Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 286 of 433
Found at i:89221165 original size:21 final size:22
Alignment explanation
Indices: 89221125--89221166 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
89221115 GCCTAAATAG
*
89221125 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCATGTTGCCCCTC
89221147 TCACACGGGCATG-TGCCCCT
1 TCACACGGGCATGTTGCCCCT
89221167 GTGTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.40, G:0.26, T:0.21
Consensus pattern (22 bp):
TCACACGGGCATGTTGCCCCTC
Found at i:89225491 original size:10 final size:10
Alignment explanation
Indices: 89225476--89225505 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
89225466 CTTCAACGAA
89225476 ATAAATATAT
1 ATAAATATAT
89225486 ATAAATATAT
1 ATAAATATAT
*
89225496 ATATATATAT
1 ATAAATATAT
89225506 TGTTGTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAAATATAT
Found at i:89227889 original size:39 final size:39
Alignment explanation
Indices: 89227838--89227926 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
89227828 ACCAGTTTTG
* * *
89227838 CCACCACCACCTCCTGTACCTAGAAGTACATCATTACCA
1 CCACCACCACCTCCTATACATAGAACTACATCATTACCA
* * *
89227877 CCCCCACCACCTCCTATTCATAGAACTGCATCATTACCA
1 CCACCACCACCTCCTATACATAGAACTACATCATTACCA
*
89227916 CCACCGCCACC
1 CCACCACCACC
89227927 ACCACCTATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.46, G:0.07, T:0.19
Consensus pattern (39 bp):
CCACCACCACCTCCTATACATAGAACTACATCATTACCA
Found at i:89234711 original size:12 final size:12
Alignment explanation
Indices: 89234694--89234723 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
89234684 CATTTCCATT
89234694 CGGGAACCATCA
1 CGGGAACCATCA
89234706 CGGGAACCATCA
1 CGGGAACCATCA
89234718 CGGGAA
1 CGGGAA
89234724 TAAACCTGAA
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:0.33, C:0.30, G:0.30, T:0.07
Consensus pattern (12 bp):
CGGGAACCATCA
Found at i:89248367 original size:22 final size:20
Alignment explanation
Indices: 89248335--89248383 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
89248325 GCCGAATTTA
89248335 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
89248358 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
89248378 TGAACA
1 TGAACA
89248384 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:89250228 original size:54 final size:54
Alignment explanation
Indices: 89250072--89250353 Score: 250
Period size: 54 Copynumber: 5.2 Consensus size: 54
89250062 TTTCACCCTA
* * * * * * * *
89250072 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCGATAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTTCAAATCAAGGGTATTTCGATAATTTTATAAAC
* * * * * *
89250126 TAATGGTA-TTTGTGTAATTTTTAAAAGTCAAGGGTATTTTTG-TAATTTTGTAAAT
1 CAAGGGTATTTTG-GTAATTTTTCAAA-TCAAGGGTA-TTTCGATAATTTTATAAAC
* *
89250181 CAAGGGTATTTCT-GTAATTTTCCAAATCAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTT-TGGTAATTTTTCAAATCAAGGGTATTTCGATAATTTTATAAAC
* * * * * *
89250235 CAGGGGTATTTTGGTAATTTTTCTAATCGAGGGTATTTTGGTAATTTTTTAAAC
1 CAAGGGTATTTTGGTAATTTTTCAAATCAAGGGTATTTCGATAATTTTATAAAC
* * *
89250289 CAAGGGTATTTTGGTAATTTTGT-AAACCAAGGGTATTT-TAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTT-TCAAATCAAGGGTATTTCGA-TAATTTTATAAAC
89250343 CAAGGGTATTT
1 CAAGGGTATTT
89250354 CAATAATTAT
Statistics
Matches: 182, Mismatches: 37, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
53 9 0.05
54 132 0.73
55 34 0.19
56 6 0.03
57 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTTCAAATCAAGGGTATTTCGATAATTTTATAAAC
Found at i:89250361 original size:27 final size:27
Alignment explanation
Indices: 89250154--89250353 Score: 233
Period size: 27 Copynumber: 7.4 Consensus size: 27
89250144 TTTTAAAAGT
* *
89250154 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
** *
89250181 CAAGGGTATTTCT-GTAATTTTCCAAAT
1 CAAGGGTATTT-TGGTAATTTTGTAAAC
* * **
89250208 CAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
89250235 CAGGGGTATTTTGGTAATTTT-TCTAAT
1 CAAGGGTATTTTGGTAATTTTGT-AAAC
* *
89250262 CGAGGGTATTTTGGTAATTTTTTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
89250289 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
89250316 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
89250343 CAAGGGTATTT
1 CAAGGGTATTT
89250354 CAATAATTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
27 148 0.99
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:89250361 original size:81 final size:80
Alignment explanation
Indices: 89250095--89250361 Score: 252
Period size: 81 Copynumber: 3.3 Consensus size: 80
89250085 GTAAATCTAC
* * * * *
89250095 AAACCAAAGGTATTTCGATAATTTCACAAACTAATGGTA-TTTGTGTAATTTTTAAAAGTCAAGG
1 AAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTG-GTAATTTTT-AAA-CCAAGG
*
89250159 GTATTTTTGTAATTTTGT
63 GTATTTTAGTAATTTTGT
* * * * * * *
89250177 AAATCAAGGGTATTTCTG-TAATTTTCCAAATCAAGGGTATTTCGATAATTTTACAAACCAGGGG
1 AAACCAAGGGTATTTC-GATAATTTTACAAACCAAGGGTATTTTGGTAATTTT-TAAACCAAGGG
*
89250241 TATTTTGGTAATTTT-T
64 TATTTTAGTAATTTTGT
* * * * * **
89250257 CTAATCGAGGGTATTTTGGTAATTTTTTAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGG
1 -AAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTGGTAATTTT-TAAACCAAGGG
89250322 TATTTTAGTAATTTTGT
64 TATTTTAGTAATTTTGT
*
89250339 AAACCAAGGGTATTTCAATAATT
1 AAACCAAGGGTATTTCGATAATT
89250362 ATACCCTATA
Statistics
Matches: 148, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
80 2 0.01
81 101 0.68
82 41 0.28
83 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (80 bp):
AAACCAAGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTTAAACCAAGGGTA
TTTTAGTAATTTTGT
Found at i:89257272 original size:68 final size:64
Alignment explanation
Indices: 89257146--89257296 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 64
89257136 TGGAACCACG
* * *
89257146 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGCA-TCACC
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATATACACATAGCACT-ACA
** * *
89257210 CATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATATGCACTTAGCAC
1 CATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATATACACATAGCAC
*
89257274 TATA
61 TACA
*
89257278 CATGTGACCTAGCTACATA
1 CATGCGACCTAGCTACATA
89257297 CCATCTGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 18 0.25
65 2 0.03
66 1 0.01
67 1 0.01
68 48 0.67
69 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATATACACATAGCACTACA
Found at i:89261856 original size:18 final size:18
Alignment explanation
Indices: 89261823--89261857 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89261813 GTTCTTGCCC
*
89261823 CGTTTTTAATGATTTCTA
1 CGTTTTTAAAGATTTCTA
*
89261841 CGTTTTTAAAGTTTTCT
1 CGTTTTTAAAGATTTCT
89261858 TAACCTAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
CGTTTTTAAAGATTTCTA
Found at i:89275662 original size:42 final size:42
Alignment explanation
Indices: 89275613--89275726 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
89275603 ACTAAGATTA
*
89275613 CGTGTAAGACCATATCTATGATTTGGCATCGATAAGA-AACC
1 CGTGTAAGACCATATCTAGGATTTGGCATCGATAAGAGAACC
* * * * *
89275654 TCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 -CGTGTAAGACCATATCTAGGAT-TTGGCATCGATAAGAGAACC
* *
89275698 CATGTAAGACCATATCTAGGATATGGCAT
1 CGTGTAAGACCATATCTAGGATTTGGCAT
89275727 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 24 0.41
43 32 0.54
44 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATTTGGCATCGATAAGAGAACC
Found at i:89276253 original size:30 final size:30
Alignment explanation
Indices: 89276219--89276281 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
89276209 TTGCCAAATG
89276219 TGTTAGCTTATGATGGTTGATAATTTATTT
1 TGTTAGCTTATGATGGTTGATAATTTATTT
*
89276249 TGTTAGCTTCTGATGGTTGATAATTTATTT
1 TGTTAGCTTATGATGGTTGATAATTTATTT
89276279 TGT
1 TGT
89276282 AAATGGCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.54
Consensus pattern (30 bp):
TGTTAGCTTATGATGGTTGATAATTTATTT
Found at i:89279825 original size:6 final size:6
Alignment explanation
Indices: 89279814--89279843 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
89279804 TGTGAAGAGA
*
89279814 TTTATT TTTATT TTTATT TTTAGT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
89279844 ATTTTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:89280397 original size:40 final size:40
Alignment explanation
Indices: 89280327--89280584 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
89280317 AAGCCAAGTA
* * * * *
89280327 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
89280366 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
89280406 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89280446 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89280486 CCTTCGAGACTTAGCCCGGATATAGTAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
89280526 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
89280566 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
89280585 TTATCATCCA
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 187 0.94
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89280640 original size:18 final size:19
Alignment explanation
Indices: 89280598--89280640 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
89280588 TCATCCAAAT
89280598 ATTCATGCACACATCAATA
1 ATTCATGCACACATCAATA
* *
89280617 AATCATG-ACACATCTATA
1 ATTCATGCACACATCAATA
*
89280635 TTTCAT
1 ATTCAT
89280641 TTTCATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTCATGCACACATCAATA
Found at i:89285489 original size:17 final size:17
Alignment explanation
Indices: 89285461--89285494 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89285451 ATTTATGAAT
89285461 ATATTGTTACTTCGCTTA
1 ATATTGTTACTT-GCTTA
89285479 ATATT-TTACTTGCTTA
1 ATATTGTTACTTGCTTA
89285495 TTAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (17 bp):
ATATTGTTACTTGCTTA
Found at i:89287029 original size:27 final size:27
Alignment explanation
Indices: 89286818--89287028 Score: 269
Period size: 27 Copynumber: 7.8 Consensus size: 27
89286808 ATTACCAAAG
*
89286818 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
89286845 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
89286872 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
89286899 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
89286926 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
89286953 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
89286980 TACCATTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
89287007 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
89287029 TAAAATACCC
Statistics
Matches: 165, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:89287144 original size:81 final size:81
Alignment explanation
Indices: 89287007--89287229 Score: 281
Period size: 81 Copynumber: 2.8 Consensus size: 81
89286997 ATTACTGTTT
* ** * * * *
89287007 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTT
89287071 TGTAAAAATACAGAAA
66 TGTAAAAATACAGAAA
89287087 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTTGGT
* * *
89287151 TTGTGAAATTACCGAAA
65 TTGTAAAAATACAGAAA
* ** *
89287168 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCTTG
89287230 ACTTTCTAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
80 28 0.22
81 96 0.77
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAAATACAGAAA
Found at i:89287206 original size:27 final size:27
Alignment explanation
Indices: 89287021--89287202 Score: 192
Period size: 27 Copynumber: 6.8 Consensus size: 27
89287011 CTCGATTTAC
* *
89287021 AAAATTACTAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * *
89287047 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
89287074 AAAAATA-CAGAAATA-CCCTCAATTTGT
1 AAAATTACCA-AAATACCCCT-AGTTTGT
89287101 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
89287128 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
89287155 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
89287182 AAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
89287203 ATTTACAAAG
Statistics
Matches: 128, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
26 21 0.16
27 97 0.76
28 10 0.08
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:89287222 original size:54 final size:54
Alignment explanation
Indices: 89287069--89287227 Score: 150
Period size: 54 Copynumber: 2.9 Consensus size: 54
89287059 ATACCCTTGG
* *
89287069 TTTGTAAAAATA-CAGAAATACC-CTCAATTTGTA-AAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCA-AAATACCACT-AATTTG-ACAAATTA-CAGAAATACCCTC-AA
** ** *
89287123 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCCTCAA
*
89287177 TTTGTAAAATTACCAAAATACCCCTAATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAA-TTACAGAAATACCCT
89287228 TGACTTTCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
53 4 0.05
54 78 0.90
55 5 0.06
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCCTCAA
Found at i:89287277 original size:27 final size:27
Alignment explanation
Indices: 89287238--89287289 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
89287228 TGACTTTCTA
89287238 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
89287265 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
89287290 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:89287364 original size:27 final size:27
Alignment explanation
Indices: 89287350--89287433 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
89287340 TAGGTAAAAA
*
89287350 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTATAGGGTAAAGT
89287377 GACCGTAAAGCCCCTATAGGGTAAAGT
1 GACCGTAAAGCCCCTATAGGGTAAAGT
* * *
89287404 GACCGTAATA-CCCCTGTATGGTAAAAT
1 GACCGTAA-AGCCCCTATAGGGTAAAGT
89287431 GAC
1 GAC
89287434 GAATATGCCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
GACCGTAAAGCCCCTATAGGGTAAAGT
Found at i:89288618 original size:25 final size:25
Alignment explanation
Indices: 89288589--89288636 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89288579 TTATAACATG
* * *
89288589 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
89288614 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
89288637 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:89288698 original size:20 final size:20
Alignment explanation
Indices: 89288673--89288723 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
89288663 ATTTTGATAA
89288673 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89288693 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
89288713 ACATGAGATGT
1 ACATGATATGT
89288724 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89288918 original size:25 final size:23
Alignment explanation
Indices: 89288770--89289034 Score: 377
Period size: 23 Copynumber: 11.1 Consensus size: 23
89288760 AGGAAGTGAA
89288770 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89288793 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
89288816 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89288839 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89288862 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89288885 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
89288910 AAAAGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
89288935 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
89288960 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
* *
89288985 GAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
89289009 AAAGGGCTTTTGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTATT
89289032 AAA
1 AAA
89289035 AGAGGCTAGG
Statistics
Matches: 230, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
23 115 0.50
24 20 0.09
25 95 0.41
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:89289287 original size:31 final size:31
Alignment explanation
Indices: 89289249--89289312 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
89289239 CGTTTATAGT
* *
89289249 AAAGGCTTCGACCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAATAATATGAAATATGA
* **
89289280 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGACCCAATAATATGAAATATGA
89289311 AA
1 AA
89289313 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATAATATGAAATATGA
Found at i:89305128 original size:40 final size:40
Alignment explanation
Indices: 89305051--89305266 Score: 330
Period size: 40 Copynumber: 5.4 Consensus size: 40
89305041 AAACCAAGTA
* *
89305051 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
89305090 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89305130 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89305170 CCTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89305210 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
89305250 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
89305267 AGTTACCATC
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89312520 original size:37 final size:37
Alignment explanation
Indices: 89312460--89312563 Score: 172
Period size: 37 Copynumber: 2.8 Consensus size: 37
89312450 AGCTCAAATG
* *
89312460 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89312497 AAATCTCCACACGTAGTCCTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89312534 TAATCTCCACACGTAGTCATCGGGTCTTAC
1 AAATCTCCACACGTAGTCATCGGGTCTTAC
89312564 TCGAAATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89312774 original size:48 final size:48
Alignment explanation
Indices: 89312715--89313057 Score: 596
Period size: 48 Copynumber: 7.1 Consensus size: 48
89312705 ACACATCGCC
*
89312715 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89312763 TACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
89312813 TATATATTTCACATTAACCATTCGGCTTGACTACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
89312861 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89312909 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
89312957 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89313005 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
89313053 TACAT
1 TACAT
89313058 CAATTTCCGC
Statistics
Matches: 279, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 236 0.85
50 43 0.15
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:89316748 original size:40 final size:40
Alignment explanation
Indices: 89316704--89316992 Score: 371
Period size: 40 Copynumber: 7.2 Consensus size: 40
89316694 CCAGCATGAT
* * * * * *
89316704 TGCTCTTCGGGACCTAGCCCGGCTATAACACCAACGCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
89316744 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
89316784 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * **
89316824 TGCTCTTCAGGACTTAGCCCGGATACATCACTACCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
89316864 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
89316904 TGCTCTTCAGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
89316944 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
89316984 TGCTCTTCG
1 TGCTCTTCG
89316993 TGTAACACCC
Statistics
Matches: 212, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
Found at i:89316905 original size:120 final size:120
Alignment explanation
Indices: 89316704--89316992 Score: 427
Period size: 120 Copynumber: 2.4 Consensus size: 120
89316694 CCAGCATGAT
* * * * * * * * *
89316704 TGCTCTTCGGGACCTAGCCCGGCTATAACACCAACGCGAATGCTCTTCGGGACTTAACCCTGATA
1 TGCTCTTCAGGACTTAGCCCGGATACATCACTACCACGAATGCTCTTCGGGACTTAACCCGGATA
* *
89316769 TAACTCTAGCACAAATGCTCTT-TGAGACTTAGCCCGGATATAACACCAGCACAAA
66 TAACACTAGCACAAATGCTCTTCAG-GACTTAGCCCGGATATAACACCAGCACAAA
* *
89316824 TGCTCTTCAGGACTTAGCCCGGATACATCACTACCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCAGGACTTAGCCCGGATACATCACTACCACGAATGCTCTTCGGGACTTAACCCGGATA
89316889 TAACACTAGCACAAATGCTCTTCAGGACTTAGCCCGGATATAACACCAGCACAAA
66 TAACACTAGCACAAATGCTCTTCAGGACTTAGCCCGGATATAACACCAGCACAAA
* *
89316944 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG
1 TGCTCTTCAGGACTTAGCCCGGATACATCACTACCACGAATGCTCTTCG
89316993 TGTAACACCC
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
120 151 0.99
121 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (120 bp):
TGCTCTTCAGGACTTAGCCCGGATACATCACTACCACGAATGCTCTTCGGGACTTAACCCGGATA
TAACACTAGCACAAATGCTCTTCAGGACTTAGCCCGGATATAACACCAGCACAAA
Found at i:89318453 original size:29 final size:29
Alignment explanation
Indices: 89318419--89318493 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
89318409 TACTCGATTT
*
89318419 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
89318448 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
89318477 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
89318494 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:89318510 original size:29 final size:29
Alignment explanation
Indices: 89318477--89318550 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89318467 CCTTCGAGCT
89318477 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
89318506 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89318535 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89318551 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:89326329 original size:29 final size:29
Alignment explanation
Indices: 89326296--89326369 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89326286 CCTTCGAGCT
89326296 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
89326325 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89326354 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89326370 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:89326330 original size:58 final size:58
Alignment explanation
Indices: 89326237--89326369 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
89326227 ATACTCGATT
* * * * *
89326237 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
89326295 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
89326353 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
89326370 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:89327895 original size:40 final size:40
Alignment explanation
Indices: 89327835--89328017 Score: 276
Period size: 40 Copynumber: 4.6 Consensus size: 40
89327825 GGATGTCACA
* *
89327835 CTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCT
1 CTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCT
* * * * * *
89327875 CTTCGGGAATTAGCCTGGATACATCATTACCACGAATGCT
1 CTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCT
*
89327915 CTTCGGGACTTAGCCCAGATATAACACTAGCACGAATGCT
1 CTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCT
*
89327955 CTTCGGGACTTAGCCCGGATATAAAACTAGCACGAATGCT
1 CTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCT
89327995 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATA
89328018 TATAACTCTC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCT
Found at i:89329332 original size:37 final size:37
Alignment explanation
Indices: 89329272--89329415 Score: 225
Period size: 37 Copynumber: 3.9 Consensus size: 37
89329262 AGCTCAGATG
* * *
89329272 AAATCTCCACACGAAGTTATCGGGACTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89329309 AAATCTCCACACGTAGTCCTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89329346 TAATCTCCACACGTAGTCCTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89329383 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
89329416 AAATATATTT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89329623 original size:48 final size:48
Alignment explanation
Indices: 89329564--89329906 Score: 587
Period size: 48 Copynumber: 7.1 Consensus size: 48
89329554 ACACATCGCC
*
89329564 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89329612 TACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
89329662 TATATATTTCACATTAACCATTCGGCTTTACTACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89329710 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89329758 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
89329806 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
89329854 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
89329902 TACAT
1 TACAT
89329907 CAATTTCCGC
Statistics
Matches: 278, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 234 0.84
50 44 0.16
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:89333191 original size:17 final size:17
Alignment explanation
Indices: 89333169--89333202 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89333159 CACTAACACT
*
89333169 AAAATGTAATGACAATG
1 AAAATGCAATGACAATG
89333186 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
89333203 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATG
Found at i:89333670 original size:18 final size:18
Alignment explanation
Indices: 89333644--89333701 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
89333634 CTTTTTCATT
*
89333644 TTCAACAACTTCTTCTTC
1 TTCAGCAACTTCTTCTTC
*
89333662 TTCAGCAACAATTTCCTCTTC
1 TTCAGCAAC---TTCTTCTTC
* *
89333683 TACAGCAACTTCTGCTTC
1 TTCAGCAACTTCTTCTTC
89333701 T
1 T
89333702 GCAACTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 16 0.50
21 16 0.50
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (18 bp):
TTCAGCAACTTCTTCTTC
Found at i:89333670 original size:21 final size:21
Alignment explanation
Indices: 89333646--89333691 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
89333636 TTTTCATTTT
* *
89333646 CAACAACTTCTTCTTCTTCAG
1 CAACAACTTCCTCTTCTACAG
*
89333667 CAACAATTTCCTCTTCTACAG
1 CAACAACTTCCTCTTCTACAG
89333688 CAAC
1 CAAC
89333692 TTCTGCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.35, G:0.04, T:0.33
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTACAG
Found at i:89335206 original size:43 final size:43
Alignment explanation
Indices: 89335148--89335687 Score: 467
Period size: 43 Copynumber: 12.7 Consensus size: 43
89335138 GAATTAAGAA
* * *
89335148 ATCCGAGCTCATTGAGTGGTCCGACTTCGTGATATATGTAAGA
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * ** * *
89335191 ATCCAAACTTGTTGAGTGGTCCAAGTTTGTGATATATGT-AGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * * * ** *
89335233 ATCCAAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
*** *
89335276 ATATAAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGA
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* ** *
89335319 ATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGT-AGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * * ** *
89335361 ATCCGAGCTCATTGAATGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* ** * *
89335404 ATCCGAGCTCATTCAGTGGTATGAGTTCATGATATATGTGAGA
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * ** *
89335447 ATCCAAACTTGTTGAGTGGTCCAAGTTCGTGATATATGT-AGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * * * ** *
89335489 ACCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
*
89335532 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGA
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
** * ** * *
89335575 ATCTAAACTTGTTGAGTGGTCCAAGTTCATGATATATGT-AGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* * * * ** *
89335617 ATCTGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGGGAGC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
* **
89335660 ATCTGAGCTTGTTGAGTGGTCCGAGTTC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTC
89335688 ATAATGGATG
Statistics
Matches: 391, Mismatches: 102, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
42 123 0.31
43 268 0.69
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGC
Found at i:89335381 original size:128 final size:128
Alignment explanation
Indices: 89335148--89335687 Score: 864
Period size: 128 Copynumber: 4.2 Consensus size: 128
89335138 GAATTAAGAA
* *
89335148 ATCCGAGCTCATTGAGTGGTCCGACTTCGTGATATATGTAAGAATCCAAACTTGTTGAGTGGTCC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
* * *
89335213 AAGTTTGTGATATATGTAGCATCCAAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGC
66 AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
*** *
89335276 ATATAAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
*
89335341 AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAATGGTCCGAGTTCATTATGGATGCGAGC
66 AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
* ** *
89335404 ATCCGAGCTCATTCAGTGGTATGAGTTCATGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
* *
89335469 AAGTTCGTGATATATGTAGCACCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGC
66 AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
*
89335532 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCTAAACTTGTTGAGTGGTCC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
* * * *
89335597 AAGTTCATGATATATGTAGCATCTGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGGGAGC
66 AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
* **
89335660 ATCTGAGCTTGTTGAGTGGTCCGAGTTC
1 ATCCGAGCTCATTGAGTGGTCCGAGTTC
89335688 ATAATGGATG
Statistics
Matches: 377, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 377 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (128 bp):
ATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCC
AAGTTCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
Found at i:89340047 original size:15 final size:15
Alignment explanation
Indices: 89340027--89340063 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
89340017 TTCTTGTGAT
89340027 CCCTTTCACATACGC
1 CCCTTTCACATACGC
89340042 CCCTTTCACATACGC
1 CCCTTTCACATACGC
89340057 CCCTTTC
1 CCCTTTC
89340064 CTCAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.05, T:0.30
Consensus pattern (15 bp):
CCCTTTCACATACGC
Found at i:89355251 original size:30 final size:29
Alignment explanation
Indices: 89355157--89355258 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
89355147 TATAGTGAAT
* * *
89355157 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
89355186 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
89355214 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
89355244 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
89355259 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:89363105 original size:30 final size:29
Alignment explanation
Indices: 89363011--89363112 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
89363001 TATAGTGAAT
* * *
89363011 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
89363040 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
89363068 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
89363098 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
89363113 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:89369825 original size:47 final size:47
Alignment explanation
Indices: 89369753--89370006 Score: 373
Period size: 47 Copynumber: 5.3 Consensus size: 47
89369743 CCCTTCGGGA
* * * * * * *
89369753 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89369800 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89369847 CTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89369894 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89369943 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
89369992 CTTATCACATATATA
1 CTTATCACATATATA
89370007 TATCTCATAC
Statistics
Matches: 192, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
47 99 0.52
49 93 0.48
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89369831 original size:25 final size:25
Alignment explanation
Indices: 89369803--89369881 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
89369793 ACTCGGCCCT
*
89369803 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
89369828 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
89369850 ATCACATATATACACATTCACATTC
1 ATCACATATATACACATTCACATTC
89369875 ATCACAT
1 ATCACAT
89369882 CGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 5 0.12
25 19 0.47
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:89369927 original size:49 final size:49
Alignment explanation
Indices: 89369753--89370008 Score: 371
Period size: 49 Copynumber: 5.3 Consensus size: 49
89369743 CCCTTCGGGA
* * * * * *
89369753 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89369800 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89369847 CTTATCAC--ATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89369894 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89369943 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89369992 CTTATCACATATATATA
1 CTTATCACATATATATA
89370009 TCTCATACAT
Statistics
Matches: 193, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 90 0.47
49 102 0.53
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89369950 original size:96 final size:96
Alignment explanation
Indices: 89369753--89370008 Score: 383
Period size: 96 Copynumber: 2.7 Consensus size: 96
89369743 CCCTTCGGGA
* * * * * * *
89369753 CTTATCACATTTATACAC-TTCCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATA
1 CTTATCACATATATACACATT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
* *
89369815 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
89369847 CTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
89369912 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
89369943 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACA--TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
89370008 A
64 A
89370009 TCTCATACAT
Statistics
Matches: 148, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
94 45 0.30
95 2 0.01
96 56 0.38
98 45 0.30
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89374378 original size:47 final size:47
Alignment explanation
Indices: 89374324--89374640 Score: 487
Period size: 47 Copynumber: 6.7 Consensus size: 47
89374314 TTAGGATTTT
* *
89374324 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
*
89374371 ATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
*
89374418 ATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
89374465 ATGTGATGAATGTGAGCA-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGA-AAGTGTATATATGTGATAAGGCCGAATGGCCA
*
89374512 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
89374559 AGGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
89374606 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
89374641 TCCCGAAGGG
Statistics
Matches: 253, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 252 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:89374399 original size:25 final size:25
Alignment explanation
Indices: 89374371--89374496 Score: 83
Period size: 25 Copynumber: 5.3 Consensus size: 25
89374361 CGAATGGCCA
89374371 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
89374396 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
89374418 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
89374443 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
89374465 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
89374490 ATGTGAT
1 ATGTGAT
89374497 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
22 16 0.22
23 17 0.23
24 18 0.24
25 23 0.31
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:89378819 original size:39 final size:40
Alignment explanation
Indices: 89378676--89378905 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
89378666 CCAGCATGAT
* * *
89378676 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
89378716 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89378756 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89378796 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89378835 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
89378874 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
89378906 CTCAATTCTC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 78 0.44
40 98 0.56
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:89378904 original size:118 final size:120
Alignment explanation
Indices: 89378676--89378905 Score: 347
Period size: 118 Copynumber: 1.9 Consensus size: 120
89378666 CCAGCATGAT
* * * *
89378676 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGTTG
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
* *
89378741 CATTACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
89378796 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTC-GAACTTAGTCCGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
* * *
89378859 CATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACT
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
89378906 CTCAATTCTC
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
118 55 0.56
119 36 0.36
120 8 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (120 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:89381105 original size:47 final size:47
Alignment explanation
Indices: 89381033--89381285 Score: 373
Period size: 49 Copynumber: 5.3 Consensus size: 47
89381023 CCCTTCGGGA
* * * * * * *
89381033 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89381080 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89381127 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89381173 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89381222 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
89381271 CTTATCACATATATA
1 CTTATCACATATATA
89381286 TATCTCATAC
Statistics
Matches: 192, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
46 34 0.18
47 65 0.34
48 10 0.05
49 83 0.43
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89388545 original size:40 final size:40
Alignment explanation
Indices: 89388464--89388639 Score: 151
Period size: 40 Copynumber: 4.4 Consensus size: 40
89388454 GCTCGATTGT
* * * ** *
89388464 CTTCGGGACATAGCCCGG-TTATAGTGATTCGTACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCACACAAATGC
* * *
89388504 CTTCGGGAATTAGCCCGGATTTAATAACTCACACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGC
* * *
89388544 CTTCGGGACTTAAG-CCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTT-AGCCCGGATTTAGTAACTCACACAAATGC
* * * *
89388584 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAACTCA-CACAAATGC
89388625 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
89388640 TGGACACCAT
Statistics
Matches: 107, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
38 1 0.01
40 81 0.76
41 24 0.22
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGC
Found at i:89405143 original size:13 final size:13
Alignment explanation
Indices: 89405107--89405176 Score: 70
Period size: 13 Copynumber: 5.3 Consensus size: 13
89405097 ACTAAATACT
* *
89405107 TAATTTTTAAATC
1 TAATTTTCAAAAC
89405120 TAACTTTTCAAAAC
1 TAA-TTTTCAAAAC
*
89405134 TAATTCTCAAAGAC
1 TAATTTTCAAA-AC
*
89405148 -AATTTTCAAAAG
1 TAATTTTCAAAAC
*
89405160 TAATTTTCAAAAG
1 TAATTTTCAAAAC
89405173 TAAT
1 TAAT
89405177 ATTAAACTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
12 1 0.02
13 35 0.71
14 13 0.27
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (13 bp):
TAATTTTCAAAAC
Found at i:89405581 original size:23 final size:22
Alignment explanation
Indices: 89405542--89405586 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
89405532 TACTTTGATA
89405542 TTAATTTTTTAAGTAATAATTT
1 TTAATTTTTTAAGTAATAATTT
**
89405564 TTAATTATTTTATTTAATAATTT
1 TTAATT-TTTTAAGTAATAATTT
89405587 CATATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTAATTTTTTAAGTAATAATTT
Found at i:89418073 original size:48 final size:48
Alignment explanation
Indices: 89418006--89418362 Score: 615
Period size: 48 Copynumber: 7.4 Consensus size: 48
89417996 TATATATGTG
*
89418006 TGTGGTAAAGCCGACTGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
89418054 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
89418102 TGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
89418150 TGGGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
89418198 TGCGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
89418246 CGGGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
89418294 TGTGGTAAAGCCGGATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
89418342 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
89418363 GTGATTCGGC
Statistics
Matches: 294, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 294 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:89418591 original size:37 final size:37
Alignment explanation
Indices: 89418535--89418637 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
89418525 GGAAATATAT
*
89418535 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
89418572 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
89418609 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
89418638 GGACTATCCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:89423695 original size:22 final size:22
Alignment explanation
Indices: 89423667--89423710 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89423657 TGAAGTTAAG
*
89423667 AGATAGATATTCAATATCTATT
1 AGATAGATATTCAACATCTATT
89423689 AGATAGATATTCAACATCTATT
1 AGATAGATATTCAACATCTATT
89423711 CATACATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
AGATAGATATTCAACATCTATT
Found at i:89430351 original size:49 final size:49
Alignment explanation
Indices: 89430292--89430466 Score: 162
Period size: 49 Copynumber: 3.6 Consensus size: 49
89430282 CTTGTAGTGT
* *
89430292 GTCAGTGTAAGACCTGTCTGGGACGTGGCATCGACACCT-ATAAATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCTGATAAATGAAA
* * *
89430341 GAT-AGTGTAAGACCTGTCTGGGACATAGCATC-AGCCTTGATATATGAAA
1 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCCTGATAAATGAAA
* * ** * **
89430390 GTCAGTGTAAGACCTGTTTGGGACATGGCTTCGACTTTGAT--GTGTTA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCCTGATAAATGAAA
*
89430437 GCCAGTGTAAGACCATGTCTGGGACATGGC
1 GTCAGTGTAAGACC-TGTCTGGGACATGGC
89430467 GTCGGCATCT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
47 16 0.15
48 18 0.17
49 70 0.66
50 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCCTGATAAATGAAA
Found at i:89431466 original size:7 final size:7
Alignment explanation
Indices: 89431456--89431482 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
89431446 TTAGATCGGG
89431456 GAAAGTC
1 GAAAGTC
89431463 GAAAGTC
1 GAAAGTC
89431470 GAAAGTC
1 GAAAGTC
89431477 GAAAGT
1 GAAAGT
89431483 TGTAGATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.15
Consensus pattern (7 bp):
GAAAGTC
Found at i:89440226 original size:53 final size:53
Alignment explanation
Indices: 89440045--89440251 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
89440035 ATTAGGGTTT
* * * *
89440045 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-TTACAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT-C-AGGC
* * * * * * * * * *
89440099 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATCAGGC
* * * * *
89440154 AAAGATCCCACGTAAGACCATGCCGAGGCATGGCAATGGTGAGTTCATCAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATCAGGC
* *
89440207 AAGGATATCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
89440252 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 33, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
53 44 0.38
54 36 0.31
55 36 0.31
57 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATCAGGC
Found at i:89449852 original size:38 final size:38
Alignment explanation
Indices: 89449800--89449876 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
89449790 GCCACCAGAG
*
89449800 TTAGAAAAGGTTCATAATATGTTTCACGTATCAATGCT
1 TTAGAAAAGATTCATAATATGTTTCACGTATCAATGCT
* *
89449838 TTAGAAAAGATTCATAATGTGTTTTACGTATCAATGCT
1 TTAGAAAAGATTCATAATATGTTTCACGTATCAATGCT
89449876 T
1 T
89449877 CGACGATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (38 bp):
TTAGAAAAGATTCATAATATGTTTCACGTATCAATGCT
Found at i:89453929 original size:93 final size:92
Alignment explanation
Indices: 89453797--89454060 Score: 420
Period size: 93 Copynumber: 2.8 Consensus size: 92
89453787 GCCCATAAGT
* *
89453797 GAACTCGGACTCAACTCAACGAGCTCGAGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGA-TGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
* *
89453862 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
89453890 GAACACGGACTCAACTCAACGAGTTCAGATGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTC-GATGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
89453955 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* **
89453983 AAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTC-GATGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
89454048 CGAGTTCGGATGC
65 CGAGTTCGGATGC
89454061 TCAACCATCC
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
93 156 0.99
94 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGTTCGATGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89454076 original size:46 final size:46
Alignment explanation
Indices: 89453789--89454063 Score: 283
Period size: 46 Copynumber: 5.9 Consensus size: 46
89453779 TGTAACCCGC
* * *
89453789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-TGCTCACAT
* **
89453835 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACAT
* *** * *
89453881 ACATCTCTCGAACACGGACTCAACTCAACGAGTTCAGATGCTCACAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACAT
*
89453928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C---TCACAT
* ***
89453978 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACAT
89454021 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
89454064 ACCATCCTAG
Statistics
Matches: 187, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.01
43 7 0.04
45 1 0.01
46 101 0.54
47 66 0.35
48 1 0.01
50 7 0.04
51 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACAT
Found at i:89456481 original size:30 final size:31
Alignment explanation
Indices: 89456446--89456525 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
89456436 CAAGAAAACC
* *
89456446 GAATAAAGAAATCCAAGATAGAGA-AACCTG
1 GAATAAAGAAATCCAAGATAAAGAGAACCAG
*
89456476 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCAG
*
89456507 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
89456526 CGATACTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 34 0.79
31 7 0.16
ACGTcount: A:0.55, C:0.14, G:0.19, T:0.12
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCAG
Found at i:89456525 original size:15 final size:15
Alignment explanation
Indices: 89456448--89456525 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
89456438 AGAAAACCGA
89456448 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
89456463 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
89456477 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
89456492 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89456508 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89456523 ATA
1 ATA
89456526 CGATACTATA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89457380 original size:45 final size:45
Alignment explanation
Indices: 89457316--89457407 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
89457306 ACCACTTCGG
* *
89457316 TAAGGGGGAGGGGTTGTAGGACCTCTGGCTCGACTTTCTTATACA
1 TAAGGGGGAAGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
89457361 TAAGGGGGAAGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
1 TAAGGGGGAAGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
89457406 TA
1 TA
89457408 CACATATGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (45 bp):
TAAGGGGGAAGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
Found at i:89459597 original size:85 final size:85
Alignment explanation
Indices: 89459498--89459659 Score: 290
Period size: 85 Copynumber: 1.9 Consensus size: 85
89459488 GCTCGGGCGT
*
89459498 TCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCA-AA
1 TCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-AAGAA
89459562 CTCGGACTCAACTTCGGACGC
65 CTCGGACTCAACTTCGGACGC
*
89459583 TCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAAC
1 TCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAAGAAC
89459648 TCGGACTCAACT
66 TCGGACTCAACT
89459660 CAACGAGTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (85 bp):
TCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAAGAAC
TCGGACTCAACTTCGGACGC
Found at i:89464906 original size:42 final size:42
Alignment explanation
Indices: 89464846--89464999 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
89464836 CAAGACTACG
89464846 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTCA
* *
89464888 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * * * * **
89464930 TGTAAGACTATAGCTAGGCTATTGACATCGATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
89464973 TGTAAGACCATGTCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
89465000 TGGTGTGGTA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:89466794 original size:15 final size:15
Alignment explanation
Indices: 89466774--89466802 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89466764 TAATAATTTC
89466774 ATTCAATTCATTTTT
1 ATTCAATTCATTTTT
89466789 ATTCAATTCATTTT
1 ATTCAATTCATTTT
89466803 ATACAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTCAATTCATTTTT
Found at i:89466802 original size:14 final size:14
Alignment explanation
Indices: 89466769--89466810 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
89466759 TAAATTAATA
*
89466769 ATTTCATTCAATTC
1 ATTTTATTCAATTC
89466783 ATTTTTATTCAATTC
1 A-TTTTATTCAATTC
*
89466798 ATTTTATACAATT
1 ATTTTATTCAATT
89466811 TAGTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTATTCAATTC
Found at i:89468726 original size:23 final size:23
Alignment explanation
Indices: 89468696--89468741 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89468686 TAAAAACAAA
89468696 ATTAAAAGCCAAGTTTTGTCCAT
1 ATTAAAAGCCAAGTTTTGTCCAT
89468719 ATTAAAAGCCAAGTTTTGTCCAT
1 ATTAAAAGCCAAGTTTTGTCCAT
89468742 CTTCAGCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (23 bp):
ATTAAAAGCCAAGTTTTGTCCAT
Found at i:89469740 original size:53 final size:54
Alignment explanation
Indices: 89469557--89469811 Score: 267
Period size: 55 Copynumber: 4.8 Consensus size: 54
89469547 ATTAGGGTTT
* * *
89469557 AAGGATACCATGTAAGATCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCATAAGGC
* * *
89469612 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * *
89469667 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * *
89469720 AAGGATACCATGTAAAACCATGTCGAGACATGGCAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* *
89469769 AAGGATACCATGTAAGACCATGACAA-ATCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGGTAAG
89469812 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.22
52 6 0.03
53 43 0.25
54 13 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:89469763 original size:108 final size:110
Alignment explanation
Indices: 89469564--89469766 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
89469554 TTTAAGGATA
* * *
89469564 CCATGTAAGATCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
*
89469629 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
89469674 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
* *
89469736 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
89469767 AAAAGGATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:89470025 original size:16 final size:16
Alignment explanation
Indices: 89470004--89470034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89469994 ATAAATTTGA
89470004 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
89470020 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
89470035 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:89472946 original size:40 final size:40
Alignment explanation
Indices: 89472838--89473047 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
89472828 CGGGATTTAA
* * * * *
89472838 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89472878 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89472918 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89472958 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89472998 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89473038 CCGGATATAT
1 CCGGATATAT
89473048 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89480695 original size:55 final size:54
Alignment explanation
Indices: 89480619--89480803 Score: 223
Period size: 55 Copynumber: 3.4 Consensus size: 54
89480609 ATTAAGGTCT
* **
89480619 AAGGATACCATGTAAGGCCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCAT-GTCATTGGTAA-GTTTCATAAGGC
* * * *
89480674 AAGGATATCATGTAAGACCATGTCAAGACATGTCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTC-ATAAGGC
* * *
89480729 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGTCATTGGTGAG-TTCACAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTCATAAGGC
89480782 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
89480804 TCGAGACATG
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.04
53 27 0.24
54 11 0.10
55 65 0.59
56 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTCATAAGGC
Found at i:89481095 original size:20 final size:20
Alignment explanation
Indices: 89481081--89481122 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
89481071 CACACGCTCT
89481081 TGTGAATTGGGACACGCCCG
1 TGTGAATTGGGACACGCCCG
*
89481101 TGTGACTTGGGACACGCCCG
1 TGTGAATTGGGACACGCCCG
89481121 TG
1 TG
89481123 CAATCACCCC
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:0.26, G:0.36, T:0.21
Consensus pattern (20 bp):
TGTGAATTGGGACACGCCCG
Found at i:89483321 original size:40 final size:40
Alignment explanation
Indices: 89483276--89483442 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
89483266 CGGAATATAA
89483276 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
89483316 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
89483356 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89483396 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
89483435 CCGGATAT
1 CCGGATAT
89483443 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89483426 original size:80 final size:79
Alignment explanation
Indices: 89483276--89483442 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
89483266 CGGAATATAA
* *
89483276 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
89483341 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
89483356 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
89483418 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
89483435 CCGGATAT
1 CCGGATAT
89483443 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:89487760 original size:47 final size:47
Alignment explanation
Indices: 89487688--89487939 Score: 387
Period size: 47 Copynumber: 5.3 Consensus size: 47
89487678 CCCTTCGGGA
* * * * *
89487688 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
89487735 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
89487782 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
89487829 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
89487878 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
89487925 CTTATCACATATATA
1 CTTATCACATATATA
89487940 TATCTCATAC
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 144 0.76
49 46 0.24
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:89487766 original size:25 final size:25
Alignment explanation
Indices: 89487738--89487816 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
89487728 ACTCGGCCCT
*
89487738 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
89487763 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
89487785 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
89487810 ATCACAT
1 ATCACAT
89487817 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:89487885 original size:96 final size:95
Alignment explanation
Indices: 89487688--89487939 Score: 382
Period size: 96 Copynumber: 2.7 Consensus size: 95
89487678 CCCTTCGGGA
* * * * *
89487688 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAT-AC
1 CTTATCACATATATACACCTT-CACATTCATCACATTGGCCATTCGGCCTTATCACATATATAAC
* *
89487751 ACTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
89487782 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA-AC
89487847 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
89487878 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
89487940 TATCTCATAC
Statistics
Matches: 143, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
94 50 0.35
95 3 0.02
96 90 0.63
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89495685 original size:18 final size:18
Alignment explanation
Indices: 89495662--89495698 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89495652 AGCCAAAACT
89495662 CGGCTCTTCAGCATCATC
1 CGGCTCTTCAGCATCATC
89495680 CGGCTCTTCAGCATCATC
1 CGGCTCTTCAGCATCATC
89495698 C
1 C
89495699 TCAATTTTGG
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:0.16, C:0.41, G:0.16, T:0.27
Consensus pattern (18 bp):
CGGCTCTTCAGCATCATC
Found at i:89507431 original size:46 final size:46
Alignment explanation
Indices: 89507378--89507553 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
89507368 TATTTGGGCA
89507378 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
89507424 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
89507471 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
89507517 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89507554 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:89507533 original size:93 final size:93
Alignment explanation
Indices: 89507374--89507545 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
89507364 GGGATATTTG
* *
89507374 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89507439 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
89507467 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89507532 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
89507546 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:89510410 original size:15 final size:15
Alignment explanation
Indices: 89510390--89510458 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
89510380 GTATCTTGGG
89510390 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
89510405 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
89510420 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
89510435 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
89510450 TTTCTTTAT
1 TTTCTTTAT
89510459 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:89510459 original size:30 final size:30
Alignment explanation
Indices: 89510381--89510468 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
89510371 CATAGTATCG
* * * *
89510381 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
89510411 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
89510441 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
89510469 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:89512901 original size:46 final size:46
Alignment explanation
Indices: 89512851--89513026 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
89512841 TATTTGGGCA
89512851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
89512897 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
89512944 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
89512990 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89513027 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:89513006 original size:93 final size:93
Alignment explanation
Indices: 89512847--89513018 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
89512837 TGGATATTTG
* *
89512847 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89512912 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
89512940 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89513005 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
89513019 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:89518187 original size:16 final size:16
Alignment explanation
Indices: 89518166--89518196 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89518156 ATAAATTTGA
89518166 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
89518182 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
89518197 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:89528150 original size:21 final size:21
Alignment explanation
Indices: 89528124--89528166 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
89528114 TGGTATCAGA
89528124 GTTATGGTTTAGTCGATTCTC
1 GTTATGGTTTAGTCGATTCTC
89528145 GTTATGGTTTAGTCGATTCTC
1 GTTATGGTTTAGTCGATTCTC
89528166 G
1 G
89528167 AACTAACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.47
Consensus pattern (21 bp):
GTTATGGTTTAGTCGATTCTC
Found at i:89528939 original size:48 final size:48
Alignment explanation
Indices: 89528879--89528999 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 48
89528869 TGGCATTGTG
* * * *
89528879 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGATATGTA
1 ATCCCATATAAGACCATATCTGGGACATGGCATTAGCATCGATATGTA
* * *
89528927 ATCCCATATAAGACCATTTCTGGGACATGGCATTAGCATTGATATGTG
1 ATCCCATATAAGACCATATCTGGGACATGGCATTAGCATCGATATGTA
* *
89528975 ATCCAATTTAAGACCATATCTGGGA
1 ATCCCATATAAGACCATATCTGGGA
89529000 TATATTGGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (48 bp):
ATCCCATATAAGACCATATCTGGGACATGGCATTAGCATCGATATGTA
Found at i:89537815 original size:18 final size:18
Alignment explanation
Indices: 89537788--89537824 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89537778 ATTAACTTCA
* *
89537788 TTGACTGAATGTTAGACC
1 TTGACCGAATATTAGACC
89537806 TTGACCGAATATTAGACC
1 TTGACCGAATATTAGACC
89537824 T
1 T
89537825 ATGTCTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (18 bp):
TTGACCGAATATTAGACC
Found at i:89539081 original size:2 final size:2
Alignment explanation
Indices: 89539026--89539063 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
89539016 TCCAACCATC
89539026 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89539064 TCTTATTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:89539089 original size:19 final size:19
Alignment explanation
Indices: 89539027--89539089 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
89539017 CCAACCATCT
*
89539027 ATATATATATATATATATAT
1 ATAT-TATATATATATATAC
*
89539047 ATATTATATATATATATTC
1 ATATTATATATATATATAC
* *
89539066 TTATTA-AGTATATATAAAC
1 ATATTATA-TATATATATAC
89539085 ATATT
1 ATATT
89539090 TGGTTATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.03
19 31 0.86
20 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTATATATATATATAC
Found at i:89539619 original size:43 final size:43
Alignment explanation
Indices: 89539553--89539637 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
89539543 GTCGTACAAT
* **
89539553 GCCAATGTCCCAAACGTGGTCTTACAT-GTAGTCACATATCGAC
1 GCCAATGTCCCAAACATGGTCTTAC-TCGTAAACACATATCGAC
* *
89539596 GCCACTGTCCCAAATATGGTCTTACTCGTAAACACATATCGA
1 GCCAATGTCCCAAACATGGTCTTACTCGTAAACACATATCGA
89539638 AATCACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACTCGTAAACACATATCGAC
Found at i:89544312 original size:2 final size:2
Alignment explanation
Indices: 89544305--89544330 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89544295 CGGCTCTAGC
89544305 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
89544331 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89545258 original size:40 final size:40
Alignment explanation
Indices: 89545203--89545370 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
89545193 TGAATGATAC
* *
89545203 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
89545243 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
89545283 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
89545323 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
89545363 CC-GGCTAA
1 CCGGGCTAA
89545371 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:89553435 original size:40 final size:40
Alignment explanation
Indices: 89553380--89553582 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 40
89553370 GAATGATACT
*
89553380 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATC
*
89553420 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATC
* * *
89553460 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTATATC
* * ** *
89553500 CGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGT-CCCGAAGGCATTTGTGCTAGTGATTATATC
* * * * *
89553540 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATC
89553580 CGG
1 CGG
89553583 TTAAATTTCG
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 135 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATC
Found at i:89561056 original size:21 final size:21
Alignment explanation
Indices: 89561030--89561072 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
89561020 TTAATGACGC
89561030 TCATGCTAACCCTCATCATGT
1 TCATGCTAACCCTCATCATGT
89561051 TCATGCTAACCCTCATCATGT
1 TCATGCTAACCCTCATCATGT
89561072 T
1 T
89561073 GATTGTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (21 bp):
TCATGCTAACCCTCATCATGT
Found at i:89563012 original size:47 final size:47
Alignment explanation
Indices: 89562949--89563249 Score: 451
Period size: 47 Copynumber: 6.3 Consensus size: 47
89562939 GCCCTTGGGA
* * * * *
89562949 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
89562996 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89563043 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89563090 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89563139 CTTATCACATATATACCCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
* *
89563188 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89563235 CTTATCACATATATA
1 CTTATCACATATATA
89563250 TATCTCATAC
Statistics
Matches: 237, Mismatches: 12, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
46 2 0.01
47 142 0.60
49 93 0.39
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89563028 original size:25 final size:25
Alignment explanation
Indices: 89562999--89563077 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
89562989 ACTTGGCCCT
*
89562999 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
89563024 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
89563046 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
89563071 ATCACAT
1 ATCACAT
89563078 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:89563146 original size:96 final size:94
Alignment explanation
Indices: 89562949--89563249 Score: 462
Period size: 96 Copynumber: 3.2 Consensus size: 94
89562939 GCCCTTGGGA
* * * * *
89562949 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTT-GGCCCTATCACATATATAC
1 CTTATCACATATATACACCTT-CACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATAC
89563012 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
89563043 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
89563108 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
*
89563139 CTTATCACATATATACCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATA--CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
89563204 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
89563235 CTTATCACATATATA
1 CTTATCACATATATA
89563250 TATCTCATAC
Statistics
Matches: 191, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
93 2 0.01
94 43 0.23
95 3 0.02
96 104 0.54
98 39 0.20
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:89578879 original size:14 final size:15
Alignment explanation
Indices: 89578855--89578883 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89578845 ATGATGTGTT
89578855 GATGTTTTGGTTGTG
1 GATGTTTTGGTTGTG
89578870 GATG-TTTGGTTGTG
1 GATGTTTTGGTTGTG
89578884 TGTATATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (15 bp):
GATGTTTTGGTTGTG
Found at i:89582594 original size:24 final size:24
Alignment explanation
Indices: 89582549--89582594 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
89582539 AAAATTTGGC
*
89582549 GTCATCATTTCTACGGTGAGAAAT
1 GTCATCATTTCTACGGTCAGAAAT
*
89582573 GTCAT-ATTTTTACTGGTCAGAA
1 GTCATCATTTCTAC-GGTCAGAA
89582595 GAGCTTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (24 bp):
GTCATCATTTCTACGGTCAGAAAT
Found at i:89587018 original size:12 final size:12
Alignment explanation
Indices: 89586998--89587029 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
89586988 CGTGTTAAGG
*
89586998 CACATGGCCTAC
1 CACACGGCCTAC
89587010 CACACGGCCTAC
1 CACACGGCCTAC
89587022 CACACGGC
1 CACACGGC
89587030 TGTGTGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.47, G:0.19, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:89595939 original size:40 final size:39
Alignment explanation
Indices: 89595882--89596065 Score: 194
Period size: 40 Copynumber: 4.7 Consensus size: 39
89595872 TCGAATGATG
* * *
89595882 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
89595922 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
89595961 ACCGGACTAAG-ACCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
** *
89596000 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
89596040 ACCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
89596066 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 24 0.19
39 22 0.18
40 71 0.57
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:89596018 original size:78 final size:79
Alignment explanation
Indices: 89595895--89596044 Score: 207
Period size: 78 Copynumber: 1.9 Consensus size: 79
89595885 GGGCTAAGTC
* *
89595895 CCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTA
89595960 -AACCGGACTAAGA
66 TAACCGGACTAAGA
* * **
89595973 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTAC
1 CCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTAC
89596036 TATAACCGG
64 TATAACCGG
89596045 GCTATGTCCC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.02
78 49 0.78
79 13 0.21
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTA
TAACCGGACTAAGA
Found at i:89603980 original size:38 final size:40
Alignment explanation
Indices: 89603880--89604061 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
89603870 TCGAATGATG
* * *
89603880 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
89603920 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
89603960 TCCGGG-TAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89603998 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
89604039 -CCGGGCT--GTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89604062 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 49 0.38
39 9 0.07
40 61 0.47
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89604015 original size:78 final size:81
Alignment explanation
Indices: 89603880--89604055 Score: 224
Period size: 78 Copynumber: 2.2 Consensus size: 81
89603870 TCGAATGATG
*
89603880 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
89603945 GTGCGAGTTACTA-AA
66 GTGCGAGCTACTATAA
* * **
89603960 TCCGGG-TAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
89604021 TTGTGCGAGCTACTATAA
64 TTGTGCGAGCTACTATAA
89604039 -CCGGGCT--GTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
89604056 TATTTGAACG
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
77 3 0.04
78 61 0.72
79 15 0.18
80 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTATAA
Found at i:89604068 original size:78 final size:76
Alignment explanation
Indices: 89603933--89604084 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 76
89603923 GGACTAAGAT
* **
89603933 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCGAAGGCATTTGTGCGAGTTA-CTAA
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGT-AGTCCGAAGGCATTTGAACGAG-TAGCTAA
89603997 ATCCGGGTTAAGTC
64 ATCC-GGTTAAGTC
*
89604011 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCT-GTCCCGAAGGTATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGG-TAGT-CCGAAGGCATTTGAACGAGTAGCTA
*
89604074 TATCCGGTTAA
63 AATCCGGTTAA
89604085 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
77 10 0.15
78 52 0.80
79 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGTAGTCCGAAGGCATTTGAACGAGTAGCTAAAT
CCGGTTAAGTC
Found at i:89604075 original size:38 final size:38
Alignment explanation
Indices: 89603933--89604080 Score: 99
Period size: 38 Copynumber: 3.8 Consensus size: 38
89603923 GGACTAAGAT
** *
89603933 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGG-TAAGT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGCT--GTC
** * *
89603971 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGCT--GTC
**
89604011 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGCTGTC
* *
89604049 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
89604081 TTAAACTCCG
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
37 2 0.02
38 61 0.61
39 5 0.05
40 30 0.30
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGCTGTC
Found at i:89607858 original size:40 final size:40
Alignment explanation
Indices: 89607781--89607965 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
89607771 GCTACTCGTT
* *
89607781 CAAATACCTTCGGGAC-TAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
89607820 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
89607860 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
89607900 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
89607941 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89607966 CATCATTCGA
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 18 0.14
40 101 0.77
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:89613936 original size:40 final size:40
Alignment explanation
Indices: 89613892--89614036 Score: 204
Period size: 40 Copynumber: 3.6 Consensus size: 40
89613882 GGGCCAAGTC
* * *
89613892 CCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
89613932 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
**
89613972 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
89614011 CCCGAAGGCATTTGTGCGAGCTACTA
1 -CCGAAGGCATTTGTGCGAGTTACTA
89614037 TAACCGGGCT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.92
41 7 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:89614044 original size:40 final size:40
Alignment explanation
Indices: 89613887--89614062 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
89613877 TGTCCGGGCC
* * *
89613887 AAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACT
1 AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACT
89613927 AAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACT
1 AAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACT
**
89613967 AAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT
1 AAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACT
* *
89614007 AAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACT
*
89614047 --GTCCCGAAGGTATTTG
1 AAGTCCCGAAGGCATTTG
89614063 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 15 0.12
39 1 0.01
40 98 0.79
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACT
Found at i:89619963 original size:31 final size:31
Alignment explanation
Indices: 89619893--89619963 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
89619883 GTCGAGACAC
*
89619893 GGGCGTGTGTGACCACACAGCCTGCCCACAG
1 GGGCGTGTGTGACCACACAGCCTACCCACAG
* * ** *
89619924 GGGTGTGTGTGACTACATGGCCTACCCACAT
1 GGGCGTGTGTGACCACACAGCCTACCCACAG
*
89619955 GTGCGTGTG
1 GGGCGTGTG
89619964 ACCCCTGTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (31 bp):
GGGCGTGTGTGACCACACAGCCTACCCACAG
Done.