Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 157 of 226
Found at i:48732295 original size:9 final size:9
Alignment explanation
Indices: 48732268--48732310 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
48732258 AAAAAAATAT
*
48732268 TCGAGTTAAT
1 TCGA-TTAAC
*
48732278 TCGAATAAC
1 TCGATTAAC
48732287 TCGATTAAC
1 TCGATTAAC
*
48732296 TCGAATAAC
1 TCGATTAAC
48732305 TCGATT
1 TCGATT
48732311 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:48735211 original size:19 final size:20
Alignment explanation
Indices: 48735175--48735213 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
48735165 ATTGCTTATT
*
48735175 CTCTCTTTTTTTCGGTTTTA
1 CTCTCTTTTTTTCAGTTTTA
*
48735195 CTCT-TTTTTTTTAGTTTTA
1 CTCTCTTTTTTTCAGTTTTA
48735214 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (20 bp):
CTCTCTTTTTTTCAGTTTTA
Found at i:48736644 original size:36 final size:37
Alignment explanation
Indices: 48736597--48736666 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
48736587 ATTGCTTTTA
* *
48736597 TTTTCTGCCGATTTGGT-CCCAGTTTATTTTCTTGCC
1 TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTTGCC
*
48736633 TTTTCTGCCGATTTGCTCCCCCGATTATTTTCTT
1 TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTT
48736667 TTCTATTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.09, C:0.27, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTTGCC
Found at i:48739429 original size:51 final size:51
Alignment explanation
Indices: 48739368--48739470 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
48739358 AAATTAAAAG
*
48739368 ATTATACATACACCAACAATGTT-TTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTATTCT-GGGTAAATAACATTAAACCAACA
48739419 ATTATACATACACCAACAATGTTATTCTGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTATTCTGGGTAAATAACATTAAACCAACA
48739470 A
1 A
48739471 GTAATTTTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 47 0.94
52 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTATTCTGGGTAAATAACATTAAACCAACA
Found at i:48739500 original size:33 final size:33
Alignment explanation
Indices: 48739417--48739526 Score: 125
Period size: 33 Copynumber: 3.3 Consensus size: 33
48739407 ATTAAACCAA
* * *
48739417 CAATTATACATACACCAACAATGTTATTCTGGGT
1 CAATTATACATACACCAACAA-GTAATTTTAGGT
* *
48739451 -AAATA-ACATTAAACCAACAAGTAATTTTAGGT
1 CAATTATACA-TACACCAACAAGTAATTTTAGGT
* *
48739483 CAATTATACATACACCAACAATTAATTTTACGT
1 CAATTATACATACACCAACAAGTAATTTTAGGT
48739516 CAATTATACAT
1 CAATTATACAT
48739527 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
32 12 0.19
33 49 0.77
34 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAAGTAATTTTAGGT
Found at i:48742697 original size:120 final size:120
Alignment explanation
Indices: 48742429--48743001 Score: 1047
Period size: 120 Copynumber: 4.8 Consensus size: 120
48742419 TTTTCAAGTT
*
48742429 ATATATTTAATAATAATTATGTTAATTAATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
** * * *
48742494 TAATATATTTAATAATAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATA-AGAATATTAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
48742550 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
48742615 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
48742670 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
48742735 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
48742790 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
48742855 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
48742910 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
48742975 TAATATAAGAATATTAATTATTAAGAA
66 TAATATAAGAATATTAATTATTAAGAA
48743002 CATATTGATT
Statistics
Matches: 442, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
120 371 0.84
121 71 0.16
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
Found at i:48743217 original size:118 final size:120
Alignment explanation
Indices: 48743091--48743339 Score: 403
Period size: 118 Copynumber: 2.1 Consensus size: 120
48743081 TTTTCAAGTT
*
48743091 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCATATATTATGATTTGAGTAAAT
** * *
48743156 TAATAT-A-TTTAATAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATAATAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
*
48743209 ATATATTTAATAATAATTATGTTAATTTATATTTTGCAATATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCATATATTATGATTTGAGTAAAT
* * *
48743274 TAATATAAGAATATTAATTATTAATAATTTTATTAAATCAAATATTTTAATTAAA
66 TAATATAAGAATAATAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
48743329 ATATATTTAAT
1 ATATATTTAAT
48743340 TATGATTAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
118 69 0.57
119 1 0.01
120 50 0.42
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCATATATTATGATTTGAGTAAAT
TAATATAAGAATAATAATTATTAAGAATTTTATTAAATCAAATAGTTTAATTAAA
Found at i:48743330 original size:14 final size:15
Alignment explanation
Indices: 48743313--48743341 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48743303 TTATTAAATC
48743313 AAATAT-TTTAATTA
1 AAATATATTTAATTA
48743327 AAATATATTTAATTA
1 AAATATATTTAATTA
48743342 TGATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATATTTAATTA
Found at i:48744227 original size:26 final size:25
Alignment explanation
Indices: 48744204--48744255 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
48744194 TTTGTTAAGT
*
48744204 TATAATTATTTT-AATATTATTTAAA
1 TATAAATATTTTAAATA-TATTTAAA
48744229 TATAAATATTTTAAATATATTTTAAA
1 TATAAATATTTTAAATATA-TTTAAA
48744255 T
1 T
48744256 TTGTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATAAATATTTTAAATATATTTAAA
Found at i:48744232 original size:25 final size:26
Alignment explanation
Indices: 48744204--48744255 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
48744194 TTTGTTAAGT
*
48744204 TATAATTATTTT-AATAT-TATTTAAA
1 TATAAATATTTTAAATATAT-TTTAAA
48744229 TATAAATATTTTAAATATATTTTAAA
1 TATAAATATTTTAAATATATTTTAAA
48744255 T
1 T
48744256 TTGTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 11 0.46
26 12 0.50
27 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATAAATATTTTAAATATATTTTAAA
Found at i:48746350 original size:28 final size:28
Alignment explanation
Indices: 48746316--48746373 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48746306 ATTATTTTCC
48746316 TATTTAAGAGTTGGAGAAAAGCTTTCAA
1 TATTTAAGAGTTGGAGAAAAGCTTTCAA
48746344 TATTTAAGAGTTGGAGAAAAGCTTTCAA
1 TATTTAAGAGTTGGAGAAAAGCTTTCAA
48746372 TA
1 TA
48746374 GTTCTAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (28 bp):
TATTTAAGAGTTGGAGAAAAGCTTTCAA
Found at i:48749781 original size:151 final size:150
Alignment explanation
Indices: 48749509--48749964 Score: 761
Period size: 151 Copynumber: 3.0 Consensus size: 150
48749499 TATGCCCAAC
48749509 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGG-AAAGGATATATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
* * ** *
48749573 GATCACAATAAGGTGGCTTGCCAGTCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
*
48749638 AGGGTGCTCATTTTATCTAT
131 AGGGTGCTTATTTTATCTAT
* *
48749658 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGATGAGGGGGGAAAAGGATATATATCAAAAAG
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGA-GGGGGAAAAGGATATATATCAAAAAG
*
48749723 AGATCATAATAAGGTGGCTTGTCAGTCATGCGAATCAACTCAATGTAAAAGGACATATTAGTATT
65 AGATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATT
48749788 TAGGGTGCTTATTTTATCTAT
130 TAGGGTGCTTATTTTATCTAT
* *
48749809 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGAAAAAGGATATATATCAAAAATA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
* *
48749874 GATCATAATAAGGTGCCTTGTCAGTCATGCGAATCGGCTCAATGTAAAAGGACATATTAGTATTT
66 GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
**
48749939 AGCATGCTTATTTTATCTAT
131 AGGGTGCTTATTTTATCTAT
48749959 GGTAAA
1 GGTAAA
48749965 GATAGATAAT
Statistics
Matches: 287, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
149 36 0.13
150 116 0.40
151 135 0.47
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (150 bp):
GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
AGGGTGCTTATTTTATCTAT
Found at i:48752295 original size:15 final size:14
Alignment explanation
Indices: 48752275--48752312 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
48752265 ATTATGTAAT
*
48752275 ACATATATTTATAAA
1 ACATATATATA-AAA
48752290 ACATATATATAAAA
1 ACATATATATAAAA
48752304 ACA-ATATAT
1 ACATATATAT
48752313 CAAACTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 10 0.45
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (14 bp):
ACATATATATAAAA
Found at i:48781886 original size:17 final size:17
Alignment explanation
Indices: 48781851--48781893 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
48781841 TTTGGGCTAA
* *
48781851 TTATTAATATTTGAGAT
1 TTATTAATATTTCAAAT
*
48781868 TTATTAATCTTTCAAAT
1 TTATTAATATTTCAAAT
48781885 TTATATAAT
1 TTAT-TAAT
48781894 GACCACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATTAATATTTCAAAT
Found at i:48784239 original size:79 final size:81
Alignment explanation
Indices: 48784103--48784287 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
48784093 TTGAATGATG
*
48784103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48784167 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
48784182 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
48784244 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
48784262 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48784288 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:48784301 original size:40 final size:40
Alignment explanation
Indices: 48784104--48784287 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
48784094 TGAATGATGT
* * * *
48784104 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
48784144 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
48784184 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48784222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48784263 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48784288 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
39 36 0.28
40 82 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48784309 original size:79 final size:79
Alignment explanation
Indices: 48784156--48784320 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
48784146 GGACTAAGAT
* **
48784156 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
48784221 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
48784235 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
48784298 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48784314 CCGAAGG
1 CCGAAGG
48784321 TACGTGATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48786974 original size:12 final size:11
Alignment explanation
Indices: 48786950--48786997 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
48786940 ATTATAAATC
48786950 ATTTTATTTAT
1 ATTTTATTTAT
48786961 ATTTTATTTCAT
1 ATTTTATTT-AT
48786973 ATGTGTTTATTTAT
1 A--T-TTTATTTAT
*
48786987 ATTTAATTTAT
1 ATTTTATTTAT
48786998 TTTGTTCGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 17 0.53
12 4 0.12
14 4 0.12
15 7 0.22
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTTATTTAT
Found at i:48787404 original size:88 final size:88
Alignment explanation
Indices: 48787279--48787617 Score: 353
Period size: 88 Copynumber: 4.0 Consensus size: 88
48787269 TTTTGTTTCC
* *
48787279 AAAATTAAAAGTAAATAAAATCTATTTTGGGATTTATTCCCGCTGTTCAACGGATTTTATTCCAT
1 AAAATTAAAGGTAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
*
48787344 TATTTTATTTTATTTCCAAAC-G
66 TATTTTGTTTTATTTCCAAACGG
* * *
48787366 AAAATTTAAAGGTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGGATTGTATTCTA
1 AAAA-TTAAAGGTAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCA
48787431 TTATTTTGTTTCTATTTCCAAACGG
65 TTATTTTGTTT-TATTTCCAAACGG
* * * * * * *
48787456 GAAATTAAAGGTAAATAAAAACCATTTTGGGATTGATTCCCGCCGTTTAAC-AATTTTGTTCCA-
1 AAAATTAAAGGTAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
*
48787519 AATTTTGTTTTATTT-C-AA---
66 TATTTTGTTTTATTTCCAAACGG
** * * * * * *
48787537 AAAA--CGA-GTAAAATAGAATCTGTTTCGAGATTGATTCCCGCCGTTCAAC-AATTTTATTCCA
1 AAAATTAAAGGT-AAATAAAATCTATTTTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCA
*
48787598 -AATTTTGTTTTATTTCCAAA
65 TTATTTTGTTTTATTTCCAAA
48787618 AACAAGTAAA
Statistics
Matches: 218, Mismatches: 28, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 59 0.27
80 1 0.00
81 5 0.02
84 2 0.01
85 1 0.00
86 5 0.02
87 13 0.06
88 73 0.33
89 53 0.24
90 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (88 bp):
AAAATTAAAGGTAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
TATTTTGTTTTATTTCCAAACGG
Found at i:48787673 original size:79 final size:79
Alignment explanation
Indices: 48787486--48787664 Score: 277
Period size: 79 Copynumber: 2.3 Consensus size: 79
48787476 ACCATTTTGG
* * * *
48787486 GATTGATTCCCGCCGTTTAACAATTTTGTTCCAAATTTTGTTTTATTTCAAAAAACGAGTAAAAT
1 GATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATTTCCAAAAACAAGTAAAAT
* *
48787551 AGAATCTGTTTCGA
66 AAAACCTGTTTCGA
48787565 GATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATTTCCAAAAACAAGTAAAAT
1 GATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATTTCCAAAAACAAGTAAAAT
*
48787630 AAAACCTGTTTCGG
66 AAAACCTGTTTCGA
* *
48787644 GATTGATTCTCGCTGTTCAAC
1 GATTGATTCCCGCCGTTCAAC
48787665 GGATTTATTA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 91 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (79 bp):
GATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATTTCCAAAAACAAGTAAAAT
AAAACCTGTTTCGA
Found at i:48787805 original size:84 final size:84
Alignment explanation
Indices: 48787708--48788116 Score: 446
Period size: 85 Copynumber: 4.9 Consensus size: 84
48787698 CGAGAAATTA
* * *
48787708 AATTAAATAAAATTTGTTTC-AGGATTTATTCTCGTCGTTTAATAAGATTTTATTTGGTTTGATT
1 AATTAAATAAAATTTGTTTCGA-GATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTGATT
48787772 TTGTTTCCAAATTAGAATAT
65 TTGTTTCCAAATTAGAATAT
* *
48787792 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCATTTAACAAGATTTTACTTTGAGTTGATT
1 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTA-TTTGATTTGATT
*
48787857 TTGTTTCCAAATCAGAATAT
65 TTGTTTCCAAATTAGAATAT
* * * * *
48787877 AATTAAGTAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTA-TT
1 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTGATTT
48787941 T-TTTCCAAATTCA-AAT-T
66 TGTTTCCAAATT-AGAATAT
* * *
48787958 GAATTAAATAAAATTTGTTTCGAGATTTATT-TCCGCAGTTTAACAAGAATTTATTCGATATTG-
1 -AATTAAATAAAATTTGTTTCGAGATTTATTCT-CGCCGTTTAACAAGATTTTATTTGAT-TTGA
* * *
48788021 TTTTGTTTCCAAA-GA-AAGACGC
63 TTTTGTTTCCAAATTAGAATA--T
* * * * *
48788043 AATCAAAT--AATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATT-AT
1 AATTAAATAAAATT-TGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGAT-TTGAT
48788105 TTTGTTTCCAAA
64 TTTGTTTCCAAA
48788117 CAAATATGTA
Statistics
Matches: 280, Mismatches: 31, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
81 1 0.00
82 69 0.25
83 63 0.22
84 70 0.25
85 77 0.28
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (84 bp):
AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTGATTT
TGTTTCCAAATTAGAATAT
Found at i:48788083 original size:83 final size:85
Alignment explanation
Indices: 48787712--48788177 Score: 405
Period size: 83 Copynumber: 5.6 Consensus size: 85
48787702 AAATTAAATT
* * * * * * *
48787712 AAATAAAATT-TGTTTCAGGATTTATTCTCGTCGTTTAATAAGATTTTATTTGGT-TTGATTTTG
1 AAAT-AAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTG-TTTTG
* *
48787775 TTTCCAAATTAGAATA--TAATT
64 TTTCCAAATCA-AATATGTAATC
* * * *
48787796 AAATAAAATT-TGTTTCGAGATTTATTCTCGCCATTTAACAAGATTTTACTTTGA-GTTGATTTT
1 AAAT-AAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTA-TTCGATATTG-TTTT
*
48787859 GTTTCCAAATCAGAATA--TAATT
63 GTTTCCAAATCA-AATATGTAATC
* * * *
48787881 AAGTAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT-TT-TATTT-T
1 AAATAAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGT-TTTGT
*
48787943 TTCCAAATTCAAAT-TG-AATT
65 TTCCAAA-TCAAATATGTAATC
* * *
48787963 AAATAAAATT-TGTTTCGAGATTTATTTCCG-CAGTTTAACAAGAATTTATTCGATATTGTTTTG
1 AAAT-AAATTCTGTTTCGGGATTTATTCCCGCCA-TTTAACAAGATTTTATTCGATATTGTTTTG
* * * *
48788026 TTTCCAAA-GAAAGACGCAATC
64 TTTCCAAATCAAATATGTAATC
*
48788047 AAAT-AATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTATTTTGTT
1 AAATAAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGTTTTGTT
*
48788111 TCCAAA-CAAATATGTAACC
66 TCCAAATCAAATATGTAATC
** **
48788130 AAAT-AATTCTGTTTTTGGATTTATTCCCGCTGTTTAAC-AGATTTTATT
1 AAATAAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATT
48788178 TTGATTTAAT
Statistics
Matches: 329, Mismatches: 36, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
81 1 0.00
82 73 0.22
83 112 0.34
84 72 0.22
85 71 0.22
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (85 bp):
AAATAAATTCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTGTTTTGTT
TCCAAATCAAATATGTAATC
Found at i:48788202 original size:59 final size:60
Alignment explanation
Indices: 48788132--48788244 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 60
48788122 ATGTAACCAA
** * * *
48788132 ATAATTCTGTTTTTGGATTTATTCCCGCTGTTTAACAGATTT-TATTTTGATTTAATGAT
1 ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTATATTTTGATTTAATGAT
* * *
48788191 ATAATTTTGTTTCGGGATTTAATCCTGCTGTTTAAAAAATTTATTTTTTGATTT
1 ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTATATTTTGATTT
48788245 CGTTTTAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 35 0.78
60 10 0.22
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.53
Consensus pattern (60 bp):
ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTATATTTTGATTTAATGAT
Found at i:48788668 original size:7 final size:6
Alignment explanation
Indices: 48788641--48788697 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
48788631 TATAATAAAT
* ** *
48788641 ATTTTA ATTTTA ATTTT- TTTTTA ATTTTA A-AATA ATTTTA AATTT-
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
48788686 -TTTTA ATTTTA A
1 ATTTTA ATTTTA A
48788698 AATATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
4 3 0.08
5 7 0.18
6 29 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:48788677 original size:28 final size:28
Alignment explanation
Indices: 48788645--48788740 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 28
48788635 ATAAATATTT
48788645 TAATTTTAATTTTTTTTTAATTTTAAAA
1 TAATTTTAATTTTTTTTTAATTTTAAAA
*
48788673 TAATTTTAA-ATTTTTTTAATTTTAAAA
1 TAATTTTAATTTTTTTTTAATTTTAAAA
*
48788700 TATTTTTTAAAATTTTTGTTTTAATTTTTAAAA
1 TA-ATTTT--AATTTTT-TTTTAA-TTTTAAAA
48788733 TAAATTTT
1 T-AATTTT
48788741 TGGTATTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
27 19 0.33
28 13 0.23
30 2 0.04
31 3 0.05
32 6 0.11
33 13 0.23
34 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TAATTTTAATTTTTTTTTAATTTTAAAA
Found at i:48788694 original size:16 final size:18
Alignment explanation
Indices: 48788673--48788709 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48788663 AATTTTAAAA
48788673 TAATTTT-AAAT-TTTTT
1 TAATTTTAAAATATTTTT
48788689 TAATTTTAAAATATTTTT
1 TAATTTTAAAATATTTTT
48788707 TAA
1 TAA
48788710 AATTTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTTTAAAATATTTTT
Found at i:48802033 original size:26 final size:26
Alignment explanation
Indices: 48802003--48802236 Score: 263
Period size: 26 Copynumber: 9.0 Consensus size: 26
48801993 AGTACCTGAC
* * * *
48802003 AAATATACATCGGCTTAAGGCCTGTT
1 AAATAAACACCGGCTCAAGGCCTGCT
* *
48802029 AAATAAACACCGACTCAAGGCTTGCT
1 AAATAAACACCGGCTCAAGGCCTGCT
* *
48802055 AAATAAACATCGGCTCAAGGCCTACT
1 AAATAAACACCGGCTCAAGGCCTGCT
* * *
48802081 AAATAACCACCGGCTCAAGGCATGTT
1 AAATAAACACCGGCTCAAGGCCTGCT
* *
48802107 AAATAAACATCGGCTCAAGGCCTGTT
1 AAATAAACACCGGCTCAAGGCCTGCT
* * *
48802133 AAATAACCACCGGCTAAAGGCCTACT
1 AAATAAACACCGGCTCAAGGCCTGCT
* * *
48802159 AAATAGACACTGGCTCAATGCCTGCT
1 AAATAAACACCGGCTCAAGGCCTGCT
*
48802185 AAATAAACACCGGCTCAATGCCTGCT
1 AAATAAACACCGGCTCAAGGCCTGCT
*
48802211 AAAT-AACTACCGACTCAAGGCCTGCT
1 AAATAAAC-ACCGGCTCAAGGCCTGCT
48802237 TTTCCAGTAT
Statistics
Matches: 174, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
25 3 0.02
26 171 0.98
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (26 bp):
AAATAAACACCGGCTCAAGGCCTGCT
Found at i:48804388 original size:27 final size:29
Alignment explanation
Indices: 48804356--48804437 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 29
48804346 GAATATAAAG
48804356 GGGGTTGCTAAGTGTTGATTCCCCGA-A-
1 GGGGTTGCTAAGTGTTGATTCCCCGATAT
48804383 GGGGTTGCTAAGTGTTGATTCCCCGATTCATT
1 GGGGTTGCTAAGTGTTGATTCCCCGA-T-A-T
48804415 GGTGGTTGCTAAGTGTTGATTCC
1 GG-GGTTGCTAAGTGTTGATTCC
48804438 ACCGTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
27 26 0.53
30 1 0.02
32 2 0.04
33 20 0.41
ACGTcount: A:0.16, C:0.17, G:0.32, T:0.35
Consensus pattern (29 bp):
GGGGTTGCTAAGTGTTGATTCCCCGATAT
Found at i:48804422 original size:33 final size:33
Alignment explanation
Indices: 48804358--48804587 Score: 159
Period size: 33 Copynumber: 6.6 Consensus size: 33
48804348 ATATAAAGGG
48804358 GGTTGCTAAGTGTTGATTCCCCGA---A--GG-
1 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
48804385 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
* *
48804418 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGTTGATTCC-CCG-A--TT-CAT-T---GGT
* *
48804460 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
* * * *
48804493 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGG
1 GGTTGCTAAGTGTTGATTCC-CCG-A--TT-CAT-TG---GT
48804535 GGTTGCTAAGT-TCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGT-TGATTCCCCGATTCATTGGT
*
48804568 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGTTGATTCC
48804588 ACCGTATTTT
Statistics
Matches: 162, Mismatches: 15, Indels: 46
0.73 0.07 0.21
Matches are distributed among these distances:
27 24 0.15
30 1 0.01
32 2 0.01
33 60 0.37
34 6 0.04
35 2 0.01
36 3 0.02
37 7 0.04
38 7 0.04
39 3 0.02
40 2 0.01
41 6 0.04
42 39 0.24
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.35
Consensus pattern (33 bp):
GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
Found at i:48804647 original size:76 final size:75
Alignment explanation
Indices: 48804381--48804667 Score: 466
Period size: 75 Copynumber: 3.8 Consensus size: 75
48804371 TGATTCCCCG
* * *
48804381 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
48804446 TTAAATGTGA
66 TTAAATGTGA
* *
48804456 AGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
48804521 TTAAATGTGA
66 TTAAATGTGA
* *
48804531 AAGGGGTTGCTAAGTTCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
48804596 TTTGAATGCGA
65 TTTAAATGTGA
* *
48804607 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
48804668 ATAACGGATA
Statistics
Matches: 196, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
75 129 0.66
76 67 0.34
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGA
Found at i:48806971 original size:22 final size:22
Alignment explanation
Indices: 48806946--48806996 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
48806936 AAGTATTTTT
* *
48806946 TTTAACAAAATCTCATAAATAA
1 TTTAACAAAAACTAATAAATAA
** *
48806968 TTTAGTAAAAAGTAATAAATAA
1 TTTAACAAAAACTAATAAATAA
48806990 TTTAACA
1 TTTAACA
48806997 TATTATAGCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
TTTAACAAAAACTAATAAATAA
Found at i:48814155 original size:14 final size:14
Alignment explanation
Indices: 48814136--48814163 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48814126 TCAATTTATT
48814136 AATGAATTATTAAA
1 AATGAATTATTAAA
48814150 AATGAATTATTAAA
1 AATGAATTATTAAA
48814164 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:48817726 original size:106 final size:107
Alignment explanation
Indices: 48817430--48817946 Score: 735
Period size: 106 Copynumber: 4.9 Consensus size: 107
48817420 TGGATTTAGA
* * * *
48817430 TTTAAAAGGATATTTCGTTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
48817495 TTCTCGAATTTCCAAACAG-AAAATATTGCCTTACTTTGAAAT
66 TTCTCGAATTTCCAAAC-GCAAAATATTGCCTTACTTTGAAAT
* *
48817537 TTTAAAAAGGATATTTGACTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGACACG
1 TTT-AAAAGGATATTTGGCTATTTGGTCGAACG-AAAAAATCGAAACCCAGCACATTAGGGCACG
*
48817602 TTTTCTCGAATTTTCAAACGCAAAATATTGCCTTACTTTGAAAT
64 TTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* ** *
48817646 TTTAAAAGGATATTTGGCTAATTGGTCGAACG-TGAAATCGAAACCCAGCACGTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
48817710 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* ** ** *
48817752 TTTAAAAGGATATTTGGCTAATTGGTCGAACG-TGAAATCGAAACCCAGCATGTTAGGGCACATT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
48817816 TTCTCAAATTTCCAAACACAAAATATT-AC---CTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* * *
48817854 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATAGAAACCTAGCACATTA-GGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
*
48817918 TTCTCGAATTTCCAAACGCAAAATCTTGC
66 TTCTCGAATTTCCAAACGCAAAATATTGC
48817947 TTTATTTAGA
Statistics
Matches: 373, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
102 70 0.19
103 17 0.05
105 1 0.00
106 156 0.42
107 3 0.01
108 53 0.14
109 73 0.20
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:48817939 original size:208 final size:213
Alignment explanation
Indices: 48817430--48817946 Score: 742
Period size: 208 Copynumber: 2.4 Consensus size: 213
48817420 TGGATTTAGA
* * *
48817430 TTTAAAAGGATATTTCGTTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
*
48817495 TTCTCGAATTTCCAAACAG-AAAATATTGCCTTACTTTGAAATTTTAAAAAGGATATTTGACTAT
66 TTCTCGAATTTCCAAAC-GCAAAATATTGCCTTACTTTGAAATTTTAAAAAGGATATTTGACTAA
* * * *
48817559 TTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGACACGTTTTCTCGAATTTTCAAACGCA
130 TTGGTCGAACG-AAAAAATCGAAACCCAGCACATTAGGACACATTTTCTCAAATTTCCAAACACA
*
48817624 AAATATTGCCTTACTTTGAAAT
194 AAATATTGAC-T-CTTTGAAAT
* * ** *
48817646 TTTAAAAGGATATTTGGCTAATTGGTCGAACG-TGAAATCGAAACCCAGCACGTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
*
48817710 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTT-AAAAGGATATTTGGCTAAT
66 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAAGGATATTTGACTAAT
** ** *
48817774 TGGTCGAACG-TGAAATCGAAACCCAGCATGTTAGGGCACATTTTCTCAAATTTCCAAACACAAA
131 TGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGACACATTTTCTCAAATTTCCAAACACAAA
48817838 ATATT-AC-CTTTGAAAT
196 ATATTGACTCTTTGAAAT
* *
48817854 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATAGAAACCTAGCACATTA-GGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
*
48817918 TTCTCGAATTTCCAAACGCAAAATCTTGC
66 TTCTCGAATTTCCAAACGCAAAATATTGC
48817947 TTTATTTAGA
Statistics
Matches: 271, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
208 75 0.28
209 18 0.07
211 1 0.00
212 50 0.18
214 28 0.10
215 71 0.26
216 28 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (213 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAAGGATATTTGACTAAT
TGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGACACATTTTCTCAAATTTCCAAACACAAA
ATATTGACTCTTTGAAAT
Found at i:48818009 original size:21 final size:21
Alignment explanation
Indices: 48817985--48818024 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48817975 GTATGGTGTT
48817985 AATATGTATAATG-GAATAACA
1 AATATG-ATAATGTGAATAACA
48818006 AATATGATAATGTGAATAA
1 AATATGATAATGTGAATAA
48818025 AATTAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AATATGATAATGTGAATAACA
Found at i:48819954 original size:44 final size:44
Alignment explanation
Indices: 48819886--48819969 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
48819876 TTCATCTTTC
* * * * *
48819886 ATCTTCAATCTTCTCCACTGCAACTTTAGGGAGATAAGATTGGT
1 ATCTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGATTGGT
48819930 ATCTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGAT
1 ATCTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGAT
48819970 CTGTGGTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGATTGGT
Found at i:48820179 original size:129 final size:129
Alignment explanation
Indices: 48819939--48820184 Score: 314
Period size: 129 Copynumber: 1.9 Consensus size: 129
48819929 TATCTTCAAC
* * *
48819939 CTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATTCACTCTACTGCAACTTCAGA
1 CTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACCCCACTGCAACTTCAGA
*** **
48820004 GAGATAGGATTGACTTCTTCTGTCTGCTCCATTGTAACTTCAGGAAGATAAGGCTGGATGCGAT
66 GAGATAGGATTGACTTCTTAAATCTGCTCCATACTAACTTCAGGAAGATAAGGCTGGATGCGAT
* * * * * *
48820068 CTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCCCCACTGCAACTTTAGG
1 CTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACCCCACTGCAACTTCAGA
* * * *
48820133 GAGATAGTATTGACTTCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAG
66 GAGATAGGATTGACTTCTTAAATCTGC-TCCATACTAACTTCAGGAAGATAAG
48820185 ATTCCATCTT
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
129 89 0.91
130 9 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (129 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACCCCACTGCAACTTCAGA
GAGATAGGATTGACTTCTTAAATCTGCTCCATACTAACTTCAGGAAGATAAGGCTGGATGCGAT
Found at i:48820382 original size:44 final size:44
Alignment explanation
Indices: 48820205--48820390 Score: 105
Period size: 44 Copynumber: 4.2 Consensus size: 44
48820195 CGATCTGCTT
* *
48820205 CACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTC
1 CACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTC
* * * * * * * *
48820249 CACTGCTGCTCAAGGAGATAGGA-CT--AATGGCTTAAATCTGATTCC
1 CACTACTGCTTAGGGAGACAGAATCTACAAT--CTTCAACCT-ACT-C
* * * * ** * *
48820294 GCACTA-T-CTTAGGAAGATAAGATTC-ACCATCTTTGATCTGCTC
1 -CACTACTGCTTAGGGAGA-CAGAATCTACAATCTTCAACCTACTC
48820337 CACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTC
1 CACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTC
*
48820381 CACTGCTGCT
1 CACTACTGCT
48820391 CGGGGATATA
Statistics
Matches: 102, Mismatches: 28, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
41 3 0.03
42 5 0.05
43 16 0.16
44 60 0.59
45 11 0.11
46 5 0.05
47 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
CACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTC
Found at i:48820484 original size:129 final size:130
Alignment explanation
Indices: 48820149--48820511 Score: 509
Period size: 129 Copynumber: 2.8 Consensus size: 130
48820139 GTATTGACTT
*
48820149 CTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGA-TT-CCATCTTCGATCTGCTTCACTACT
1 CTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTACT
* *
48820212 GCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTAAT
66 GCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGAC--AC
48820277 GG
129 GG
* * * * *
48820279 CTTAAATCTGATTCCGC-ACTATCTTAGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTAC
1 CTTAAATCTGCTTCC-CTACTACCTTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTAC
* ** *
48820343 TGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTGCTGCTCGGGGATATAGGAC-CG
65 TGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACACG
48820407 G
130 G
* * * *
48820408 CTTAAATCTGCTTCCTTACTACCTTGGGAAGATAAGATTTACTATATTCGATATGCTCCACTACT
1 CTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTACT
* *
48820473 GCTTAGGGAGACAGGACCTACAATCTTCGACCTACTCCA
66 GCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCA
48820512 GGGAGATAGG
Statistics
Matches: 205, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
129 93 0.45
130 32 0.16
131 2 0.01
132 78 0.38
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (130 bp):
CTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTACT
GCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACACGG
Found at i:48820873 original size:24 final size:24
Alignment explanation
Indices: 48820818--48820875 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
48820808 CGGATTGCTC
48820818 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
48820842 CCGCTGTAATCTTCAAGGTT-AAGT
1 CCACTGTAATCTTCAAAGTTCAA-T
*
48820866 CCATTGTAAT
1 CCACTGTAAT
48820876 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:48821823 original size:19 final size:18
Alignment explanation
Indices: 48821787--48821858 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
48821777 CCTTGGCCTC
* *
48821787 TCTTTTTTCTTTTCTTCT
1 TCTTTTTCCTTTTTTTCT
48821805 TCTTCTTTCCTTTTTTTCT
1 TCTT-TTTCCTTTTTTTCT
*
48821824 TCTTTTTCCTTCTTTT-T
1 TCTTTTTCCTTTTTTTCT
48821841 TCTTTTTTCTCTTTTTTT
1 TC-TTTTTC-CTTTTTTT
48821859 TAAGTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
17 3 0.06
18 21 0.45
19 23 0.49
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTTCCTTTTTTTCT
Found at i:48821824 original size:22 final size:21
Alignment explanation
Indices: 48821796--48821841 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
48821786 CTCTTTTTTC
*
48821796 TTTTCTTCTTCTTCTTTCCTTT
1 TTTTCTTCTTCTTCCTT-CTTT
*
48821818 TTTTCTTCTTTTTCCTTCTTT
1 TTTTCTTCTTCTTCCTTCTTT
48821839 TTT
1 TTT
48821842 CTTTTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTCTTCTTCCTTCTTT
Found at i:48821835 original size:26 final size:25
Alignment explanation
Indices: 48821788--48821856 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
48821778 CTTGGCCTCT
* *
48821788 CTTTTTTCTTTTCTTCTTCTTCTTTC
1 CTTTTTT-TCTTCTTTTTCTTCTTTC
*
48821814 CTTTTTTTCTTCTTTTTCCTTCTTTT
1 CTTTTTTTCTTCTTTTT-CTTCTTTC
*
48821840 TTCTTTTTTC-TCTTTTT
1 CT-TTTTTTCTTCTTTTT
48821857 TTTAAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.22
26 22 0.59
27 7 0.19
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (25 bp):
CTTTTTTTCTTCTTTTTCTTCTTTC
Found at i:48821836 original size:29 final size:26
Alignment explanation
Indices: 48821789--48821858 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
48821779 TTGGCCTCTC
*
48821789 TTTTTTCTTTTCTTCTTCTTCTTTCCT
1 TTTTTTCTTTTTTTCTTCTT-TTTCCT
*
48821816 TTTTTTCTTCTTTTTCCTTCTTTTTTCT
1 TTTTTTCTT-TTTTT-CTTCTTTTTCCT
48821844 TTTTTCTCTTTTTTT
1 TTTTT-TCTTTTTTT
48821859 TAAGTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 9 0.24
28 19 0.50
29 10 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTCTTTTTTTCTTCTTTTTCCT
Found at i:48821859 original size:19 final size:18
Alignment explanation
Indices: 48821787--48821859 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
48821777 CCTTGGCCTC
*
48821787 TCTTTTTT-CTTTTCTTCT
1 TCTTTTTTCCTTTT-TTTT
*
48821805 TCTTCTTTCCTTTTTTTCT
1 TCTTTTTTCCTTTTTTT-T
*
48821824 TC-TTTTTCCTTCTTTTT
1 TCTTTTTTCCTTTTTTTT
48821841 TCTTTTTTCTCTTTTTTTT
1 TCTTTTTTC-CTTTTTTTT
48821860 AAGTATTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.07
18 27 0.59
19 16 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTTTCCTTTTTTTT
Found at i:48821859 original size:29 final size:29
Alignment explanation
Indices: 48821789--48821859 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
48821779 TTGGCCTCTC
*
48821789 TTTTTTCTT-TTCTT-CTTCTTCTTTCCT
1 TTTTTTCTTCTTTTTCCTTCTTCTTTCCT
*
48821816 TTTTTTCTTCTTTTTCCTTCTT-TTTTCT
1 TTTTTTCTTCTTTTTCCTTCTTCTTTCCT
*
48821844 TTTTTCTCTTTTTTTT
1 TTTTT-TCTTCTTTTT
48821860 AAGTATTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 9 0.24
28 14 0.37
29 15 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTTCTTCTTTTTCCTTCTTCTTTCCT
Found at i:48823010 original size:106 final size:106
Alignment explanation
Indices: 48822805--48823042 Score: 388
Period size: 106 Copynumber: 2.2 Consensus size: 106
48822795 GGCTAATTGG
48822805 TCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTAATTGGT
1 TCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTAATTGGT
*** * *
48822870 CGAACGTGAAATTGAAACCAAGCACGTTAGGGCACGTTTTC
66 CGAACAAAAAATCGAAACCAAGCACATTAGGGCACGTTTTC
*
48822911 TCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGT
1 TCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTAATTGGT
*
48822976 CGAACAAAAAAATCGAAACCCAGCACATTA-GGCACGTTTTC
66 CGAAC-AAAAAATCGAAACCAAGCACATTAGGGCACGTTTTC
*
48823017 TCGAATTTCTAAACGCAAAATATTGC
1 TCGAATTTCCAAACGCAAAATATTGC
48823043 TTTATTTAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 105 0.85
107 18 0.15
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (106 bp):
TCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTAATTGGT
CGAACAAAAAATCGAAACCAAGCACATTAGGGCACGTTTTC
Found at i:48823105 original size:21 final size:21
Alignment explanation
Indices: 48823081--48823120 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48823071 GTATGGTGTT
48823081 AATATGTATAATG-GAATAACA
1 AATATG-ATAATGTGAATAACA
48823102 AATATGATAATGTGAATAA
1 AATATGATAATGTGAATAA
48823121 AATTAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AATATGATAATGTGAATAACA
Found at i:48823443 original size:3 final size:3
Alignment explanation
Indices: 48823435--48823481 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
48823425 AAATAGAAGT
*
48823435 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
48823481 A
1 A
48823482 GATAACAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48832588 original size:31 final size:31
Alignment explanation
Indices: 48832536--48832605 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
48832526 CCCCACTCAT
** **
48832536 ATATATATATTATATGACTATA-ATCTCATGC
1 ATATATATATTATAAAACTATAGA-CTCACCC
48832567 ATATATATATT-TAAAACCTATAGACTCACCC
1 ATATATATATTATAAAA-CTATAGACTCACCC
48832598 ATATATAT
1 ATATATAT
48832606 TCTATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (31 bp):
ATATATATATTATAAAACTATAGACTCACCC
Found at i:48838458 original size:28 final size:28
Alignment explanation
Indices: 48838416--48838502 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
48838406 GTCACCAGAA
* *
48838416 AAGAGGGAAGCCCACCAAAGACTCTCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
* *
48838444 AAGAGGGGAGTCCACCAAGGACTCTCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
* *
48838472 AAGAGAGAAGACCACCAAGGACTATCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
48838500 AAG
1 AAG
48838503 TGGATTGTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (28 bp):
AAGAGGGAAGACCACCAAGGACTCTCTT
Found at i:48840300 original size:11 final size:11
Alignment explanation
Indices: 48840286--48840322 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
48840276 AAAAAATAAA
48840286 AAAAATATTTT
1 AAAAATATTTT
48840297 AAAAATATTTT
1 AAAAATATTTT
48840308 AAAAATATTTT
1 AAAAATATTTT
48840319 AAAA
1 AAAA
48840323 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:48848497 original size:13 final size:13
Alignment explanation
Indices: 48848479--48848522 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
48848469 GGTAGGATTT
48848479 TGTATATCTGATC
1 TGTATATCTGATC
48848492 TGTATATCTGAT-
1 TGTATATCTGATC
*
48848504 TCTATCATCTGTATC
1 TGTAT-ATCTG-ATC
48848519 TGTA
1 TGTA
48848523 ATGGACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 4 0.15
13 17 0.65
14 2 0.08
15 3 0.12
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.48
Consensus pattern (13 bp):
TGTATATCTGATC
Found at i:48849965 original size:16 final size:17
Alignment explanation
Indices: 48849941--48849973 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48849931 TTCAATTAGT
*
48849941 TTAATTAATTTT-TCAA
1 TTAAATAATTTTCTCAA
48849957 TTAAATAATTTTCTCAA
1 TTAAATAATTTTCTCAA
48849974 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATAATTTTCTCAA
Found at i:48851286 original size:24 final size:25
Alignment explanation
Indices: 48851233--48851295 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
48851223 TACATAGATA
* *
48851233 TTTTCCTAGTTAAA--TTGAGTTTC
1 TTTTCCTAGTTAAACTTTGACTATC
*
48851256 TTCTCCTAGTTAAACTTTG-CTATC
1 TTTTCCTAGTTAAACTTTGACTATC
*
48851280 TTTTCCTAGTTGAACT
1 TTTTCCTAGTTAAACT
48851296 CTGATTATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 13 0.39
24 17 0.52
25 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTTCCTAGTTAAACTTTGACTATC
Found at i:48858116 original size:19 final size:19
Alignment explanation
Indices: 48858072--48858117 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
48858062 AAATAAGTTA
*
48858072 TAAAAAAATATTAAAATTG
1 TAAAAAAATATTAAAAATG
*
48858091 TAAAAAACTATTAAAAAT-
1 TAAAAAAATATTAAAAATG
*
48858109 TAATAAAAT
1 TAAAAAAAT
48858118 TTTATAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAAAATATTAAAAATG
Found at i:48864480 original size:135 final size:138
Alignment explanation
Indices: 48864315--48864578 Score: 338
Period size: 135 Copynumber: 1.9 Consensus size: 138
48864305 CATAAGATAA
* * * *
48864315 AAATTACAAATGTATTTAGAAGAGGAGGAATTGAACTTAGGATTCAATGATAAAATCA-TA-A-T
1 AAATTACAAATATATTTAGAAGAGGAGGAATTGAAATTAGGACTCAAGGATAAAATCATTACATT
* * **
48864377 -TATTTAACTAAGGGAGCTAATATGTTAAAAATGTTAATTAAAAATAATAAAAAAGCTTAAAACA
66 ATATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAAT-AAAAAGCTTAAAACA
48864441 ATATGAAAT
130 ATATGAAAT
* * * *
48864450 AAATTATAAATATGTTTAGAAGAGGAGGAATTGAAATTGGGACTCGAGGATAAAATCATTATCAT
1 AAATTACAAATATATTTAGAAGAGGAGGAATTGAAATTAGGACTCAAGGATAAAATCATTA-CA-
*
48864515 TTAACTATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAATTAATAAAAAGCTTAA
64 TT-A-TATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAA
48864579 CATGAAATAA
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
135 50 0.46
136 2 0.02
138 1 0.01
140 1 0.01
142 11 0.10
143 43 0.40
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.30
Consensus pattern (138 bp):
AAATTACAAATATATTTAGAAGAGGAGGAATTGAAATTAGGACTCAAGGATAAAATCATTACATT
ATATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAACAA
TATGAAAT
Found at i:48870776 original size:17 final size:17
Alignment explanation
Indices: 48870754--48870791 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
48870744 TAAAAAACTT
48870754 AATAAA-TAATATAGATA
1 AATAAATTAATATA-ATA
*
48870771 AATAAATTTATATAATA
1 AATAAATTAATATAATA
48870788 AATA
1 AATA
48870792 TACTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATAAATTAATATAATA
Found at i:48872804 original size:34 final size:32
Alignment explanation
Indices: 48872736--48872805 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
48872726 TTTTATAAAT
*
48872736 TTTTATGTTTTGTAATTTTGTAAAATTTCTTC
1 TTTTATGTTTTGTAATTTTGTAAAAATTCTTC
* *
48872768 TTTTATAGTTTTTTAATCTTTTTAACAAATT-TTC
1 TTTTAT-GTTTTGTAAT-TTTGTAA-AAATTCTTC
48872802 TTTT
1 TTTT
48872806 TTTAAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.19
33 9 0.28
34 13 0.41
35 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.64
Consensus pattern (32 bp):
TTTTATGTTTTGTAATTTTGTAAAAATTCTTC
Found at i:48882563 original size:46 final size:46
Alignment explanation
Indices: 48882497--48882750 Score: 415
Period size: 46 Copynumber: 5.6 Consensus size: 46
48882487 TTTGAGTACT
* *
48882497 TCTGATC-AGTGGCAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
48882542 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
48882588 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48882634 TCTGATCAAGTAACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48882680 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACCTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
48882726 TCTGAT-AAGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
48882751 ATCATACGTA
Statistics
Matches: 197, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
44 12 0.06
45 13 0.07
46 172 0.87
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:48891083 original size:29 final size:28
Alignment explanation
Indices: 48891046--48891103 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
48891036 ATATACATAT
* * *
48891046 TTTGTGGATGTAATTAGAATATTTTGAAG
1 TTTGAGGATGTAACTAGAAT-TTTTAAAG
48891075 TTTGAGGATGTAACTAGAATTTTTAAAG
1 TTTGAGGATGTAACTAGAATTTTTAAAG
48891103 T
1 T
48891104 CTGAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (28 bp):
TTTGAGGATGTAACTAGAATTTTTAAAG
Found at i:48894688 original size:15 final size:16
Alignment explanation
Indices: 48894668--48894699 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
48894658 GGTTCTAGAA
48894668 AAAAAAAAGAA-AAAG
1 AAAAAAAAGAATAAAG
48894683 AAAAAAAAGAATAAAG
1 AAAAAAAAGAATAAAG
48894699 A
1 A
48894700 CTCAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAATAAAG
Found at i:48897595 original size:17 final size:17
Alignment explanation
Indices: 48897574--48897607 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48897564 AAAAGTACAA
*
48897574 AAAAAAAAAAGCAAAAGC
1 AAAAAGAAAAG-AAAAGC
48897592 AAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
48897608 AAGAATTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAGC
Found at i:48897640 original size:7 final size:7
Alignment explanation
Indices: 48897630--48897657 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48897620 AGAAGATAGA
48897630 TGAAGAG
1 TGAAGAG
48897637 TGAAGAG
1 TGAAGAG
48897644 TGAAGAG
1 TGAAGAG
48897651 TGAAGAG
1 TGAAGAG
48897658 GCTTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (7 bp):
TGAAGAG
Found at i:48909746 original size:3 final size:3
Alignment explanation
Indices: 48909695--48909732 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
48909685 TTACTTTATT
48909695 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48909733 TAAACCATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48913181 original size:43 final size:42
Alignment explanation
Indices: 48913045--48913215 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 42
48913035 GACTCGTACA
* *
48913045 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTCAA-CACA-ATCG
* * * *
48913088 ATGCCACTGTCCCAGACAGGGTC--ACAC-ACAA-ATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTCAACA-C-AAT-CG
*
48913129 ATGCCAATGTCCCAGACATTGTCTTACACGTCAACACAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTCAACACAA-TCG
* **
48913172 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTCAACACA-ATCG
48913215 A
1 A
48913216 AATCCTATGT
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 27 0.26
43 65 0.63
44 6 0.06
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTCAACACAATCG
Found at i:48915843 original size:41 final size:40
Alignment explanation
Indices: 48915726--48915861 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 40
48915716 ATCAGTTTGG
* * *
48915726 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATTCGAAGTAGTAAATTGA
* * * ** * *
48915766 CACGCAGTGTCTCATTGGCTAA-ACCAA--AGTAAATTGA
1 CACCCAGTGCCTCATCGAATAATTCGAAGTAGTAAATTGA
*
48915803 CACTCAGTGCCTCATCGAATTAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATTCGAAGTAGTAAATTGA
*
48915844 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
48915862 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 23 0.31
38 3 0.04
39 6 0.08
40 17 0.23
41 26 0.35
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATTCGAAGTAGTAAATTGA
Found at i:48916713 original size:10 final size:10
Alignment explanation
Indices: 48916700--48916763 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 10
48916690 TCATTTCCTT
48916700 TTTCTTTTTC
1 TTTCTTTTTC
48916710 TTTCTTTCTTC
1 TTTCTTT-TTC
*
48916721 TTTTTTGTTTC
1 TTTCTT-TTTC
48916732 GTTTCTATCTTTC
1 -TTTCT-T-TTTC
48916745 TATTTCTTTTTC
1 --TTTCTTTTTC
48916757 TTTCTTT
1 TTTCTTT
48916764 ATTTTGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 14 0.31
11 11 0.24
12 9 0.20
13 6 0.13
14 5 0.11
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:48916713 original size:17 final size:18
Alignment explanation
Indices: 48916688--48916759 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
48916678 TCCTTCCTTC
48916688 TTTCATTTCCTTT-TTCTT
1 TTTCATTT-CTTTCTTCTT
48916706 TTTC-TTTCTTTCTTCTT
1 TTTCATTTCTTTCTTCTT
**
48916723 TTTTGTTTCGTTTCTATCTT
1 TTTCATTTC-TTTCT-TCTT
*
48916743 TCT-ATTTCTTT-TTCTT
1 TTTCATTTCTTTCTTCTT
48916759 T
1 T
48916760 CTTTATTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.19
17 12 0.26
18 11 0.23
19 9 0.19
20 6 0.13
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTCATTTCTTTCTTCTT
Found at i:48920352 original size:76 final size:76
Alignment explanation
Indices: 48920225--48920371 Score: 240
Period size: 76 Copynumber: 1.9 Consensus size: 76
48920215 CATCCTGTGT
* *
48920225 TTCGTAAGCCAATCCATGCCCAAAATCACATCAAAATCACCAAACGGCATTATCAACAAATCAAC
1 TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
48920290 AGGGAACATGC
66 AGGGAACATGC
* * * *
48920301 TTCGTAAGTCAATCCATACCTAAAATCATATCAAAATCACCAAACGACATTATCAACAAATCAAT
1 TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
48920366 AGGGAA
66 AGGGAA
48920372 TGCCATATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (76 bp):
TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
AGGGAACATGC
Found at i:48934427 original size:17 final size:17
Alignment explanation
Indices: 48934400--48934460 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
48934390 TACTCCCCTA
48934400 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
*
48934418 TTTA-TTTCCCAAAACTT
1 TTTACTTTCCCCAAAC-T
*
48934435 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
48934454 TTTACTT
1 TTTACTT
48934461 CTCACCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 7 0.19
19 10 0.28
20 4 0.11
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:48936959 original size:18 final size:20
Alignment explanation
Indices: 48936933--48936979 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
48936923 ACACGTTGGG
*
48936933 TTATTTATTGAAG-ACAAAA
1 TTATTTATTGAAGTAAAAAA
*
48936952 TT-TTTATTTAAGTAAAAAA
1 TTATTTATTGAAGTAAAAAA
48936971 TTATTTATT
1 TTATTTATT
48936980 TATTTTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 9 0.38
20 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (20 bp):
TTATTTATTGAAGTAAAAAA
Found at i:48939941 original size:19 final size:19
Alignment explanation
Indices: 48939917--48939954 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
48939907 TCCAAAACCT
*
48939917 AAAATCAAATAGTTCCTTC
1 AAAATCAAATAATTCCTTC
*
48939936 AAAATCAATTAATTCCTTC
1 AAAATCAAATAATTCCTTC
48939955 GAATTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATCAAATAATTCCTTC
Found at i:48942173 original size:33 final size:33
Alignment explanation
Indices: 48942136--48942201 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
48942126 TTTGAACCAA
48942136 AAATTAGTAGAGAGCTAAAATGCTATCGATTTT
1 AAATTAGTAGAGAGCTAAAATGCTATCGATTTT
48942169 AAATTAGTAGAGAGCTAAAATGCTATCGATTTT
1 AAATTAGTAGAGAGCTAAAATGCTATCGATTTT
48942202 TACATTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (33 bp):
AAATTAGTAGAGAGCTAAAATGCTATCGATTTT
Found at i:48942266 original size:21 final size:22
Alignment explanation
Indices: 48942233--48942273 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
48942223 ACTCATTAAA
**
48942233 TATCGATGGCTAC-TTATTTAG
1 TATCGATACCTACGTTATTTAG
48942254 TATCGATACCTACGTTATTT
1 TATCGATACCTACGTTATTT
48942274 TTCGGAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (22 bp):
TATCGATACCTACGTTATTTAG
Found at i:48948085 original size:14 final size:14
Alignment explanation
Indices: 48948060--48948095 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
48948050 AATTAAAAAA
*
48948060 TAAAATTATTAAAT
1 TAAAAATATTAAAT
*
48948074 TATAAATATTAAAT
1 TAAAAATATTAAAT
48948088 TAAAAATA
1 TAAAAATA
48948096 ATATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAAATATTAAAT
Found at i:48949689 original size:59 final size:57
Alignment explanation
Indices: 48949500--48949689 Score: 128
Period size: 59 Copynumber: 3.2 Consensus size: 57
48949490 GGATCATTAT
* * *
48949500 TTATA-TTAATTTATATTTCATGTATAATTATATTAAATTCTTCAAATATTATTTATCC
1 TTATATTTAATTTATATTTCATGTATCATTATATTAAATTATT-AAATA-TATTTATCA
* *
48949558 TTATATTTGAATTTTTAAAATAGTTT-TTGTATCATTA-ATT---TTA-CAAATA-ATTTAT-A
1 TTATATTT-AA--TTT---ATA-TTTCATGTATCATTATATTAAATTATTAAATATATTTATCA
*
48949614 TTAATTAATTAAAATTTATATTTCATGTATCATTATATTAAATTATTAAATATCATTTATCA
1 TT-A-T-ATT-TAATTTATATTTCATGTATCATTATATTAAATTATTAAATAT-ATTTATCA
48949676 TTATATTTCAATTT
1 TTATATTT-AATTT
48949690 TTAAATGTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 43
0.66 0.06 0.28
Matches are distributed among these distances:
53 3 0.03
54 13 0.13
55 3 0.03
56 2 0.02
57 10 0.10
58 9 0.09
59 25 0.25
60 3 0.03
61 9 0.09
62 6 0.06
64 3 0.03
65 12 0.12
66 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (57 bp):
TTATATTTAATTTATATTTCATGTATCATTATATTAAATTATTAAATATATTTATCA
Found at i:48949802 original size:112 final size:109
Alignment explanation
Indices: 48949585--48949805 Score: 259
Period size: 112 Copynumber: 2.0 Consensus size: 109
48949575 AAATAGTTTT
* * *
48949585 TGTATCATTAATTTTACAAATAATTTATATTAATTAATTAAAATTTATATTTCATGTATCATTAT
1 TGTATCATTAATTTTAAAAATAATTTATATTAAGTAATTAAAATTTACATTTCATGTATCATTAT
* * *
48949650 ATTAAATTATTAAATATCATTTATCATTATATTTCAATTTTTAAA
66 ATTAAATTATTAAATATCATTAATCAATATATAT-AATTTTTAAA
* * * *
48949695 TGTATCATTAATTTTAAAAATAA-TTATATTCGAACGTATTTAAATTTTACATTTCATTTCTCAT
1 TGTATCATTAATTTTAAAAATAATTTATATT--AA-GTAATTAAAATTTACATTTCATGTATCAT
*
48949759 TATATTAAATTATTTAAATATCATCTAAGTCAATGTA-AT-ATTTTTAA
63 TATATTAAATTA-TTAAATATCAT-TAA-TCAATATATATAATTTTTAA
48949806 TTTCTAGCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
109 7 0.07
110 22 0.23
111 2 0.02
112 43 0.46
113 11 0.12
114 3 0.03
115 6 0.06
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (109 bp):
TGTATCATTAATTTTAAAAATAATTTATATTAAGTAATTAAAATTTACATTTCATGTATCATTAT
ATTAAATTATTAAATATCATTAATCAATATATATAATTTTTAAA
Found at i:48962127 original size:56 final size:56
Alignment explanation
Indices: 48962040--48962164 Score: 232
Period size: 56 Copynumber: 2.2 Consensus size: 56
48962030 TTTTATATAC
*
48962040 ATTATAATATAATAGATACGCATTTTAACATACAAATATAAAAAAATTAATATTTTA
1 ATTATAATA-GATAGATACGCATTTTAACATACAAATATAAAAAAATTAATATTTTA
48962097 ATTATAATAGATAGATACGCATTTTAACATACAAATATAAAAAAATTAATATTTTA
1 ATTATAATAGATAGATACGCATTTTAACATACAAATATAAAAAAATTAATATTTTA
48962153 ATTATAATAGAT
1 ATTATAATAGAT
48962165 TTTACTATAT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
56 58 0.87
57 9 0.13
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (56 bp):
ATTATAATAGATAGATACGCATTTTAACATACAAATATAAAAAAATTAATATTTTA
Found at i:48966920 original size:34 final size:35
Alignment explanation
Indices: 48966866--48966932 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
48966856 CAAACACCAA
*
48966866 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
* *
48966901 AAAACATTTTTTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAA
48966933 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:48974166 original size:13 final size:13
Alignment explanation
Indices: 48974148--48974189 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
48974138 AGATTTTTCT
48974148 TAAATATTATTAC
1 TAAATATTATTAC
48974161 TAAATA--ATT-C
1 TAAATATTATTAC
*
48974171 TAAATATTATCAC
1 TAAATATTATTAC
48974184 TAAATA
1 TAAATA
48974190 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 2 0.08
13 13 0.52
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATATTATTAC
Found at i:48974175 original size:23 final size:23
Alignment explanation
Indices: 48974148--48974198 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
48974138 AGATTTTTCT
*
48974148 TAAATATTATTACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
48974171 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
*
48974194 AAAAT
1 TAAAT
48974199 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:48979639 original size:77 final size:77
Alignment explanation
Indices: 48979524--48979905 Score: 412
Period size: 77 Copynumber: 5.0 Consensus size: 77
48979514 TTTAGTTTGA
** * * * * * *
48979524 CTGTCATTTTTACGAATCGCT-GATTTAATATCGCGACCTTCGGTTTTCTAGCAGTTTGCTTGAT
1 CTGTCATTTTTACGGTTTGCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTGAT
*
48979588 TTAATATCACAG
66 TTAATATCGCAG
* * * ** * *
48979600 CTGTCATTATTATGGTTTGCTCGATTTAATATCATGACCTTTGATATTCTAACAATTCGCTTGAT
1 CTGTCATTTTTACGGTTTGCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTGAT
* *
48979665 TTAATATTGCCG
66 TTAATATCGCAG
* * * * *
48979677 CTGTCATTTTTACGGTTCGCTTGATTTAAGATCGCGACCTTTGATATTCTAACTGTTCACTTGAT
1 CTGTCATTTTTACGGTTTGCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTGAT
48979742 TTAATATCGC-G
66 TTAATATCGCAG
* * * * *
48979753 ACTGTCATTTTTAC-GTTTCGCTCGATATAAGATCGCGACATCCAATATTCTAACAGTTCGCTCG
1 -CTGTCATTTTTACGGTTT-GCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTG
48979817 ATTTAATATCGCGAG
64 ATTTAATATCGC-AG
* ** *
48979832 -TGTCATTTTCACGGTTTGCTCGATTTAAGATCATGACCTTCGATATTCTAACAGTTCGTTTGAT
1 CTGTCATTTTTACGGTTTGCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTGAT
*
48979896 TTAAGATCGC
66 TTAATATCGC
48979906 TGTCGAAACC
Statistics
Matches: 253, Mismatches: 47, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
76 20 0.08
77 228 0.90
78 4 0.02
79 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (77 bp):
CTGTCATTTTTACGGTTTGCTCGATTTAAGATCGCGACCTTCGATATTCTAACAGTTCGCTTGAT
TTAATATCGCAG
Found at i:48979751 original size:40 final size:40
Alignment explanation
Indices: 48979540--48979905 Score: 161
Period size: 40 Copynumber: 9.5 Consensus size: 40
48979530 TTTTTACGAA
* * * *
48979540 TCGC-TGATTTAATATCGCGACCTTCGGTTTTCTAGCAGT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* * * * * **
48979579 TTGCTTGATTTAATATCAC-AGC--TG-TCATTATTATGGT
1 TCGCTTGATTTAATATCGCGACCTTTGAT-ATTCTAACAGT
* * ** *
48979616 TTGCTCGATTTAATATCATGACCTTTGATATTCTAACAAT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* * * * *
48979656 TCGCTTGATTTAATATTGC--CGCTGTCAT-TT-TTACGGT
1 TCGCTTGATTTAATATCGCGAC-CTTTGATATTCTAACAGT
* *
48979693 TCGCTTGATTTAAGATCGCGACCTTTGATATTCTAACTGT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* * * *
48979733 TCACTTGATTTAATATCGCGA-CTGTCAT-TT-TTAC-GTT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAG-T
* * * * ***
48979770 TCGCTCGATATAAGATCGCGACATCCAATATTCTAACAGT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* * * * * *
48979810 TCGCTCGATTTAATATCGCGA-GTGTCAT-TT-TCACGGT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* * * ** *
48979847 TTGCTCGATTTAAGATCATGACCTTCGATATTCTAACAGT
1 TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
* *
48979887 TCGTTTGATTTAAGATCGC
1 TCGCTTGATTTAATATCGC
48979906 TGTCGAAACC
Statistics
Matches: 237, Mismatches: 71, Indels: 37
0.69 0.21 0.11
Matches are distributed among these distances:
36 2 0.01
37 87 0.37
38 20 0.08
39 25 0.11
40 101 0.43
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (40 bp):
TCGCTTGATTTAATATCGCGACCTTTGATATTCTAACAGT
Found at i:48979791 original size:37 final size:37
Alignment explanation
Indices: 48979655--48979863 Score: 131
Period size: 37 Copynumber: 5.5 Consensus size: 37
48979645 ATTCTAACAA
* * * * *
48979655 TTCGCTTGATTTAATATTGCCG-CTGTCATTTTTACGG
1 TTCGCTCGATTTAAGATCG-CGACTGTCATTTTAACGT
* * *
48979692 TTCGCTTGATTTAAGATCGCGACCTTTGATATTCTAAC-T
1 TTCGCTCGATTTAAGATCGCGA-CTGTCAT-TT-TAACGT
* * * *
48979731 GTTCACTTGATTTAATATCGCGACTGTCATTTTTACGT
1 -TTCGCTCGATTTAAGATCGCGACTGTCATTTTAACGT
* *
48979769 TTCGCTCGATATAAGATCGCGACAT-CCAATATTCTAACAG-
1 TTCGCTCGATTTAAGATCGCGAC-TGTC-AT-TT-TAAC-GT
* * *
48979809 TTCGCTCGATTTAATATCGCGAGTGTCATTTTCACGGT
1 TTCGCTCGATTTAAGATCGCGACTGTCATTTTAAC-GT
48979847 TT-GCTCGATTTAAGATC
1 TTCGCTCGATTTAAGATC
48979864 ATGACCTTCG
Statistics
Matches: 135, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
36 2 0.01
37 58 0.43
38 15 0.11
39 12 0.09
40 47 0.35
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (37 bp):
TTCGCTCGATTTAAGATCGCGACTGTCATTTTAACGT
Found at i:48981000 original size:16 final size:16
Alignment explanation
Indices: 48980963--48981016 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
48980953 ATGCGAGTAT
*
48980963 ATATGTATAAATTATAAA
1 ATATG-ATAAAATAT-AA
48980981 ATATGA-AAAATATGAA
1 ATATGATAAAATAT-AA
*
48980997 ATATTATAAAATATAA
1 ATATGATAAAATATAA
48981013 ATAT
1 ATAT
48981017 ATATATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 19 0.59
17 8 0.25
18 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATGATAAAATATAA
Found at i:48981068 original size:11 final size:10
Alignment explanation
Indices: 48981041--48981072 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
48981031 AAGCTAAGAA
48981041 AATAAAATAT
1 AATAAAATAT
48981051 AATAAAATAT
1 AATAAAATAT
48981061 ACATAAAATAT
1 A-ATAAAATAT
48981072 A
1 A
48981073 TATATGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAAAATAT
Found at i:48982279 original size:15 final size:15
Alignment explanation
Indices: 48982259--48982290 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48982249 ATTGCGGCAT
48982259 TTGATATTTTAACAG
1 TTGATATTTTAACAG
48982274 TTGATATTTTAACAG
1 TTGATATTTTAACAG
48982289 TT
1 TT
48982291 TGCTTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
TTGATATTTTAACAG
Found at i:48982414 original size:77 final size:77
Alignment explanation
Indices: 48982276--48982655 Score: 399
Period size: 77 Copynumber: 4.9 Consensus size: 77
48982266 TTTAACAGTT
* * * * ** * *
48982276 GATATTTTAACAGTTTGCTTGATTTAATATCGCGACTATCATTTTTATGGTTTGCTCGATTTAAT
1 GATATTTTAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCACTTGATTTAAG
48982341 ATCACGACCTTC
66 ATCACGACCTTC
* *
48982353 GATATTTTAATAGTTCGCTTGATTTAATATTGCGGTTATCATTTTTACGGTTCACTTGATTTAAG
1 GATATTTTAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCACTTGATTTAAG
** * *
48982418 ATTGCAACTTTC
66 ATCACGACCTTC
* * * * * * *
48982430 GATATTCTAACAGTTCACTTGATTTAATATTGCGGTTTTCATTTTTACGGTTCGCTTGATTTAAG
1 GATATTTTAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCACTTGATTTAAG
*
48982495 ATCCCGACCTTC
66 ATCACGACCTTC
* * *
48982507 GATATTCTAATAGTTCGCTCGATTTAATATCGCGGCTGTCATTTTTACGGTTCACTTGATTTAAG
1 GATATTTTAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCACTTGATTTAAG
* * *
48982572 ATCGCAACCATC
66 ATCACGACCTTC
* * * * *
48982584 -AGT-TTTCTAATAGTTCACTTGATTTAATATCGTGACTGTCATTTTTACAG-TC-CGTTGATTT
1 GA-TATTT-TAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCAC-TTGATTT
*
48982645 AATATCACGAC
63 AAGATCACGAC
48982656 TTTCAGTTTT
Statistics
Matches: 258, Mismatches: 42, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
75 1 0.00
76 20 0.08
77 237 0.92
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (77 bp):
GATATTTTAATAGTTCGCTTGATTTAATATCGCGGCTATCATTTTTACGGTTCACTTGATTTAAG
ATCACGACCTTC
Found at i:48982556 original size:154 final size:154
Alignment explanation
Indices: 48982276--48982675 Score: 509
Period size: 154 Copynumber: 2.6 Consensus size: 154
48982266 TTTAACAGTT
* ** * * *
48982276 GATATTTTAACAGTTTGCTTGATTTAATATCGCGACTATCATTTTTATGGTTTGCTCGATTTAAT
1 GATATTCTAACAGTTCACTTGATTTAATATCGCGACTATCATTTTTACGGTTCGCTTGATTTAAT
* * * *
48982341 ATCACGACCTTCGATATTTTAATAGTTCGCTTGATTTAATATTGCGGTTATCATTTTTACGGTTC
66 ATCACGACCTTCGATATTCTAATAGTTCGCTCGATTTAATATCGCGGCTATCATTTTTACGGTTC
* **
48982406 ACTTGATTTAAGATTGCAACTTTC
131 ACTTGATTTAAGATCGCAACCATC
* ** * *
48982430 GATATTCTAACAGTTCACTTGATTTAATATTGCGGTTTTCATTTTTACGGTTCGCTTGATTTAAG
1 GATATTCTAACAGTTCACTTGATTTAATATCGCGACTATCATTTTTACGGTTCGCTTGATTTAAT
* *
48982495 ATCCCGACCTTCGATATTCTAATAGTTCGCTCGATTTAATATCGCGGCTGTCATTTTTACGGTTC
66 ATCACGACCTTCGATATTCTAATAGTTCGCTCGATTTAATATCGCGGCTATCATTTTTACGGTTC
48982560 ACTTGATTTAAGATCGCAACCATC
131 ACTTGATTTAAGATCGCAACCATC
* * * * * *
48982584 -AGTTTTCTAATAGTTCACTTGATTTAATATCGTGACTGTCATTTTTACAGTCCG-TTGATTTAA
1 GA-TATTCTAACAGTTCACTTGATTTAATATCGCGACTATCATTTTTACGGTTCGCTTGATTTAA
* *
48982647 TATCACGACTTTC-AGTTTTCTAATAGTTC
65 TATCACGACCTTCGA-TATTCTAATAGTTC
48982676 ACTAATTCAC
Statistics
Matches: 211, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
152 1 0.00
153 33 0.16
154 177 0.84
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (154 bp):
GATATTCTAACAGTTCACTTGATTTAATATCGCGACTATCATTTTTACGGTTCGCTTGATTTAAT
ATCACGACCTTCGATATTCTAATAGTTCGCTCGATTTAATATCGCGGCTATCATTTTTACGGTTC
ACTTGATTTAAGATCGCAACCATC
Found at i:48986149 original size:12 final size:12
Alignment explanation
Indices: 48986132--48986158 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48986122 CAAACCATAC
48986132 ATTTCATTGTTT
1 ATTTCATTGTTT
48986144 ATTTCATTGTTT
1 ATTTCATTGTTT
48986156 ATT
1 ATT
48986159 GTATGTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (12 bp):
ATTTCATTGTTT
Found at i:48987482 original size:16 final size:17
Alignment explanation
Indices: 48987461--48987494 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48987451 ACAAAATTAT
*
48987461 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
48987477 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
48987494 T
1 T
48987495 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:48987951 original size:42 final size:42
Alignment explanation
Indices: 48987893--48987992 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
48987883 CTATATGAAT
*
48987893 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
48987935 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
48987977 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
48987993 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:48991815 original size:31 final size:31
Alignment explanation
Indices: 48991780--48991845 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
48991770 CGATGAAAAC
48991780 AGTGAAGCTGAGACCAATGATGCTCAAGTTG
1 AGTGAAGCTGAGACCAATGATGCTCAAGTTG
48991811 AGTGAAGCTGAGACCAATGATGCTCAAGTTG
1 AGTGAAGCTGAGACCAATGATGCTCAAGTTG
48991842 AGTG
1 AGTG
48991846 GTGCATCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
AGTGAAGCTGAGACCAATGATGCTCAAGTTG
Found at i:48996257 original size:17 final size:18
Alignment explanation
Indices: 48996231--48996265 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48996221 ATAAAAATGG
48996231 TAATAAACAGA-AACAAT
1 TAATAAACAGATAACAAT
*
48996248 TAATAGACAGATAACAAT
1 TAATAAACAGATAACAAT
48996266 CAAAGTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (18 bp):
TAATAAACAGATAACAAT
Found at i:49002525 original size:60 final size:60
Alignment explanation
Indices: 49002428--49002566 Score: 226
Period size: 60 Copynumber: 2.3 Consensus size: 60
49002418 TTACAGTGGG
* *
49002428 ATTACCAGTCTAGGTTAAATCCCCTGCAACGAAAATTTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAACGAAAATTTACTCTAATGAGCTTGGATCTGA
*
49002488 ATTACCAGTCCAGGCTAAATCCCTTGCAAC-AACAATTTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAACGAA-AATTTACTCTAATGAGCTTGGATCTGA
*
49002548 ATTACCAGTCCAAGCTAAA
1 ATTACCAGTCCAGGCTAAA
49002567 CTCAGACCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
59 2 0.03
60 72 0.97
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (60 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAACGAAAATTTACTCTAATGAGCTTGGATCTGA
Found at i:49004940 original size:16 final size:16
Alignment explanation
Indices: 49004919--49004967 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
49004909 TTTGAAAAAC
*
49004919 AAAAAAATTAAGTGCT
1 AAAAAAATTAAGTGAT
*
49004935 -AAAAAATTAAAT-AT
1 AAAAAAATTAAGTGAT
49004949 AAAAAAATTTAAGTGAT
1 AAAAAAA-TTAAGTGAT
49004966 AA
1 AA
49004968 TTCAAGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.04
15 17 0.63
16 5 0.19
17 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (16 bp):
AAAAAAATTAAGTGAT
Found at i:49005700 original size:25 final size:25
Alignment explanation
Indices: 49005653--49005700 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49005643 ATTTATGTAT
* *
49005653 AAATATATTTATATGAATGTAAATG
1 AAATATATTTACATGAATATAAATG
*
49005678 AAATATATTTACATGTATATAAA
1 AAATATATTTACATGAATATAAA
49005701 ATGTATAATT
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:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (25 bp):
AAATATATTTACATGAATATAAATG
Found at i:49005811 original size:65 final size:67
Alignment explanation
Indices: 49005730--49005861 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 67
49005720 ACAAAAAAAC
* * * * * *
49005730 ATATAATTTCTGAAGAAACTAAAACTTAGGCTATA-A-ATATATATGTGAAAAATATTTAAATGT
1 ATATAATTTATCAAGAAACTAAAAATTAGACTATATATATATATATGCGAAAAATATTTAAAAGT
49005793 AT
66 AT
* * * *
49005795 ATATAATTTATCAAGAAATTAAAAATTAGATTATATATATGTATATGCGAACAATATTTAAAAGT
1 ATATAATTTATCAAGAAACTAAAAATTAGACTATATATATATATATGCGAAAAATATTTAAAAGT
49005860 AT
66 AT
49005862 CAATAAACCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 29 0.53
66 1 0.02
67 25 0.45
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (67 bp):
ATATAATTTATCAAGAAACTAAAAATTAGACTATATATATATATATGCGAAAAATATTTAAAAGT
AT
Found at i:49006607 original size:14 final size:14
Alignment explanation
Indices: 49006588--49006635 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
49006578 TTAAGATAGT
49006588 CAAATATATGAAAG
1 CAAATATATGAAAG
* *
49006602 CAAATAATTAAGATAG
1 CAAAT-A-TATGAAAG
49006618 TCAAATATATGAAAG
1 -CAAATATATGAAAG
49006633 CAA
1 CAA
49006636 TCAACTGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 8 0.30
15 7 0.26
16 7 0.26
17 5 0.19
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.23
Consensus pattern (14 bp):
CAAATATATGAAAG
Found at i:49006610 original size:31 final size:31
Alignment explanation
Indices: 49006572--49006635 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
49006562 TCTGGTGTAT
49006572 AAATAATTAAGATAGTCAAATATATGAAAGC
1 AAATAATTAAGATAGTCAAATATATGAAAGC
49006603 AAATAATTAAGATAGTCAAATATATGAAAGC
1 AAATAATTAAGATAGTCAAATATATGAAAGC
49006634 AA
1 AA
49006636 TCAACTGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (31 bp):
AAATAATTAAGATAGTCAAATATATGAAAGC
Found at i:49006624 original size:17 final size:17
Alignment explanation
Indices: 49006572--49006624 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
49006562 TCTGGTGTAT
49006572 AAATAATTAAGATAGTC
1 AAATAATTAAGATAGTC
* *
49006589 AAAT-A-TATGAAAG-C
1 AAATAATTAAGATAGTC
49006603 AAATAATTAAGATAGTC
1 AAATAATTAAGATAGTC
49006620 AAATA
1 AAATA
49006625 TATGAAAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 5 0.17
15 7 0.24
16 7 0.24
17 10 0.34
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (17 bp):
AAATAATTAAGATAGTC
Found at i:49009662 original size:11 final size:11
Alignment explanation
Indices: 49009648--49009684 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
49009638 TATTTTTTAA
49009648 TTTAAAAATAC
1 TTTAAAAATAC
49009659 TTTAAAAATAC
1 TTTAAAAATAC
* *
49009670 TTTTAAAATAT
1 TTTAAAAATAC
49009681 TTTA
1 TTTA
49009685 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAAAATAC
Found at i:49010044 original size:9 final size:9
Alignment explanation
Indices: 49010026--49010083 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
49010016 TTTGGTTAAA
49010026 AATTAACCG
1 AATTAACCG
*
49010035 AATTACCCG
1 AATTAACCG
*
49010044 AATTAACTG
1 AATTAACCG
*
49010053 AATTACCCG
1 AATTAACCG
49010062 AATTAACCG
1 AATTAACCG
*
49010071 AATTAACCA
1 AATTAACCG
49010080 AATT
1 AATT
49010084 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:49010049 original size:18 final size:18
Alignment explanation
Indices: 49010026--49010075 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
49010016 TTTGGTTAAA
49010026 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
49010044 AATTAACTGAATTACCCG
1 AATTAACCGAATTACCCG
49010062 AATTAACCGAATTA
1 AATTAACCGAATTA
49010076 ACCAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:49018452 original size:24 final size:24
Alignment explanation
Indices: 49018403--49018452 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
49018393 AACTAAAAAA
* *
49018403 CGGTAGCTCATACGAGCTGAGTAT
1 CGGTAGCTCATAAGAGCTGAGAAT
*
49018427 CGGTAAGCTCATAAGAGTTG-GAAT
1 CGGT-AGCTCATAAGAGCTGAGAAT
49018451 CG
1 CG
49018453 ATAACCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (24 bp):
CGGTAGCTCATAAGAGCTGAGAAT
Found at i:49021592 original size:75 final size:75
Alignment explanation
Indices: 49021496--49021641 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 75
49021486 ACAAAGAACC
* *
49021496 CCTAAAATTAATAACTAAAAT-GACAAAAAAGTCATTACATAAATACAAACTTAACTATTTAAAT
1 CCTAAAATTAATAACTAAAATGGA-AAAAAAGTCATTACACAAATACAAACTTAACTATTCAAAT
49021560 TGAAAAAAACT
65 TGAAAAAAACT
* * * *
49021571 CCTAAAATTAATAATTGAAATGGAAAAAAAGTCATTACACAAATACAAACTTGATTATTCAAATT
1 CCTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACACAAATACAAACTTAACTATTCAAATT
*
49021636 GCAAAA
66 GAAAAA
49021642 CCCCCTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
75 61 0.97
76 2 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (75 bp):
CCTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACACAAATACAAACTTAACTATTCAAATT
GAAAAAAACT
Found at i:49021914 original size:33 final size:33
Alignment explanation
Indices: 49021847--49021933 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 33
49021837 TACAAGCCGA
* *
49021847 GAGGAGTGG-GTACTAAAGTGGATATGGGCTGG
1 GAGGAGTGGAGTACTAAGGTGGATACGGGCTGG
* *
49021879 GAGGAGTGGAGTATTGAGGTGGATACGGG-TCGG
1 GAGGAGTGGAGTACTAAGGTGGATACGGGCT-GG
49021912 GAGGAGTGGAGTACTAAGGTGG
1 GAGGAGTGGAGTACTAAGGTGG
49021934 TAGTGGGCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 10 0.21
33 37 0.79
ACGTcount: A:0.24, C:0.06, G:0.49, T:0.21
Consensus pattern (33 bp):
GAGGAGTGGAGTACTAAGGTGGATACGGGCTGG
Found at i:49024178 original size:80 final size:82
Alignment explanation
Indices: 49024024--49024197 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 82
49024014 ATTTTTTTTA
* * ** * *
49024024 AAAAAAATTTTACATTACTAAAAAAATCACAAAACACTAAACTTAACACTAACAATTTATAACCT
1 AAAATAATTTTACATTAATAAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACAT
49024089 AATCATAAATTACTAAC
66 AATCATAAATTACTAAC
49024106 AAAATAATTTTACATTAAT-AAAAAATCACAAAACAAAAAACTAAACAC-AACAATTTATAACAT
1 AAAATAATTTTACATTAATAAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACAT
* *
49024169 AATCCTAAATTACTTAC
66 AATCATAAATTACTAAC
*
49024186 AAAATGATTTTA
1 AAAATAATTTTA
49024198 AAATAATTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 40 0.48
81 26 0.31
82 17 0.20
ACGTcount: A:0.56, C:0.16, G:0.01, T:0.28
Consensus pattern (82 bp):
AAAATAATTTTACATTAATAAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACAT
AATCATAAATTACTAAC
Found at i:49024265 original size:185 final size:184
Alignment explanation
Indices: 49023922--49024276 Score: 457
Period size: 185 Copynumber: 1.9 Consensus size: 184
49023912 AACAAAAATC
* ** *
49023922 AAATAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
1 AAATAAATTTACATTAATAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACATAA
* ** * *
49023987 TCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAAAAAATTTTACATTACTAAAAAAATC
66 TCATAAATTACTAACAAAATAACTATAAATAATTATAAAAAAAA-TTTACATTACTAAAAAAAAC
* *
49024052 ACAAAACACTAAACTTAACACTAACAATTTATAACCTAATCATAAATTACTAACA
130 ACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACA
*
49024107 AAATAATTTTACATTAATAAAAAATCACAAAACAAAAAACTAAACAC-AACAATTTATAACATAA
1 AAATAAATTTACATTAATAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACATAA
* * * * *
49024171 TCCTAAATTACTTACAAAATGATTTTAAAATAATTATAAAAAAAA-TTACATT-CATAAAAAAAA
66 TCATAAATTACTAACAAAATAACTAT-AAATAATTATAAAAAAAATTTACATTAC-TAAAAAAAA
**
49024234 CATTAAAC-CATAAACACTAAACACAAACAATTTATAACCTAAT
129 CACAAAACAC-T-AA-ACTAAACACAAACAATTTATAACCTAAT
49024277 AATTAAAAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
182 2 0.01
183 22 0.15
184 39 0.27
185 83 0.57
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (184 bp):
AAATAAATTTACATTAATAAAAAATCACAAAACAAAAAACTAAACACTAACAATTTATAACATAA
TCATAAATTACTAACAAAATAACTATAAATAATTATAAAAAAAATTTACATTACTAAAAAAAACA
CAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACA
Found at i:49024405 original size:24 final size:27
Alignment explanation
Indices: 49024360--49024423 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 27
49024350 ACATCATTTT
* *
49024360 TTCTTTCTTTCTT-TCTTCTTC-TTC-
1 TTCTTTTTTTCTTCTCCTCTTCTTTCA
49024384 TTCTTTTTTTCTTCTCCT-TTCTTTCA
1 TTCTTTTTTTCTTCTCCTCTTCTTTCA
*
49024410 CTCTTTTTTTCTTC
1 TTCTTTTTTTCTTC
49024424 ACTCCCGCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.44
25 6 0.18
26 13 0.38
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (27 bp):
TTCTTTTTTTCTTCTCCTCTTCTTTCA
Found at i:49024744 original size:27 final size:25
Alignment explanation
Indices: 49024697--49024751 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
49024687 GACCCGATAT
*
49024697 ATATATTTTTAAATAATAAAAAATA
1 ATATATTTTTAAAAAATAAAAAATA
49024722 ATATATTTTTAAAAAATAAAAAA-A
1 ATATATTTTTAAAAAATAAAAAATA
49024746 AT-TATT
1 ATATATT
49024752 AAAAAACAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 4 0.14
24 3 0.10
25 22 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATATTTTTAAAAAATAAAAAATA
Found at i:49025635 original size:9 final size:9
Alignment explanation
Indices: 49025621--49025661 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
49025611 GGACGAGGAC
49025621 GACAAGAAG
1 GACAAGAAG
49025630 GACAAGAAG
1 GACAAGAAG
* *
49025639 GAAAAAAAG
1 GACAAGAAG
*
49025648 GACAAGAAA
1 GACAAGAAG
49025657 GACAA
1 GACAA
49025662 AGATCACAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (9 bp):
GACAAGAAG
Found at i:49025670 original size:18 final size:18
Alignment explanation
Indices: 49025649--49025701 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
49025639 GAAAAAAAGG
49025649 ACAAGAAAGACAAAGATC
1 ACAAGAAAGACAAAGATC
**
49025667 ACAAGAAAGGTAAAGATC
1 ACAAGAAAGACAAAGATC
*
49025685 ATAA-AGAAGACAAAGAT
1 ACAAGA-AAGACAAAGAT
49025702 GAAGGGATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.60, C:0.11, G:0.19, T:0.09
Consensus pattern (18 bp):
ACAAGAAAGACAAAGATC
Found at i:49025808 original size:105 final size:105
Alignment explanation
Indices: 49025687--49025944 Score: 417
Period size: 105 Copynumber: 2.5 Consensus size: 105
49025677 TAAAGATCAT
* *
49025687 AAAGAAGACAAAGATGAAGGGATGATGGATAAAATCAAGGACATGATCACAGGTGATAAAGATGA
1 AAAGAACACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACAGGTGATAAAGATGA
* *
49025752 CGATAAGCATAAGAAAGATGACCATAAGCACAAGGACCGC
66 CGATAAGCACAAGAAAGATGACCATAAGCACAAGGAACGC
* *
49025792 AAAGAGCACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACTGGTGATAAAGATGA
1 AAAGAACACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACAGGTGATAAAGATGA
49025857 CGATAAGCACAAGAAAGATGACCATAAGCACAAGGAACGC
66 CGATAAGCACAAGAAAGATGACCATAAGCACAAGGAACGC
* * * * *
49025897 AAAGAACACAAGGATGAAGGGATGCTAGATAAGATCAAAGACAAGATC
1 AAAGAACACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATC
49025945 CACGGGGATG
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 141 1.00
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.13
Consensus pattern (105 bp):
AAAGAACACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACAGGTGATAAAGATGA
CGATAAGCACAAGAAAGATGACCATAAGCACAAGGAACGC
Found at i:49025873 original size:21 final size:21
Alignment explanation
Indices: 49025849--49025890 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49025839 CACTGGTGAT
*
49025849 AAAGATGACGATAAGCACAAG
1 AAAGATGACCATAAGCACAAG
49025870 AAAGATGACCATAAGCACAAG
1 AAAGATGACCATAAGCACAAG
49025891 GAACGCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10
Consensus pattern (21 bp):
AAAGATGACCATAAGCACAAG
Found at i:49026011 original size:18 final size:18
Alignment explanation
Indices: 49025971--49026011 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
49025961 GTGGCCGCGA
* *
49025971 CCGTCGTCGCGATAGTAG
1 CCGTGGTCGCGATAGCAG
49025989 CCGTGGTCGCGATAGCAG
1 CCGTGGTCGCGATAGCAG
*
49026007 TCGTG
1 CCGTG
49026012 ATCGTGACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.22
Consensus pattern (18 bp):
CCGTGGTCGCGATAGCAG
Found at i:49026151 original size:15 final size:16
Alignment explanation
Indices: 49026114--49026153 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
49026104 AGTGATAACG
49026114 AGAAG-AAGAAAAAGA
1 AGAAGAAAGAAAAAGA
*
49026129 AGAAGAAAGGAAAA-A
1 AGAAGAAAGAAAAAGA
49026144 AGAAGAAAGA
1 AGAAGAAAGA
49026154 TGATGGTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AGAAGAAAGAAAAAGA
Found at i:49027261 original size:8 final size:8
Alignment explanation
Indices: 49027250--49027290 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
49027240 GTCTGATGAG
49027250 TTGGAGGC
1 TTGGAGGC
*
49027258 TTGGAGCC
1 TTGGAGGC
49027266 TTGGAGGC
1 TTGGAGGC
*
49027274 TTGGAGCC
1 TTGGAGGC
49027282 TTGGAGGC
1 TTGGAGGC
49027290 T
1 T
49027291 ACTGGTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.12, C:0.17, G:0.44, T:0.27
Consensus pattern (8 bp):
TTGGAGGC
Found at i:49027269 original size:16 final size:16
Alignment explanation
Indices: 49027250--49027290 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
49027240 GTCTGATGAG
49027250 TTGGAGGCTTGGAGCC
1 TTGGAGGCTTGGAGCC
49027266 TTGGAGGCTTGGAGCC
1 TTGGAGGCTTGGAGCC
49027282 TTGGAGGCT
1 TTGGAGGCT
49027291 ACTGGTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.44, T:0.27
Consensus pattern (16 bp):
TTGGAGGCTTGGAGCC
Done.