTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAGATGAGTT
*
31022507 TTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTTAGTCAGATGAGTT
1 TTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAGATGAGTT
31022556 TT
1 TT
31022558 CAGTTGATCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (49 bp):
TTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAGATGAGTT
Found at i:31033265 original size:29 final size:29
Alignment explanation
Indices: 31033220--31033323 Score: 181
Period size: 29 Copynumber: 3.6 Consensus size: 29
31033210 CAGTAACGCA
* * *
31033220 AGGCCCAAATCATATTCATTTGGCCCATT
1 AGGCCCAAATCACATTCATATGGCCTATT
31033249 AGGCCCAAATCACATTCATATGGCCTATT
1 AGGCCCAAATCACATTCATATGGCCTATT
31033278 AGGCCCAAATCACATTCATATGGCCTATT
1 AGGCCCAAATCACATTCATATGGCCTATT
31033307 AGGCCCAAATCACATTC
1 AGGCCCAAATCACATTC
31033324 TTATACATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
AGGCCCAAATCACATTCATATGGCCTATT
Found at i:31048576 original size:40 final size:40
Alignment explanation
Indices: 31048404--31048569 Score: 251
Period size: 40 Copynumber: 4.2 Consensus size: 40
31048394 AGGTTTAGCA
* *
31048404 CGGATATATTACTAGCACGAATGCTCTTCGGGACTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
* *
31048444 CGGATACATCACTAGCACGAATACCCTTCGGGACTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
**
31048484 CGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
* * *
31048524 CGAATACAACACTAGCACGAATGCTCTTCGGGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
31048564 CGGATA
1 CGGATA
31048570 TAACACTCTC
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
Found at i:31052591 original size:29 final size:29
Alignment explanation
Indices: 31052551--31052642 Score: 175
Period size: 29 Copynumber: 3.2 Consensus size: 29
31052541 AGCCCAATAT
31052551 CATTCATATGGCCCATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
*
31052580 CATTCGTATGGCCCATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
31052609 CATTCATATGGCCCATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
31052638 CATTC
1 CATTC
31052643 TCATACATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:31056335 original size:19 final size:19
Alignment explanation
Indices: 31056311--31056387 Score: 84
Period size: 19 Copynumber: 3.9 Consensus size: 19
31056301 TTAAAAGCCT
31056311 AATGGTATTGATATTTTTA
1 AATGGTATTGATATTTTTA
31056330 AATGGTATTGATATTTTTA
1 AATGGTATTGATATTTTTA
* *
31056349 CATGAGGATTGATAGTTTTATA
1 AATG-GTATTGATA-TTTT-TA
* *
31056371 AA-AGTATCGATATTTTT
1 AATGGTATTGATATTTTT
31056388 TAGTTGGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.53
20 15 0.31
21 4 0.08
22 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (19 bp):
AATGGTATTGATATTTTTA
Found at i:31069061 original size:55 final size:56
Alignment explanation
Indices: 31068994--31069102 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
31068984 AACACTTAGT
* *
31068994 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGGA
1 ACCACCCATGTGACCTAGCCACATATATCCCGTAGCTCTCTTGTCTACATGGTGGA
* *
31069049 ACCACGCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG
1 ACCACCCATGTGACCTAGCCACATATATCCCGTAGCTCTCTTGTCTACATGGTG
31069103 TACACATAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 19 0.39
56 30 0.61
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (56 bp):
ACCACCCATGTGACCTAGCCACATATATCCCGTAGCTCTCTTGTCTACATGGTGGA
Found at i:31069196 original size:68 final size:64
Alignment explanation
Indices: 31069049--31069205 Score: 156
Period size: 68 Copynumber: 2.4 Consensus size: 64
31069039 ACATGGTGGA
* * *
31069049 ACCACGCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGT
1 ACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGC
* * * * *
31069113 ATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTTCAC-
1 ACCACACATGTGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATGTACACA
31069176 TCAGC
61 T-AGC
* *
31069181 ACCATACATGTGACCTAGCTCCATA
1 ACCACACATGTGACCTAGCTACATA
31069206 CCATCTGTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
64 21 0.28
65 2 0.03
66 1 0.01
67 2 0.03
68 48 0.64
69 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (64 bp):
ACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGC
Found at i:31069436 original size:18 final size:18
Alignment explanation
Indices: 31069413--31069449 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31069403 ATTAATATTG
31069413 AACATTTAAATCATCATA
1 AACATTTAAATCATCATA
31069431 AACATTTAAATCATCATA
1 AACATTTAAATCATCATA
31069449 A
1 A
31069450 TTATACTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (18 bp):
AACATTTAAATCATCATA
Found at i:31073122 original size:27 final size:27
Alignment explanation
Indices: 31073081--31073134 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31073071 TGTCATGTGA
* *
31073081 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
31073108 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
31073135 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:31073459 original size:49 final size:50
Alignment explanation
Indices: 31073388--31073612 Score: 229
Period size: 49 Copynumber: 4.5 Consensus size: 50
31073378 TGAGGTCATG
* * * *
31073388 TGTGTAATACTAAGTGCAGGCTACTACATGTACTAGATAATT-GGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * * * * *
31073437 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCGCA
* * ** * *
31073488 TGTGTAGTACTAAGTGGAGGCTACTACGTGTATCAGATGGTTAGGTCCCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * *
31073538 TGTGTAGTACTAACTGCACGCTACTACGTATACCAGATAATT-GGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
*
31073587 TGTGTAGTACTAAGTGCAGGATACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
31073613 TGAGTATCAG
Statistics
Matches: 141, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 61 0.43
50 44 0.31
51 36 0.26
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:31075862 original size:16 final size:16
Alignment explanation
Indices: 31075841--31075888 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
31075831 GGCAAATCCC
*
31075841 GAAATGCCGAAAAGTT
1 GAAATGCCGAAAAGCT
*
31075857 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCT
*
31075873 GAAATGCTGAAAAGCT
1 GAAATGCCGAAAAGCT
31075889 AAAAGTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:31076111 original size:29 final size:28
Alignment explanation
Indices: 31076070--31076149 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
31076060 GACTGAAAAA
*
31076070 GTGATTGGACCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
31076098 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
31076127 GAGATTGGGCCTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
31076150 AGCATGTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.48
29 23 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:31079240 original size:12 final size:12
Alignment explanation
Indices: 31079223--31079252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31079213 TTCGGATTAC
31079223 CACACGATCGAG
1 CACACGATCGAG
31079235 CACACGATCGAG
1 CACACGATCGAG
*
31079247 CGCACG
1 CACACG
31079253 CTCGTGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.37, G:0.27, T:0.07
Consensus pattern (12 bp):
CACACGATCGAG
Found at i:31082403 original size:25 final size:25
Alignment explanation
Indices: 31082371--31082420 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
31082361 AATTAAACTT
31082371 ACCAAGTTCATTTATTAGAATTAAA
1 ACCAAGTTCATTTATTAGAATTAAA
31082396 ACCAAGTTCATTTATTAGAATTAAA
1 ACCAAGTTCATTTATTAGAATTAAA
31082421 CATACTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (25 bp):
ACCAAGTTCATTTATTAGAATTAAA
Found at i:31092293 original size:53 final size:53
Alignment explanation
Indices: 31092097--31092299 Score: 145
Period size: 53 Copynumber: 3.8 Consensus size: 53
31092087 GGGTTTAAGA
* *** * * *
31092097 ATACCAAGTAAGACCATGCCAAGACATGACTTTGGTAAGTTTTACAAGGCAAGG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAG-TTCATAAGGCAAAG
* * ** * ** * * * *
31092151 AAATCATTTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGT-AAGTTC-ATAAGGCAAAG
* * * ** * *
31092206 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGG
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAG
*
31092259 ATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
31092300 TAAAAAGGAA
Statistics
Matches: 115, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.38
54 32 0.28
55 39 0.34
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (53 bp):
ATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAG
Found at i:31093879 original size:45 final size:44
Alignment explanation
Indices: 31093805--31094021 Score: 149
Period size: 45 Copynumber: 5.0 Consensus size: 44
31093795 GTAGGATTCC
** *
31093805 GATATGTGTTTTCGTGTAAGACTGTGTCTGGGATGTTGGCATTG
1 GATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
* * *
31093849 GTATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTAGCATCG
1 G-ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
* * * * * * * * *
31093894 ATATATGTGGTTACATGTAAGGCCATGTTTGGGACATCGGCA-TC
1 -GATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
* * *
31093938 G-TA-CTG-ATTCGTGTAAGACCATGTCTGGGATAG-TGGCATT-
1 GATATGTGTTTTCGTGTAAGACCATGTCTGGGA-CGTTGGCATTG
* * ** * *
31093978 GATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCATTG
1 GATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
31094022 TTCTATATAT
Statistics
Matches: 128, Mismatches: 36, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
40 24 0.19
41 5 0.04
42 4 0.03
43 26 0.20
44 1 0.01
45 68 0.53
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (44 bp):
GATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
Found at i:31095376 original size:47 final size:46
Alignment explanation
Indices: 31095198--31095406 Score: 183
Period size: 47 Copynumber: 4.5 Consensus size: 46
31095188 TGTGTGAGCT
* * * *
31095198 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATACG-AGTGCA
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TCGAGACGTA-AGCC
* *
31095246 AGTGTAAGA-CATATCTGGGACATGCATCGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGACGTAAGCC
* * *
31095291 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGACGTA-AGCC
* * * * ** *
31095337 AGTGTAAGACCATGTTTGGGACATGGCTTCGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGACGTAAGCC
*
31095384 AGAGTAAGACCATGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
31095407 CAGCATCAGC
Statistics
Matches: 135, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
45 38 0.28
46 26 0.19
47 55 0.41
48 16 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGACGTAAGCC
Found at i:31101015 original size:29 final size:29
Alignment explanation
Indices: 31100997--31101055 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
31100987 AAGCTCTAAG
**
31100997 ATTGTTTAATTGATGATTTTTCTTAAAGT
1 ATTGTTTAATTGATGATTTAGCTTAAAGT
**
31101026 ATTGTTTAATTGATGATTTTTCTTAAAGT
1 ATTGTTTAATTGATGATTTAGCTTAAAGT
31101055 A
1 A
31101056 CTTTTCTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (29 bp):
ATTGTTTAATTGATGATTTAGCTTAAAGT
Found at i:31107716 original size:19 final size:19
Alignment explanation
Indices: 31107692--31107730 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31107682 GGGAACCCAT
31107692 AAACACAAAATGGGAAATA
1 AAACACAAAATGGGAAATA
31107711 AAACACAAAATGGGAAATA
1 AAACACAAAATGGGAAATA
31107730 A
1 A
31107731 CCTATCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.10, G:0.15, T:0.10
Consensus pattern (19 bp):
AAACACAAAATGGGAAATA
Found at i:31119889 original size:46 final size:45
Alignment explanation
Indices: 31119799--31120012 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 45
31119789 GTGTCGATTC
* * *
31119799 CATGTCCCAAACATGGTCTTACACT-GAC-ACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTCATCACG-AGGCTGATG
* * * *
31119844 CATGTCCTAGACATGTCTTATACTGGCTTACATCCCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CATCACGAGGCTGATG
* * * * *
31119890 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTCATCACGAGGCTGATG
* * * *
31119936 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-TCATCACGAGGCTGATG
31119984 CATGTCCCAGACATGTCTTACACTAGCTT
1 CATGTCCCAGACATGTCTTACACTAGCTT
31120013 ACACAAATGA
Statistics
Matches: 138, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.45
47 29 0.21
48 22 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCATCACGAGGCTGATG
Found at i:31119980 original size:94 final size:92
Alignment explanation
Indices: 31119799--31120010 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 92
31119789 GTGTCGATTC
* * * *
31119799 CATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTAGCTGATGCATGTCCTAGACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCT
* **
31119862 TATACTGGCTTACATCCCGAGGCTGATG
65 TACACTGGCTTACATAACGAGGCTGATG
*
31119890 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCA-ATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATGTCCCAGACAT-GT
* *
31119954 CTTACACTGGCTCT-CATAATGTGGCTGATG
63 CTTACACTGGCT-TACATAACGAGGCTGATG
31119984 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
31120011 TTACACAAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
90 10 0.10
91 15 0.14
92 14 0.13
93 13 0.12
94 52 0.50
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCTTACATAACGAGGCTGATG
Found at i:31121635 original size:27 final size:27
Alignment explanation
Indices: 31121584--31121636 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31121574 TACTTTTCTT
* *
31121584 TTTATTAATTTATTAATTATTATTTAC
1 TTTATTAATTTATAAATTATCATTTAC
31121611 TTTATTAATTTA-AAATATATCATTTA
1 TTTATTAATTTATAAAT-TATCATTTA
31121637 AACTAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTATTAATTTATAAATTATCATTTAC
Found at i:31122636 original size:23 final size:22
Alignment explanation
Indices: 31122582--31122727 Score: 105
Period size: 23 Copynumber: 6.4 Consensus size: 22
31122572 ACATGTAATG
* *
31122582 TTCTGTAAAGCCTTTGTGGCGTA
1 TTCTATAAAG-CTTTGTGGCATA
* *
31122605 TTCAATAAAGCTTGTGCGGCATA
1 TTCTATAAAGCTT-TGTGGCATA
* *
31122628 TTCTGTAAAGTCTTTGTGGCATG
1 TTCTATAAAG-CTTTGTGGCATA
* *
31122651 TTCTGTAAAGGCTTTGTGTCATA
1 TTCTATAAA-GCTTTGTGGCATA
* * * *
31122674 TTCTATGATGCTCGTGTGGCGTA
1 TTCTATAAAGCT-TTGTGGCATA
31122697 TTCTATAATA-CTTGTGTGGCATA
1 TTCTATAA-AGCTT-TGTGGCATA
*
31122720 TTTTATAA
1 TTCTATAA
31122728 CACCCTTGAG
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
22 6 0.06
23 86 0.90
24 4 0.04
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (22 bp):
TTCTATAAAGCTTTGTGGCATA
Found at i:31122715 original size:69 final size:68
Alignment explanation
Indices: 31122579--31122718 Score: 156
Period size: 69 Copynumber: 2.0 Consensus size: 68
31122569 TAAACATGTA
* * *
31122579 ATGTTCTGTAAAGCCTTTGTGGCGTATTCAATAAAGCTTGTGCGGCATATTCTGTAAAGTCTTTG
1 ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGCGGCATATTCTATAAAG-CTTTG
31122644 TGGC
65 TGGC
* * * * * * *
31122648 ATGTTCTGTAAAGGCTTTGTGTCATATTCTATGATGCTCGTGTGGCGTATTCTATAATA-CTTGT
1 ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGCGGCATATTCTATAA-AGCTT-T
31122712 GTGGC
64 GTGGC
31122717 AT
1 AT
31122719 ATTTTATAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
68 3 0.05
69 55 0.93
70 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (68 bp):
ATGTTCTGTAAAGCCTTTGTGGCATATTCAATAAAGCTCGTGCGGCATATTCTATAAAGCTTTGT
GGC
Found at i:31141525 original size:27 final size:26
Alignment explanation
Indices: 31141488--31141553 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
31141478 AGCATGACTG
*
31141488 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
31141514 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
31141541 CCAGAATCAGATA
1 CCAGAA-CAGATA
31141554 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31141558 original size:27 final size:27
Alignment explanation
Indices: 31141488--31141561 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
31141478 AGCATGACTG
* *
31141488 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
31141514 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
31141541 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
31141562 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:31141568 original size:27 final size:27
Alignment explanation
Indices: 31141512--31141569 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
31141502 GTGACAGAGT
* * *
31141512 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
31141539 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
31141566 CACC
1 CACC
31141570 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:31161482 original size:20 final size:21
Alignment explanation
Indices: 31161457--31161496 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31161447 CTCTTGAGAT
*
31161457 AGGGC-ACATACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
31161477 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
31161497 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:31162605 original size:30 final size:30
Alignment explanation
Indices: 31162569--31162628 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
31162559 TCACAACATG
31162569 GCTATACTTTTCTTGTTTAACTCAAACTGT
1 GCTATACTTTTCTTGTTTAACTCAAACTGT
31162599 GCTATACTTTTCTTGTTTAACTCAAACTGT
1 GCTATACTTTTCTTGTTTAACTCAAACTGT
31162629 AACTCTCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (30 bp):
GCTATACTTTTCTTGTTTAACTCAAACTGT
Found at i:31162819 original size:49 final size:50
Alignment explanation
Indices: 31162746--31162874 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 50
31162736 CCATCAAGTT
*
31162746 AATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AAATC-GAGGCT
1 AATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCTG-GGCC
* * * * * *
31162795 GATGCCATGTACCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCTGGGCC
*
31162845 AATGCCATATCCCAGACATGGTCTTACACT
1 AATGCCATGTCCCAGACATGGTCTTACACT
31162875 GACACCTCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 34 0.50
50 33 0.49
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCTGGGCC
Found at i:31162917 original size:48 final size:47
Alignment explanation
Indices: 31162747--31162966 Score: 186
Period size: 48 Copynumber: 4.6 Consensus size: 47
31162737 CATCAAGTTA
* * *
31162747 ATGCCATGTCCCAGACATGGTCTTACACT-A-ACTATCAAAATCG-AGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACAC-CTC-ATA-CGTA--CCG
* * * * *
31162796 ATGCCATGTACCAGACATGGTCTTACACT-AGCTCTCACATATCTGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTCATA-C-GTACCG
*
31162846 ATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-ATACGTACCG
* *
31162894 ATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-CGTAACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCATACGT-ACCG
31162940 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
31162967 AGCTCTCGTC
Statistics
Matches: 146, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 8 0.05
48 38 0.26
49 32 0.22
50 37 0.25
51 5 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCATACGTACCG
Found at i:31163020 original size:48 final size:44
Alignment explanation
Indices: 31162795--31163021 Score: 149
Period size: 48 Copynumber: 4.8 Consensus size: 44
31162785 AATCGAGGCT
* *
31162795 GATGCCATGTACCAGACATGGTCTTACACTAGCTCTCACATATCTGT-GCC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCT--C---TC-GTAACC
* * * *
31162845 AATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACGT-ACC
1 GATGCCATGT-CCAGACATGGTCTTACACTG---GCTCTCT-CGTAACC
* *
31162893 GATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAACC
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTC-TCTCGTAACC
* *
31162939 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAATGCG
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTC-TCGT-AA--CC
31162985 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTC
1 GATGCCATGTC-CAGACATGGTCTTACACTGGCTCTC
31163022 ATAATGTGGC
Statistics
Matches: 145, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
43 3 0.02
44 16 0.11
45 16 0.11
46 17 0.12
47 14 0.10
48 47 0.32
49 1 0.01
50 27 0.19
53 4 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (44 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCTCGTAACC
Found at i:31166588 original size:20 final size:20
Alignment explanation
Indices: 31166563--31166625 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
31166553 TTGTACGAGA
31166563 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
*
31166583 TTGCACTTTGATG-CTGCTGTAT
1 TTGCACTTTGGTGCCT-CTG--T
**
31166605 TTGCACTACGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
31166625 T
1 T
31166626 AACGTTTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
22 14 0.40
23 2 0.06
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.43
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:31169808 original size:109 final size:109
Alignment explanation
Indices: 31169617--31169985 Score: 481
Period size: 109 Copynumber: 3.4 Consensus size: 109
31169607 AGGCTTTAAT
* * * * *
31169617 AGATCCTGCATCTGTTTTGGATTCTCTACAGCTTGTGTGAGCAGCGTCGTGATCCGGTGATTATT
1 AGATCCTGCATCTATTTCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCGGTGATTATT
*
31169682 TAGCAGGTACTACGTGCCGGTGATACAGACCGTAGCGATGGCTG
66 TAGCAGGTACTATGTGCCGGTGATACAGACCGTAGCGATGGCTG
* * **
31169726 AGATCCTGCATCTATTGCAGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCAATGATTATT
1 AGATCCTGCATCTATTTCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCGGTGATTATT
* *
31169791 TAGCAGGTACTATGTGCCAGTGATACAGACCGTAGCAATGGCTG
66 TAGCAGGTACTATGTGCCGGTGATACAGACCGTAGCGATGGCTG
* *
31169835 AGATCCTGCATTTGTTAT-GGATTCTCTACAGCTTGTGTGAGCAGA-ATCGTGAGCCGGTGATTA
1 AGATCCTGCATCTATT-TCGGATTCTCTACAGCTTGTGTGAGCA-ACATCGTGAGCCGGTGATTA
* ** * **
31169898 TTTAGCAAGTACTATGTATCGGTGATATAGACCGTAATGATGGCTTG
64 TTTAGCAGGTACTATGTGCCGGTGATACAGACCGTAGCGATGGC-TG
* * * *
31169945 AGATCATGCATCTATTTCGAATTCTCTATAGCTTGTATGAG
1 AGATCCTGCATCTATTTCGGATTCTCTACAGCTTGTGTGAG
31169986 GAGCATTGTG
Statistics
Matches: 224, Mismatches: 32, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
109 188 0.84
110 36 0.16
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (109 bp):
AGATCCTGCATCTATTTCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCGGTGATTATT
TAGCAGGTACTATGTGCCGGTGATACAGACCGTAGCGATGGCTG
Found at i:31172345 original size:19 final size:19
Alignment explanation
Indices: 31172321--31172357 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
31172311 GAGATATTAA
31172321 GCTTATGTATGATTTAAAC
1 GCTTATGTATGATTTAAAC
31172340 GCTTATGTATGATTTAAA
1 GCTTATGTATGATTTAAA
31172358 TGCATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (19 bp):
GCTTATGTATGATTTAAAC
Found at i:31175713 original size:45 final size:45
Alignment explanation
Indices: 31175649--31175777 Score: 195
Period size: 45 Copynumber: 2.9 Consensus size: 45
31175639 AACACTCTAA
31175649 TGTGGACAAAGCCAACAATATTCGCAGACAAGCTACCATGGAGGT
1 TGTGGACAAAGCCAACAATATTCGCAGACAAGCTACCATGGAGGT
* * *
31175694 TGTGGACAAAGCCACCAATATTCGCAAACAAGCTACCATGTAGGT
1 TGTGGACAAAGCCAACAATATTCGCAGACAAGCTACCATGGAGGT
* * * *
31175739 TGTGGACAAAGTCATCAATATTTGCAGACAAACTACCAT
1 TGTGGACAAAGCCAACAATATTCGCAGACAAGCTACCAT
31175778 TGTAACACCC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (45 bp):
TGTGGACAAAGCCAACAATATTCGCAGACAAGCTACCATGGAGGT
Found at i:31178082 original size:49 final size:49
Alignment explanation
Indices: 31178013--31178199 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
31178003 TAGCCAAAGC
* *
31178013 TATCTGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
31178062 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* ** *
31178112 CATCTGAAACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
31178161 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
31178200 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 78 0.66
50 40 0.34
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:31178188 original size:99 final size:99
Alignment explanation
Indices: 31178029--31178207 Score: 331
Period size: 99 Copynumber: 1.8 Consensus size: 99
31178019 GTACGCATAA
31178029 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTACACTTAGTA
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTACACTTAGTA
31178094 CTACACACGTGACCTAACCATCTGAAACACGTAG
66 CTACACACGTGACCTAACCATCTGAAACACGTAG
* * *
31178128 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTACACTTAGTA
31178193 CTACACACGTGACCT
66 CTACACACGTGACCT
31178208 CACAATAGAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTACACTTAGTA
CTACACACGTGACCTAACCATCTGAAACACGTAG
Found at i:31179294 original size:18 final size:18
Alignment explanation
Indices: 31179256--31179290 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31179246 ATGTGGCCTA
*
31179256 CCCGTGTGGGCCGACACG
1 CCCGTGTGGGCCCACACG
31179274 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
31179291 GCCCAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.43, G:0.34, T:0.11
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:31180784 original size:29 final size:30
Alignment explanation
Indices: 31180742--31180799 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31180732 ATGGGAATAT
* *
31180742 ACATCTAATTTCACA-ACATTCATTAAATC
1 ACATCTAATTTCACATACAATCATAAAATC
31180771 ACATC-AATTATCACATACAATCATAAAAT
1 ACATCTAATT-TCACATACAATCATAAAAT
31180800 GATCAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 11 0.44
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (30 bp):
ACATCTAATTTCACATACAATCATAAAATC
Found at i:31183736 original size:30 final size:30
Alignment explanation
Indices: 31183702--31183761 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31183692 TTCCCGAGCC
*
31183702 TAGGGGCAAAAGTGAAATTATGCAAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
* * *
31183732 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
31183762 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGAAATTATGCAAAAGTT
Found at i:31185258 original size:27 final size:27
Alignment explanation
Indices: 31185228--31185405 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
31185218 ATATTGAGTC
* *
31185228 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31185255 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31185282 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
31185310 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31185337 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
31185364 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31185391 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31185406 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31185367 original size:82 final size:81
Alignment explanation
Indices: 31185254--31185404 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
31185244 TATAATCAAC
* *
31185254 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
31185319 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
31185336 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
31185400 AGTGC
65 AGTGC
31185405 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:31193319 original size:27 final size:27
Alignment explanation
Indices: 31193289--31193466 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
31193279 ATATTGAGTC
* *
31193289 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31193316 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31193343 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
31193371 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31193398 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
31193425 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31193452 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31193467 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31193428 original size:82 final size:81
Alignment explanation
Indices: 31193315--31193465 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
31193305 TATAATCAAC
* *
31193315 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
31193380 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
31193397 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
31193461 AGTGC
65 AGTGC
31193466 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:31197080 original size:22 final size:22
Alignment explanation
Indices: 31197023--31197104 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 22
31197013 CCTGAGCTGA
*
31197023 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
31197045 TGAA-ATGGTAAGCTCTATCGAGC
1 TGAACA--GTAAGCTCTATCGAGC
*
31197068 AGAACAGTAAGCT-TATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
*
31197090 TGAAACGGTAAGCTC
1 TG-AACAGTAAGCTC
31197105 CAATGATTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 4 0.08
22 17 0.34
23 28 0.56
24 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:31203052 original size:40 final size:40
Alignment explanation
Indices: 31202997--31203303 Score: 400
Period size: 40 Copynumber: 7.5 Consensus size: 40
31202987 TATTCGGATG
31202997 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31203037 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
31203080 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31203120 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
31203163 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
31203203 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
31203243 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
31203283 ATATCC-GACTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
31203304 ATACTTGGGT
Statistics
Matches: 236, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
39 12 0.05
40 150 0.64
41 1 0.00
43 73 0.31
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:31203140 original size:83 final size:83
Alignment explanation
Indices: 31203001--31203303 Score: 465
Period size: 83 Copynumber: 3.7 Consensus size: 83
31202991 CGGATGATAT
* *
31203001 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
31203066 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
31203084 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
31203149 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
**
31203167 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
31203232 TGC---TAG-TGACTATAT
66 TGCGAGTAGTTG-CTATAC
* * * *
31203247 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GACTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
31203304 ATACTTGGGT
Statistics
Matches: 209, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
79 15 0.07
80 45 0.22
81 2 0.01
83 147 0.70
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:31203216 original size:123 final size:124
Alignment explanation
Indices: 31202997--31203278 Score: 448
Period size: 123 Copynumber: 2.3 Consensus size: 124
31202987 TATTCGGATG
*
31202997 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
**
31203059 GCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 GCATTTGTGC--GTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
*
31203120 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
*
31203185 GCATTTGTGC-TAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
66 GCATTTGTGCGTAGTTG-CTATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
*
31203243 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31203279 TGCTATATCC
Statistics
Matches: 149, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
122 2 0.01
123 109 0.73
124 1 0.01
126 37 0.25
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (124 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
Found at i:31213772 original size:13 final size:13
Alignment explanation
Indices: 31213748--31213781 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31213738 TGGAAAAAAC
31213748 TTTATG-GTTCAT
1 TTTATGTGTTCAT
31213760 TTTATGTGTTCAT
1 TTTATGTGTTCAT
31213773 TTTATGTGT
1 TTTATGTGT
31213782 CAGTGAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (13 bp):
TTTATGTGTTCAT
Found at i:31215683 original size:42 final size:43
Alignment explanation
Indices: 31215610--31215751 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 43
31215600 AGGTTATTAA
* * *
31215610 GATTCCGTATAAGACCATATCAAGGATATGGCCTCGGTATG-T
1 GATTTCGTATAAGACCATATCGAGGATATGGCCTCGATATGAT
* * *
31215652 GATTTCGTATAAGACCATGTCGAGGACATGGCTTCGATATGAT
1 GATTTCGTATAAGACCATATCGAGGATATGGCCTCGATATGAT
* * * *
31215695 -ATTTCATGTAAGACCATATCGGGGATATGGCACT-GAAATGAT
1 GATTTCGTATAAGACCATATCGAGGATATGGC-CTCGATATGAT
* *
31215737 GCTATACGTATAAGA
1 GAT-TTCGTATAAGA
31215752 TTTCCAAGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 68 0.86
43 3 0.04
44 8 0.10
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCGAGGATATGGCCTCGATATGAT
Found at i:31222625 original size:25 final size:25
Alignment explanation
Indices: 31222596--31222674 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
31222586 ATTCTACCTT
31222596 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* * *
31222621 ATCACAC-T-GGCCA--TTCGGCCTT-
1 ATCACACATATG-CATGTTC-ACATTC
31222643 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
31222668 ATCACAC
1 ATCACAC
31222675 TGACCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:31222625 original size:47 final size:47
Alignment explanation
Indices: 31222574--31222858 Score: 435
Period size: 47 Copynumber: 6.1 Consensus size: 47
31222564 TTCCACGTTT
* **
31222574 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
31222621 ATCACACTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * *
31222668 ATCACACTGACCATTCGGCCTTATCACATAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
31222715 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
31222762 ATCACATTGGCCATTCGGTCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
31222809 ATCACATTGGCCATTAGGCCTTATCTCATATATACATATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
31222856 ATC
1 ATC
31222859 TCATAAAATT
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 220 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:31222925 original size:26 final size:26
Alignment explanation
Indices: 31222896--31222954 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
31222886 TTTTCATGTA
*
31222896 TTCATATCACAATTATCCAAATATAC
1 TTCACATCACAATTATCCAAATATAC
31222922 TTCACATCACAATTATCCAAATATAC
1 TTCACATCACAATTATCCAAATATAC
31222948 TTCACAT
1 TTCACAT
31222955 ACCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (26 bp):
TTCACATCACAATTATCCAAATATAC
Found at i:31226153 original size:40 final size:40
Alignment explanation
Indices: 31226109--31226419 Score: 547
Period size: 40 Copynumber: 7.8 Consensus size: 40
31226099 GAATACACAT
* * * *
31226109 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
31226149 CACCAG--C-ATTGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
31226186 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
31226226 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
31226266 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
31226306 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
31226346 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
31226386 CACCAGCGCGAATGCTCTTCGGGACTTAGCCCGG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
31226420 CTATATAACT
Statistics
Matches: 263, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
37 34 0.13
39 1 0.00
40 228 0.87
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:31226653 original size:51 final size:51
Alignment explanation
Indices: 31226577--31226678 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
31226567 CGTAACACTA
31226577 TTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCAAAATTC
1 TTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCAAAATTC
*
31226628 TTTCAAAATTGCTTCACTTATACCCTTATAATTCAATCCAAATCAAAATTC
1 TTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCAAAATTC
31226679 AAATACGAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (51 bp):
TTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCAAAATTC
Found at i:31227335 original size:46 final size:46
Alignment explanation
Indices: 31227263--31227352 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
31227253 CCCGAGCCTG
*
31227263 TAGCTTCCAAATGAGATCTATCAAACAGAGGAAACAAAGTAAACAT
1 TAGCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACAT
*
31227309 TAGCTTCCAAATGAGATCTATAAAACAGGGGAAACAAAGTAAAC
1 TAGCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAAC
31227353 GGAGTAAGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (46 bp):
TAGCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACAT
Found at i:31228141 original size:47 final size:47
Alignment explanation
Indices: 31228083--31228412 Score: 525
Period size: 47 Copynumber: 7.0 Consensus size: 47
31228073 CCACGTTTAC
* ** *
31228083 CACATTAGCCATTCTACCTTATCACACATATGCATGTTCATATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
*
31228130 CACACTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
* *
31228177 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATACAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
31228224 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
* *
31228271 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATACAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
31228318 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
* * * * **
31228365 CACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
31228412 C
1 C
31228413 TCATAAAATC
Statistics
Matches: 263, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 263 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
Found at i:31228274 original size:25 final size:25
Alignment explanation
Indices: 31228103--31228180 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
31228093 ATTCTACCTT
*
31228103 ATCACACATATGCATGTTCATATTC
1 ATCACACATATGCATGTTCACATTC
* * *
31228128 ATCACAC-T-GGCCA--TTCGGCCTT-
1 ATCACACATATG-CATGTTC-ACATTC
31228150 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
31228175 ATCACA
1 ATCACA
31228181 TTGGCCATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 7 0.18
25 16 0.41
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:31228296 original size:22 final size:22
Alignment explanation
Indices: 31228222--31228297 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
31228212 GTTCACATAC
31228222 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
31228244 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
31228268 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31228291 ATCACAT
1 ATCACAT
31228298 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31228479 original size:26 final size:26
Alignment explanation
Indices: 31228450--31228508 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
31228440 TTTTCATGTA
31228450 TTCACATCACAATTATCCAAATATAC
1 TTCACATCACAATTATCCAAATATAC
31228476 TTCACATCACAATTATCCAAATATAC
1 TTCACATCACAATTATCCAAATATAC
31228502 TTCACAT
1 TTCACAT
31228509 ACCACATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (26 bp):
TTCACATCACAATTATCCAAATATAC
Found at i:31242606 original size:5 final size:5
Alignment explanation
Indices: 31242592--31242663 Score: 74
Period size: 5 Copynumber: 13.6 Consensus size: 5
31242582 ATTTCTATGG
**
31242592 TTTTA TTTTTA TTTTTA TTTGT- TTTTA ACTTA CTTTTTA TTTTA TTTTA
1 TTTTA -TTTTA -TTTTA TTT-TA TTTTA TTTTA -TT-TTA TTTTA TTTTA
31242641 TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTT
31242664 CTCTTTAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
4 1 0.02
5 40 0.69
6 14 0.24
7 3 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:31244506 original size:30 final size:30
Alignment explanation
Indices: 31244448--31244508 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31244438 TTCCTGAGCC
*
31244448 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
* * * *
31244478 TAGGGGCAAAATTATAATTATTCCAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
31244508 T
1 T
31244509 GAGTTAAGGA
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:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAAGTT
Found at i:31245082 original size:68 final size:64
Alignment explanation
Indices: 31244967--31245224 Score: 229
Period size: 68 Copynumber: 3.9 Consensus size: 64
31244957 TGGATGATAC
* ** * * *
31244967 AGATGTATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC
31245030 G
64 G
* *
31245031 AGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCT
1 AG--A-TAT-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCT
31245096 ACG
62 ACG
* * * * * *
31245099 GGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
31245164 CG
63 CG
* * *
31245166 AGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
31245225 CAAAATTATG
Statistics
Matches: 158, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 26 0.16
65 3 0.02
66 24 0.15
67 34 0.22
68 50 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:31265743 original size:16 final size:16
Alignment explanation
Indices: 31265722--31265752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31265712 TCACTAGGAA
*
31265722 ATATGTGATTATGTGT
1 ATATGTGACTATGTGT
31265738 ATATGTGACTATGTG
1 ATATGTGACTATGTG
31265753 AATCCAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (16 bp):
ATATGTGACTATGTGT
Found at i:31280954 original size:38 final size:36
Alignment explanation
Indices: 31280883--31280968 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 36
31280873 GGCGTTTTAG
* *
31280883 TAAAAAACGCCCCTAAAAAAAGCATTAGTGCGCTTC
1 TAAAAAACGCCACTAAAAAAAGCATTAGGGCGCTTC
* *
31280919 TACAAAAACGCCACTAAAAAGAGCATTAGCGGCGCTTT
1 TA-AAAAACGCCACTAAAAAAAGCATTAG-GGCGCTTC
31280957 TAAGAAAACGCC
1 TAA-AAAACGCC
31280969 GCTATAGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 25 0.58
38 16 0.37
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.17
Consensus pattern (36 bp):
TAAAAAACGCCACTAAAAAAAGCATTAGGGCGCTTC
Found at i:31281044 original size:41 final size:41
Alignment explanation
Indices: 31280943--31281020 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
31280933 TAAAAAGAGC
* *
31280943 ATTAGCGGCGCTTTTA-AGAAAACGCCGCTATAGGTTGACA
1 ATTAACGGCGCTTTTAGAAAAAACGCCGCTATAGGTTGACA
31280983 ATTAACGGCGCTTTTAGAAAAAACGCCGCTATAGGTTG
1 ATTAACGGCGCTTTTAGAAAAAACGCCGCTATAGGTTG
31281021 TCATTAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (41 bp):
ATTAACGGCGCTTTTAGAAAAAACGCCGCTATAGGTTGACA
Found at i:31293220 original size:79 final size:81
Alignment explanation
Indices: 31293111--31293293 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
31293101 TACTCGTTCA
* *
31293111 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
31293174 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
31293191 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
31293254 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
31293270 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
31293294 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:31293293 original size:40 final size:40
Alignment explanation
Indices: 31293090--31293293 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
31293080 CGGAATTTAA
** *
31293090 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
31293130 CCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31293170 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31293209 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31293249 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31293289 CCGGA
1 CCGGA
31293294 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31296234 original size:39 final size:39
Alignment explanation
Indices: 31296180--31296357 Score: 338
Period size: 39 Copynumber: 4.6 Consensus size: 39
31296170 ATCATAATTG
31296180 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
31296219 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
31296258 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
31296297 TATGTGCTGGAATTTTATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
31296336 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
31296358 GCTTAAATTC
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:31297716 original size:14 final size:13
Alignment explanation
Indices: 31297679--31297716 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
31297669 AGCTTAAGTG
31297679 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
31297692 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
31297705 TTTTCTCCCTAA
1 TTTTC-CCCTAA
31297717 CCCTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:31299247 original size:22 final size:21
Alignment explanation
Indices: 31299213--31299267 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
31299203 TGTTATTAAA
*
31299213 TTTTAATAAAATATTAAATATAT
1 TTTTAAT-TAATATTAAATAT-T
**
31299236 TTTTAATTAATATTTTATATT
1 TTTTAATTAATATTAAATATT
31299257 TTTTAAATTAA
1 TTTT-AATTAA
31299268 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATTAATATTAAATATT
Done.