Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 115 of 410
Found at i:34287691 original size:3 final size:3
Alignment explanation
Indices: 34287678--34287713 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
34287668 TGCATTTCAA
34287678 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
34287714 GAAATACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34287822 original size:3 final size:3
Alignment explanation
Indices: 34287814--34287858 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
34287804 TGTGTTTCAA
34287814 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34287859 ATATCCTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34288136 original size:33 final size:30
Alignment explanation
Indices: 34288074--34288143 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 30
34288064 TAATATTATG
*
34288074 TATATATTTTAATATTATCAGTTACATATA
1 TATATATTTTAATACTATCAGTTACATATA
* * *
34288104 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTACATATA
34288137 TATATAT
1 TATATAT
34288144 ATTTTCTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.27
33 17 0.52
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTACATATA
Found at i:34288571 original size:16 final size:16
Alignment explanation
Indices: 34288535--34288573 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
34288525 ATATTTTTGC
*
34288535 ATATTATCTTATGTAT
1 ATATTACCTTATGTAT
34288551 ATATTACCTTATGT-T
1 ATATTACCTTATGTAT
34288566 ATTATTAC
1 A-TATTAC
34288574 TAAATGTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (16 bp):
ATATTACCTTATGTAT
Found at i:34295303 original size:17 final size:15
Alignment explanation
Indices: 34295283--34295320 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
34295273 TTCTTTCAAA
34295283 TATTAATAACTTTCTAC
1 TATTAA-AA-TTTCTAC
34295300 TATT-AAATTTCTAC
1 TATTAAAATTTCTAC
34295314 TATTAAA
1 TATTAAA
34295321 TAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.55
15 4 0.20
16 1 0.05
17 4 0.20
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAATTTCTAC
Found at i:34295312 original size:14 final size:14
Alignment explanation
Indices: 34295293--34295321 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34295283 TATTAATAAC
34295293 TTTCTACTATTAAA
1 TTTCTACTATTAAA
34295307 TTTCTACTATTAAA
1 TTTCTACTATTAAA
34295321 T
1 T
34295322 AATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTCTACTATTAAA
Found at i:34295963 original size:21 final size:20
Alignment explanation
Indices: 34295939--34296022 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 20
34295929 AGGCAGCAAA
* *
34295939 GAGGGAGGCAGTGGCATCAGT
1 GAGGGAGGCAGAGGCA-CAGC
34295960 GAGGGAGGCA-ACGGCAGCAGC
1 GAGGGAGGCAGA-GGCA-CAGC
*
34295981 GAGAGAGGCAGAGGCACGAGC
1 GAGGGAGGCAGAGGCAC-AGC
34296002 GAGGGAGGCAGAGGCAGCAGC
1 GAGGGAGGCAGAGGCA-CAGC
34296023 AATGGCAGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 1 0.02
21 51 0.94
22 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.49, T:0.04
Consensus pattern (20 bp):
GAGGGAGGCAGAGGCACAGC
Found at i:34295989 original size:42 final size:42
Alignment explanation
Indices: 34295928--34296022 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
34295918 ACTTAGAGCC
** * * *
34295928 GAGGCAGCAAAGAGGGAGGCAGTGGCATC-AGTGAGGGAGGCA
1 GAGGCAGCAGCGAGAGAGGCAGAGGCA-CGAGCGAGGGAGGCA
34295970 -ACGGCAGCAGCGAGAGAGGCAGAGGCACGAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGAGAGGCAGAGGCACGAGCGAGGGAGGCA
34296012 GAGGCAGCAGC
1 GAGGCAGCAGC
34296023 AATGGCAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.04
42 42 0.93
43 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.47, T:0.03
Consensus pattern (42 bp):
GAGGCAGCAGCGAGAGAGGCAGAGGCACGAGCGAGGGAGGCA
Found at i:34296300 original size:33 final size:33
Alignment explanation
Indices: 34296258--34296337 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 33
34296248 AGAATTAATA
* *
34296258 TTTTTGGTTGTATTTTTTATGCTAAATTTGTTG
1 TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
*
34296291 TTTTTGGTTGCA--TTTTATACTATATTTGTTG
1 TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
* *
34296322 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
34296338 AATGCTGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 27 0.68
33 13 0.32
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (33 bp):
TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
Found at i:34296763 original size:129 final size:129
Alignment explanation
Indices: 34296533--34296765 Score: 439
Period size: 129 Copynumber: 1.8 Consensus size: 129
34296523 TTTAAGAAGC
*
34296533 GCCGCTAAAAGTCTATTTTCTTGTAGTGTTAGACTTTCCATTTTGCTCCCCAATATGAATGATAT
1 GCCGCTAAAAGTCTATTTTCTTGTAGTGTTAGACTCTCCATTTTGCTCCCCAATATGAATGATAT
*
34296598 TGTTGCCCCAAAGGGCTTCCACTTGTTAAACCCAAAACAAGCGCCGCTAAAGGCTAAAAAAAGT
66 CGTTGCCCCAAAGGGCTTCCACTTGTTAAACCCAAAACAAGCGCCGCTAAAGGCTAAAAAAAGT
*
34296662 GCCGCTAAAAGTCTATTTTCTTGTAGTGTTAGACTCTCCATTTTGCTTCCCAATATGAATGATAT
1 GCCGCTAAAAGTCTATTTTCTTGTAGTGTTAGACTCTCCATTTTGCTCCCCAATATGAATGATAT
34296727 CGTTGCCCCAAAGGGCTTCCACTTGTTAAACCCAAAACA
66 CGTTGCCCCAAAGGGCTTCCACTTGTTAAACCCAAAACA
34296766 GATTCATCTT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 101 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (129 bp):
GCCGCTAAAAGTCTATTTTCTTGTAGTGTTAGACTCTCCATTTTGCTCCCCAATATGAATGATAT
CGTTGCCCCAAAGGGCTTCCACTTGTTAAACCCAAAACAAGCGCCGCTAAAGGCTAAAAAAAGT
Found at i:34297807 original size:2 final size:2
Alignment explanation
Indices: 34297795--34297836 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
34297785 ATCATATTGC
34297795 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34297837 GATTTTAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34298411 original size:22 final size:22
Alignment explanation
Indices: 34298384--34298425 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
34298374 AATTAATATC
34298384 TTTATATTTGAAATTATTTATT
1 TTTATATTTGAAATTATTTATT
34298406 TTTATATTTGAAATTATTTA
1 TTTATATTTGAAATTATTTA
34298426 ATTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTATATTTGAAATTATTTATT
Found at i:34301682 original size:14 final size:14
Alignment explanation
Indices: 34301653--34301683 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34301643 TAAACTCTAT
34301653 ACCCCAAACCTAGA
1 ACCCCAAACCTAGA
*
34301667 ACCCCAAACCTTGA
1 ACCCCAAACCTAGA
34301681 ACC
1 ACC
34301684 ATAAACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.45, G:0.06, T:0.10
Consensus pattern (14 bp):
ACCCCAAACCTAGA
Found at i:34310271 original size:40 final size:40
Alignment explanation
Indices: 34310177--34310360 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
34310167 AAATTGAATG
* * * * * *
34310177 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
34310217 ATAAT-CGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 AT-ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
34310257 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
34310297 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
34310337 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
34310361 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
39 5 0.04
40 110 0.92
41 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:34318755 original size:31 final size:30
Alignment explanation
Indices: 34318733--34318788 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
34318723 GCCGTATTTT
**
34318733 TTTCCAGCTTGCACACTTAGTGCC-ATATA
1 TTTCCAGCACGCACACTTAGTGCCGATATA
34318762 TTTCCAGCACGCACACTTAGTGCCGAT
1 TTTCCAGCACGCACACTTAGTGCCGAT
34318789 CTCGTCACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
TTTCCAGCACGCACACTTAGTGCCGATATA
Found at i:34321498 original size:40 final size:40
Alignment explanation
Indices: 34321396--34321579 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
34321386 AAATTGAATG
* * * * * *
34321396 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
34321436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
34321476 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
34321516 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
34321556 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
34321580 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:34321604 original size:80 final size:80
Alignment explanation
Indices: 34321436--34321607 Score: 177
Period size: 80 Copynumber: 2.1 Consensus size: 80
34321426 GCTGGAAATT
* * *
34321436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
34321501 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
34321516 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
34321579 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
34321596 ATAACCGGGCTA
1 ATAACCGGGCTA
34321608 TGTCTCGAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
79 3 0.04
80 69 0.93
81 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:34325975 original size:40 final size:40
Alignment explanation
Indices: 34325931--34326115 Score: 234
Period size: 40 Copynumber: 4.6 Consensus size: 40
34325921 GCTACTCGTT
* *
34325931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34325971 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34326011 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
34326051 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34326092 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
34326116 GCATCATTCG
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34332122 original size:24 final size:24
Alignment explanation
Indices: 34332101--34332186 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
34332091 TTCCAATCCA
34332101 CACACATAGTGCCATACAAA-TCTG
1 CACACATAGTGCCATACAAATTC-G
34332125 CACACATAGTGCCATACAAATTCG
1 CACACATAGTGCCATACAAATTCG
*
34332149 CACACATAGTGCCATTCAAATTCG
1 CACACATAGTGCCATACAAATTCG
34332173 CACACATAGTGCCA
1 CACACATAGTGCCA
34332187 AAATCATTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
24 58 0.97
25 2 0.03
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (24 bp):
CACACATAGTGCCATACAAATTCG
Found at i:34332132 original size:48 final size:48
Alignment explanation
Indices: 34332053--34332183 Score: 138
Period size: 48 Copynumber: 2.7 Consensus size: 48
34332043 TGTTAACCAG
* ** * * * * *
34332053 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCA
1 CACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCCA
* * *
34332101 CACACATAGTGCCATACAAA-TCTGCACACATAGTGCCATACAAATTCG
1 CACACATAGTGCCATACAAATTC-GCACACATAGTGACATACAAATCCA
*
34332149 CACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CACACATAGTGCCATACAAATTCGCACACATAGTG
34332184 CCAAAATCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.03
48 65 0.94
49 2 0.03
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.24
Consensus pattern (48 bp):
CACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCCA
Found at i:34332156 original size:72 final size:72
Alignment explanation
Indices: 34332052--34332186 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
34332042 ATGTTAACCA
* ** * * *
34332052 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCACACACATAGTGCCATA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCACACACATAGTGCCATA
34332117 CAAATCT
66 CAAATCT
* * * *
34332124 GCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCACACACATAGTGCCA
34332187 AAATCATTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (72 bp):
GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCACACACATAGTGCCATA
CAAATCT
Found at i:34340745 original size:23 final size:22
Alignment explanation
Indices: 34340693--34340750 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
34340683 AGCAAGCTGT
34340693 AATGAGCTAAAACGGTAAGCTC
1 AATGAGCTAAAACGGTAAGCTC
* *
34340715 TATCGAGCTAAAATGGTACA-CTCC
1 AAT-GAGCTAAAACGGTA-AGCT-C
34340739 AATGAGCTAAAA
1 AATGAGCTAAAA
34340751 ATAGTAAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.07
23 24 0.80
24 4 0.13
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (22 bp):
AATGAGCTAAAACGGTAAGCTC
Found at i:34342205 original size:62 final size:62
Alignment explanation
Indices: 34342100--34342220 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
34342090 TAGGGTACTA
* * * *
34342100 TTTTCATATAGCTTCGTCGGGTTGCCACGTTGCTTCCTTGATCCCATGTTTATGCCAAACTG
1 TTTTCACATAGCTTCCTCGGGTTGCCACGTAGCTTCCTCGATCCCATGTTTATGCCAAACTG
* *
34342162 TTTTCACATAGCTTCCTTGGGTTGCCACGTAGCTTTCTCGATCCCATGTTTATGCCAAA
1 TTTTCACATAGCTTCCTCGGGTTGCCACGTAGCTTCCTCGATCCCATGTTTATGCCAAA
34342221 GAACCTTTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.38
Consensus pattern (62 bp):
TTTTCACATAGCTTCCTCGGGTTGCCACGTAGCTTCCTCGATCCCATGTTTATGCCAAACTG
Found at i:34348485 original size:23 final size:23
Alignment explanation
Indices: 34348451--34348502 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
34348441 CTCCTGAGCT
* * *
34348451 GATG-AACAGTAATCTCTAATGA
1 GATGAAACGGTAAGCTCCAATGA
*
34348473 GTTGAAACGGTAAGCTCCAATGA
1 GATGAAACGGTAAGCTCCAATGA
34348496 GATGAAA
1 GATGAAA
34348503 ATAGTAAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (23 bp):
GATGAAACGGTAAGCTCCAATGA
Found at i:34352583 original size:49 final size:49
Alignment explanation
Indices: 34352361--34352799 Score: 271
Period size: 51 Copynumber: 8.8 Consensus size: 49
34352351 CAAGAACACA
* * *** * *
34352361 TGTGTAGTACTATGTGCGGGCTACTATGTGTTTAAGATGCTTTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATG---GTAGGTCACG
* * * * * * *
34352413 TATGTAGTACTAAGTGCAGGCCACTACGTGTACTAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTAGGTCACG
* * * ** * * * *
34352463 TGTCTAGTACTAAGTGTAGCCTACTATACGTACCCGACAAT-TTCA-ATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CC-A-GATGGT-AGGTCACG
*
34352514 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAGGTCACG
* * ** *
34352563 TGTGTAGTACTAAGTACAGGCTACTATGT-T-CCAGATAGTTAGGTTGCC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTAGGTCACG
* * *** *
34352611 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCCTACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CC-AGATGGT-AGGTCACG
* *
34352662 TGTGTAGTACTAAGTGCAGGCTTCTACGTGT-CTCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATGG-TAGGTCACG
* ** * * * * *
34352712 TGTGGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTGGTCGCA
1 TGT-GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAGGTCACG
*
34352762 TGTGTAGTACTATA-TGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTA-AGTGCAGGCTACTATGTGTACCAGAT
34352800 AGCTTTGGTT
Statistics
Matches: 297, Mismatches: 71, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
47 5 0.02
48 38 0.13
49 67 0.23
50 52 0.18
51 96 0.32
52 36 0.12
53 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAGGTCACG
Found at i:34352635 original size:148 final size:148
Alignment explanation
Indices: 34352361--34352795 Score: 523
Period size: 148 Copynumber: 2.9 Consensus size: 148
34352351 CAAGAACACA
* * * * * * *
34352361 TGTGTAGTACTATGTGCGGGCTACTATGTGTTTAAGATGCTTTTAGGTCATGTATGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATG---GTAGGTCACGTGTGTAGTACTAA
* * * * *
34352426 GTGCAGGCCACTACGTGTACTAGATAGTTAGGTCGCATGTCTAGTACTAAGTGTAGCCTACTATA
63 GTGCAGGCTACTA--TGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATG
* *
34352491 CGTACCCGACAATTTCAATCATG
126 CGTACCCGACAACTTCAATCACG
*
34352514 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTAGGTCACGTGTGTAGTACTAAGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTAGGTCACGTGTGTAGTACTAAGTG
* * * *
34352579 CAGGCTACTATGTTCCAGATAGTTAGGTTGCCTGTGTAGTACTAAGTGTAGGCTACTATGTGTAC
66 CAGGCTACTATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAC
*
34352644 CCTACAACTTCAATCACG
131 CCGACAACTTCAATCACG
* * *
34352662 TGTGTAGTACTAAGTGCAGGCTTCTACGTGTCTCAGATGGTTAGGTCACGTGTGGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TAGGTCACGTGT-GTAGTACTAAG
* * * *
34352727 TGTAGGCTACTACATGTACCGGATTGTT-GGTCGCATGTGTAGTACTATA-TGCAGGCTACTATG
64 TGCAGGCTACT--ATGTACCAGATAGTTAGGTCGCATGTGTAGTACTA-AGTGTAGGCTACTATG
34352790 CGTACC
126 CGTACC
34352796 AGATAGCTTT
Statistics
Matches: 245, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
148 99 0.40
149 12 0.05
150 51 0.21
151 35 0.14
152 13 0.05
153 35 0.14
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (148 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTAGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAC
CCGACAACTTCAATCACG
Found at i:34353020 original size:16 final size:15
Alignment explanation
Indices: 34352999--34353028 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34352989 GAATGGAGTA
34352999 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
34353015 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
34353029 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:34367253 original size:18 final size:18
Alignment explanation
Indices: 34367227--34367269 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34367217 AACATTCCAT
*
34367227 TTTACATTTTTC-TTTCA
1 TTTATATTTTTCATTTCA
34367244 TTTCATATTTTTCATTTCA
1 TTT-ATATTTTTCATTTCA
34367263 TTTATAT
1 TTTATAT
34367270 ATCCCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATTTTTCATTTCA
Found at i:34367633 original size:22 final size:21
Alignment explanation
Indices: 34367593--34367633 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
34367583 ATACATAGAC
*
34367593 CAATTTCTCAATTCCATAACA
1 CAATTTCTCAATTCAATAACA
*
34367614 CAATTTCATGAATTCAATAA
1 CAATTTC-TCAATTCAATAA
34367634 TCCATTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.34
Consensus pattern (21 bp):
CAATTTCTCAATTCAATAACA
Found at i:34368501 original size:23 final size:23
Alignment explanation
Indices: 34368471--34368519 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
34368461 TACTTGGAAG
34368471 TAAGGCTTTTAAATAATTAAGAT
1 TAAGGCTTTTAAATAATTAAGAT
34368494 TAAGGCTTTTAAATAATTAAGAT
1 TAAGGCTTTTAAATAATTAAGAT
34368517 TAA
1 TAA
34368520 AATGTGACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (23 bp):
TAAGGCTTTTAAATAATTAAGAT
Found at i:34369778 original size:6 final size:6
Alignment explanation
Indices: 34369740--34369864 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
34369730 AAGAAACATT
* * * *
34369740 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
34369789 ATCAAA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
34369838 ATCAAGTA A-CAGA ATCAGA ATCAGA AT
1 ATC-AG-A ATCAGA ATCAGA ATCAGA AT
34369865 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 6 0.07
6 74 0.80
7 8 0.09
8 4 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:34369790 original size:37 final size:37
Alignment explanation
Indices: 34369749--34369842 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
34369739 TATCAGAACT
*
34369749 AGAATCAAAATGAGAATCAAAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAAAATCAGAATCAAGTGAC
* * *
34369786 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAAAATCAGAATCAAGTGAC
* *
34369823 AGAATCAGAATCAGTATCAA
1 AGAATCAAAATCAGAATCAA
34369843 GTAACAGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAAAATCAGAATCAAGTGAC
Found at i:34369804 original size:31 final size:31
Alignment explanation
Indices: 34369761--34369864 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
34369751 AATCAAAATG
* *
34369761 AGAATCAAAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAGAATC
* * *
34369792 AAAATCAGAATCAGAATC-AG-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAAGTAA-CAGAAT--C
*
34369823 AGAATCAGAATCAGTATCAAGTAACAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAGAATC
34369854 AGAATCAGAAT
1 AGAATCAGAAT
34369865 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 45 0.78
32 4 0.07
33 3 0.05
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:34369825 original size:25 final size:25
Alignment explanation
Indices: 34369785--34369864 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
34369775 AATCAAGTGA
34369785 CAGAATCAA--AATCAGAATCAGAAT
1 CAGAATCAAGTAA-CAGAATCAGAAT
* * *
34369809 CAGAATTAGGTGACAGAATCAGAAT
1 CAGAATCAAGTAACAGAATCAGAAT
*
34369834 CAGTATCAAGTAACAGAATCAGAAT
1 CAGAATCAAGTAACAGAATCAGAAT
34369859 CAGAAT
1 CAGAAT
34369865 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 7 0.15
25 38 0.83
26 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (25 bp):
CAGAATCAAGTAACAGAATCAGAAT
Found at i:34370127 original size:20 final size:20
Alignment explanation
Indices: 34370088--34370132 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34370078 AATTGGCACG
*
34370088 AAGCCCACAATATCAATACA
1 AAGCCCACAATAACAATACA
*
34370108 AAGCCCACAATAACAGTACA
1 AAGCCCACAATAACAATACA
*
34370128 CAGCC
1 AAGCC
34370133 ATAATCAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.33, G:0.09, T:0.11
Consensus pattern (20 bp):
AAGCCCACAATAACAATACA
Found at i:34370157 original size:22 final size:22
Alignment explanation
Indices: 34370129--34370183 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
34370119 AACAGTACAC
34370129 AGCCATAATCAAGTTGGCGCAA
1 AGCCATAATCAAGTTGGCGCAA
* * *
34370151 AGCCAT-ATGTAGGTTGGCGCGA
1 AGCCATAAT-CAAGTTGGCGCAA
34370173 AGCCATAATCA
1 AGCCATAATCA
34370184 GAATAACTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
AGCCATAATCAAGTTGGCGCAA
Found at i:34370729 original size:27 final size:27
Alignment explanation
Indices: 34370699--34370866 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
34370689 GGGCAAAATG
* * * *
34370699 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34370726 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34370753 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34370779 GATAATTCTACCCTA-TAGAGGTATTTCA
1 G-TAATTCTACCCTACAAG-GGTATTTCA
* *
34370807 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
34370834 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34370861 ATAATT
1 GTAATT
34370867 TTATAAATCG
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.02
27 118 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:34370835 original size:81 final size:81
Alignment explanation
Indices: 34370700--34370866 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 81
34370690 GGCAAAATGG
* * *
34370700 TAATTTTACCCCATAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCCATAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
*
34370765 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCAA
* *
34370781 TAATTCTACCCTAT-AGAGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 TAATTCTACCCCATAAG-GGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
* *
34370845 CTATAGGGGTATTTCAA
65 CTACAAGGGTATTTCAA
34370862 TAATT
1 TAATT
34370867 TTATAAATCG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.03
81 75 0.97
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCCATAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAA
Found at i:34370864 original size:54 final size:54
Alignment explanation
Indices: 34370700--34370866 Score: 237
Period size: 54 Copynumber: 3.1 Consensus size: 54
34370690 GGCAAAATGG
* * * * * *
34370700 TAATTTTACCCCATAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
* *
34370754 TATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATAGAGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTTCAA
*
34370808 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
34370862 TAATT
1 TAATT
34370867 TTATAAATCG
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 98 0.98
55 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
Found at i:34370893 original size:81 final size:81
Alignment explanation
Indices: 34370724--34370895 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
34370714 AAGGGTATCT
* *
34370724 CAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATTCTA
1 CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTCTA
** ***
34370789 CCCTATAGAGGTATTT
66 CCAAATAGAGGTAAAA
* * * *
34370805 CAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAATAATTTTA
1 CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTCTA
* *
34370870 -TAAATCGAGGGTAAAA
66 CCAAATAGA-GGTAAAA
*
34370886 CGGTAATTCT
1 CAGTAATTCT
34370896 GTAAATTGGG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 4 0.05
81 71 0.95
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (81 bp):
CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTCTA
CCAAATAGAGGTAAAA
Found at i:34372819 original size:27 final size:27
Alignment explanation
Indices: 34372746--34372852 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 27
34372736 TAAGACCCCG
*
34372746 GTTTGTAAAATTATTGAAATAACTCC--A
1 GTTTGTAAAATTACTGAAAT-AC-CCTTA
**
34372773 GTTTGTAAAATTACCAAAATACCCTTA
1 GTTTGTAAAATTACTGAAATACCCTTA
* *
34372800 ATTTGTAAAATTACTGAAATAACCTT-
1 GTTTGTAAAATTACTGAAATACCCTTA
*
34372826 GTAGTGTAAAATTA-TCGAAATACCCTT
1 GT-TTGTAAAATTACT-GAAATACCCTT
34372853 TAGGGTAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
25 2 0.03
26 4 0.06
27 60 0.91
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (27 bp):
GTTTGTAAAATTACTGAAATACCCTTA
Found at i:34372834 original size:54 final size:54
Alignment explanation
Indices: 34372747--34372852 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
34372737 AAGACCCCGG
* *
34372747 TTTGTAAAATTATTGAAATAACTCCAGTTTGTAAAATTACCAAAATACCCTTAA
1 TTTGTAAAATTACTGAAATAACTCCAGTGTGTAAAATTACCAAAATACCCTTAA
** * *
34372801 TTTGTAAAATTACTGAAATAAC-CTTGTAGTGTAAAATTATCGAAATACCCTT
1 TTTGTAAAATTACTGAAATAACTCCAGT-GTGTAAAATTACCAAAATACCCTT
34372853 TAGGGTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (54 bp):
TTTGTAAAATTACTGAAATAACTCCAGTGTGTAAAATTACCAAAATACCCTTAA
Found at i:34375675 original size:39 final size:40
Alignment explanation
Indices: 34375537--34375681 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
34375527 GCGACTCGCT
* * * *** * *
34375537 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* * *
34375577 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* **
34375617 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TAGCA
34375657 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34375682 CATCATTCGA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 22 0.26
40 64 0.74
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
Found at i:34383637 original size:40 final size:40
Alignment explanation
Indices: 34383552--34383704 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
34383542 GGATATAGCG
* * * * ***
34383552 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * * *
34383592 GCTCGCACAAATGCTTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
34383632 ACTCGCACAAATGCCTTC-GGACCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
34383672 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
34383705 CATCATTCGA
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:34394353 original size:47 final size:48
Alignment explanation
Indices: 34394229--34394367 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
34394219 TACCACAGTT
* * ** *
34394229 ATACGTGTAACGTGGTGCTAAGTGGATATACCACCATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
*
34394277 ATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
* * *
34394325 ATTCAT-TAACGTGGTGCTAAGTGGATATGCCATGGTTATATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATAT
34394368 TTTAATTTGA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 34 0.42
48 47 0.58
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
Found at i:34400075 original size:17 final size:18
Alignment explanation
Indices: 34400033--34400081 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34400023 AGTTGAAAAG
34400033 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34400052 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34400069 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34400082 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34400969 original size:40 final size:40
Alignment explanation
Indices: 34400903--34401069 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34400893 AAATTGAATG
* * *
34400903 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34400942 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34400982 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34401022 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34401062 ATATCCGG
1 ATATCCGG
34401070 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34405817 original size:30 final size:30
Alignment explanation
Indices: 34405762--34405892 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34405752 ATAGTGAATC
*
34405762 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34405791 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34405821 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34405849 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34405879 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34405893 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34405872 original size:58 final size:58
Alignment explanation
Indices: 34405761--34405892 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34405751 TATAGTGAAT
* * * * *
34405761 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34405820 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34405878 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34405893 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34413758 original size:30 final size:30
Alignment explanation
Indices: 34413703--34413833 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34413693 ATAGTGAATC
*
34413703 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34413732 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34413762 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34413790 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34413820 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34413834 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34413813 original size:58 final size:58
Alignment explanation
Indices: 34413702--34413833 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34413692 TATAGTGAAT
* * * * *
34413702 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34413761 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34413819 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34413834 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34421704 original size:30 final size:30
Alignment explanation
Indices: 34421649--34421779 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34421639 ATAGTGAATC
*
34421649 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34421678 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34421708 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34421736 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34421766 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34421780 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34421759 original size:58 final size:58
Alignment explanation
Indices: 34421648--34421779 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34421638 TATAGTGAAT
* * * * *
34421648 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34421707 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34421765 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34421780 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34429671 original size:30 final size:30
Alignment explanation
Indices: 34429616--34429746 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34429606 ATAGTGAATC
*
34429616 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34429645 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34429675 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34429703 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34429733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34429747 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34429726 original size:58 final size:58
Alignment explanation
Indices: 34429615--34429746 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34429605 TATAGTGAAT
* * * * *
34429615 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34429674 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34429732 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34429747 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34435089 original size:17 final size:18
Alignment explanation
Indices: 34435047--34435095 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34435037 AGTTGAAAAG
34435047 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34435066 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34435083 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34435096 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34435983 original size:40 final size:40
Alignment explanation
Indices: 34435917--34436083 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34435907 AAATTGAATG
* * *
34435917 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34435956 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34435996 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34436036 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34436076 ATATCCGG
1 ATATCCGG
34436084 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34438951 original size:14 final size:14
Alignment explanation
Indices: 34438932--34438961 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34438922 CCATCTATAC
34438932 ACTAGAGTCGTTGT
1 ACTAGAGTCGTTGT
34438946 ACTAGAGTCGTTGT
1 ACTAGAGTCGTTGT
34438960 AC
1 AC
34438962 CGTTTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (14 bp):
ACTAGAGTCGTTGT
Found at i:34440044 original size:2 final size:2
Alignment explanation
Indices: 34440037--34440065 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34440027 GTGGAAGTTG
34440037 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34440066 TTTGAAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:34440712 original size:45 final size:44
Alignment explanation
Indices: 34440649--34440891 Score: 310
Period size: 45 Copynumber: 5.5 Consensus size: 44
34440639 AAAAATGATA
* *
34440649 TCGGGCTTTGGGCCTAGCAGGCTATGATGCCTGTGAAATACTAT
1 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
34440693 TCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
1 TCGGG-CTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
* **
34440738 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATGTTAT
1 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
* * *
34440782 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTTAGATACTAT
1 TCGGG-CTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
* * * *
34440827 TCGGGCTTTCGAGCCTAACAAGCTATAATACCGGTGAAATGA-TA-
1 TCGGGCTTT-GAGCCTAGCAGGCTATGATGCCGGTGAAAT-ACTAT
* *
34440871 TCGGGCCTCGAGCCTAGCAGG
1 TCGGGCTTTGAGCCTAGCAGG
34440892 TGAAATGCCG
Statistics
Matches: 177, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
43 10 0.06
44 57 0.32
45 109 0.62
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (44 bp):
TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTAT
Found at i:34440800 original size:89 final size:89
Alignment explanation
Indices: 34440649--34440905 Score: 344
Period size: 89 Copynumber: 2.9 Consensus size: 89
34440639 AAAAATGATA
* *
34440649 TCGGGCTTTGGGCCTAGCAGGCTATGATGCCTGTGAAAT-ACTATTCGGGCCTTTGAGCCTAGCA
1 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATGA-TATTCGGGCCTTTGAGCCTAGCA
*
34440713 GGCTATGATGCCGGTGAAATACTAT
65 GGCTATAATGCCGGTGAAATACTAT
* *
34440738 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAG
1 TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATGATATTCGGGCCTTTGAGCCTAGCAG
* *
34440803 GCTATAATGCCGGTTAGATACTAT
66 GCTATAATGCCGGTGAAATACTAT
* * * * *
34440827 TCGGGCTTTCGAGCCTAACAAGCTATAATACCGGTGAAATGATA-TCGGGCC-TCGAGCCTAGCA
1 TCGGGCTTT-GAGCCTAGCAGGCTATGATGCCGGTGAAATGATATTCGGGCCTTTGAGCCTAGCA
34440890 GG-TGA-AATGCCGGTGA
65 GGCT-ATAATGCCGGTGA
34440906 TTAGAGAAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
87 11 0.07
88 14 0.09
89 97 0.65
90 28 0.19
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (89 bp):
TCGGGCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATGATATTCGGGCCTTTGAGCCTAGCAG
GCTATAATGCCGGTGAAATACTAT
Found at i:34442664 original size:24 final size:23
Alignment explanation
Indices: 34442598--34442666 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
34442588 CCAAAACATG
34442598 TGTCACATACATCATGAACTCAGA
1 TGTCACATA-ATCATGAACTCAGA
* * *
34442622 -CT-ACA-ACTCAATGAGCTCAGA
1 TGTCACATAATC-ATGAACTCAGA
34442643 TGTCACATATATCATGAACTCAGA
1 TGTCACATA-ATCATGAACTCAGA
34442667 CCACAACTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 4 0.12
23 4 0.12
24 11 0.32
25 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (23 bp):
TGTCACATAATCATGAACTCAGA
Found at i:34447178 original size:13 final size:13
Alignment explanation
Indices: 34447160--34447191 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34447150 AGGACATGGG
34447160 CGTGTGTTGAGGC
1 CGTGTGTTGAGGC
34447173 CGTGTGTTGAGGC
1 CGTGTGTTGAGGC
34447186 CGTGTG
1 CGTGTG
34447192 AAGTCTGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (13 bp):
CGTGTGTTGAGGC
Found at i:34452075 original size:46 final size:47
Alignment explanation
Indices: 34451910--34452083 Score: 202
Period size: 45 Copynumber: 3.8 Consensus size: 47
34451900 TGTAACCCGC
* *
34451910 CCATAAGTGAACTCGGACTCAACT-AACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
34451955 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * *
34452005 --TTCA-CGAACTCGGACTCAAC-CAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
34452047 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34452084 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 1 0.01
44 2 0.02
45 39 0.36
46 34 0.31
47 17 0.16
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:34452075 original size:92 final size:92
Alignment explanation
Indices: 34451918--34452086 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
34451908 GCCCATAAGT
* *
34451918 GAACTCGGACTCAACTAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
34451983 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
34452010 GAACTCGGACTCAACCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34452074 CGAGTTCGGATGC
65 CGAGTTCGGATGC
34452087 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 1 0.01
92 72 0.99
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:34452543 original size:30 final size:30
Alignment explanation
Indices: 34452509--34452568 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34452499 ATTTAATACG
34452509 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
*** * *
34452539 AACTTTTTCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34452569 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34456283 original size:40 final size:39
Alignment explanation
Indices: 34456238--34456445 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 39
34456228 CGGAATACAA
*
34456238 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34456278 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
34456318 CCGAATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
*** *
34456358 CCGGATGA-GGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGAT-ATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
34456398 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34456438 CCGGATAT
1 CCGGATAT
34456446 CATTCAATTG
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 5 0.04
40 130 0.94
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34456386 original size:80 final size:80
Alignment explanation
Indices: 34456242--34456444 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
34456232 ATACAACCGG
* * *
34456242 ATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTT
1 ATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTT
*
34456307 CGGGTATTAGCCCGA
66 CGGGTATTAACCCGA
* **
34456322 ATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGAGGTC-ACTAGCAC-AATGGCC
1 ATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT-GCC
* *
34456385 TTCGGGTCTTAACCCGG
64 TTCGGGTATTAACCCGA
** * ** * *
34456402 ATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 ATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
34456445 TCATTCAATT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 4 0.04
80 97 0.93
81 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
ATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTT
CGGGTATTAACCCGA
Found at i:34462904 original size:46 final size:46
Alignment explanation
Indices: 34462732--34462904 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
34462722 TAACCCGCCC
* * *
34462732 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
34462778 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
34462826 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
34462871 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34462905 GTGAACTCGG
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:34463387 original size:30 final size:30
Alignment explanation
Indices: 34463353--34463412 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34463343 ATTTAATACG
34463353 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
34463383 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34463413 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34467216 original size:20 final size:22
Alignment explanation
Indices: 34467177--34467220 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
34467167 ATAGAATAGC
34467177 AAAATGAACGAAAAATGGGCCA
1 AAAATGAACGAAAAATGGGCCA
*
34467199 AAAATGGAC-AAAAA-GGGCCA
1 AAAATGAACGAAAAATGGGCCA
34467219 AA
1 AA
34467221 GTATGAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.57, C:0.14, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAATGAACGAAAAATGGGCCA
Found at i:34474357 original size:15 final size:17
Alignment explanation
Indices: 34474317--34474359 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
34474307 CACTTGAAAA
34474317 ATTAGATTTTTCTATCTT
1 ATTA-ATTTTTCTATCTT
*
34474335 ATTTATTTTTCT-T-TT
1 ATTAATTTTTCTATCTT
34474350 ATTAATTTTT
1 ATTAATTTTT
34474360 GAAGATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 8 0.35
18 3 0.13
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTAATTTTTCTATCTT
Found at i:34492870 original size:15 final size:15
Alignment explanation
Indices: 34492833--34492863 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34492823 ATCTAACTGT
34492833 TCAAAGCACTGCTGC
1 TCAAAGCACTGCTGC
34492848 TCAAAGCACTGCTGC
1 TCAAAGCACTGCTGC
34492863 T
1 T
34492864 TTAAGCAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (15 bp):
TCAAAGCACTGCTGC
Found at i:34494540 original size:17 final size:18
Alignment explanation
Indices: 34494518--34494551 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34494508 GAAAAAGAAA
*
34494518 TAAGGGA-AAGGGAGGGG
1 TAAGGGAGAAGAGAGGGG
34494535 TAAGGGAGAAGAGAGGG
1 TAAGGGAGAAGAGAGGG
34494552 TCAGGCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.56, T:0.06
Consensus pattern (18 bp):
TAAGGGAGAAGAGAGGGG
Found at i:34497971 original size:46 final size:46
Alignment explanation
Indices: 34497920--34498101 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
34497910 AGTTAAATAT
34497920 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
34497966 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
34498012 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
34498058 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
34498102 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:34498159 original size:47 final size:47
Alignment explanation
Indices: 34498105--34498215 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
34498095 ATGTATGAGA
* * *
34498105 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
34498152 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
34498199 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
34498216 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:34500831 original size:40 final size:40
Alignment explanation
Indices: 34500776--34501039 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
34500766 CTCGACGATG
*
34500776 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
34500816 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
34500856 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
34500896 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
34500936 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
34500976 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
34501016 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
34501040 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:34501785 original size:40 final size:42
Alignment explanation
Indices: 34501699--34501803 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 42
34501689 TTCGAATGGT
* * *
34501699 ATCCGGGCTAAGTCCCGAAGGC--TTTTGTGCAAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTAA
34501739 ATCCGGGCTAATTCCCGAAGGCAATTGTGTG-AA-TCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTA-A
*
34501780 A-CCGGGCT-ATGTCCCGAAGACAAT
1 ATCCGGGCTAAT-TCCCGAAGGCAAT
34501804 CGAGCGAGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 2 0.04
40 45 0.79
41 4 0.07
42 6 0.11
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (42 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTAA
Found at i:34504741 original size:46 final size:46
Alignment explanation
Indices: 34504506--34504731 Score: 411
Period size: 46 Copynumber: 5.0 Consensus size: 46
34504496 AGTTAAATAT
34504506 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
34504552 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
34504598 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
34504644 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
34504690 ATATA--TGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
34504732 AGATGTATAT
Statistics
Matches: 177, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
44 35 0.20
46 142 0.80
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:34504760 original size:138 final size:137
Alignment explanation
Indices: 34504506--34504761 Score: 406
Period size: 138 Copynumber: 1.9 Consensus size: 137
34504496 AGTTAAATAT
*
34504506 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTGATATATGTGTGGTAAAGCC
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATA-GTGTGGTAAAGCC
* * * * *
34504571 AAATGGCTAGTGTGAAATATGTATGTGATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATA
65 AAATGGCTAGTATGAAACATGTATGAGATATATATGTGATAAAGCCAAATGGCTAGTGTGAAATA
34504636 TGTATGTG
130 TGTATGTG
34504644 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATA-TGTGGTAAAGCCA
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATAGTGTGGTAAAGCCA
* *
34504708 AATGGCTAGTATGAAACATGTATGAGATGTATATATGTGATAAGGCCGAATGGC
66 AATGGCTAGTATGAAACATGTATGAGA--TATATATGTGATAAAGCCAAATGGC
34504762 CGATGTGATG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
136 37 0.34
138 71 0.66
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (137 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATAGTGTGGTAAAGCCA
AATGGCTAGTATGAAACATGTATGAGATATATATGTGATAAAGCCAAATGGCTAGTGTGAAATAT
GTATGTG
Found at i:34504795 original size:47 final size:47
Alignment explanation
Indices: 34504735--34504845 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
34504725 ATGTATGAGA
* * * *
34504735 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
34504782 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
34504829 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
34504846 TCCCGAGGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:34514936 original size:3 final size:3
Alignment explanation
Indices: 34514928--34514954 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34514918 TGTTTATGAA
34514928 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
34514955 TAGTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34518477 original size:28 final size:28
Alignment explanation
Indices: 34518437--34518502 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
34518427 GTAGATCACG
*
34518437 AATTACCCCTAAAGAGCAAAATTACTGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
34518465 AATTACCCCTAAAGAGCAAAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
*
34518493 TA-TACCCCTA
1 AATTACCCCTA
34518503 GAGTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (28 bp):
AATTACCCCTAAAGAGCAAAATTACCGA
Found at i:34535691 original size:40 final size:39
Alignment explanation
Indices: 34535526--34535709 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34535516 AAATTGAATG
* * *
34535526 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34535566 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34535606 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34535646 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34535685 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34535710 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34535734 original size:80 final size:81
Alignment explanation
Indices: 34535566--34535754 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
34535556 GCTGGAAATT
* * * *
34535566 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
34535631 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
34535647 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
34535710 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
34535726 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
34535755 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:34543804 original size:40 final size:39
Alignment explanation
Indices: 34543639--34543822 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34543629 AAATTGATTG
* * *
34543639 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34543679 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34543719 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34543759 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34543798 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34543823 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34543805 original size:80 final size:80
Alignment explanation
Indices: 34543683--34543867 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 80
34543673 GAAATTATAA
* * * *
34543683 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
34543748 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
34543763 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
* * * *
34543827 GTGCGGGTTA-CCATAA
65 GTGCGAGTCATTC-TAT
* *
34543843 CCGGGCTATGTCCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
34543868 ATCGAGTTGC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:34547222 original size:20 final size:21
Alignment explanation
Indices: 34547197--34547236 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34547187 CACTTGAAGC
34547197 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
34547217 AGGGCAACACGCCTATGTGG
1 AGGGCAACACGCCCATGTGG
34547237 TCATTCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:34549063 original size:46 final size:45
Alignment explanation
Indices: 34548950--34549123 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
34548940 ACAACAAGCT
* * * *
34548950 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC---TCTATCTCAATGCC
*** * *
34548999 GATGCATGTTGTAGACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-ATCTCAATGCC
* * * * *
34549045 GATGCATGTCCCAGACATGTCTTACATTGGCT-TTTATAATATGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTATCTCA-AT-GCC
* *
34549091 GATGCATGTCCTAGACATGTCTTACACTGGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
34549124 ACATACCACC
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 3 0.03
45 5 0.05
46 66 0.65
48 23 0.23
49 4 0.04
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTATCTCAATGCC
Found at i:34549109 original size:92 final size:93
Alignment explanation
Indices: 34548947--34549123 Score: 241
Period size: 92 Copynumber: 1.9 Consensus size: 93
34548937 GACACAACAA
* **
34548947 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTTGTA
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATAT--AGGCCGATGCATGTCCTA
34549012 GACATGTCTTACACTAGCTCTCGTCTCAAT
64 GACATGTCTTACACTAGCTCTCGTCTCAAT
* * * *
34549042 GCTGATG-CATGTCCCAGACATGTCTTACATTGGCTTTTATA-ATATGGCCGATGCATGTCCTAG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATATA-GGCCGATGCATGTCCTAG
*
34549105 ACATGTCTTACACTGGCTC
65 ACATGTCTTACACTAGCTC
34549124 ACATACCACC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 1 0.01
92 34 0.47
93 1 0.01
94 30 0.41
95 7 0.10
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (93 bp):
GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATATAGGCCGATGCATGTCCTAGA
CATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:34558155 original size:40 final size:40
Alignment explanation
Indices: 34558100--34558316 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
34558090 CGGATGATAA
* *
34558100 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
34558140 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
34558180 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
34558219 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * ***
34558259 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34558299 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34558317 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 51 0.32
40 110 0.68
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34558234 original size:79 final size:79
Alignment explanation
Indices: 34558100--34558316 Score: 280
Period size: 79 Copynumber: 2.7 Consensus size: 79
34558090 CGGATGATAA
*
34558100 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCA-TT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
**
34558163 GTTGCGAGTTACTA-ATT
64 G-TGCGAACTACTATA-T
*
34558180 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
34558245 GCGAACTACTATAT
66 GCGAACTACTATAT
* ** * *
34558259 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGTTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGG
34558317 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 83 0.67
80 40 0.33
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAACTACTATAT
Found at i:34568249 original size:43 final size:41
Alignment explanation
Indices: 34568103--34568258 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 41
34568093 AGCTCATTCA
* *
34568103 ATGCCAACGTCCCAGACGA-AGTTTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGAC-ATAGTCTTACATGTAATC-AA-ATCG
* * ** *
34568146 ATGCCACTATCCCAGACAGGGTCTTACACG-ACATCAAATACG
1 ATGCCAATGTCCCAGACATAGTCTTACATGTA-ATCAAAT-CG
* * *
34568188 ATGACGATGTCCCAGACATGGTCTTACATGTAATCATAAGTCG
1 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCA-AA-TCG
*
34568231 ATGCCAATGTCCCAGACATAGCCTTACA
1 ATGCCAATGTCCCAGACATAGTCTTACA
34568259 CGAAAACACG
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 34 0.37
43 54 0.59
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATAGTCTTACATGTAATCAAATCG
Found at i:34577990 original size:741 final size:741
Alignment explanation
Indices: 34576568--34578064 Score: 2751
Period size: 741 Copynumber: 2.0 Consensus size: 741
34576558 TAGCATTGAA
34576568 GAACTTACTGCTGGTAAACCATACAAATTACTAGATTTAATCTGAATAACCTCATCATTCTGGCT
1 GAACTTACTGCTGGTAAACCATACAAATTACTAGATTTAATCTGAATAACCTCATCATTCTGGCT
34576633 CCGAATATCAATGGTCTTTCCCTTGCAGTTCACAATAGCATCATGTAAAGTCAACCAGTCCATAC
66 CCGAATATCAATGGTCTTTCCCTTGCAGTTCACAATAGCATCATGTAAAGTCAACCAGTCCATAC
* *
34576698 CAAGAATTATGTCGAATTCATCAAATGGAAACAACATTAAATCAACTGGAAAGCACAGATCTCTA
131 CAAGAATTATGTAGAAATCATCAAATGGAAACAACATTAAATCAACTGGAAAGCACAGATCTCTA
*
34576763 ACCATCAAAGGACAATTCTTACACACTTTGTCAACCATAACATACCGGCCCAAGGGGTTTGACAT
196 ACCATCAAAGGACAATTCTTACACACTTTGTCAACCATAACATACCAGCCCAAGGGGTTTGACAT
*
34576828 TCTAATCACAAACTCAGTAGACTCAACAGGTAGAGTGTTGCTAAATACTAATGTCTCACACACAT
261 TCAAATCACAAACTCAGTAGACTCAACAGGTAGAGTGTTGCTAAATACTAATGTCTCACACACAT
*
34576893 AGGAACGAGTAGAACTAGGATCAATCAATGGAATTACATTAGTATCATAAAGAGTGAATCTACCA
326 AGGAACGAGTAGAACCAGGATCAATCAATGGAATTACATTAGTATCATAAAGAGTGAATCTACCA
*
34576958 GTAATAACATCTAGGGATAAAGCCTCCTCTCGCATGCGAATGGCATAGGCTCTAGCAGGTGCACG
391 GTAATAACATCTAGGGATAAAGCCTCCTCTCGCACGCGAATGGCATAGGCTCTAGCAGGTGCACG
* *
34577023 AGCCTCAAATTTGGCTGTTGTATCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTC
456 AGCCTCAAATCTGGCTGTTGTATCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCATATTTC
*
34577088 TTGGTAGTCTACCTCGAGTTGTAGTATTACCCGATCTCGTGTTTTACAATGGATTCTTTTCAGCT
521 TTGGTAGCCTACCTCGAGTTGTAGTATTACCCGATCTCGTGTTTTACAATGGATTCTTTTCAGCT
*
34577153 AACCCTAGGCAATCTTGAATATAGTGATCTATCGATCCACATTTAAAATAGGCTCGATCATGCAA
586 AACCCTAGGCAATCTTGAATATAGTGATCTATCGATACACATTTAAAATAGGCTCGATCATGCAA
34577218 TCTGCAACTACCGAGATGTCATTTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTAC
651 TCTGCAACTACCGAGATGTCATTTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTAC
*
34577283 CCACACTAGCTATTGAGGTAGCTCTC
716 CCACACTAGCTACTGAGGTAGCTCTC
34577309 GAACTTACTGCTGGTAAACCATACAAATTACTAGATTTAATCTGAATAACCTCATCATTCTGGCT
1 GAACTTACTGCTGGTAAACCATACAAATTACTAGATTTAATCTGAATAACCTCATCATTCTGGCT
*
34577374 CCGAATATCAATGGTCTTTCCCTTGCAGTTCACAATAGCATCATGTAAAGTCAACCAGTCTATAC
66 CCGAATATCAATGGTCTTTCCCTTGCAGTTCACAATAGCATCATGTAAAGTCAACCAGTCCATAC
*
34577439 CAAGAATTATGTAGAAATCATCAAATGGAAACAACATTAAATCAACTGGAAGGCACAGATCTCTA
131 CAAGAATTATGTAGAAATCATCAAATGGAAACAACATTAAATCAACTGGAAAGCACAGATCTCTA
34577504 ACCATCAAAGGACAATTCTTACACACTTTGTCAACCATAACATACCAGCCCAAGGGGTTTGACAT
196 ACCATCAAAGGACAATTCTTACACACTTTGTCAACCATAACATACCAGCCCAAGGGGTTTGACAT
* * *
34577569 TCAAATCACAAACTCAGTAGACTCAACAGGTAGAGTGTTGTTGAATACTAATGTCTTACACACAT
261 TCAAATCACAAACTCAGTAGACTCAACAGGTAGAGTGTTGCTAAATACTAATGTCTCACACACAT
* *
34577634 AGGAAGGAGTAGAACCAGGATCAATCAATGGAATTACATTAGTATCATAAAGAGTGAATGTACCA
326 AGGAACGAGTAGAACCAGGATCAATCAATGGAATTACATTAGTATCATAAAGAGTGAATCTACCA
* *
34577699 GTAATAACATCTAGGGATGAAGCCTCCTCTCGCACGCGAATGGCATAGGCTCTGGCAGGTGCACG
391 GTAATAACATCTAGGGATAAAGCCTCCTCTCGCACGCGAATGGCATAGGCTCTAGCAGGTGCACG
* *
34577764 AGCCTTAAATCTGGCTGTTGTATCTTTATTTCCTTTATGACTCCCGCTCGCATTACCTATATTTC
456 AGCCTCAAATCTGGCTGTTGTATCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCATATTTC
*
34577829 TTGGTAGCCTACCTCGAGTTGTAGTATTACCCGATCTCGTGTTTTACAGTGGATTCTTTTCAGCT
521 TTGGTAGCCTACCTCGAGTTGTAGTATTACCCGATCTCGTGTTTTACAATGGATTCTTTTCAGCT
*
34577894 AACCCTAGGCAATCTTGAATATAGTGATCTATCGATACACATTTAAAATATGCTCGATCATGCAA
586 AACCCTAGGCAATCTTGAATATAGTGATCTATCGATACACATTTAAAATAGGCTCGATCATGCAA
*
34577959 TCTGCAACTATCGAGATGTCATTTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTAC
651 TCTGCAACTACCGAGATGTCATTTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTAC
34578024 CCACACTAGCTACTGAGGTAGCTCTC
716 CCACACTAGCTACTGAGGTAGCTCTC
* *
34578050 GAACTCACTGGTGGT
1 GAACTTACTGCTGGT
34578065 CTGCTTTGGT
Statistics
Matches: 729, Mismatches: 27, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
741 729 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (741 bp):
GAACTTACTGCTGGTAAACCATACAAATTACTAGATTTAATCTGAATAACCTCATCATTCTGGCT
CCGAATATCAATGGTCTTTCCCTTGCAGTTCACAATAGCATCATGTAAAGTCAACCAGTCCATAC
CAAGAATTATGTAGAAATCATCAAATGGAAACAACATTAAATCAACTGGAAAGCACAGATCTCTA
ACCATCAAAGGACAATTCTTACACACTTTGTCAACCATAACATACCAGCCCAAGGGGTTTGACAT
TCAAATCACAAACTCAGTAGACTCAACAGGTAGAGTGTTGCTAAATACTAATGTCTCACACACAT
AGGAACGAGTAGAACCAGGATCAATCAATGGAATTACATTAGTATCATAAAGAGTGAATCTACCA
GTAATAACATCTAGGGATAAAGCCTCCTCTCGCACGCGAATGGCATAGGCTCTAGCAGGTGCACG
AGCCTCAAATCTGGCTGTTGTATCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCATATTTC
TTGGTAGCCTACCTCGAGTTGTAGTATTACCCGATCTCGTGTTTTACAATGGATTCTTTTCAGCT
AACCCTAGGCAATCTTGAATATAGTGATCTATCGATACACATTTAAAATAGGCTCGATCATGCAA
TCTGCAACTACCGAGATGTCATTTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTAC
CCACACTAGCTACTGAGGTAGCTCTC
Found at i:34579494 original size:46 final size:46
Alignment explanation
Indices: 34579444--34579619 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
34579434 TGGTTGAGCA
34579444 TCCGAACT-GTTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCG-TTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
34579490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
34579535 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
34579583 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34579620 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 6, Indels: 20
0.81 0.04 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 3 0.03
46 64 0.56
47 30 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:34579600 original size:93 final size:93
Alignment explanation
Indices: 34579441--34579612 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
34579431 GGATGGTTGA
* * *
34579441 GCATCCGAACTGTTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTGTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34579506 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
34579534 GCATCCGAGCTCG-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACT-GTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34579598 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
34579613 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTGTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:34584684 original size:41 final size:41
Alignment explanation
Indices: 34584627--34584711 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
34584617 CTCCAATACA
*
34584627 AAATATGTTAATCTAATACTTATCTTTCATATTTCATCACC
1 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
34584668 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
1 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
34584709 AAA
1 AAA
34584712 CAACAAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (41 bp):
AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
Found at i:34589751 original size:79 final size:81
Alignment explanation
Indices: 34589630--34589821 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 81
34589620 GGATATAACG
* * **
34589630 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATC
* *
34589693 TTAACCCGGGTTTAGTA
65 TTAACCCGGATATAGTA
*
34589710 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
** *
34589773 TAGTCCGGATATAGTC
66 TAACCCGGATATAGTA
*
34589789 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
34589822 CATCATTCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.56
80 40 0.41
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
TAACCCGGATATAGTA
Found at i:34589821 original size:40 final size:40
Alignment explanation
Indices: 34589630--34589821 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
34589620 GGATATAACG
* * ** *
34589630 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34589670 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
34589710 ACTCGCAC-AAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
34589749 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
34589789 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAAAGCCTTCGGGACTTAGCCCGGA
34589822 CATCATTCAA
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.24
40 87 0.68
41 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:34597807 original size:40 final size:40
Alignment explanation
Indices: 34597712--34597904 Score: 214
Period size: 40 Copynumber: 4.8 Consensus size: 40
34597702 GGATATAACG
* **
34597712 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATT-TAGT-A
* *
34597753 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
34597793 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
34597832 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
34597872 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
34597905 CATCATTCAA
Statistics
Matches: 131, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.24
40 55 0.42
41 40 0.31
42 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:34597848 original size:79 final size:82
Alignment explanation
Indices: 34597712--34597904 Score: 227
Period size: 79 Copynumber: 2.4 Consensus size: 82
34597702 GGATATAACG
* * **
34597712 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAAACTCGCACGAATGCCTTCGGGA-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAAACTCGCACGAATGCCTTC-GGAT
* *
34597775 CTTAACCCGGGTTTAGTA
65 CTTAACCCGGATATAGTA
*
34597793 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TA-TTAACTCGCACGAATGCCTTCGGATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAAACTCGCACGAATGCCTTCGGATC
** *
34597855 TTAGTCCGGATATAGTC
66 TTAACCCGGATATAGTA
*
34597872 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
34597905 CATCATTCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 44 0.45
80 29 0.30
81 21 0.22
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAAACTCGCACGAATGCCTTCGGATC
TTAACCCGGATATAGTA
Found at i:34602221 original size:46 final size:46
Alignment explanation
Indices: 34602168--34602343 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
34602158 TATTTGGGCA
34602168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
34602214 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
34602261 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
34602307 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34602344 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:34602323 original size:93 final size:93
Alignment explanation
Indices: 34602164--34602335 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34602154 GGGATATTTG
* *
34602164 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34602229 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
34602257 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34602322 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
34602336 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:34607157 original size:26 final size:26
Alignment explanation
Indices: 34607113--34607162 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
34607103 ACTTATTTTC
34607113 TCAAAATTTAACTAGGGGTAAAATCG
1 TCAAAATTTAACTAGGGGTAAAATCG
*
34607139 TCAAAATTTTAC-AGTGGGTAAAAT
1 TCAAAATTTAACTAG-GGGTAAAAT
34607163 ATAGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (26 bp):
TCAAAATTTAACTAGGGGTAAAATCG
Found at i:34611297 original size:43 final size:43
Alignment explanation
Indices: 34611234--34611400 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
34611224 AACTCATACA
* *
34611234 ATGCC-ATATCCCAGATAGGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATATCG
* * * * *
34611276 ATGCCACTATCCTAGACAGGGTCTTACACG-ATATCATATAACG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTA-ATCACATATCG
* * * * *
34611319 ATGCTAATGTCCCACACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAT-CG
* * * *
34611362 ATTCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACAT
34611401 CTCGGTAATC
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 6 0.06
43 93 0.93
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:34614839 original size:27 final size:27
Alignment explanation
Indices: 34614809--34614885 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
34614799 CAATTTTTTT
*
34614809 AAATGACTGTTATACCCCTATGAGGTA
1 AAATGACTATTATACCCCTATGAGGTA
*
34614836 AAATGACTATTATAACCCTATGAGGTA
1 AAATGACTATTATACCCCTATGAGGTA
*
34614863 AAATGACTAATATACCCCTATGA
1 AAATGACTATTATACCCCTATGA
34614886 TATGTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATGACTATTATACCCCTATGAGGTA
Found at i:34616109 original size:15 final size:15
Alignment explanation
Indices: 34616089--34616119 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34616079 ATTGTACTGA
34616089 AATACTCTGTTTATT
1 AATACTCTGTTTATT
*
34616104 AATACTTTGTTTATT
1 AATACTCTGTTTATT
34616119 A
1 A
34616120 CTGATACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (15 bp):
AATACTCTGTTTATT
Found at i:34619233 original size:17 final size:18
Alignment explanation
Indices: 34619191--34619239 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34619181 AGTTGAAAAG
34619191 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34619210 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34619227 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34619240 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34620125 original size:40 final size:40
Alignment explanation
Indices: 34620059--34620209 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
34620049 AAATTGAATG
* * *
34620059 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
34620098 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34620138 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
34620178 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
34620210 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34620223 original size:40 final size:40
Alignment explanation
Indices: 34620095--34620225 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
34620085 TATGCTGGAA
* * * *
34620095 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
34620135 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
34620175 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
34620215 ATTATATCCGG
1 ATTATATCCGG
34620226 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:34627241 original size:17 final size:18
Alignment explanation
Indices: 34627199--34627247 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34627189 AGTTGAAAAG
34627199 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34627218 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34627235 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34627248 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34628132 original size:40 final size:40
Alignment explanation
Indices: 34628066--34628232 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34628056 AAATTGAATG
* * *
34628066 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
34628105 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
34628145 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34628185 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34628225 ATATCCGG
1 ATATCCGG
34628233 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34631355 original size:40 final size:41
Alignment explanation
Indices: 34631293--34631510 Score: 308
Period size: 40 Copynumber: 5.5 Consensus size: 41
34631283 AACCCAAGTA
* * * *
34631293 CCTTCGGGATTTAG-TCGAATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * * *
34631332 CCTTCAGGTCTTAACCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
34631372 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
34631412 CCTTC-GGACTTA-CCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
34631450 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
34631490 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
34631511 GTCATTCGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
38 29 0.18
39 27 0.17
40 101 0.63
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:34631442 original size:78 final size:79
Alignment explanation
Indices: 34631293--34631510 Score: 325
Period size: 78 Copynumber: 2.8 Consensus size: 79
34631283 AACCCAAGTA
* * * * *
34631293 CCTTCGGGATTTAG-TCGAATATAG-CAACTTGCACAAATGCCTTCAGGTCTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCAGGACTT-ACCCGGATATA
34631356 GTCAATAGCACAAAAG
64 GTCAATAGCACAAAAG
34631372 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTACCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTACCCGGATATAGT
*
34631436 CAATAGCACAAATG
66 CAATAGCACAAAAG
*
34631450 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTA-CCCGGAT
34631511 GTCATTCGAA
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
78 71 0.55
79 25 0.19
80 32 0.25
81 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTACCCGGATATAGT
CAATAGCACAAAAG
Found at i:34635526 original size:12 final size:12
Alignment explanation
Indices: 34635509--34635536 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34635499 CAGCTAATTC
34635509 GGATCATGGGTT
1 GGATCATGGGTT
34635521 GGATCATGGGTT
1 GGATCATGGGTT
34635533 GGAT
1 GGAT
34635537 AATTTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.07, G:0.43, T:0.32
Consensus pattern (12 bp):
GGATCATGGGTT
Found at i:34639936 original size:39 final size:40
Alignment explanation
Indices: 34639882--34640060 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
34639872 AACCCAAGTA
** *
34639882 CCTTCGGGTTTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
34639921 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
34639961 CTTTCGGGA-TTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34640000 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34640040 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
34640061 GTCATTCGAA
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 48 0.38
40 77 0.61
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:34640015 original size:79 final size:79
Alignment explanation
Indices: 34639882--34640060 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 79
34639872 AACCCAAGTA
** * *
34639882 CCTTCGGGTTTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
34639947 CAATAGCACAAAAG
66 CAATAGCACAAAAG
*
34639961 CTTTCGGGA-TTAGCCTGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCC-GGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
34640024 GTCACTAGCACAAATG
64 GTCAATAGCACAAAAG
34640040 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAG-CCGGAT
34640061 GTCATTCGAA
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 6 0.07
79 72 0.81
80 9 0.10
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAG
Found at i:34649642 original size:40 final size:40
Alignment explanation
Indices: 34649514--34649644 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
34649504 TATGCTGGAA
* * * *
34649514 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
34649554 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
34649594 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
34649634 ATTATATCCGG
1 ATTATATCCGG
34649645 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:34653415 original size:80 final size:80
Alignment explanation
Indices: 34653331--34653481 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
34653321 TATGGTAACC
* * * *
34653331 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
34653395 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
34653411 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
34653476 CCGGAT
66 CCGGAT
34653482 TATAATTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:34653421 original size:40 final size:39
Alignment explanation
Indices: 34653372--34653481 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 39
34653362 ATCACGATTT
** *
34653372 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
34653412 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
*
34653452 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
34653482 TATAATTTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 60 0.97
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Done.