Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 170 of 335
Found at i:50477892 original size:20 final size:20
Alignment explanation
Indices: 50477854--50477892 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50477844 CATAGGATTA
* *
50477854 TTCTTTTCTTTTTTTTTCTT
1 TTCTTTTCTTTCTTCTTCTT
50477874 TTCTTTTCTTTCTTCTTCT
1 TTCTTTTCTTTCTTCTTCT
50477893 CTAGCTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTTTTCTTTCTTCTTCTT
Found at i:50478482 original size:40 final size:40
Alignment explanation
Indices: 50478438--50478556 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
50478428 CATGTTGCGT
50478438 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
* * * * * *
50478478 AGACTAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---
1 AGACTAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGG
50478512 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
50478552 AGACT
1 AGACT
50478557 TTATTGGCGA
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
34 11 0.19
35 3 0.05
36 6 0.10
37 14 0.24
38 6 0.10
39 3 0.05
40 16 0.27
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (40 bp):
AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
Found at i:50478516 original size:34 final size:34
Alignment explanation
Indices: 50478408--50478520 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
50478398 TTTGGTAAGG
50478408 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
* * * * * *
50478442 TAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGGAGAC
1 TAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---AGAC
50478482 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
50478516 TAAGA
1 TAAGA
50478521 ATGGTGGTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
34 16 0.27
35 3 0.05
36 6 0.10
37 14 0.24
38 6 0.10
39 3 0.05
40 11 0.19
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.34
Consensus pattern (34 bp):
TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
Found at i:50478529 original size:74 final size:74
Alignment explanation
Indices: 50478408--50478556 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
50478398 TTTGGTAAGG
50478408 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
50478473 GTGGGAGAC
66 GTGGGAGAC
50478482 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
50478547 GTGGGAGAC
66 GTGGGAGAC
50478556 T
1 T
50478557 TTATTGGCGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (74 bp):
TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
GTGGGAGAC
Found at i:50479251 original size:25 final size:25
Alignment explanation
Indices: 50479216--50479285 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
50479206 GAGGAAGTGC
* *
50479216 AAAAGGGCTTTGCCCTAGTTTAGCG
1 AAAAGGGCTTTGCCCCAGTTTAGCA
* *
50479241 GAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAGCA
*
50479266 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
50479286 ATTAAAAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTAGCA
Found at i:50480675 original size:12 final size:12
Alignment explanation
Indices: 50480658--50480683 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50480648 ATTCTACCAC
50480658 TTAACTTTTTAG
1 TTAACTTTTTAG
50480670 TTAACTTTTTAG
1 TTAACTTTTTAG
50480682 TT
1 TT
50480684 CTACACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTAACTTTTTAG
Found at i:50485324 original size:27 final size:27
Alignment explanation
Indices: 50485293--50485385 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
50485283 TGGATAAGTT
*
50485293 GTAGAATTACCAAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCTTGTAAG
* *
50485319 GATAGAATTATCGAAATACCCTTGTAAG
1 G-TAGAATTACCAAAATACCCTTGTAAG
* * *
50485347 GTAGAATTACCGAGATACCCTTGTGAG
1 GTAGAATTACCAAAATACCCTTGTAAG
*
50485374 GTAAAATTACCA
1 GTAGAATTACCA
50485386 TTTTGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCTTGTAAG
Found at i:50486127 original size:2 final size:2
Alignment explanation
Indices: 50486120--50486147 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50486110 GCTTCACCAC
50486120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50486148 CTGTTCTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50494115 original size:31 final size:31
Alignment explanation
Indices: 50494080--50494143 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50494070 CCTTTTCATG
50494080 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
50494111 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
50494142 TT
1 TT
50494144 ACTATAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:50494385 original size:24 final size:24
Alignment explanation
Indices: 50494334--50494522 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
50494324 GCTTTATCAT
*
50494334 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
50494359 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
50494383 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
50494406 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
50494430 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
50494454 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
50494477 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
50494500 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
50494523 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 67 0.44
24 75 0.49
25 12 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:50494408 original size:47 final size:47
Alignment explanation
Indices: 50494355--50494522 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
50494345 CCTAGCCTCT
* *
50494355 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
50494402 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
50494449 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
50494496 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
50494523 GCACTTCCTC
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 22 0.19
47 69 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:50494409 original size:23 final size:23
Alignment explanation
Indices: 50494355--50494521 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
50494345 CCTAGCCTCT
*
50494355 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
50494378 TTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
50494402 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
50494425 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
50494449 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
50494473 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
50494496 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
50494519 TTT
1 TTT
50494522 TGCACTTCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:50494598 original size:20 final size:20
Alignment explanation
Indices: 50494573--50494630 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
50494563 TATGATTACC
50494573 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
50494593 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
50494613 TCATGTGCATCTCATACA
1 TCATGTGCATATCATACA
50494631 CACCATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:50497392 original size:47 final size:47
Alignment explanation
Indices: 50497323--50497496 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 47
50497313 CAGATATTTG
50497323 GGCATCCGAACTCGTTGAGTTGAG-CTCGAGTTCGTGAAATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCT-GAGTTCGTGAAATGTAACTA
* * * * * *
50497370 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACT--TATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTA-ACTA
* * * * *
50497417 -ACGTCCGAACTTGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTA
* *
50497463 GGCAT-CTAAGCTCGTTGAGTTGAGTCCGAGTTCG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCTGAGTTCG
50497497 CTTATGGGCG
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
45 1 0.01
46 37 0.37
47 58 0.59
48 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTA
Found at i:50497486 original size:93 final size:93
Alignment explanation
Indices: 50497327--50497503 Score: 275
Period size: 93 Copynumber: 1.9 Consensus size: 93
50497317 TATTTGGGCA
* *
50497327 TCCGAACTCGTTGAGTTGAGCTCGAGTTCGTGAAATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
*
50497392 AGTCTGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* * *
50497420 TCCGAACTTGTTGAGTTGAG-TCTGAGTTCATGAGATGTAACTAGGCATCTAAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTTGAGCTC-GAGTTCATGAAATGTAACTAGGCATCCAAGCTCGTTGAGTT
*
50497484 GAGTCCGAGTTCGCTTATGG
65 GAGTCCGAGTTCACTTATGG
50497504 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50502985 original size:46 final size:46
Alignment explanation
Indices: 50502934--50503106 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
50502924 TTGGGCATCT
*
50502934 GAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * *
50502980 GAACTCGTTGAGTTGAGAT-CGAGTTC-GTGA--GATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAG-TCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
50503027 GAGCTCATTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
50503073 GAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50503107 GCAGATTACA
Statistics
Matches: 99, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 55 0.56
47 24 0.24
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:50503086 original size:93 final size:93
Alignment explanation
Indices: 50502927--50503099 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
50502917 TGGATATTTG
* *
50502927 GGCATCTGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCTGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50502992 TTGAGAT-CGAGTTCGTGAGATGTAACTA
66 TTGAG-TCCGAGTTCGTGAGATGTAACTA
* * * * *
50503020 GGCATCTGAGCTCATTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCTGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50503085 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
50503100 CTTATGGGCA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCTGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50509564 original size:49 final size:50
Alignment explanation
Indices: 50509477--50509712 Score: 262
Period size: 49 Copynumber: 4.8 Consensus size: 50
50509467 GAGGTTAGGG
* ** *
50509477 GTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
* * * * * *
50509526 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACAT
* ** ** **
50509577 GTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTCATGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
*
50509627 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
* *
50509676 GTGTAGTACTAAGTGC-GGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
50509713 GTTTTGGCTA
Statistics
Matches: 156, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 19 0.12
49 55 0.35
50 46 0.29
51 36 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
Found at i:50509659 original size:101 final size:97
Alignment explanation
Indices: 50509477--50509699 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 97
50509467 GAGGTTAGGG
* * *
50509477 GTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTG-AGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAGTGC
* * *
50509542 AGGCTACTATGCGTACCCGATAACTTCGATCACGT
65 AGGCTACTACGCGTACCAGATAA-TT-GATCACAT
* ** **
50509577 GTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTCATGTGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTG-AGGCTACTACGTGTACTAGATAATT-GGTCACATGTGTAGTACTAAGTG
* * *
50509642 CAGGCTACTACGTGTACCAGATAATTGGTCGCAT
64 CAGGCTACTACGCGTACCAGATAATTGATCACAT
*
50509676 GTGTAGTACTAAGTGCGGCTACTA
1 GTGTAGTACTAAGTGAGGCTACTA
50509700 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
98 8 0.08
99 20 0.19
100 37 0.35
101 41 0.39
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (97 bp):
GTGTAGTACTAAGTGAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAGTGCA
GGCTACTACGCGTACCAGATAATTGATCACAT
Found at i:50516163 original size:46 final size:45
Alignment explanation
Indices: 50516110--50516280 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 45
50516100 ATTGTGAACT
50516110 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTA-GAGAGCC
* *
50516156 AGTGTAAGACCATGTCT-GAGACATGGCAT---CAACATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAG-GACAT-GCATCGGCCACATT-AGA-GA--GCC
* * * *
50516204 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCA--AGACGTAAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGA-G--AGCC
50516250 AGTGTAAGACATGTCTAGGACATGCATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
50516281 TACGAGATGT
Statistics
Matches: 104, Mismatches: 8, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
45 8 0.08
46 52 0.50
47 24 0.23
48 17 0.16
49 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTAGAGAGCC
Found at i:50524126 original size:20 final size:20
Alignment explanation
Indices: 50524111--50524203 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
50524101 TTGTGCAATA
50524111 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
* ** *
50524131 ATAAACACCGAAGTG-TAAC
1 AGAGGCACCGAAGTGCAAAC
* *
50524150 AGAGGCACTGAAGTGAAAAC
1 AGAGGCACCGAAGTGCAAAC
50524170 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
* *
50524190 AAAGGGACCGAAGT
1 AGAGGCACCGAAGT
50524204 TCAATCCTGT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
19 14 0.24
20 45 0.76
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:50524156 original size:39 final size:40
Alignment explanation
Indices: 50524103--50524203 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 40
50524093 AGGTAGGATT
* *
50524103 GTGCAATA-AGAGGCACCGAAGTGCAAACATAAACACCGAA
1 GTGCAA-ACAGAGGCACCGAAGTGAAAACAGAAACACCGAA
* * **
50524143 GTG-TAACAGAGGCACTGAAGTGAAAACAGAGGCACCGAA
1 GTGCAAACAGAGGCACCGAAGTGAAAACAGAAACACCGAA
* *
50524182 GTGCAAACAAAGGGACCGAAGT
1 GTGCAAACAGAGGCACCGAAGT
50524204 TCAATCCTGT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
38 1 0.02
39 31 0.63
40 17 0.35
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.10
Consensus pattern (40 bp):
GTGCAAACAGAGGCACCGAAGTGAAAACAGAAACACCGAA
Found at i:50529721 original size:12 final size:12
Alignment explanation
Indices: 50529706--50529730 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50529696 TACTTTTTCT
50529706 ACTTTTTTTTTG
1 ACTTTTTTTTTG
50529718 ACTTTTTTTTTG
1 ACTTTTTTTTTG
50529730 A
1 A
50529731 ATATTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (12 bp):
ACTTTTTTTTTG
Found at i:50536522 original size:24 final size:24
Alignment explanation
Indices: 50536471--50536531 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
50536461 AATATCCAAT
* * *
50536471 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
50536495 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
50536519 GCACTACGTGTGC
1 GCACTATGTGTGC
50536532 AAATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:50545076 original size:27 final size:27
Alignment explanation
Indices: 50545046--50545148 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 27
50545036 CAGCGATGAT
* *
50545046 AATATAATCGGCACACAGCCATGGGTA
1 AATATGATCGGCACACAGCCATCGGTA
* * * *
50545073 AATATGATCGACACAGAGTCATCGATA
1 AATATGATCGGCACACAGCCATCGGTA
* * * *
50545100 AATATGATAGGCATATAGCCATTGGTA
1 AATATGATCGGCACACAGCCATCGGTA
* ** *
50545127 AATAAGATTTGCACAAAGCCAT
1 AATATGATCGGCACACAGCCAT
50545149 AATCAACATA
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
AATATGATCGGCACACAGCCATCGGTA
Found at i:50545541 original size:27 final size:27
Alignment explanation
Indices: 50545503--50545701 Score: 165
Period size: 27 Copynumber: 7.4 Consensus size: 27
50545493 CAAAACAGTC
**
50545503 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACAATACAGGGGTATTTCGATA
* *
50545530 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACAATACAGGGGTATTTCGATA
* * * *
50545557 ACTTTACAA-ACTGGGGGTATATCGGTA
1 ATTTTACAATAC-AGGGGTATTTCGATA
* ** *
50545584 ATTTTTCAAT-TTGAGGGTATTTCGGTA
1 ATTTTACAATACAG-GGGTATTTCGATA
**
50545611 ATTTTACAA-ACTAGGGGTATTTTAATA
1 ATTTTACAATAC-AGGGGTATTTCGATA
*
50545638 ATTTTACAATTC-GAGGGTATTTCGATA
1 ATTTTACAATACAG-GGGTATTTCGATA
* * *
50545665 ATTTTACAATTCAAGGGTATTTCGGTA
1 ATTTTACAATACAGGGGTATTTCGATA
50545692 ATTTTA-AATA
1 ATTTTACAATA
50545702 GTTTGGCCTA
Statistics
Matches: 139, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.05
27 130 0.94
28 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACAATACAGGGGTATTTCGATA
Found at i:50545563 original size:54 final size:54
Alignment explanation
Indices: 50545515--50545697 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 54
50545505 TTTACCCTAC
* * * *
50545515 AGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAACTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
* * * * * *
50545569 GGGGGTATATCGGTAATTTTTCAATTTGAGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
** *
50545623 AGGGGTATTTTAATAATTTTACAATTCGAGGGTATTTCGATAATTTTAC-AATT
1 AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
* *
50545676 CAAGGGTATTTCGGTAATTTTA
1 -AGGGGTATTTCGATAATTTTA
50545698 AATAGTTTGG
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
53 3 0.03
54 102 0.97
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCGATAATTTTACAAACT
Found at i:50545644 original size:81 final size:81
Alignment explanation
Indices: 50545517--50545697 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
50545507 TACCCTACAG
* * * *
50545517 GGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAACTTTACAAACT-GGGGGTATATCG
1 GGGTATTTCGGTAATTTTACACAACAAGGGTATTTCAATAACTTTAC-AACTCGAGGGTATATCG
* * **
50545581 GTAATTTTTCAATTTGA
65 ATAATTTTACAATTCAA
* * * * *
50545598 GGGTATTTCGGTAATTTTACA-AACTAGGGGTATTTTAATAATTTTACAATTCGAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACACAAC-AAGGGTATTTCAATAACTTTACAACTCGAGGGTATATCG
50545662 ATAATTTTACAATTCAA
65 ATAATTTTACAATTCAA
50545679 GGGTATTTCGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
50545698 AATAGTTTGG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.06
81 80 0.94
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACACAACAAGGGTATTTCAATAACTTTACAACTCGAGGGTATATCGA
TAATTTTACAATTCAA
Found at i:50547066 original size:24 final size:24
Alignment explanation
Indices: 50547038--50547104 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
50547028 CTCCTTAAAT
*
50547038 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCTTGATA
* * *
50547062 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCTTGATA
*
50547086 CACTCCATAAATCACTCCT
1 CTCTCCATAAATCACTCCT
50547105 ACCTCTCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.27, C:0.34, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCTTGATA
Found at i:50548990 original size:38 final size:38
Alignment explanation
Indices: 50548932--50549005 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
50548922 ATCACTTCAT
* *
50548932 TTTGCTTAAGGGTTCTTGTTAAAACACAAGCAAATTAC
1 TTTGCTTAAGGGCTCGTGTTAAAACACAAGCAAATTAC
50548970 TTTGCTTAAGGGCTCGTGTTAAAACACAAGCAAATT
1 TTTGCTTAAGGGCTCGTGTTAAAACACAAGCAAATT
50549006 TGAAGGGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (38 bp):
TTTGCTTAAGGGCTCGTGTTAAAACACAAGCAAATTAC
Found at i:50554628 original size:15 final size:15
Alignment explanation
Indices: 50554608--50554641 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50554598 ATTTACTTTC
*
50554608 AATAAATTGGTTATT
1 AATAAATTGGTGATT
50554623 AATAAATTGGTGATT
1 AATAAATTGGTGATT
50554638 AATA
1 AATA
50554642 TATAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
AATAAATTGGTGATT
Found at i:50557188 original size:18 final size:18
Alignment explanation
Indices: 50557160--50557202 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50557150 AATCATCATT
*
50557160 AAAAAGTTATTTACTTTC
1 AAAACGTTATTTACTTTC
* *
50557178 AGAACGTTATTTATTTTC
1 AAAACGTTATTTACTTTC
50557196 AAAACGT
1 AAAACGT
50557203 CACTTATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (18 bp):
AAAACGTTATTTACTTTC
Found at i:50559971 original size:15 final size:15
Alignment explanation
Indices: 50559951--50559984 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50559941 ATTTACCTTC
*
50559951 AATAAATTGGTTATT
1 AATAAATTGGTGATT
50559966 AATAAATTGGTGATT
1 AATAAATTGGTGATT
50559981 AATA
1 AATA
50559985 TATAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
AATAAATTGGTGATT
Found at i:50573724 original size:40 final size:40
Alignment explanation
Indices: 50573548--50573713 Score: 239
Period size: 40 Copynumber: 4.2 Consensus size: 40
50573538 AACCCAAGTA
* *
50573548 CCTTCGGGATTTAG-CCGGATATAGCAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
50573587 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
50573627 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * *
50573667 CCTTC-GGATCTTAGTCCGAATGTAGTC-ACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAG-CAACTCGCACAAATG
50573707 CCTTCGG
1 CCTTCGG
50573714 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
39 16 0.14
40 99 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:50576006 original size:29 final size:29
Alignment explanation
Indices: 50575972--50576103 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
50575962 TACTCGATTT
** * *
50575972 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
50576001 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50576030 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50576059 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50576088 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50576104 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50579165 original size:38 final size:38
Alignment explanation
Indices: 50579122--50579337 Score: 171
Period size: 38 Copynumber: 5.2 Consensus size: 38
50579112 TTTCAAATTA
*
50579122 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
50579160 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
50579201 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * * *
50579245 ACATGTTTAACTGTGGTATATCCATTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
50579283 AACGAATCAATATATGTAACCGTGGCATATCCACTCAGCACCACGTT
1 -----A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
50579330 ACATGTAT
1 ACATGTAT
50579338 CAATATGTGT
Statistics
Matches: 140, Mismatches: 20, Indels: 36
0.71 0.10 0.18
Matches are distributed among these distances:
38 61 0.44
39 1 0.01
40 7 0.05
41 3 0.02
42 2 0.01
43 2 0.01
44 3 0.02
45 6 0.04
46 1 0.01
47 54 0.39
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:50579221 original size:47 final size:47
Alignment explanation
Indices: 50579167--50579377 Score: 251
Period size: 47 Copynumber: 4.7 Consensus size: 47
50579157 GTTACATGTT
50579167 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
50579214 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
50579252 TAACTGTGGTATATCCATTTAGCACCATGTTAACGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
50579299 TAACCGTGGCATATCCACTCAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
50579347 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
50579378 TTTTTCATTC
Statistics
Matches: 135, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 25 0.19
39 2 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 55 0.41
48 40 0.30
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:50579226 original size:85 final size:85
Alignment explanation
Indices: 50579129--50579335 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
50579119 TTAACATGTA
*
50579129 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
50579194 CGTTAATGAATCAATATATG
66 CGTTAACGAATCAATATATG
* *
50579214 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCATTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
50579279 TGTTAACGAATCAATATATG
66 CGTTAACGAATCAATATATG
*
50579299 TAACCGTGGCATATCCACTCAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
50579336 ATCAATATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAACGAATCAATATATG
Found at i:50579355 original size:48 final size:47
Alignment explanation
Indices: 50579252--50579377 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 47
50579242 GTTACATGTT
* * *
50579252 TAACTGTGGTATATCCATTTAGCACCATGTTAACGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAACGAATCAATATATG
* * * * *
50579299 TAACCGTGGCATATCCACTCAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ACGAATCAATATATG
*
50579347 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
50579378 TTTTTCATTC
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 27 0.40
48 40 0.60
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAACGAATCAATATATG
Found at i:50588657 original size:25 final size:24
Alignment explanation
Indices: 50588633--50588742 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 24
50588623 GTACATGTAT
* *
50588633 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATACGAGCTA-AAATCGGTAA
* *
50588658 GCTC-TCACGAGCTGGAAATTGGTAA
1 GCTCAT-ACGAGCT-AAAATCGGTAA
*
50588683 GCTCATACGAGCTGAAAATCAGTAA
1 GCTCATACGAGCT-AAAATCGGTAA
*
50588708 GCTC-TCACAAGCTAAAATCGGTAA
1 GCTCAT-ACGAGCTAAAATCGGTAA
50588732 GCTCATACGAG
1 GCTCATACGAG
50588743 TTGTGGTGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
24 20 0.29
25 49 0.70
26 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTAAAATCGGTAA
Found at i:50588712 original size:50 final size:49
Alignment explanation
Indices: 50588633--50588742 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 49
50588623 GTACATGTAT
* * * * * *
50588633 GCTCATACGAGCTATGAATCGGTATGCTCTCACGAGCTGGAAATTGGTAA
1 GCTCATACGAGCTATAAATCAGTAAGCTCTCACAAGCT-AAAATCGGTAA
50588683 GCTCATACGAGCTGA-AAATCAGTAAGCTCTCACAAGCTAAAATCGGTAA
1 GCTCATACGAGCT-ATAAATCAGTAAGCTCTCACAAGCTAAAATCGGTAA
50588732 GCTCATACGAG
1 GCTCATACGAG
50588743 TTGTGGTGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 20 0.38
50 32 0.60
51 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (49 bp):
GCTCATACGAGCTATAAATCAGTAAGCTCTCACAAGCTAAAATCGGTAA
Found at i:50602346 original size:40 final size:40
Alignment explanation
Indices: 50602261--50602411 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
50602251 AATTGAATGA
* * *
50602261 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
50602301 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
50602342 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
50602381 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
50602412 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:50602425 original size:40 final size:40
Alignment explanation
Indices: 50602298--50602427 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
50602288 ATGCTGGAAA
* * * *
50602298 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
50602338 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
50602378 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
50602418 TTATATCCGG
1 TTATATCCGG
50602428 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:50607153 original size:28 final size:27
Alignment explanation
Indices: 50607098--50607186 Score: 117
Period size: 28 Copynumber: 3.3 Consensus size: 27
50607088 AGCATGGCTG
* *
50607098 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
50607124 CCAGATACAGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
50607152 CCAGAATTAGATATTTGTGGCAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
50607180 CCAGAAC
1 CCAGAAC
50607187 GTTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.09
27 8 0.15
28 41 0.76
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:50610752 original size:56 final size:56
Alignment explanation
Indices: 50610690--50610801 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
50610680 GCTTATGTGA
50610690 TTGATTCAAAAGTGTCAGAAAAGAAAGTTGAATCTGTACCTGTTATATGTGAGTTT
1 TTGATTCAAAAGTGTCAGAAAAGAAAGTTGAATCTGTACCTGTTATATGTGAGTTT
50610746 TTGATTCAAAAGTGTCAGAAAAGAAAGTTGAATCTGTACCTGTTATATGTGAGTTT
1 TTGATTCAAAAGTGTCAGAAAAGAAAGTTGAATCTGTACCTGTTATATGTGAGTTT
50610802 CCTGATATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (56 bp):
TTGATTCAAAAGTGTCAGAAAAGAAAGTTGAATCTGTACCTGTTATATGTGAGTTT
Found at i:50614187 original size:40 final size:40
Alignment explanation
Indices: 50614143--50614330 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
50614133 GCTACTTGCT
50614143 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
50614183 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* **
50614223 CAAATACCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
50614263 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
50614302 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
50614331 CATCTGAATA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 98 0.74
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:50614319 original size:119 final size:119
Alignment explanation
Indices: 50614108--50614330 Score: 308
Period size: 119 Copynumber: 1.9 Consensus size: 119
50614098 CCAAACCAAG
* * * * * *
50614108 TACCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 TACCTTCGGAACTTAGCCGAATATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATA
*
50614173 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAA
66 GTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAA
*
50614227 TACCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATGCCTTCAGG-CTTAGCCCGGA-A
1 TACCTTCGGAACTTAG-CCGAATATAGCT-ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATA
* *
50614289 TTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
64 -TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
50614331 CATCTGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 63 0.69
120 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
TACCTTCGGAACTTAGCCGAATATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATA
GTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAA
Found at i:50634044 original size:19 final size:20
Alignment explanation
Indices: 50634020--50634057 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50634010 AAGAAAAGAT
*
50634020 ATCAAGT-TTTCTGTAGGTG
1 ATCAAGTGTTTCTGAAGGTG
50634039 ATCAAGTGTTTCTGAAGGT
1 ATCAAGTGTTTCTGAAGGT
50634058 ATCTCCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (20 bp):
ATCAAGTGTTTCTGAAGGTG
Found at i:50647090 original size:17 final size:17
Alignment explanation
Indices: 50647066--50647130 Score: 112
Period size: 17 Copynumber: 3.8 Consensus size: 17
50647056 CTGGGCCGTA
50647066 TGGGCCCAATGGGCTTG
1 TGGGCCCAATGGGCTTG
*
50647083 TAGGCCCAATGGGCTTG
1 TGGGCCCAATGGGCTTG
50647100 TGGGCCCAATGGGCTTG
1 TGGGCCCAATGGGCTTG
50647117 TGGGCCCATATGGG
1 TGGGCCCA-ATGGG
50647131 AAAATCACAC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 40 0.89
18 5 0.11
ACGTcount: A:0.14, C:0.23, G:0.40, T:0.23
Consensus pattern (17 bp):
TGGGCCCAATGGGCTTG
Found at i:50659935 original size:40 final size:40
Alignment explanation
Indices: 50659856--50660013 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
50659846 TTCGAATGAT
* * * *
50659856 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
50659896 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
50659936 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
50659976 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
50660014 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:50660034 original size:80 final size:80
Alignment explanation
Indices: 50659856--50660043 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
50659846 TTCGAATGAT
* *
50659856 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
50659921 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
50659936 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
50659997 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
50660017 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
50660044 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:50668001 original size:40 final size:40
Alignment explanation
Indices: 50667922--50668079 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
50667912 TTCGAATGAT
* * * *
50667922 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
50667962 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
50668002 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
50668042 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
50668080 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:50668100 original size:80 final size:80
Alignment explanation
Indices: 50667922--50668109 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
50667912 TTCGAATGAT
* *
50667922 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
50667987 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
50668002 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
50668063 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
50668083 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
50668110 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:50669852 original size:12 final size:12
Alignment explanation
Indices: 50669821--50669845 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50669811 ATGACACACA
50669821 GCCGTGTGGTAG
1 GCCGTGTGGTAG
50669833 GCCGTGTGGTAG
1 GCCGTGTGGTAG
50669845 G
1 G
50669846 TTGTGTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.52, T:0.24
Consensus pattern (12 bp):
GCCGTGTGGTAG
Found at i:50674793 original size:131 final size:130
Alignment explanation
Indices: 50674555--50674814 Score: 412
Period size: 131 Copynumber: 2.0 Consensus size: 130
50674545 TAATTATTCA
* * *
50674555 TTTAAAAATTATTTAAAACAAAGGTAATGCTCGATGTTTGGCAATTTGGGAATTGTGCCCTATCG
1 TTTAAAAATTATTCAAAACAAAGGTAATGCTAGATGTTTGGCAATTTGGGAATCGTGCCCTATCG
* *
50674620 TGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTC
66 TGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTC
* * *
50674685 TTTAAAAATTCTTCAAAACGAAGGTAATGTTAGATGTTTGGCAATTTGGGGAATCGTGCCCTATC
1 TTTAAAAATTATTCAAAACAAAGGTAATGCTAGATGTTTGGCAATTT-GGGAATCGTGCCCTATC
* * *
50674750 GTGCTAGGTTGCGATTTCCTGTTTGTTCAAAATAATCGGATATTCCTTTAGAATTTCACTCATGT
65 GTGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT
50674815 TCTCTAAATT
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
130 42 0.36
131 76 0.64
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (130 bp):
TTTAAAAATTATTCAAAACAAAGGTAATGCTAGATGTTTGGCAATTTGGGAATCGTGCCCTATCG
TGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTC
Found at i:50674910 original size:127 final size:130
Alignment explanation
Indices: 50674559--50674912 Score: 335
Period size: 131 Copynumber: 2.7 Consensus size: 130
50674549 TATTCATTTA
* * * * * * * *
50674559 AAAATTATTTAAAACAAAGGTAATGCTC-GATGTTTGGCAATTTG-GGAATTGTGCCCTATCGTG
1 AAAATTCTTCAAAACGAAGGCAATG-TCAGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTG
* * ** * * *
50674622 CTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
65 CTAGGTTGCGATTTCCTGTTTGGACAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTC
50674687 T
130 T
* * * * * *
50674688 AAAAATTCTTCAAAACGAAGGTAATGTTAGATGTTTGGCAATTTGGGGAATCGTGCCCTATCGTG
1 -AAAATTCTTCAAAACGAAGGCAATGTCAGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTG
** *
50674753 CTAGGTTGCGATTTCCTGTTTGTTCAAAATAATCGGATATTCCTTTAGAATTTCACTCATGTTCT
65 CTAGGTTGCGATTTCCTGTTTGGACAAAATAATCGAATATTCCTTTAGAATTTCACTCATG-TCT
50674818 CT
129 CT
* *
50674820 -AAATTC-T-AAAA-TAAGGCAATGTCCGATGTTTAGAAATTCGAGGAATCGTGCCCTA-CTGTG
1 AAAATTCTTCAAAACGAAGGCAATGTCAGATGTTTAGAAATTCGAGGAATCGTGCCCTATC-GTG
* * ** * *
50674880 CTGGGTTTCGATTTTTTTTTTGGACTAAATAAT
65 CTAGGTTGCGATTTCCTGTTTGGACAAAATAAT
50674913 TGTGCATCCT
Statistics
Matches: 193, Mismatches: 27, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
126 1 0.01
127 64 0.33
128 4 0.02
129 2 0.01
130 44 0.23
131 74 0.38
132 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (130 bp):
AAAATTCTTCAAAACGAAGGCAATGTCAGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGC
TAGGTTGCGATTTCCTGTTTGGACAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTCT
Found at i:50681180 original size:16 final size:16
Alignment explanation
Indices: 50681155--50681197 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
50681145 GTAGATCGAC
50681155 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
50681171 AAAAGTCGAAATGCTG
1 AAAAGCCGAAATGCCG
*
50681187 AAAAGCTGAAA
1 AAAAGCCGAAA
50681198 GCTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:50681489 original size:28 final size:29
Alignment explanation
Indices: 50681406--50681501 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
50681396 GAAAGCATGT
*
50681406 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
50681435 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
50681464 ATATGAATGAGA-TTGGGCCTAGTGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
50681492 ATATGCATGT
1 ATATGAATGT
50681502 ATGTAGACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 22 0.36
29 39 0.64
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:50682232 original size:26 final size:26
Alignment explanation
Indices: 50682203--50682260 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
50682193 TGATACAAAT
50682203 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50682229 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50682255 TGATAA
1 TGATAA
50682261 GAATTAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:50684282 original size:136 final size:137
Alignment explanation
Indices: 50684037--50684322 Score: 547
Period size: 136 Copynumber: 2.1 Consensus size: 137
50684027 GAGTAGTCTC
50684037 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50684102 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50684167 ACTGTTA
131 ACTGTTA
50684174 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50684238 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50684303 ACTGTTA
131 ACTGTTA
**
50684310 CCTGAATGGGCTT
1 CCCAAATGGGCTT
50684323 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 127 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:50688030 original size:26 final size:26
Alignment explanation
Indices: 50688001--50688058 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
50687991 TGATACAAAT
50688001 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50688027 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50688053 TGATAA
1 TGATAA
50688059 GAATTAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:50690074 original size:137 final size:137
Alignment explanation
Indices: 50689828--50690114 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
50689818 GAGTAGTCTC
50689828 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50689893 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50689958 ACTGTTA
131 ACTGTTA
50689965 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50690030 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50690095 ACTGTTA
131 ACTGTTA
**
50690102 CCTGAATGGGCTT
1 CCCAAATGGGCTT
50690115 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:50693818 original size:26 final size:26
Alignment explanation
Indices: 50693789--50693846 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
50693779 TGATACAAAT
50693789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50693815 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
50693841 TGATAA
1 TGATAA
50693847 GAATTAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:50695860 original size:137 final size:137
Alignment explanation
Indices: 50695614--50695900 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
50695604 GAGTAGTCTC
50695614 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50695679 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50695744 ACTGTTA
131 ACTGTTA
50695751 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50695816 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
50695881 ACTGTTA
131 ACTGTTA
**
50695888 CCTGAATGGGCTT
1 CCCAAATGGGCTT
50695901 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:50703733 original size:19 final size:20
Alignment explanation
Indices: 50703709--50703746 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50703699 TGGACCACCA
50703709 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50703728 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50703747 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50704135 original size:93 final size:93
Alignment explanation
Indices: 50703976--50704145 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
50703966 CCCCTAACTA
*
50703976 AACTCAGACTCAACTCAACGAGCTCTGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCTGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
50704041 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * * * *
50704069 AACTCGGACTCAACTTAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGCTCTGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
50704133 CGAGTTCGGATGC
65 CGAGTTCGGATGC
50704146 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCTGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:50704140 original size:46 final size:45
Alignment explanation
Indices: 50703976--50704142 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
50703966 CCCCTAACTA
* * * *
50703976 AACTCAGACTCAACTCAACGAGCTCTGG-CGTTCGCATCCATAAATG
1 AACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCAT-AATG
* * * *
50704022 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCACG
1 AACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAATG
*
50704069 AACTCGGACTCAACTTAACGAGTTCGGACATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA-TG
50704115 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
50704143 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 51 0.52
47 29 0.29
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAATG
Found at i:50704161 original size:46 final size:45
Alignment explanation
Indices: 50704020--50704161 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
50704010 CATCCATAAA
50704020 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
50704067 CGAACTCGGACTCAACTTAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
50704113 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
50704159 TGA
1 TGA
50704162 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:50711309 original size:19 final size:20
Alignment explanation
Indices: 50711285--50711322 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50711275 GGTACCACCA
50711285 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50711304 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50711323 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50711708 original size:93 final size:92
Alignment explanation
Indices: 50711550--50711719 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
50711540 CGCCCTAAGT
*
50711550 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
50711615 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
50711642 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
50711707 CGAGTTCGGATGC
65 CGAGTTCGGATGC
50711720 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50711709 original size:46 final size:46
Alignment explanation
Indices: 50711545--50711716 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 46
50711535 TAACCCGCCC
* * *
50711545 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
50711590 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
50711638 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
50711683 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50711717 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 33 0.31
46 29 0.27
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:50712172 original size:30 final size:30
Alignment explanation
Indices: 50712138--50712197 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50712128 ATTTAATATG
50712138 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
50712168 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
50712198 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:50713314 original size:39 final size:39
Alignment explanation
Indices: 50713260--50713338 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
50713250 CTTAACATTA
50713260 ATTCAAGCTATATTGGGCATATAATTTATTTCATACTTT
1 ATTCAAGCTATATTGGGCATATAATTTATTTCATACTTT
50713299 ATTCAAGCTATATTGGGCATATAATTTATTTCATACTTT
1 ATTCAAGCTATATTGGGCATATAATTTATTTCATACTTT
50713338 A
1 A
50713339 AACATTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (39 bp):
ATTCAAGCTATATTGGGCATATAATTTATTTCATACTTT
Found at i:50717711 original size:46 final size:46
Alignment explanation
Indices: 50717661--50717833 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
50717651 TGGTTGAGCA
*
50717661 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
50717707 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * * *
50717754 TCCGAACTTGTTGAGTTCAGTCCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
50717800 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50717834 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50717817 original size:93 final size:93
Alignment explanation
Indices: 50717658--50717828 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
50717648 GGATGGTTGA
* ***
50717658 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
50717723 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
50717751 GCATCCGAACTTGTTGAGTTCAGTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
*
50717816 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
50717829 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50719898 original size:17 final size:18
Alignment explanation
Indices: 50719853--50719888 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50719843 ATTCATGCAC
*
50719853 ACGAATTAAATGAACATG
1 ACGAATTAAATAAACATG
50719871 ACGAATTAAATAAACATG
1 ACGAATTAAATAAACATG
50719889 CAACTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (18 bp):
ACGAATTAAATAAACATG
Found at i:50719929 original size:40 final size:40
Alignment explanation
Indices: 50719884--50719966 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
50719874 AATTAAATAA
*
50719884 ACATGCAACTTAAATCACCTTATTTAAAATGTAAACAAAC
1 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
50719924 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
1 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
50719964 ACA
1 ACA
50719967 CTTTAATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (40 bp):
ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
Found at i:50720203 original size:50 final size:52
Alignment explanation
Indices: 50720092--50720212 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 52
50720082 ATGAACAAAT
* * * * *
50720092 GAGTTACTTAATGCATGACTTAATTTAATGTTGCACACTTTAAATAACAAGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAAATAACAAGA
* *
50720144 GAGTTACATAATGCAT-ATCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGA-CATAATTTAATGATGCAAACTTTAAATAACAAGA
*
50720194 GAGTTACATAATTCATGAC
1 GAGTTACATAATGCATGAC
50720213 TACATTAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
50 26 0.44
51 11 0.19
52 22 0.37
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAAATAACAAGA
Found at i:50731084 original size:6 final size:6
Alignment explanation
Indices: 50731070--50731102 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
50731060 AAACAACATG
*
50731070 AAAAGA AAAATA AAAATA AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
50731103 ATTAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:50731104 original size:12 final size:12
Alignment explanation
Indices: 50731070--50731102 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
50731060 AAACAACATG
*
50731070 AAAAGAAAAATA
1 AAAATAAAAATA
50731082 AAAATAAAAAT-
1 AAAATAAAAATA
50731093 AAAATAAAAA
1 AAAATAAAAA
50731103 ATTAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:50735469 original size:48 final size:48
Alignment explanation
Indices: 50735273--50735499 Score: 196
Period size: 48 Copynumber: 4.8 Consensus size: 48
50735263 GTTATGTGCG
* **
50735273 ATCCCATGTAAAACCATGTCTGGGACATGGTTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
** * * * * *
50735321 ATTTCGTGTAAGACCATAG-CTGGG-C-T---ATCGGAATTGATATGTG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTA
* * * * ***
50735364 ATCCCATGTAAGACCATGTCTGCGTCATGGCATTGGCATTGATCTACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
*
50735412 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* * * * *
50735460 ATCCTATGTAAGGCCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
50735500 CTGCCATGTG
Statistics
Matches: 140, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 104 0.74
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
Found at i:50740748 original size:81 final size:81
Alignment explanation
Indices: 50740626--50740861 Score: 287
Period size: 81 Copynumber: 2.9 Consensus size: 81
50740616 TACTGAAATG
* ****
50740626 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGGT
1 CCCTCGATTTGTAAAATTACCGTTTTAC-CCTCGATTTACAGAATTACCGTTTTACCCTCGA-GT
* * *
50740689 TATAGAATTACCGTTTTA
64 TACAAAATTACCATTTTA
*
50740707 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
50740772 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * * * * *
50740788 CCCTCGATTTATAGAATTACTGTTTCACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
50740853 CAAAATTAC
66 CAAAATTAC
50740862 TAAAATACCC
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 134 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
CAAAATTACCATTTTA
Found at i:50740862 original size:27 final size:27
Alignment explanation
Indices: 50740657--50740861 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
50740647 AAAGTACTCC
50740657 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50740684 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
50740711 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
50740738 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50740765 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
50740792 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
50740819 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50740846 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
50740862 TAAAATACCC
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:50740871 original size:81 final size:81
Alignment explanation
Indices: 50740657--50740890 Score: 254
Period size: 81 Copynumber: 2.9 Consensus size: 81
50740647 AAAGTACTCC
* * * **** *
50740657 CGATTTACAGAATTACCGTTTTACCCTC-AGGTTATAGAATTACCGTTTTACCCTCGATTTGTAA
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCAAAATACCCTCGATTTATAA
*
50740721 AATTACCGTTTTACCCT
65 AATTACCGTTTCACCCT
*** *
50740738 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
*
50740803 ATTACTGTTTCACCCT
66 ATTACCGTTTCACCCT
* * * * * * * *
50740819 TGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTGAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
50740884 ATTACCG
66 ATTACCG
50740891 CAATACCCTC
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 130 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
ATTACCGTTTCACCCT
Found at i:50742192 original size:9 final size:9
Alignment explanation
Indices: 50742180--50742236 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
50742170 TTTGATAAAC
50742180 ATGATATGT
1 ATGATATGT
*
50742189 ATGATATGCAC
1 ATGATATG--T
*
50742200 ATGACATGT
1 ATGATATGT
*
50742209 ATGATATGCAC
1 ATGATATG--T
50742220 ATGATATGT
1 ATGATATGT
50742229 ATGATATG
1 ATGATATG
50742237 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:50742203 original size:20 final size:20
Alignment explanation
Indices: 50742178--50742240 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
50742168 ATTTTGATAA
50742178 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
50742198 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50742218 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50742238 ACA
1 ACA
50742241 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50742338 original size:23 final size:24
Alignment explanation
Indices: 50742295--50742458 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 24
50742285 GAGGAAGTGA
50742295 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
50742317 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
50742341 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
50742365 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
50742388 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
50742412 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
50742435 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50742459 ATGATAAAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
22 12 0.10
23 46 0.37
24 60 0.48
25 8 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:50742393 original size:47 final size:46
Alignment explanation
Indices: 50742296--50742459 Score: 208
Period size: 47 Copynumber: 3.5 Consensus size: 46
50742286 AGGAAGTGAA
* *
50742296 AAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
50742342 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
50742389 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
50742435 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
50742460 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
46 22 0.21
47 52 0.49
48 32 0.30
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:50742410 original size:71 final size:70
Alignment explanation
Indices: 50742295--50742458 Score: 242
Period size: 71 Copynumber: 2.3 Consensus size: 70
50742285 GAGGAAGTGA
* *
50742295 AAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATG-CCCA
50742359 GTTATC
65 GTTATC
*
50742365 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCAG
*
50742430 TTATT
66 TTATC
*
50742435 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
50742459 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 31 0.36
71 55 0.64
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCAG
TTATC
Found at i:50742687 original size:31 final size:31
Alignment explanation
Indices: 50742652--50742715 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50742642 CGTTTACCGT
*
50742652 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
50742683 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
50742714 AA
1 AA
50742716 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:50745643 original size:81 final size:81
Alignment explanation
Indices: 50745521--50745756 Score: 296
Period size: 81 Copynumber: 2.9 Consensus size: 81
50745511 TACTGAAATG
* ****
50745521 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGGT
1 CCCTCGATTTGTAAAATTACCGTTTTAC-CCTCGATTTACAGAATTACCGTTTTACCCTCGA-GT
* *
50745584 TATAGAATTACCGTTTTA
64 TACAGAATTACCATTTTA
*
50745602 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
50745667 CAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* * * * * * *
50745683 CCCTCGATTTATAGAATTACTGTTTCACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
*
50745748 CAAAATTAC
66 CAGAATTAC
50745757 TAAAATACCC
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 135 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAGTTA
CAGAATTACCATTTTA
Found at i:50745757 original size:27 final size:27
Alignment explanation
Indices: 50745552--50745756 Score: 286
Period size: 27 Copynumber: 7.6 Consensus size: 27
50745542 AAAGTACTCC
50745552 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50745579 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
50745606 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
50745633 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50745660 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
50745687 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
50745714 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
50745741 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
50745757 TAAAATACCC
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 156 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:50745766 original size:81 final size:81
Alignment explanation
Indices: 50745552--50745785 Score: 254
Period size: 81 Copynumber: 2.9 Consensus size: 81
50745542 AAAGTACTCC
* * * **** *
50745552 CGATTTACAGAATTACCGTTTTACCCTC-AGGTTATAGAATTACCGTTTTACCCTCGATTTGTAA
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCAAAATACCCTCGATTTATAA
*
50745616 AATTACCGTTTTACCCT
65 AATTACCGTTTCACCCT
* *** *
50745633 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
*
50745698 ATTACTGTTTCACCCT
66 ATTACCGTTTCACCCT
* * * * * * *
50745714 TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTGAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
50745779 ATTACCG
66 ATTACCG
50745786 CAATACCCTT
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 131 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAA
ATTACCGTTTCACCCT
Found at i:50745780 original size:27 final size:27
Alignment explanation
Indices: 50745749--50745820 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
50745739 CTCGATTTAC
* **
50745749 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* **
50745776 GAAATTACCGCAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
50745803 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
50745821 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:50746333 original size:29 final size:29
Alignment explanation
Indices: 50746300--50746357 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
50746290 GAGGAGTGTG
50746300 TGAAAAGCTTGGATCATCAGAGTGACTAA
1 TGAAAAGCTTGGATCATCAGAGTGACTAA
*
50746329 TGAAAAGCTTGGATCATCGGAGTGACTAA
1 TGAAAAGCTTGGATCATCAGAGTGACTAA
50746358 ATCTAGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (29 bp):
TGAAAAGCTTGGATCATCAGAGTGACTAA
Found at i:50747116 original size:9 final size:9
Alignment explanation
Indices: 50747104--50747160 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
50747094 TTTGATAAAC
50747104 ATGATATGT
1 ATGATATGT
*
50747113 ATGATATGCAC
1 ATGATATG--T
*
50747124 ATGACATGT
1 ATGATATGT
*
50747133 ATGATATGCAC
1 ATGATATG--T
50747144 ATGATATGT
1 ATGATATGT
50747153 ATGATATG
1 ATGATATG
50747161 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:50747127 original size:20 final size:20
Alignment explanation
Indices: 50747102--50747164 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
50747092 ATTTTGATAA
50747102 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
50747122 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50747142 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50747162 ACA
1 ACA
50747165 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50747275 original size:24 final size:24
Alignment explanation
Indices: 50747219--50747408 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
50747209 GAGGAAGTGA
50747219 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
50747242 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
50747266 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
50747290 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
50747314 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
50747337 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
50747361 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
50747385 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50747409 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:50747288 original size:47 final size:47
Alignment explanation
Indices: 50747219--50747387 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
50747209 GAGGAAGTGA
50747219 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
50747266 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
50747314 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
50747361 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
50747388 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:50747342 original size:71 final size:71
Alignment explanation
Indices: 50747218--50747408 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
50747208 GGAGGAAGTG
* *
50747218 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
50747283 AGTTAT
66 AGTTAT
* *
50747289 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
50747353 CAGTTAT
65 CAGTTAT
* *
50747360 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
50747409 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:50747636 original size:31 final size:31
Alignment explanation
Indices: 50747601--50747664 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50747591 CGTTTACCGT
*
50747601 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
50747632 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
50747663 AA
1 AA
50747665 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:50756634 original size:28 final size:29
Alignment explanation
Indices: 50756538--50756668 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
50756528 TACTCGATTT
** * *
50756538 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
50756567 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50756596 CGCACACTTAGTGCCATATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50756624 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50756653 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50756669 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50764509 original size:28 final size:29
Alignment explanation
Indices: 50764413--50764543 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
50764403 TACTCGATTT
** * *
50764413 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
50764442 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50764471 CGCACACTTAGTGCCATATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50764499 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50764528 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50764544 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50770819 original size:40 final size:40
Alignment explanation
Indices: 50770762--50770876 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
50770752 CGGATATGGC
* * *
50770762 AACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAAT
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAT
* * **
50770802 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGT
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAT
* *
50770842 AACTCGCACAATTGCCTTCGGTA-ATTAACCCGGAT
1 AACTCGCACAAATGCCTTCGGGACA-TAACCCGGAT
50770877 ACCCTTCGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAT
Found at i:50776546 original size:40 final size:40
Alignment explanation
Indices: 50776461--50776571 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
50776451 GGATATGGCG
* * * *
50776461 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATAATA
* **
50776501 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTATAATA
* *
50776541 ACTCGCACAATTGCCTTCGGGAATTAACCCG
1 ACTCGCACAAATGCCTTCGGGACTTAACCCG
50776572 AATACCATTC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATAATA
Found at i:50779233 original size:46 final size:45
Alignment explanation
Indices: 50779183--50779304 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
50779173 CTCGTAATCT
* * *
50779183 ATGCATGTCCCAAAAATGTCTTACACTG-ACTTACGTCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGCACTT--GTCTCAAGGCCG
* * *
50779229 ATGCATGTCCCAGACATGTTTTACAATAGCACTTGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACT-GCACTTGTCTCAAGGCCG
50779275 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTG
50779305 GCTCTCATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 36 0.56
47 16 0.25
48 12 0.19
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGCACTTGTCTCAAGGCCG
Found at i:50804312 original size:17 final size:18
Alignment explanation
Indices: 50804276--50804315 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
50804266 TCGTGTGGTG
* *
50804276 TGCCTGTGTGGGCTCACA
1 TGCCCGTGTGGGCCCACA
50804294 TGCCCGTGT-GGCCCACA
1 TGCCCGTGTGGGCCCACA
50804311 TGCCC
1 TGCCC
50804316 AATTTGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (18 bp):
TGCCCGTGTGGGCCCACA
Found at i:50805758 original size:40 final size:40
Alignment explanation
Indices: 50805721--50805906 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
50805711 GCTACTCGTT
*
50805721 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
50805761 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
50805801 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
50805841 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
50805882 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
50805907 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:50805900 original size:80 final size:80
Alignment explanation
Indices: 50805721--50805904 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 80
50805711 GCTACTCGTT
* *
50805721 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
* *
50805786 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
50805801 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTAACTCGCAC-GAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCGCACAG-ATGCCTTCGGGA-CTTAAC
*
50805862 CCGGATATAGTCACTTAGCA
62 CCGGATATAGTAAC-TAGCA
50805882 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
50805905 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 7 0.08
80 69 0.78
81 13 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:50827353 original size:48 final size:47
Alignment explanation
Indices: 50827277--50827541 Score: 188
Period size: 44 Copynumber: 5.8 Consensus size: 47
50827267 CATATCGATA
* *
50827277 CCGATGCCATATCCCAGATATGGTCTTACACTGGTTCTCACACATCTGTG
1 CCGATG-CATATCCCAGACAT-GTCTTACACTGG-TCTCACACATCTGAG
*
50827327 CCGATGCATGTCCCAGACATGTCTT--AC---TCT-AGCACA--T-AG
1 CCGATGCATATCCCAGACATGTCTTACACTGGTCTCA-CACATCTGAG
* *
50827366 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGTG
1 CCGATGCATATCCCAGACATGTCTTACACTGG-TCTCACACATCTGAG
* * *
50827414 CCGATACATATCCTAGACATGTCTTACACTAG---CACATC-TCAT-AG
1 CCGATGCATATCCCAGACATGTCTTACACTGGTCTCACA-CATC-TGAG
* * * *
50827458 CCGATGCATGTCCCCGACATGTCTTACACTGG-CT--TATATCTCGAGG
1 CCGATGCATATCCCAGACATGTCTTACACTGGTCTCACACATCT-GA-G
* * *
50827504 CTGATGCATGTCCCAGACATGTCTGACACTGG-CTCACA
1 CCGATGCATATCCCAGACATGTCTTACACTGGTCTCACA
50827542 TAACAGTAGT
Statistics
Matches: 172, Mismatches: 22, Indels: 44
0.72 0.09 0.18
Matches are distributed among these distances:
39 25 0.15
40 1 0.01
41 3 0.02
42 7 0.04
43 1 0.01
44 37 0.22
45 9 0.05
46 35 0.20
48 36 0.21
49 12 0.07
50 6 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCATATCCCAGACATGTCTTACACTGGTCTCACACATCTGAG
Found at i:50827407 original size:87 final size:89
Alignment explanation
Indices: 50827277--50827491 Score: 290
Period size: 87 Copynumber: 2.4 Consensus size: 89
50827267 CATATCGATA
* * * * *
50827277 CCGATGCCATATCCCAGATATGGTCTTACACTGGTTCTCACACATCTGTGCCGATGCATGTCCCA
1 CCGATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCACACATCCGTGCCGATACATATCCCA
*
50827342 GACATGTCTTACTCTAG-CA-CATAG
64 GACATGTCTTACACTAGACATCATAG
*
50827366 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGTGCCGATACATATCCTAGA
1 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGTGCCGATACATATCCCAGA
50827431 CATGTCTTACACTAGCACATCTCATAG
66 CATGTCTTACACTAG-ACA--TCATAG
* *
50827458 CCGATGCATGTCCCCGACATGTCTTACACTGGCT
1 CCGATGCATATCCCAGACATGTCTTACACTGGCT
50827492 TATATCTCGA
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
87 54 0.48
88 13 0.12
89 8 0.07
92 37 0.33
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (89 bp):
CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGTGCCGATACATATCCCAGA
CATGTCTTACACTAGACATCATAG
Found at i:50827542 original size:92 final size:92
Alignment explanation
Indices: 50827277--50827533 Score: 262
Period size: 87 Copynumber: 2.8 Consensus size: 92
50827267 CATATCGATA
* * * * * *
50827277 CCGATGCCATATCCCAGATATGGTCTTACACTGGTTCTCACACATCTGTGCCGATGCATGTCCCA
1 CCGATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCACACATCCGGGCCGATACATATCCCA
* *
50827342 GACATGTCTTACTCTAG--CA---CATAG
64 GACATGTCTGACACTAGCACATCTCATAG
* *
50827366 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGTGCCGATACATATCCTAGA
1 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGGGCCGATACATATCCCAGA
*
50827431 CATGTCTTACACTAGCACATCTCATAG
66 CATGTCTGACACTAGCACATCTCATAG
* * * * * *
50827458 CCGATGCATGTCCCCGACATGTCTTACACTGGCT-T---ATATCTCGAGGCTGATGCATGTCCCA
1 CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATC-CG-GGCCGATACATATCCCA
50827519 GACATGTCTGACACT
64 GACATGTCTGACACT
50827534 GGCTCACATA
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
87 54 0.37
88 17 0.12
89 10 0.07
90 26 0.18
91 1 0.01
92 37 0.26
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
CCGATGCATATCCCAGACATGTCTTACACTGGCTCTCACACATCCGGGCCGATACATATCCCAGA
CATGTCTGACACTAGCACATCTCATAG
Found at i:50832065 original size:57 final size:57
Alignment explanation
Indices: 50831964--50832072 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
50831954 TGGTATCCAT
* **
50831964 CACTGGTACATAGTACCTGAAACTATAATCACCAGCACAGAGTGCTTGGAACTATAA
1 CACTGGTACAAAGTACCTGAAACTATAATCACCAAAACAGAGTGCTTGGAACTATAA
** * *
50832021 CACTGGTACAAAGTATTTGAAACTGTAATCACCGAAAAC-TAGTGCTTGGAAC
1 CACTGGTACAAAGTACCTGAAACTATAATCACC-AAAACAGAGTGCTTGGAAC
50832073 GCCCTAATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 41 0.93
58 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (57 bp):
CACTGGTACAAAGTACCTGAAACTATAATCACCAAAACAGAGTGCTTGGAACTATAA
Found at i:50840175 original size:3 final size:3
Alignment explanation
Indices: 50840167--50840212 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
50840157 AGATATTTAG
*
50840167 TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50840213 CAATTAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50840407 original size:5 final size:5
Alignment explanation
Indices: 50840343--50840418 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
50840333 TTTAGTAAAT
* * *
50840343 AAAAG -AAAG AAAA- ACAAG AAAAAG AAACAG AGAAG AAACG AAATAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAA-AG
50840389 -AAAG AATGAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AA--AAG AAAAG AAAAG AAAAG AAAA
50840419 AGGAGAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.16
5 34 0.60
6 9 0.16
7 5 0.09
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:50840414 original size:22 final size:21
Alignment explanation
Indices: 50840343--50840416 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 21
50840333 TTTAGTAAAT
*
50840343 AAAAGAAAGAAAAACAAGAAAAAG
1 AAAAG-AAGAAGAA-AAG-AAAAG
*
50840367 AAACAG-AGAAGAAACGAAATAG
1 AAA-AGAAGAAGAAAAGAAA-AG
50840389 -AAAGAATGAAGAAAAGAAAAG
1 AAAAGAA-GAAGAAAAGAAAAG
50840410 AAAAGAA
1 AAAAGAA
50840417 AAAGGAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.05
21 8 0.19
22 21 0.50
23 6 0.14
24 3 0.07
25 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAGAAGAAGAAAAGAAAAG
Found at i:50842320 original size:13 final size:13
Alignment explanation
Indices: 50842302--50842383 Score: 56
Period size: 13 Copynumber: 5.7 Consensus size: 13
50842292 GTCAGATCTG
50842302 CCCACGGGCTGGC
1 CCCACGGGCTGGC
*
50842315 CCCACGGTCGTGGGAGC
1 CCCACGGGC-T--G-GC
50842332 CCCACGGGCTGGC
1 CCCACGGGCTGGC
*
50842345 CCCACGGTCATGGGAGC
1 CCCACGGGC-T--G-GC
*
50842362 CCCACGGGCAGGC
1 CCCACGGGCTGGC
*
50842375 CACACGGGC
1 CCCACGGGC
50842384 ATGTCCCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 28 0.51
14 4 0.07
16 3 0.05
17 20 0.36
ACGTcount: A:0.13, C:0.41, G:0.38, T:0.07
Consensus pattern (13 bp):
CCCACGGGCTGGC
Found at i:50842335 original size:17 final size:16
Alignment explanation
Indices: 50842313--50842368 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
50842303 CCACGGGCTG
50842313 GCCCCACGGTCGTGGGA
1 GCCCCACGGTC-TGGGA
*
50842330 GCCCCACGGGCT--G-
1 GCCCCACGGTCTGGGA
50842343 GCCCCACGGTCATGGGA
1 GCCCCACGGTC-TGGGA
50842360 GCCCCACGG
1 GCCCCACGG
50842369 GCAGGCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 10 0.30
14 2 0.06
16 2 0.06
17 19 0.58
ACGTcount: A:0.12, C:0.41, G:0.38, T:0.09
Consensus pattern (16 bp):
GCCCCACGGTCTGGGA
Found at i:50842336 original size:30 final size:30
Alignment explanation
Indices: 50842302--50842386 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
50842292 GTCAGATCTG
*
50842302 CCCACGGGCTGGCCCCACGGTCGTGGGAGC
1 CCCACGGGCTGGCCCCACGGTCATGGGAGC
50842332 CCCACGGGCTGGCCCCACGGTCATGGGAGC
1 CCCACGGGCTGGCCCCACGGTCATGGGAGC
* * *
50842362 CCCACGGGCAGGCCACACGGGCATG
1 CCCACGGGCTGGCCCCACGGTCATG
50842387 TCCCAAGCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.14, C:0.40, G:0.38, T:0.08
Consensus pattern (30 bp):
CCCACGGGCTGGCCCCACGGTCATGGGAGC
Found at i:50848351 original size:3 final size:3
Alignment explanation
Indices: 50848343--50848383 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
50848333 TAACTATAGC
50848343 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50848384 CAATTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.