Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 94 of 320
Found at i:30065952 original size:43 final size:41
Alignment explanation
Indices: 30065891--30066339 Score: 178
Period size: 43 Copynumber: 10.2 Consensus size: 41
30065881 AGCCCCAAGC
*
30065891 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTC-CTGAGGTAGCAAG-GAGCAGATTGAAGATTGAGT
* *
30065934 CTTATCTTCCTGAGGTAGCAAGGAACCAGACTGAAGATTGAAGAT
1 CTTATC-TCCTGAGGTAGCAAGG-AGCAGATTGAAGATTG-AG-T
* * * *
30065979 CTTATCTCCCTAAACAGTAG--AGGAGCAGATTAAAGATGGCGAGT
1 CTTATCT-CCT-GA-GGTAGCAAGGAGCAGATTGAAGAT--TGAGT
** * * **** *
30066023 CTTATCTCCATGTA--TCAAAAATGGAGCAAATTTAAGCCCCAAGC
1 CTTATCTCC-TG-AGGT-AGCAA-GGAGCAGATTGAAG-ATTGAGT
*
30066067 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTC-CTGAGGTAGCAAG-GAGCAGATTGAAGATTGAGT
*
30066110 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATC-TCCTGAGGTAGCAAGG-AGCAGATTGAAGATTG-AG-T
* * ** * * * **
30066155 CTTGTCTCCCTAAACAATAG--TGGAGCAGATCGAAGATGGCGAAC
1 CTTATCT-CCT-GA-GGTAGCAAGGAGCAGATTGAAGAT--TGAGT
* **** *
30066199 CTTATCTCCATGTA--TCGACAATGGAGCAGATT-AAGCCCCAAGC
1 CTTATCTCC-TG-AGGTAG-CAA-GGAGCAGATTGAAG-ATTGAGT
*
30066242 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTC-CTGAGGTAGCAAG-GAGCAGATTGAAGATTGAGT
*
30066285 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATC-TCCTGAGGTAGCAAGG-AGCAGATTGAAGATTG-AG-T
30066330 CTTATCTCCT
1 CTTATCTCCT
30066340 CAAATAGTAT
Statistics
Matches: 304, Mismatches: 57, Indels: 89
0.68 0.13 0.20
Matches are distributed among these distances:
41 3 0.01
42 6 0.02
43 132 0.43
44 95 0.31
45 57 0.19
46 4 0.01
47 7 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTATCTCCTGAGGTAGCAAGGAGCAGATTGAAGATTGAGT
Found at i:30066425 original size:351 final size:352
Alignment explanation
Indices: 30065623--30066671 Score: 1563
Period size: 351 Copynumber: 3.0 Consensus size: 352
30065613 TGATGAAGTT
* *
30065623 AGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCG
1 AGATCTTATCTCCCTAAACAGTAGAGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCG
* *
30065688 GCAATGGAGCAAATTTAAGTCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAGAT
66 GCAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
*
30065753 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
131 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
* * * * *
30065818 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCTATGTATCGGCAATGAAGTAGATTTAAG
196 AATAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAG
30065883 CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
261 CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
*
30065948 GTAGCAAGGAACCAGACTGAAGATTGA
326 GTAGCAAGGAAGCAGACTGAAGATTGA
** * *
30065975 AGATCTTATCTCCCTAAACAGTAGAGGAGCAGATTAAAGATGGCGAGTCTTATCTCCATGTATCA
1 AGATCTTATCTCCCTAAACAGTAGAGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCG
**
30066040 AAAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
66 GCAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
30066105 TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCCCTAAAC
131 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
*
30066170 AATAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATGTATCGACAATGGAGCAGA-TTAAG
196 AATAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAG
30066234 CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
261 CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
30066299 GTAGCAAGGAAGCAGACTGAAGATTGA
326 GTAGCAAGGAAGCAGACTGAAGATTGA
* * * * *
30066326 AGATCTTATCT-CCTCAAATAGTATAGAAGCAGATCGAAGATAGCGAATCTTATTTCCATGTATC
1 AGATCTTATCTCCCT-AAACAGTAGAGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC
* * ** * *
30066390 GGCAATGGTGCAGATTTAAGCCCCAAGTTTTATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGA
65 GGCAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * *
30066455 TTGAGTCTTATCTTTCC-GAGGTAGCAAGAAAGTAGACTGAAAATTGAAGATTTTATCTCCC-AA
130 TTGAGTCTTATC-TTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAA
* *
30066518 AGCAATAGTGGAGCAGATCAAAAGA-GGCG-ACTCTTATCTCCATGTATTGGCAATGGAGCAGAT
194 A-CAATAGTGGAGCAGATC-GAAGATGGCGAAC-CTTATCTCCATGTATCGGCAATGGAGCAGAT
* * * * * * * * *
30066581 TTTAGCCGCTAGTCTTATCTTTTTGAGGAAGCAAGAGAGCAGATTGGCA-ATTGTAGTCTTATCT
256 TTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT-GAAGATTG-AGTCTTATCT
* *
30066645 TCCTGAGTTAGCAAAGAAGCAGACTGA
319 TCCTGAGGTAGCAAGGAAGCAGACTGA
30066672 TTGTAGATCT
Statistics
Matches: 633, Mismatches: 56, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
350 8 0.01
351 304 0.48
352 284 0.45
353 37 0.06
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (352 bp):
AGATCTTATCTCCCTAAACAGTAGAGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCG
GCAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
TGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
AATAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAG
CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
GTAGCAAGGAAGCAGACTGAAGATTGA
Found at i:30066617 original size:527 final size:529
Alignment explanation
Indices: 30065623--30066671 Score: 1556
Period size: 527 Copynumber: 2.0 Consensus size: 529
30065613 TGATGAAGTT
* *
30065623 AGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCG
1 AGATCTTATCTCCCTAAACAATAGCGGAGCAGATCGAAGATGGCAAACCTTATCTCCATGTATCG
* *
30065688 GCAATGGAGCAAATTTAAGTCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAGAT
66 ACAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAGAT
30065753 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
131 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
* * * *
30065818 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCTATGTATCGGCAATGAAGTAGATTTAAG
196 AGTAGTGAAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTAAG
* *
30065883 CCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
261 CCCCAAGCCTTATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
* * * *
30065948 GTAGCAAGGAACCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGAGGAGCAGATTAAA
326 GTAGCAAGAAACCAGACTGAAAATTGAAGATCTTATCTCCCTAAACAATAGAGGAGCAGATAAAA
*
30066013 GATGGCGAGTCTTATCTCCATGTATCAAAAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCT
391 GATGGCGACTCTTATCTCCATGTATCAAAAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCT
* * *
30066078 GAGGTAGCAAGAGAGCAGGTT-GAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
456 GAGGAAGCAAGAGAGCAGATTGGAA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGAC
30066141 TGAAGATTGA
520 TGAAGATTGA
* * *
30066151 AGATCTTGTCTCCCTAAACAATAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATGTATCG
1 AGATCTTATCTCCCTAAACAATAGCGGAGCAGATCGAAGATGGCAAACCTTATCTCCATGTATCG
* *
30066216 ACAATGGAGCAGA-TTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
66 ACAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAGAT
* *
30066280 TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCT-CCTCAAA
131 TGAGTCTTATCTTCCTGAGGTAGCAAGAAAACAGACTGAAGATTGAAGATCTTATCTCCCT-AAA
* * **
30066344 TAGTA-TAGAAGCAGATCGAAGATAGCGAATCTTATTTCCATGTATCGGCAATGGTGCAGATTTA
195 CAGTAGT-GAAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTA
**
30066408 AGCCCCAAGTTTTATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCC-
259 AGCCCCAAGCCTTATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGATTGAGTCTTATC-TTCCT
** * *
30066472 GAGGTAGCAAGAAAGTAGACTGAAAATTGAAGATTTTATCTCCC-AAAGCAATAGTGGAGCAGAT
323 GAGGTAGCAAGAAACCAGACTGAAAATTGAAGATCTTATCTCCCTAAA-CAATAGAGGAGCAGAT
**** * * * * *
30066536 CAAAAGA-GGCGACTCTTATCTCCATGTATTGGCAATGGAGCAGATTTTAGCCGCTAGTCTTATC
387 -AAAAGATGGCGACTCTTATCTCCATGTATCAAAAATGGAGCAAATTTAAGCCCCAAGCCTTATC
* * * *
30066600 TTTTTGAGGAAGCAAGAGAGCAGATTGGCAATTGTAGTCTTATCTTCCTGAGTTAGCAAAGAAGC
451 TCTCTGAGGAAGCAAGAGAGCAGATTGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAAGAAGC
30066665 AGACTGA
516 AGACTGA
30066672 TTGTAGATCT
Statistics
Matches: 466, Mismatches: 48, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
526 7 0.02
527 342 0.73
528 117 0.25
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (529 bp):
AGATCTTATCTCCCTAAACAATAGCGGAGCAGATCGAAGATGGCAAACCTTATCTCCATGTATCG
ACAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAGAT
TGAGTCTTATCTTCCTGAGGTAGCAAGAAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
AGTAGTGAAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTAAG
CCCCAAGCCTTATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAG
GTAGCAAGAAACCAGACTGAAAATTGAAGATCTTATCTCCCTAAACAATAGAGGAGCAGATAAAA
GATGGCGACTCTTATCTCCATGTATCAAAAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTCT
GAGGAAGCAAGAGAGCAGATTGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACT
GAAGATTGA
Found at i:30066929 original size:6 final size:7
Alignment explanation
Indices: 30066911--30066937 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30066901 TATAATAAAT
30066911 CAAAAAC
1 CAAAAAC
30066918 CAAAAAC
1 CAAAAAC
30066925 CAAAAAC
1 CAAAAAC
30066932 CAAAAA
1 CAAAAA
30066938 ATATGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:30069133 original size:46 final size:46
Alignment explanation
Indices: 30069066--30069237 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
30069056 TGTAACCCGC
*
30069066 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* * *
30069112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* * *
30069162 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
*
30069205 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
30069238 TGGATGCTCA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
Found at i:30069185 original size:93 final size:93
Alignment explanation
Indices: 30069073--30069244 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
30069063 CGCCCATAAG
*
30069073 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
30069137 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
30069166 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30069231 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
30069245 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30069260 original size:46 final size:45
Alignment explanation
Indices: 30069074--30069260 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
30069064 GCCCATAAGC
* * * * * *
30069074 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCTAGT
*
30069120 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * *
30069167 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGT-ATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-TCAACCATCTAGT
*
30069213 GAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
30069259 GA
1 GA
30069261 CATGTCACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
43 2 0.02
44 11 0.10
45 3 0.03
46 60 0.54
47 31 0.28
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:30071712 original size:24 final size:22
Alignment explanation
Indices: 30071669--30071712 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
30071659 CATATTATTC
**
30071669 TATGTAAATATTTTTTTTTATG
1 TATGTAAATATTTTCCTTTATG
30071691 TATGTATATATATTTTCCTTTA
1 TATGTA-A-ATATTTTCCTTTA
30071713 AAATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 1 0.06
24 11 0.61
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (22 bp):
TATGTAAATATTTTCCTTTATG
Found at i:30078924 original size:26 final size:26
Alignment explanation
Indices: 30078895--30079002 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
30078885 TAAAATGCCC
*
30078895 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
30078921 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30078947 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30078973 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30078999 ATCA
1 ATCA
30079003 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30081430 original size:17 final size:17
Alignment explanation
Indices: 30081408--30081443 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30081398 CTTAATAGAA
30081408 ACCTTTTATTTTTTCAT
1 ACCTTTTATTTTTTCAT
30081425 ACCTTTTATTTTTTCAT
1 ACCTTTTATTTTTTCAT
30081442 AC
1 AC
30081444 TTGCCCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (17 bp):
ACCTTTTATTTTTTCAT
Found at i:30082197 original size:20 final size:20
Alignment explanation
Indices: 30082172--30082210 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30082162 AGGGACTAAA
* *
30082172 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
30082192 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
30082211 TAAGAATACA
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:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30083780 original size:4 final size:4
Alignment explanation
Indices: 30083771--30083798 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30083761 TATTTTTATT
30083771 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
30083799 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:30098805 original size:166 final size:165
Alignment explanation
Indices: 30098528--30098856 Score: 507
Period size: 166 Copynumber: 2.0 Consensus size: 165
30098518 ATATCAAACC
*
30098528 AAGAATTAAGCACATATAATTGAGAACAAAATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATTGAGAACAAAATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
* ** *
30098593 AAAAAAATTCATTATAGGGTTCATCTCCCTAGGTATTTGGAAAATTAGTTTATGCTTAAAAAAAT
66 AAAAAAATTCATCATAGGGTTCATCTCCCTAGGTATTTAAAAAATTAGTTCATGCTTAAAAAAA-
*
30098658 AAAAACATACAATATA-AAGTATAATCGAATGAAAAA
130 AAAAACATACAATATACAA-TATAATCGAAAGAAAAA
* * *
30098694 AAGAATTAAGCACACATAATTGAGAAGAAGATCTAAGTATTTATTGGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATTGAGAACAAAATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
* * * *
30098759 GACAGAATTCATCATAGGGTTCATCTCCCTAGGTATTTAAAAAATTAGTTCATGCTTAAAAATAA
66 AAAAAAATTCATCATAGGGTTCATCTCCCTAGGTATTTAAAAAATTAGTTCATGCTTAAAAAAAA
*
30098824 AAAACATCCAATATACAATATAATCGAAAGAAA
131 AAAACATACAATATACAATATAATCGAAAGAAA
30098857 TAACGAAACT
Statistics
Matches: 148, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
165 29 0.20
166 119 0.80
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.27
Consensus pattern (165 bp):
AAGAATTAAGCACACATAATTGAGAACAAAATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
AAAAAAATTCATCATAGGGTTCATCTCCCTAGGTATTTAAAAAATTAGTTCATGCTTAAAAAAAA
AAAACATACAATATACAATATAATCGAAAGAAAAA
Found at i:30100723 original size:10 final size:11
Alignment explanation
Indices: 30100700--30100728 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
30100690 ATCAAAAGAA
30100700 TTAAACATCAT
1 TTAAACATCAT
30100711 TTAAACA-CAT
1 TTAAACATCAT
30100721 TTAAACAT
1 TTAAACAT
30100729 ACCATTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (11 bp):
TTAAACATCAT
Found at i:30119769 original size:57 final size:54
Alignment explanation
Indices: 30119684--30119798 Score: 133
Period size: 57 Copynumber: 2.1 Consensus size: 54
30119674 AGCATGGCTG
*
30119684 CCAGAACAGATAATGTGACAGAGTCACCAGA-TACATATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATTACATA-AATCGTGGCAGAGCCA
* * * * *
30119738 CCAGAACAGATATATATGTGGCAGAGCCACCAGATTAGATAATTTGTGGCATAGCCA
1 CCAGAACAG--ATA-ATGTGACAGAGCCACCAGATTACATAAATCGTGGCAGAGCCA
30119795 CCAG
1 CCAG
30119799 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 9 0.18
56 3 0.06
57 34 0.67
58 5 0.10
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATTACATAAATCGTGGCAGAGCCA
Found at i:30119794 original size:28 final size:29
Alignment explanation
Indices: 30119684--30119798 Score: 109
Period size: 28 Copynumber: 4.1 Consensus size: 29
30119674 AGCATGGCTG
* *
30119684 CCAGAACAG--ATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATATGTGGCAGAGCCA
30119710 CCAGATAC--ATATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATATAT-GTGGCAGAGCCA
30119738 CCAGAACAGATATATATGTGGCAGAGCCA
1 CCAGAACAGATATATATGTGGCAGAGCCA
** * *
30119767 CCAGATTAGATA-ATTTGTGGCATAGCCA
1 CCAGAACAGATATATATGTGGCAGAGCCA
30119795 CCAG
1 CCAG
30119799 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 5 0.07
27 9 0.12
28 33 0.43
29 27 0.36
30 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (29 bp):
CCAGAACAGATATATATGTGGCAGAGCCA
Found at i:30120248 original size:8 final size:8
Alignment explanation
Indices: 30120212--30120251 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
30120202 CACAAAATAC
30120212 CGGCTTTT
1 CGGCTTTT
*
30120220 CGGCATTT
1 CGGCTTTT
30120228 CGGCATTTT
1 CGGC-TTTT
30120237 -GGCTTTT
1 CGGCTTTT
30120244 CGGCTTTT
1 CGGCTTTT
30120252 GCCGATCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.14
8 21 0.75
9 3 0.11
ACGTcount: A:0.05, C:0.23, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:30121250 original size:24 final size:24
Alignment explanation
Indices: 30121223--30121269 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30121213 CTAGATTTCC
**
30121223 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30121247 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30121270 CTCCTGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30138476 original size:42 final size:42
Alignment explanation
Indices: 30138424--30138526 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
30138414 ATTCCAATAG
* *
30138424 CCCAGCTATGGTCTTACACGAAGTATCATATCA-ATGCCATGT
1 CCCAGATATGGTCTTACACGAAGTATCATAT-AGATGCCATAT
*
30138466 CCCAGATATGGTCTTACACGAAGTCTCATATAGATGCCATAT
1 CCCAGATATGGTCTTACACGAAGTATCATATAGATGCCATAT
*
30138508 CCCAGATATAGTCTTACAC
1 CCCAGATATGGTCTTACAC
30138527 ATTATCTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAGTATCATATAGATGCCATAT
Found at i:30144304 original size:16 final size:16
Alignment explanation
Indices: 30144283--30144317 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30144273 ATGAATCGGC
*
30144283 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
30144299 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
30144315 AAA
1 AAA
30144318 TACTGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:30144332 original size:24 final size:24
Alignment explanation
Indices: 30144283--30144333 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30144273 ATGAATCGGC
* *
30144283 AAAAGCCGAAATGCTGAAAAGCCG
1 AAAAGCCGAAATACTGAAAAACCG
* *
30144307 AAAAGCTGAAATACTGAAAAATCG
1 AAAAGCCGAAATACTGAAAAACCG
30144331 AAA
1 AAA
30144334 GTTGGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.20, T:0.12
Consensus pattern (24 bp):
AAAAGCCGAAATACTGAAAAACCG
Found at i:30144614 original size:29 final size:29
Alignment explanation
Indices: 30144549--30144663 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
30144539 GCATGAGTAT
* *
30144549 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** *
30144578 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* * *
30144607 AATATGAACTAGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* * *
30144636 ATTAAG-ATTGGGCCTAGTGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
30144664 CATGTATTTA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:30145731 original size:17 final size:18
Alignment explanation
Indices: 30145698--30145732 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30145688 GTTTAAGAAG
30145698 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
30145716 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
30145733 TTCAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:30159653 original size:27 final size:27
Alignment explanation
Indices: 30159623--30159800 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
30159613 ATATCGAGTC
* * *
30159623 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30159650 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30159677 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30159705 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30159732 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30159759 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30159786 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30159801 GTACAATTTA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30159762 original size:82 final size:81
Alignment explanation
Indices: 30159644--30159799 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30159634 TGCTATATAA
*
30159644 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30159709 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30159726 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30159790 CACTTAGTGC
65 CACTTAGTGC
30159800 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30169786 original size:17 final size:16
Alignment explanation
Indices: 30169760--30169791 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30169750 TGTAAAAGTT
30169760 GGGTTCTAATAGCTAA
1 GGGTTCTAATAGCTAA
30169776 GGGTGTCTAATAGCTA
1 GGGT-TCTAATAGCTA
30169792 TGAAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (16 bp):
GGGTTCTAATAGCTAA
Found at i:30170644 original size:50 final size:50
Alignment explanation
Indices: 30170588--30170691 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
30170578 TTACGTCATT
*
30170588 TTTGTAATCGAGGTAAGTTCGTATGTTTAATAAGCATTGAATTATACGTA
1 TTTGTAATCGAGGTAAGTTCGTATGTTTAATAAGCATTGAATTATACGAA
30170638 TTTGTAATCGAGGTAAGTTCGTATGTTTAATAAGCATTGAATTATACGAA
1 TTTGTAATCGAGGTAAGTTCGTATGTTTAATAAGCATTGAATTATACGAA
30170688 TTTG
1 TTTG
30170692 AATGCTTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (50 bp):
TTTGTAATCGAGGTAAGTTCGTATGTTTAATAAGCATTGAATTATACGAA
Found at i:30170668 original size:23 final size:23
Alignment explanation
Indices: 30170592--30170668 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
30170582 GTCATTTTTG
30170592 TAATCGAGGTAAGTTCGTATGTT
1 TAATCGAGGTAAGTTCGTATGTT
* * *
30170615 TAAT-AAGCATTGAATTATACGTAT-TT
1 TAATCGAG--GT-AAGT-T-CGTATGTT
30170641 GTAATCGAGGTAAGTTCGTATGTT
1 -TAATCGAGGTAAGTTCGTATGTT
30170665 TAAT
1 TAAT
30170669 AAGCATTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
22 2 0.05
23 13 0.32
24 4 0.10
25 6 0.15
26 4 0.10
27 9 0.22
28 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (23 bp):
TAATCGAGGTAAGTTCGTATGTT
Found at i:30173018 original size:10 final size:10
Alignment explanation
Indices: 30172992--30173038 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
30172982 ACTTGGGTTG
*
30172992 AGAATTGGCC
1 AGAATGGGCC
30173002 A-AATGGGCC
1 AGAATGGGCC
*
30173011 AGAATGGGCT
1 AGAATGGGCC
30173021 A-AATGGGCC
1 AGAATGGGCC
*
30173030 GGAATGGGC
1 AGAATGGGC
30173039 TGTTGGGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.30, C:0.17, G:0.38, T:0.15
Consensus pattern (10 bp):
AGAATGGGCC
Found at i:30173024 original size:19 final size:19
Alignment explanation
Indices: 30172992--30173039 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
30172982 ACTTGGGTTG
* *
30172992 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
30173011 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
30173030 GGAATGGGCT
1 AGAATGGGCT
30173040 GTTGGGCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.38, T:0.17
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:30173178 original size:29 final size:29
Alignment explanation
Indices: 30173113--30173220 Score: 98
Period size: 28 Copynumber: 3.8 Consensus size: 29
30173103 GCATGAGTAT
* * *
30173113 AATATGATTTAGGCCTAATGGGCCATATA-
1 AATATGAATTGGGCCTAGTGGGCCATA-AG
**
30173142 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATAAG
**
30173171 AATATGAA-TGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATAAG
*
30173199 AATAAG-ATTGGGCCTAGTGGGC
1 AATATGAATTGGGCCTAGTGGGC
30173221 TATATGCATG
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 3 0.05
28 32 0.49
29 30 0.46
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATAAG
Found at i:30180433 original size:16 final size:16
Alignment explanation
Indices: 30180408--30180451 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
30180398 ATGAATCGGC
*
30180408 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
30180424 AAAAGTCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
30180440 AAATA-CCGAAAA
1 AAA-AGCCGAAAA
30180452 ATCAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:30180450 original size:24 final size:23
Alignment explanation
Indices: 30180407--30180459 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
30180397 AATGAATCGG
* * *
30180407 CAAAAGCCGAAATGCTGAAAAGT
1 CAAAAGCCGAAATACCGAAAAAT
*
30180430 CGAAAAGCTGAAATACCGAAAAAT
1 C-AAAAGCCGAAATACCGAAAAAT
30180454 CAAAAG
1 CAAAAG
30180460 TTGGGCTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.53, C:0.17, G:0.19, T:0.11
Consensus pattern (23 bp):
CAAAAGCCGAAATACCGAAAAAT
Found at i:30180739 original size:29 final size:29
Alignment explanation
Indices: 30180674--30180788 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
30180664 GCATGAGTAT
* *
30180674 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** *
30180703 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* * *
30180732 AATATGAACTAGG-CTAGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* * *
30180761 AATAAG-ATTGGGCCTAGTAGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
30180789 CATGTATTTA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 16 0.24
29 51 0.76
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:30181855 original size:17 final size:18
Alignment explanation
Indices: 30181822--30181856 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30181812 GTTTAAGAAG
30181822 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
30181840 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
30181857 TTCAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:30197146 original size:27 final size:27
Alignment explanation
Indices: 30197115--30197292 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
30197105 TAAATTGTAC
30197115 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30197142 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30197168 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30197196 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30197224 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30197251 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30197278 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30197293 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30197229 original size:82 final size:81
Alignment explanation
Indices: 30197116--30197271 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30197106 AAATTGTACA
*
30197116 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
30197180 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30197197 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
30197262 TGCGAGTTGA
65 TGCGAATTGA
30197272 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30197283 original size:82 final size:81
Alignment explanation
Indices: 30197112--30197292 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
30197102 GATTAAATTG
*
30197112 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
30197177 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30197193 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
30197257 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30197275 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30197293 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30198766 original size:42 final size:42
Alignment explanation
Indices: 30198707--30198814 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 42
30198697 TACAAAGGTC
* *
30198707 ACACGCCCGTGTGACTAGGTCGTGTGCCTCACATGGCATTAG
1 ACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAG
30198749 ACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAG
1 ACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAG
* **
30198791 ACAAGCCCGTGTGTTTAGGCCGTG
1 ACACGCCCGTGTGACTAGGCCGTG
30198815 GAAAAATAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.22
Consensus pattern (42 bp):
ACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAG
Found at i:30198985 original size:109 final size:109
Alignment explanation
Indices: 30198747--30198986 Score: 426
Period size: 109 Copynumber: 2.2 Consensus size: 109
30198737 ACATGGCATT
*
30198747 AGACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAGACAAGCCCGTGTGTTTAGGCC
1 AGACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAGACAAGCCCGTGTGTCTAGGCC
30198812 GTGGAAAAATAGGGCATACATACAGACTTAACCACATGGCCACA
66 GTGGAAAAATAGGGCATACATACAGACTTAACCACATGGCCACA
* * *
30198856 AGACACGCCTGTGTCACTAGGCCGTGTGCCTCACACGGCATTAGACAAGCTCGTGTGTCTAGGCC
1 AGACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAGACAAGCCCGTGTGTCTAGGCC
*
30198921 GTGGCAAAATAGGGCATACATACAGACTTAACCACATGGCCACA
66 GTGGAAAAATAGGGCATACATACAGACTTAACCACATGGCCACA
*
30198965 AGACACGCCCGTGTGTCTAGGC
1 AGACACGCCCGTGTGACTAGGC
30198987 TGTGCTCAAG
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 123 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (109 bp):
AGACACGCCCGTGTGACTAGGCCGTGTGCCTCACACGGCATTAGACAAGCCCGTGTGTCTAGGCC
GTGGAAAAATAGGGCATACATACAGACTTAACCACATGGCCACA
Found at i:30209074 original size:81 final size:81
Alignment explanation
Indices: 30208936--30209097 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
30208926 AATATAAGAA
*
30208936 TGAGTCGATCCAGGATCAATCAATGCAATTACATTAGTATCATAGAGAGAAAATGTACCAGTGAT
1 TGAGTCGATCCAGGATCAATCAAAGCAATTACATTAGTATCATAGAGAGAAAATGTACCAGTGAT
30209001 AACATCAGGGGATGAC
66 AACATCAGGGGATGAC
*
30209017 TGAGTCGATCCAGGATCAATCAAAGCAATTACATTAGTATCATAGAGAGAAATTGTACCAGTGAT
1 TGAGTCGATCCAGGATCAATCAAAGCAATTACATTAGTATCATAGAGAGAAAATGTACCAGTGAT
30209082 AACATCAGGGGATGAC
66 AACATCAGGGGATGAC
30209098 GCATCTTTGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (81 bp):
TGAGTCGATCCAGGATCAATCAAAGCAATTACATTAGTATCATAGAGAGAAAATGTACCAGTGAT
AACATCAGGGGATGAC
Found at i:30220225 original size:40 final size:40
Alignment explanation
Indices: 30220127--30220429 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
30220117 TCCTCGTTCA
* * * * *
30220127 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
30220166 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30220206 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30220246 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30220286 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
30220326 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
30220366 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
30220406 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30220430 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:30228218 original size:40 final size:40
Alignment explanation
Indices: 30228120--30228422 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
30228110 TCCTCGTTCA
* * * * *
30228120 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
30228159 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30228199 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30228239 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30228279 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
30228319 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
30228359 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
30228399 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30228423 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:30235424 original size:68 final size:67
Alignment explanation
Indices: 30235352--30235501 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30235342 CATCATGTGT
* * * *
30235352 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30235414 ATGTAG
62 ATGTAG
** * *
30235420 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30235485 AG
66 AG
30235487 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30235502 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30235457 original size:64 final size:64
Alignment explanation
Indices: 30235376--30235559 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
30235366 AGACATTATG
* *
30235376 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30235440 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30235505 AA
63 AA
* * ** *
30235507 ACTG--GCTAGGTCACATGGGTGGTACTAAATGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30235560 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30239899 original size:64 final size:64
Alignment explanation
Indices: 30239818--30240001 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
30239808 AGACATTATG
* *
30239818 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30239882 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30239947 AA
63 AA
* * * * *
30239949 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30240002 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 17 0.17
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30244615 original size:16 final size:16
Alignment explanation
Indices: 30244591--30244628 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30244581 TTTGGTTCGC
* *
30244591 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
30244607 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30244623 TGTAAT
1 TGTAAT
30244629 ATCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:30244878 original size:24 final size:26
Alignment explanation
Indices: 30244827--30244892 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
30244817 TCAATAATAA
30244827 ATAATTTAATAATAT-TTAAACATAATT
1 ATAA-TTAA-AATATATTAAACATAATT
* *
30244854 ATTATT-AAATATATTAAATAT-ATT
1 ATAATTAAAATATATTAAACATAATT
30244878 ATAATTAAAATATAT
1 ATAATTAAAATATAT
30244893 AATTTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 13 0.38
25 16 0.47
26 2 0.06
27 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATTAAAATATATTAAACATAATT
Found at i:30245135 original size:27 final size:28
Alignment explanation
Indices: 30245067--30245137 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
30245057 TATGAATTTG
* *
30245067 TATAATTTAA-AATAAT-TATTATTACA
1 TATAAATTAATAATAATATATAATTACA
*
30245093 TATAAATTAATAATAATATATAATTTCA
1 TATAAATTAATAATAATATATAATTACA
* *
30245121 TA-AAATTATTGATAATA
1 TATAAATTAATAATAATA
30245138 ATTTTCTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 9 0.24
27 19 0.50
28 10 0.26
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
TATAAATTAATAATAATATATAATTACA
Found at i:30245180 original size:90 final size:91
Alignment explanation
Indices: 30245043--30245248 Score: 297
Period size: 90 Copynumber: 2.3 Consensus size: 91
30245033 AATTATAACA
* * * * *
30245043 AATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAATTAATAATA
1 AATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAATTAATAATA
*
30245108 ATATATAATTTCATAAAATTATTGAT
66 ATATATAATTTCATAAAATTATTAAT
* * *
30245134 AAT-AATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTTATAATG
1 AATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAATTAATAATA
*
30245198 ATATATAATTTCATAAAATTCTTAAT
66 ATATATAATTTCATAAAATTATTAAT
*
30245224 AATAAAATGTTCTTATATGAATTTA
1 AAT-AAATTTTCTTATATGAATTTA
30245249 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 80 0.78
91 3 0.03
92 19 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAATTAATAATA
ATATATAATTTCATAAAATTATTAAT
Found at i:30251194 original size:18 final size:17
Alignment explanation
Indices: 30251159--30251205 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
30251149 GGCTTTAAAA
30251159 ATATTATAA-TTTATTT
1 ATATTATAATTTTATTT
30251175 ATATTATAATTTTAATTT
1 ATATTATAATTTT-ATTT
* *
30251193 ATTTTATTATTTT
1 ATATTATAATTTT
30251206 TAATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 15 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATAATTTTATTT
Found at i:30252749 original size:25 final size:24
Alignment explanation
Indices: 30252720--30252770 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
30252710 ATATCAAAAA
30252720 TACTAA-AAATATCAAAATAAATATT
1 TACTAATAAAT-TCAAAATAAAT-TT
*
30252745 TACTAATAAATTGAAAATAAATTT
1 TACTAATAAATTCAAAATAAATTT
30252769 TA
1 TA
30252771 AAAAGTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 16 0.67
26 4 0.17
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
TACTAATAAATTCAAAATAAATTT
Found at i:30252906 original size:22 final size:23
Alignment explanation
Indices: 30252876--30252920 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
30252866 TATAATATTT
30252876 AAACAATAACAATAAAATAGTAG
1 AAACAATAACAATAAAATAGTAG
* * *
30252899 AAAC-ATAATAGTAAAATGGTAG
1 AAACAATAACAATAAAATAGTAG
30252921 CAAAATAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (23 bp):
AAACAATAACAATAAAATAGTAG
Found at i:30258679 original size:25 final size:24
Alignment explanation
Indices: 30258649--30258703 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 24
30258639 AGTCAAGGGC
30258649 TGATATTAAAATTGAATCAAAGAA
1 TGATATTAAAATTGAATCAAAGAA
*
30258673 TTGATATTAAAATTGAATCAAAGGA
1 -TGATATTAAAATTGAATCAAAGAA
30258698 TGATAT
1 TGATAT
30258704 AGTTGGTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.33
Consensus pattern (24 bp):
TGATATTAAAATTGAATCAAAGAA
Found at i:30258795 original size:45 final size:45
Alignment explanation
Indices: 30258731--30258823 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
30258721 CAAATTTAGC
30258731 TTACTTATAGGCCAAACTTGAATGAACAAAAGCAAACAACATAAT
1 TTACTTATAGGCCAAACTTGAATGAACAAAAGCAAACAACATAAT
*
30258776 TTACTTATAGGCCAAACTTGAATGAACAAAAGTAAACAACATAAT
1 TTACTTATAGGCCAAACTTGAATGAACAAAAGCAAACAACATAAT
30258821 TTA
1 TTA
30258824 ACGGGGCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (45 bp):
TTACTTATAGGCCAAACTTGAATGAACAAAAGCAAACAACATAAT
Found at i:30261559 original size:7 final size:7
Alignment explanation
Indices: 30261547--30261601 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
30261537 TTCTGAATCC
30261547 TCAATTT
1 TCAATTT
30261554 TCAATTT
1 TCAATTT
30261561 TCAATTT
1 TCAATTT
*
30261568 TTAATTT
1 TCAATTT
30261575 TCAATTCT
1 TCAATT-T
30261583 T-AATTT
1 TCAATTT
*
30261589 TTAATTT
1 TCAATTT
30261596 TCAATT
1 TCAATT
30261602 ACTTTTTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 2 0.05
7 39 0.91
8 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (7 bp):
TCAATTT
Found at i:30280169 original size:86 final size:86
Alignment explanation
Indices: 30280024--30280195 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 86
30280014 ATTTGTCGTA
30280024 ATTAAGCAGAGTTGATTGCACGCCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAAC
1 ATTAAGCAGAGTTGATTGCACGCCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAAC
30280089 CTAATAAGGGAGTCCATAGAT
66 CTAATAAGGGAGTCCATAGAT
*
30280110 ATTAAGCGGAGTTGATTGCACGCCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAAC
1 ATTAAGCAGAGTTGATTGCACGCCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAAC
30280175 CTAATAAGGGAGTCCATAGAT
66 CTAATAAGGGAGTCCATAGAT
30280196 CGAGTTAATG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (86 bp):
ATTAAGCAGAGTTGATTGCACGCCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAAC
CTAATAAGGGAGTCCATAGAT
Found at i:30280311 original size:28 final size:25
Alignment explanation
Indices: 30280282--30280331 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30280272 CGAGAGAGAT
*
30280282 AATAATACAACTTAGGGATTTCTAC
1 AATAATATAACTTAGGGATTTCTAC
30280307 AATAATATAACTTAGGGATTTCTAC
1 AATAATATAACTTAGGGATTTCTAC
30280332 GGATCAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (25 bp):
AATAATATAACTTAGGGATTTCTAC
Found at i:30280823 original size:46 final size:46
Alignment explanation
Indices: 30280739--30280909 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
30280729 TCACATAGTT
* * *
30280739 GATGCATATTCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCC
* * *
30280785 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCC
* * * * *
30280831 GATGCCATGTCCTAGACATGGTCTGACGCTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCC
* *
30280879 GATGCATGTCCTAGACATGTTTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
30280910 ACACAAATAA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 52 0.50
47 28 0.27
48 23 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCC
Found at i:30284935 original size:27 final size:27
Alignment explanation
Indices: 30284905--30285082 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30284895 ATATTGAGTC
* * * *
30284905 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30284932 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30284959 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30284987 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30285014 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30285041 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30285068 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30285083 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30285044 original size:82 final size:81
Alignment explanation
Indices: 30284926--30285081 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30284916 TGCTATATAA
* *
30284926 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30284991 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30285008 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30285072 CACTTAGTGC
65 CACTTAGTGC
30285082 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30288645 original size:55 final size:54
Alignment explanation
Indices: 30288562--30288681 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 54
30288552 GTAGACATAA
* *
30288562 GGGCTGTGTCTTGACCGTGTGAGACACACGGCCTGGCACATGGGCATATGGTTT
1 GGGCTGTGTCTTGACCGTGTGAGACACACAGCCTGGCACATGGGCATATGATTT
* * *
30288616 GGGCTTGTGTCTTGACCGTGTGTGACACACAGCCTGGCTCATGGGCATGTGATTT
1 GGGC-TGTGTCTTGACCGTGTGAGACACACAGCCTGGCACATGGGCATATGATTT
*
30288671 GGCCGTGTGTC
1 GGGC-TGTGTC
30288682 CCTTGCATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 4 0.07
55 54 0.93
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (54 bp):
GGGCTGTGTCTTGACCGTGTGAGACACACAGCCTGGCACATGGGCATATGATTT
Found at i:30289756 original size:21 final size:21
Alignment explanation
Indices: 30289732--30289774 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30289722 CTCATTAGAG
30289732 CTCGTAAGAGCTGAACGGAAA
1 CTCGTAAGAGCTGAACGGAAA
30289753 CTCGTAAGAGCTGAACGGAAA
1 CTCGTAAGAGCTGAACGGAAA
30289774 C
1 C
30289775 CCATAAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.14
Consensus pattern (21 bp):
CTCGTAAGAGCTGAACGGAAA
Found at i:30289781 original size:21 final size:21
Alignment explanation
Indices: 30289736--30289781 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
30289726 TTAGAGCTCG
* *
30289736 TAAGAGCTGAACGGAAACTCG
1 TAAGAGCTGAACGGAAACCCA
30289757 TAAGAGCTGAACGGAAACCCA
1 TAAGAGCTGAACGGAAACCCA
30289778 TAAG
1 TAAG
30289782 GGTTAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (21 bp):
TAAGAGCTGAACGGAAACCCA
Found at i:30293097 original size:4 final size:4
Alignment explanation
Indices: 30293088--30293115 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30293078 TTAAACTAAG
30293088 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
30293116 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:30299322 original size:32 final size:32
Alignment explanation
Indices: 30299281--30299344 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
30299271 AGAAGAACCC
30299281 CTTTTGTAAGATTCTCGATTCCACCTATCTAT
1 CTTTTGTAAGATTCTCGATTCCACCTATCTAT
30299313 CTTTTGTAAGATTCTCGATTCCACCTATCTAT
1 CTTTTGTAAGATTCTCGATTCCACCTATCTAT
30299345 TTGTACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.44
Consensus pattern (32 bp):
CTTTTGTAAGATTCTCGATTCCACCTATCTAT
Found at i:30302172 original size:50 final size:50
Alignment explanation
Indices: 30302095--30302205 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
30302085 AATTCAAATA
* * * *
30302095 TCTCATATCTCGAGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
1 TCTCATATCTCGAGACCGATACCATGTCCCAGACATGGTATTACACTAGC
*
30302145 TTTCATATCTCGAGACCGATACCATGTCCCAGACATGGTATTACACTAGC
1 TCTCATATCTCGAGACCGATACCATGTCCCAGACATGGTATTACACTAGC
30302195 TCTCATATCTC
1 TCTCATATCTC
30302206 CCTAGCATCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (50 bp):
TCTCATATCTCGAGACCGATACCATGTCCCAGACATGGTATTACACTAGC
Found at i:30304433 original size:21 final size:19
Alignment explanation
Indices: 30304381--30304434 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
30304371 GAGCTAAACT
30304381 GAAACCCATAACGGTTGAAC
1 GAAACCCATAA-GGTTGAAC
* * *
30304401 GAAACTCGTAAGAGTTGGAC
1 GAAACCCATAAG-GTTGAAC
30304421 GGAAACCCATAAGG
1 -GAAACCCATAAGG
30304435 GTTAAACAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 10 0.37
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (19 bp):
GAAACCCATAAGGTTGAAC
Found at i:30306870 original size:26 final size:27
Alignment explanation
Indices: 30306817--30306875 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
30306807 TTATTACAGA
30306817 TAAAATCGTTAAAAATTTTACCAAGGG
1 TAAAATCGTTAAAAATTTTACCAAGGG
* * * *
30306844 TAAAATTGTT-AAAATTTTTCTAGGGG
1 TAAAATCGTTAAAAATTTTACCAAGGG
30306870 TAAAAT
1 TAAAAT
30306876 AGGGATGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (27 bp):
TAAAATCGTTAAAAATTTTACCAAGGG
Found at i:30308618 original size:46 final size:46
Alignment explanation
Indices: 30308491--30308651 Score: 121
Period size: 46 Copynumber: 3.4 Consensus size: 46
30308481 AAGTCAATGC
* * * *
30308491 CATGTCCTAGACATGGTCTTACACTGAC-TATCATCTCATA-GCCGATG
1 CATGTCCCAGACAT-GTCTTAAACTAACATA-CGTCTCA-AGGCCGATG
** ** *
30308538 CATGTCCCAGACATGTCTTTCACTGGCATACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTAAACTAACATACGTCTCAAGGCCGATG
* * **
30308584 CATGTCCCCGACATGTCTTAAACTAAC-TCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTAAACTAACAT-ACGTCTCAAGGCCGATG
*
30308630 CCATGTCCCAGATATGGTCTTA
1 -CATGTCCCAGACAT-GTCTTA
30308652 CACTGGCTCT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 58 0.62
47 27 0.29
48 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTAAACTAACATACGTCTCAAGGCCGATG
Found at i:30326962 original size:17 final size:17
Alignment explanation
Indices: 30326940--30326990 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
30326930 GACTAATCCC
*
30326940 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
*
30326957 TATACATTACCTAGGTA
1 TATACATTACTTAGGTA
*
30326974 TGTACATTACTTAGGTA
1 TATACATTACTTAGGTA
30326991 CATGCCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:30327773 original size:41 final size:40
Alignment explanation
Indices: 30327665--30327776 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 40
30327655 TCGGATAGTT
* *
30327665 CGAAGCAATAGTTGACACCCCAGTGTCTCATCG-GCCAAGC
1 CGAAGTAATAGTTGACA-CCCAGTGTCTCATCGAACCAAGC
** ** * * *
30327705 CGAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
30327743 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
30327777 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
37 13 0.24
38 15 0.27
39 2 0.04
40 8 0.15
41 17 0.31
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
Found at i:30329180 original size:21 final size:21
Alignment explanation
Indices: 30329156--30329219 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
30329146 TCCTTCTCTG
30329156 TTTCGTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
* *
30329177 TTTCTTTTTCCCTTCTCTG--T-
1 TTTCGTTTT-GC-TCTCTGTTTC
30329197 TTT-GTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
30329217 TTT
1 TTT
30329220 TCTTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 6 0.18
18 1 0.03
19 5 0.15
20 6 0.18
21 9 0.26
22 1 0.03
23 6 0.18
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTCGTTTTGCTCTCTGTTTC
Found at i:30329204 original size:40 final size:41
Alignment explanation
Indices: 30329147--30329224 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 41
30329137 TTCCTTCCTT
30329147 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTC-TTTCTTTTTC
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTTTC
*
30329187 CCTTCTCTGTTTTGTTTTGCTCTCTGTTTCTTTTCTTT
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTT
30329225 CTTTCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 29 0.81
41 7 0.19
ACGTcount: A:0.00, C:0.26, G:0.10, T:0.64
Consensus pattern (41 bp):
CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTTTC
Found at i:30329252 original size:5 final size:5
Alignment explanation
Indices: 30329236--30329283 Score: 78
Period size: 5 Copynumber: 9.2 Consensus size: 5
30329226 TTTCTTTGTC
30329236 ATATA TATATA ATATA ATATA ATATA ATATA ATAATA ATATA ATATA A
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA A
30329284 AAACATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 31 0.76
6 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:30329273 original size:21 final size:20
Alignment explanation
Indices: 30329236--30329283 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 20
30329226 TTTCTTTGTC
30329236 ATATATATATAATATAATATA
1 ATATA-ATATAATATAATATA
30329257 ATATAATATAATAATAATATA
1 ATATAATATAAT-ATAATATA
30329278 ATATAA
1 ATATAA
30329284 AAACATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAATATAATATAATATA
Found at i:30329291 original size:21 final size:21
Alignment explanation
Indices: 30329236--30329292 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
30329226 TTTCTTTGTC
*
30329236 ATATATATATAAT-ATAATATA
1 ATATA-ATAAAATAATAATATA
*
30329257 ATATAATATAATAATAATATA
1 ATATAATAAAATAATAATATA
30329278 ATATAA-AAACATAAT
1 ATATAATAAA-ATAAT
30329293 TATTACTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAATAAAATAATAATATA
Found at i:30330862 original size:24 final size:24
Alignment explanation
Indices: 30330835--30330909 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
30330825 AAACTATACT
* *
30330835 GAATTTCCGAGAGAAAATCCAAAA
1 GAATATCCCAGAGAAAATCCAAAA
*
30330859 GAATATCCCAGAGAAAGTCCAAAA
1 GAATATCCCAGAGAAAATCCAAAA
*
30330883 GAATATCCCAGAGAAAATCCACAA
1 GAATATCCCAGAGAAAATCCAAAA
30330907 GAA
1 GAA
30330910 GAATATCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.13
Consensus pattern (24 bp):
GAATATCCCAGAGAAAATCCAAAA
Found at i:30330866 original size:12 final size:12
Alignment explanation
Indices: 30330846--30330909 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
30330836 AATTTCCGAG
30330846 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
30330858 AGAATATCCCAG
1 AGAAAATCCAAA
*
30330870 AGAAAGTCCAAA
1 AGAAAATCCAAA
* * *
30330882 AGAATATCCCAG
1 AGAAAATCCAAA
*
30330894 AGAAAATCCACA
1 AGAAAATCCAAA
30330906 AGAA
1 AGAA
30330910 GAATATCACT
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.55, C:0.20, G:0.14, T:0.11
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:30331222 original size:13 final size:13
Alignment explanation
Indices: 30331204--30331231 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30331194 GATAAAAGAG
30331204 CATATAGAATACC
1 CATATAGAATACC
30331217 CATATAGAATACC
1 CATATAGAATACC
30331230 CA
1 CA
30331232 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:30332213 original size:22 final size:22
Alignment explanation
Indices: 30332168--30332213 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
30332158 TATGCACTAT
*
30332168 TAAACAGAGAGCACAAATGCGC
1 TAAACAGAGAGCACAAACGCGC
* * *
30332190 TAAACGGAGAGCACTAACGTGC
1 TAAACAGAGAGCACAAACGCGC
30332212 TA
1 TA
30332214 GTGATCAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (22 bp):
TAAACAGAGAGCACAAACGCGC
Found at i:30332254 original size:25 final size:24
Alignment explanation
Indices: 30332226--30332319 Score: 102
Period size: 25 Copynumber: 3.9 Consensus size: 24
30332216 GATCAGAGAG
30332226 CGTGCTAATATTCAGAGAGCACTGA
1 CGTGCTAA-ATTCAGAGAGCACTGA
**
30332251 CGTGCTAAATATCAGAGAGCACCAA
1 CGTGCTAAAT-TCAGAGAGCACTGA
*
30332276 TGTGCTAAA--CAGAGAGCACTGA
1 CGTGCTAAATTCAGAGAGCACTGA
* *
30332298 TGTGCTAATAATCAGAGAGCAC
1 CGTGCTAA-ATTCAGAGAGCAC
30332320 GCTAAACTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
22 19 0.32
23 1 0.02
24 2 0.03
25 38 0.63
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (24 bp):
CGTGCTAAATTCAGAGAGCACTGA
Found at i:30333640 original size:17 final size:17
Alignment explanation
Indices: 30333618--30333668 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
30333608 GACTAATCCC
*
30333618 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
*
30333635 TATACATTACCTAGGTA
1 TATACATTACTTAGGTA
*
30333652 TGTACATTACTTAGGTA
1 TATACATTACTTAGGTA
30333669 CATGCCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:30334451 original size:41 final size:40
Alignment explanation
Indices: 30334344--30334454 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 40
30334334 TCGGATAGTT
* *
30334344 CGAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCAAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
** ** * * *
30334383 CGAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
30334421 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
30334455 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 10 0.18
39 6 0.11
40 3 0.05
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
Found at i:30335865 original size:21 final size:21
Alignment explanation
Indices: 30335841--30335904 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
30335831 TCCTTCTCTG
30335841 TTTCGTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
* *
30335862 TTTCTTTTTCCCTTCTCTG--T-
1 TTTCGTTTT-GC-TCTCTGTTTC
30335882 TTT-GTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
30335902 TTT
1 TTT
30335905 TCTTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 6 0.18
18 1 0.03
19 5 0.15
20 6 0.18
21 9 0.26
22 1 0.03
23 6 0.18
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTCGTTTTGCTCTCTGTTTC
Found at i:30335889 original size:40 final size:41
Alignment explanation
Indices: 30335832--30335909 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 41
30335822 TTCCTTCCTT
30335832 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTC-TTTCTTTTTC
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTTTC
*
30335872 CCTTCTCTGTTTTGTTTTGCTCTCTGTTTCTTTTCTTT
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTT
30335910 CTTTCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 29 0.81
41 7 0.19
ACGTcount: A:0.00, C:0.26, G:0.10, T:0.64
Consensus pattern (41 bp):
CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTTTC
Found at i:30335937 original size:3 final size:3
Alignment explanation
Indices: 30335929--30335979 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
30335919 TCATATATAT
*
30335929 ATA ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30335972 AT- ATA ATA
1 ATA ATA ATA
30335980 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:30335945 original size:5 final size:5
Alignment explanation
Indices: 30335921--30335982 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
30335911 TTTCTTTGTC
30335921 ATATA TATATA ATAATA ATATA ATATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
30335972 ATATA ATATA A
1 ATATA ATATA A
30335983 AAACATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 33 0.63
6 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:30335991 original size:24 final size:23
Alignment explanation
Indices: 30335921--30335982 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
30335911 TTTCTTTGTC
30335921 ATATATATATAATAATAATATAATATA
1 ATATA-ATATAAT-ATAATA-AA-ATA
*
30335948 ATATAATATAATATATTAATAATA
1 ATATAATATAATATAATAA-AATA
30335972 ATATAATATAA
1 ATATAATATAA
30335983 AAACATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 15 0.45
25 6 0.18
26 7 0.21
27 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATAATATAATAAAATA
Found at i:30336716 original size:47 final size:47
Alignment explanation
Indices: 30336610--30336914 Score: 175
Period size: 47 Copynumber: 6.5 Consensus size: 47
30336600 GTGCCTATGC
* * * * **
30336610 CATGCCCCAGACATGGTATTACACTGGCTCA-CATATC-AAGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGACT-ATCATATCGTAGCCGATG
* * * *
30336656 CCATATCCTAGACATGGTCTTACACTGACTATCATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATG
* * * *
30336704 CATGTCCCAGACAT-GTCTTTCACTGGC-ATACGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTAT-CATATCGTA-GCCGATG
* * * * * * *
30336750 CATGTCCCCGACAT-GTCTTAAACT-AGCTCTCGTCTC-AATGCCGATAC
1 CATGTCCCAGACATGGTCTTACACTGA-CTATCATATCGTA-GCCGAT-G
* * * * *
30336797 CATGTCCCAAACATGGTCCTACACTGGCTCTCATAAT-GTGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATG
* * *
30336844 CATGTCCCAGACATGGTCTTACACT-AGCTCTCATAAT-GTGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTATCAT-ATCGTAGCCGATG
30336891 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
30336915 AGCCAACAAC
Statistics
Matches: 210, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.01
46 69 0.33
47 110 0.52
48 27 0.13
49 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATG
Found at i:30336784 original size:46 final size:46
Alignment explanation
Indices: 30336699--30336917 Score: 203
Period size: 47 Copynumber: 4.7 Consensus size: 46
30336689 ATCTCGTAGT
* * *
30336699 CGATGCATGTCCCAGACATGTCTTTCACTGGCATACGTC-T--CGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-T-C-TCATAATGAGGC
* * * * * *
30336745 CGATGCATGTCCCCGACATGTCTTAAACTAGCTCTCGT-CTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-GAGGC
* * * * *
30336791 CGATACCATGTCCCAAACATGGTCCTACACTGGCTCTCATAATGTGGC
1 CGAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGAGGC
*
30336839 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGC
1 CGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGAGGC
*
30336886 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
30336918 CAACAACAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 1 0.01
46 48 0.33
47 69 0.48
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGC
Found at i:30344863 original size:17 final size:17
Alignment explanation
Indices: 30344841--30344932 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
30344831 ATTTTAATAG
30344841 TTAATATTAAATTTAAT
1 TTAATATTAAATTTAAT
*
30344858 TTAATACTT-AACTTAA-
1 TTAATA-TTAAATTTAAT
* *
30344874 -TAGTATT-TA-TTAAT
1 TTAATATTAAATTTAAT
30344888 TTAATATTAAAGTGATT-AT
1 TTAATATTAAA-T--TTAAT
*
30344907 CTTAATATTACATTTAAT
1 -TTAATATTAAATTTAAT
30344925 TTAATATT
1 TTAATATT
30344933 TATCTTGTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
13 4 0.07
14 3 0.05
15 10 0.17
16 1 0.02
17 22 0.37
18 4 0.07
19 3 0.05
20 12 0.20
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAATATTAAATTTAAT
Found at i:30344868 original size:12 final size:11
Alignment explanation
Indices: 30344824--30344897 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
30344814 ATTCCAAAAA
*
30344824 TAATATTATTT
1 TAATATTAATT
30344835 TAATAGTTAATAT
1 TAATA-TTAAT-T
30344848 TAA-ATTTAATT
1 TAATA-TTAATT
*
30344859 TAATACTTAACT
1 TAATA-TTAATT
*
30344871 TAATAGT-A-T
1 TAATATTAATT
30344880 T--TATTAATT
1 TAATATTAATT
30344889 TAATATTAA
1 TAATATTAA
30344898 AGTGATTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 4 0.08
10 1 0.02
11 16 0.32
12 21 0.42
13 4 0.08
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (11 bp):
TAATATTAATT
Found at i:30350556 original size:15 final size:17
Alignment explanation
Indices: 30350530--30350563 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30350520 TATTTAATTA
30350530 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
30350546 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
30350562 TT
1 TT
30350564 AGTCCTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:30359071 original size:46 final size:46
Alignment explanation
Indices: 30359004--30359173 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
30358994 AACCCGCCCC
* *
30359004 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
30359050 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
30359098 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
30359143 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
30359174 TGATGCTCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 54 0.54
47 27 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:30359117 original size:93 final size:93
Alignment explanation
Indices: 30359009--30359179 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
30358999 GCCCCTAAGT
* *
30359009 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
30359074 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
30359102 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
30359167 CGAGTTCTGATGC
66 CGAGTTCGGATGC
30359180 TCAACCATCC
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:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30359635 original size:30 final size:30
Alignment explanation
Indices: 30359601--30359660 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30359591 ATTTAATACG
30359601 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30359631 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30359661 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30366214 original size:44 final size:45
Alignment explanation
Indices: 30366152--30366259 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 45
30366142 ATGCTATGTT
30366152 CCAGACATGGTCTT-CACTGAC-ACATCTCGTA-GCCGATGCAAGTC
1 CCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATGCAAGTC
* * *
30366196 CCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTC
1 CCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATGCAAGTC
30366242 CCAGACATGTCTTACACT
1 CCAGACATGTCTTACACT
30366260 AGCACTTGTC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
43 5 0.09
44 14 0.25
45 1 0.02
46 37 0.65
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
CCAGACATGTCTTACACTGACTACATCTCGAGGCCGATGCAAGTC
Found at i:30366282 original size:46 final size:44
Alignment explanation
Indices: 30366043--30366302 Score: 127
Period size: 47 Copynumber: 5.5 Consensus size: 44
30366033 GGTATAATGC
* * *
30366043 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCCATCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTTAAT-C-TCAAGG
* * * * * *
30366090 CGATGCCATGTCCTATACATGGTCTTACACT-AGCTCCCACATATCTATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGA-CT--TA-ATCTC-AAGG
* * *
30366140 CGATGCTATGTTCCAGACATGGTCTT-CACTGAC--ACATCTCGTAGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTGACTTA-ATCTC-AAGG
* * *
30366185 CGATGCAAGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTTACACTGACTTA-ATCTCAAGG
* *
30366230 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTT-GTCTCAATGT
1 C-GATGCATGTCCCAGACATGTCTTACACT-G-ACTTAATCTCAA-GG
30366277 CGATGCTATGTCCCAGACATGGTCTT
1 CGATGC-ATGTCCCAGACAT-GTCTT
30366303 TCGCTAGCTC
Statistics
Matches: 171, Mismatches: 25, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.03
44 17 0.10
45 16 0.09
46 44 0.26
47 46 0.27
48 8 0.05
49 8 0.05
50 25 0.15
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTTAATCTCAAGG
Found at i:30388064 original size:40 final size:40
Alignment explanation
Indices: 30387966--30388135 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
30387956 TCCTCGTTCA
* * * *
30387966 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
30388005 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
30388045 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
30388085 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGAACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
30388125 AAGGCCTTCGG
1 AATGCCTTCGG
30388136 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:30388067 original size:79 final size:80
Alignment explanation
Indices: 30387966--30388112 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
30387956 TCCTCGTTCA
* * *
30387966 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
30388030 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
30388045 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
30388110 TTA
66 TTA
30388113 GTATCTCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:30388132 original size:80 final size:79
Alignment explanation
Indices: 30387964--30388188 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
30387954 GCTCCTCGTT
* * * * *
30387964 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
30388029 TTTAACAACTCGCA
66 TTTAACAACTCGAA
* *
30388043 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
30388108 ATTTAGTATCTCGAA
65 ATTTAACAACTCGAA
* * * * * * * *
30388123 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
30388187 GA
64 GA
30388189 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 38 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGAA
Found at i:30388148 original size:40 final size:40
Alignment explanation
Indices: 30387964--30388188 Score: 179
Period size: 40 Copynumber: 5.7 Consensus size: 40
30387954 GCTCCTCGTT
* * * * *
30387964 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTC--A
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGAA
* * * *
30388002 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CA-AAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGAA
* * *
30388043 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGAA
* * * *
30388083 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGAA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGAA
** * * * * *
30388123 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGAA
*
30388164 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
30388189 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 112 0.70
41 12 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGAA
Found at i:30396099 original size:52 final size:52
Alignment explanation
Indices: 30396016--30396119 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
30396006 ATTGTGCTAG
*
30396016 GCCACAAAATTTCTAGTAAAAGGATCGAGGTTGATAAAGCAAAAATTGAAAC
1 GCCACAAAATTTCTAGTAAAAGGATCAAGGTTGATAAAGCAAAAATTGAAAC
30396068 GCCACAAAATTTCTAGTAAAAGGATCAAGGTTGATAAAGCAAAAATTGAAAC
1 GCCACAAAATTTCTAGTAAAAGGATCAAGGTTGATAAAGCAAAAATTGAAAC
30396120 TATTGAGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (52 bp):
GCCACAAAATTTCTAGTAAAAGGATCAAGGTTGATAAAGCAAAAATTGAAAC
Found at i:30399086 original size:17 final size:15
Alignment explanation
Indices: 30399064--30399102 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
30399054 TCCTCTCCCT
30399064 TTTTCTCTTTGCTCTTC
1 TTTTCTC-TT-CTCTTC
30399081 TTTTCTCTTCTCTTC
1 TTTTCTCTTCTCTTC
*
30399096 TCTTCTC
1 TTTTCTC
30399103 CCCCATCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTCTCTTCTCTTC
Found at i:30401011 original size:6 final size:6
Alignment explanation
Indices: 30400996--30401098 Score: 154
Period size: 6 Copynumber: 17.3 Consensus size: 6
30400986 ATTGAATCCA
*
30400996 TTTATC TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
30401044 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTACT TTTACT TTTACT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
30401091 TTTCTT TT
1 TTTATT TT
30401099 CATGCTTAGT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
5 5 0.05
6 87 0.95
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:30405278 original size:24 final size:24
Alignment explanation
Indices: 30405179--30405279 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
30405169 AAGTCTGTTA
*
30405179 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
30405203 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
30405227 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
30405251 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
30405275 GGAGA
1 GGAGA
30405280 ACAGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:30406730 original size:27 final size:26
Alignment explanation
Indices: 30406690--30406766 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 26
30406680 AGGAAGCGTC
*
30406690 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
30406717 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
30406744 CTGGTGGCTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
30406767 ATTCTGGCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30411175 original size:27 final size:27
Alignment explanation
Indices: 30411145--30411322 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
30411135 ATATTGAGTC
* *
30411145 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30411172 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30411199 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30411227 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
30411254 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30411281 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30411308 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30411323 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30416454 original size:27 final size:26
Alignment explanation
Indices: 30416414--30416524 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
30416404 AGGAAGCGTC
* *
30416414 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
30416441 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
30416468 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
30416495 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
30416521 CTGG
1 CTGG
30416525 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 15 0.19
27 60 0.78
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:30421024 original size:39 final size:37
Alignment explanation
Indices: 30420989--30421061 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
30420979 TATAATAATT
30420989 TAATATTAAGAT-AATCACTTTAATATTAAATTAATAAAA
1 TAATATTAAGATAAAT-A-TTTAAT-TTAAATTAATAAAA
* *
30421028 TACTATTAAGATAAATATTTAATTTAATTTAATA
1 TAATATTAAGATAAATATTTAATTTAAATTAATA
30421062 TTAAATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 10 0.32
38 6 0.19
39 12 0.39
40 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (37 bp):
TAATATTAAGATAAATATTTAATTTAAATTAATAAAA
Found at i:30425216 original size:5 final size:5
Alignment explanation
Indices: 30425206--30425231 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30425196 TCTTTCATTC
30425206 CCCTT CCCTT CCCTT CCCTT CCCTT C
1 CCCTT CCCTT CCCTT CCCTT CCCTT C
30425232 TCTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
CCCTT
Found at i:30432321 original size:24 final size:24
Alignment explanation
Indices: 30432294--30432339 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30432284 TAAAATTATT
* *
30432294 AAAATTAAAATATTTTTTAAACAG
1 AAAATTAAAATATCTTTAAAACAG
30432318 AAAATTAAAATATCTTTAAAAC
1 AAAATTAAAATATCTTTAAAAC
30432340 TTAGGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAATTAAAATATCTTTAAAACAG
Found at i:30437942 original size:18 final size:18
Alignment explanation
Indices: 30437916--30438057 Score: 101
Period size: 18 Copynumber: 7.9 Consensus size: 18
30437906 AATTGATCGG
*
30437916 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
30437934 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAA
* * * *
30437951 GTATTCAATAACAATTAA
1 TTATTCAGTAACAGTCAA
30437969 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
30437987 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
30438006 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
30438024 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
30438042 TTATTCAATAACAGTC
1 TTATTCAGTAACAGTC
30438058 TTGTAACGCC
Statistics
Matches: 94, Mismatches: 24, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
17 15 0.16
18 65 0.69
19 14 0.15
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:30437979 original size:54 final size:55
Alignment explanation
Indices: 30437915--30438048 Score: 148
Period size: 54 Copynumber: 2.5 Consensus size: 55
30437905 CAATTGATCG
* *
30437915 GTTATCCAGTAACAGTCAATTATTCAGT-AAAATCAGGTATTCAATAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTGAAAATCAGGTATTCAATAACAATCAA
* * * **
30437969 GTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGTGAAAATCAGGTATTCAATAACAATCAA
* * *
30438024 -TTATTCAGTAATATTCAGTTATTCA
1 GTTATTCAGTAACAGTCAATTATTCA
30438049 ATAACAGTCT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.04
54 42 0.63
55 22 0.33
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
GTTATTCAGTAACAGTCAATTATTCAGTGAAAATCAGGTATTCAATAACAATCAA
Found at i:30438008 original size:36 final size:36
Alignment explanation
Indices: 30437916--30438057 Score: 119
Period size: 36 Copynumber: 3.9 Consensus size: 36
30437906 AATTGATCGG
* * * * *
30437916 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAA
* * *
30437951 GTATTCAATAACAATTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAGTCAA
* *
30437987 TTCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAG-TCAA
* * *
30438024 TTATTCAGTAATATTCAGTTATTCAATAACAGTC
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTC
30438058 TTGTAACGCC
Statistics
Matches: 83, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
35 11 0.13
36 55 0.66
37 17 0.20
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAA
Found at i:30439429 original size:46 final size:46
Alignment explanation
Indices: 30439362--30439539 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
30439352 TGTAACCCGC
* *
30439362 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * **
30439408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * * **
30439458 -C-TCA-CGAACTCAGACTCAACACAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
30439501 CCATAAGTGAACTCGGAGTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
30439540 CTCAACCATC
Statistics
Matches: 103, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 61 0.59
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:30439477 original size:93 final size:93
Alignment explanation
Indices: 30439369--30439540 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30439359 CGCCCATAAG
* * ***
30439369 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30439434 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* *
30439462 CGAACTCAGACTCAACACAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGAGTCAACTCA
1 CGAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30439527 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
30439541 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:30447059 original size:93 final size:93
Alignment explanation
Indices: 30446947--30447118 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30446937 CGCCCATAAG
***
30446947 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30447012 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
30447040 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGAGTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30447105 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30447119 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30447115 original size:46 final size:46
Alignment explanation
Indices: 30446940--30447115 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
30446930 TGTAACCCGC
* ***
30446940 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30446986 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30447036 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30447079 CCATAAGTGAACTCGGAGTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30447116 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.