Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 248 of 250
Found at i:77026094 original size:328 final size:326
Alignment explanation
Indices: 77025395--77026377 Score: 1305
Period size: 328 Copynumber: 3.0 Consensus size: 326
77025385 GCAGCGAAGC
* *
77025395 AGATCAAAGATGGAAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* * *
77025460 CTCCCTGCATTTAGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCATGTGACT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
* *
77025525 ATAATGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
131 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
* * * * * * * * ** ** *
77025590 TCGAAGATGGCAGATTTTACC-TCCATGTGA-CT-ACAGTGGAGTACATTGAAG-CCGATA-ACT
196 T------T-GCAGATCTTGCCTTCC-TGT-ATTTGGCAGCGAAGCAGATCAAAGATGGA-AGATT
* * * * * * * ** *
77025650 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT--CT-TGCCTTCCTGTATTT
251 TTACCTCCCTG-A-CT-ACAGTGGAGTACATT-AA-A--GCCGATAACTCTATCTCCCTGTATTT
*
77025712 GGC-A-GCG-A-AG---CA
309 GGCAATG-GAATAGATTGA
77025724 A-ATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
77025788 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGTAGAGTTTACCTCCATGTGACT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
77025853 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
131 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
77025918 TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGAAGATTTTACCTCCCT
196 TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGAAGATTTTACCTCCCT
*
77025983 GACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCCCTGCATTTGGCAATGGAATAGATTG
261 GACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCCCTGTATTTGGCAATGGAATAGATTG
77026048 A
326 A
* * *
77026049 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTATAATGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
77026114 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGA
77026179 CTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
129 CTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
* *
77026244 GATTGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCC
194 GATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGAAGATTTTACCTCC
* *
77026309 CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGAT
259 CTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCCCTGTATTTGGCAATGGAATAGAT
77026374 TGA
324 TGA
77026377 A
1 A
77026378 TATTACAGAT
Statistics
Matches: 592, Mismatches: 44, Indels: 37
0.88 0.07 0.05
Matches are distributed among these distances:
316 5 0.01
318 3 0.01
319 16 0.03
320 15 0.03
321 17 0.03
322 20 0.03
323 13 0.02
325 2 0.00
326 25 0.04
328 475 0.80
329 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (326 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGAAGATTTTACCTCCCT
GACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCCCTGTATTTGGCAATGGAATAGATTG
A
Found at i:77026367 original size:45 final size:45
Alignment explanation
Indices: 77026182--77026377 Score: 121
Period size: 45 Copynumber: 4.4 Consensus size: 45
77026172 CATGTGACTA
*
77026182 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* ** * * * *
77026227 CAGTGGAATAGATTGAAGATTGCAGATCT-TGTCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGG
* * * ** ** ** * * * * *
77026273 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGCCGATA-ACTCTATCTCCCTGTATTTGG
*
77026316 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
77026361 CAGTGGAATAGATTGAA
1 CAGTGGAGTAGATTGAA
77026378 TATTACAGAT
Statistics
Matches: 103, Mismatches: 41, Indels: 14
0.65 0.26 0.09
Matches are distributed among these distances:
42 11 0.11
43 15 0.15
44 3 0.03
45 35 0.34
46 35 0.34
47 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
CAGTGGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:77026388 original size:134 final size:129
Alignment explanation
Indices: 77026149--77026726 Score: 708
Period size: 130 Copynumber: 4.4 Consensus size: 129
77026139 AGATTGAAGA
* * *
77026149 TCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATC
1 TCGAAGACGGCAGATTTTACCTCC--CTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATC
** ** * * * * * * *
77026214 TCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGTCTTCCT-GTATTTGGCAGCG
64 TCCCTG--GGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAGCA-AT---AGTG
* *
77026278 AAGCAGA
123 GAGCAGG
* * *
77026285 TCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
1 TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
** ** * *
77026350 CCTGTATTTGGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTG--GGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCT-AGCAATAGTGGAGCA
77026415 GG
128 GG
* * * **
77026417 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
*
77026482 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
66 CCTGGGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCT-AGCAATAGTGGAGCAGG
* * * **
77026547 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
77026612 CCTGGGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
66 CCTGGGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCT-AGCAATAGTGGAGCAGG
77026677 TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGC
1 TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGC
77026727 TGGTAGTTCT
Statistics
Matches: 412, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 232 0.56
132 69 0.17
134 85 0.21
135 1 0.00
136 25 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (129 bp):
TCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
CCTGGGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAGCAATAGTGGAGCAGG
Found at i:77026455 original size:43 final size:43
Alignment explanation
Indices: 77026406--77026717 Score: 155
Period size: 44 Copynumber: 7.2 Consensus size: 43
77026396 CCTAAGCAAT
* * * * *
77026406 AGTGGAGCAGGTCGAAGACGGCGGATTTTACCTCCCTGATTAC
1 AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGATAAC
* * * * **
77026449 AGTGGAGTACATTGAAG-CTG-GTAGTTCTATCTCCCTGGGCAAC
1 AGTGGAGTAGATCGAAGACTGCGGA-TTTTATCTCCCT-GATAAC
* * * * * * * *
77026492 AGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAAT
1 AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGA-TAAC
* * * * *
77026536 AGTGGAGCAGGTCGAAGACGGCGGATTTTACCTCCCTGATTAC
1 AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGATAAC
* * * * *
77026579 AGTGGAGTACATTGAAG-CTG-GTAGTTCTATCTCCCTGGGTAAC
1 AGTGGAGTAGATCGAAGACTGCGGA-TTTTATCTCCCT-GATAAC
* * * * * * * *
77026622 AGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAAT
1 AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGA-TAAC
* * * * * *
77026666 AGTGGAGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTAC
1 AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGATAAC
77026709 AGTGGAGTA
1 AGTGGAGTA
77026718 CATTGAAGCT
Statistics
Matches: 187, Mismatches: 72, Indels: 20
0.67 0.26 0.07
Matches are distributed among these distances:
41 4 0.02
42 24 0.13
43 71 0.38
44 86 0.46
45 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
AGTGGAGTAGATCGAAGACTGCGGATTTTATCTCCCTGATAAC
Found at i:77026547 original size:130 final size:130
Alignment explanation
Indices: 77026279--77026749 Score: 753
Period size: 130 Copynumber: 3.6 Consensus size: 130
77026269 TTGGCAGCGA
* * * * * * **
77026279 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
***** * *
77026344 TATCTCCCTGTATTTGGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGCAATAGT
66 TATCTCCCTG--GGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGT
77026409 GG
129 GG
*
77026411 AGCAGGTCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
1 AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
77026476 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
*
77026541 AGCAGGTCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
1 AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
*
77026606 TATCTCCCTGGGTAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
77026671 AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
1 AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
*
77026736 TATCTCCCGGGGCA
66 TATCTCCCTGGGCA
77026750 TGAAGTAGAT
Statistics
Matches: 319, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
130 253 0.79
132 66 0.21
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (130 bp):
AGCAGGTCGAAGACGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
Found at i:77027018 original size:50 final size:50
Alignment explanation
Indices: 77026865--77027222 Score: 183
Period size: 50 Copynumber: 7.2 Consensus size: 50
77026855 TAAAGCTACG
* *
77026865 ACGGCGAATCTTG-TTCCCCGACATTGCAA-TTAAAGAGATTGAAGACACA
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA-AGATTGAAGCCACA
* ** * * * * * ** ** * * *
77026914 ACGGTGAATCTCACTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACG
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACA
* *
77026964 ACGGCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCA
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACA
* * * * * ** ** *
77027014 ACGGCAAATCTTACTTTCCTGGCGA-TGCAGTGGATTAGATTGAAGCTACA
1 ACGGCGAATCTTGCTTCCCTGAC-ATTGCAATTTAAAAGATTGAAGCCACA
* * * *
77027064 ATGGCGACTCTTG-TTCCCAGACATTGCAA-TTAAAGAGATCGAAGCCACA
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA-AGATTGAAGCCACA
** * * * * ** * *
77027113 ACGGCGAATCTCACTTCTCTGGCAGTGCAGTGGATCAA-ATTGAAGCTACA
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTA-AAAGATTGAAGCCACA
* * * * *
77027163 ATGGCGAATCTTG-TCCCCCGACATTACAA-TTAAAGAGATCGAAGCCACA
1 ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA-AGATTGAAGCCACA
77027212 ACGGCGAATCT
1 ACGGCGAATCT
77027223 CACTTCCCCT
Statistics
Matches: 209, Mismatches: 90, Indels: 20
0.66 0.28 0.06
Matches are distributed among these distances:
47 1 0.00
48 4 0.02
49 70 0.33
50 129 0.62
51 4 0.02
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (50 bp):
ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACA
Found at i:77027135 original size:99 final size:99
Alignment explanation
Indices: 77026828--77027228 Score: 502
Period size: 99 Copynumber: 4.0 Consensus size: 99
77026818 ATGAAGTTAC
* * * * * *
77026828 CTTCCCTGGCAGTGTAGTGGAGCAAATTAAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCA
1 CTTCTCTGGCAGTGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
* * *
77026893 ATTAAAGAGATTGAAGACACAACGGTGAATCTCA
66 ATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
* * * * * *
77026927 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGATATTGC
1 CTTCTCTGGCAGTGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGC
* * * *
77026992 AATTTAAA-AGATTGAAGCCGCAACGGCAAATCTTA
65 AA-TTAAAGAGATCGAAGCCACAACGGCGAATCTCA
* * * *
77027027 CTT-TCCTGGC-GATGCAGTGGATTAGATTGAAGCTACAATGGCGACTCTTGTTCCCAGACATTG
1 CTTCT-CTGGCAG-TGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTG
77027090 CAATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
64 CAATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
* * * *
77027126 CTTCTCTGGCAGTGCAGTGGATCAAATTGAAGCTACAATGGCGAATCTTGTCCCCCGACATTACA
1 CTTCTCTGGCAGTGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
77027191 ATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
66 ATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
77027225 CTTC
1 CTTC
77027229 CCCTTAAGCA
Statistics
Matches: 265, Mismatches: 30, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
98 5 0.02
99 178 0.67
100 77 0.29
101 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (99 bp):
CTTCTCTGGCAGTGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
ATTAAAGAGATCGAAGCCACAACGGCGAATCTCA
Found at i:77027730 original size:35 final size:35
Alignment explanation
Indices: 77027691--77027759 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
77027681 ACTTGCCTCT
77027691 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
77027726 TCCCACTCTCCCATGCTGTCTGCCACCAGTACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
77027760 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:77029142 original size:13 final size:15
Alignment explanation
Indices: 77029114--77029164 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
77029104 ATTATTTTAA
*
77029114 TATTATTATTACTAT
1 TATTATTACTACTAT
77029129 TA-TATTAC-ACTAT
1 TATTATTACTACTAT
*
77029142 TATTATTACTACTAC
1 TATTATTACTACTAT
77029157 TATTATTA
1 TATTATTA
77029165 TTATTTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 7 0.22
14 11 0.34
15 14 0.44
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATTACTACTAT
Found at i:77036338 original size:21 final size:21
Alignment explanation
Indices: 77036314--77036356 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
77036304 GAAATTAATT
77036314 ATAAGTTTTTTGGAAAGTTGA
1 ATAAGTTTTTTGGAAAGTTGA
77036335 ATAAGTTTTTTGGAAAGTTGA
1 ATAAGTTTTTTGGAAAGTTGA
77036356 A
1 A
77036357 GTATAATTTT
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:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (21 bp):
ATAAGTTTTTTGGAAAGTTGA
Found at i:77039458 original size:47 final size:47
Alignment explanation
Indices: 77039306--77039482 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
77039296 TGTAACCCGC
* ** *
77039306 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
77039352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-AGTTCACAT
* * *
77039402 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
77039446 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77039483 TGTTCAACCG
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 1 0.01
46 36 0.32
47 55 0.50
48 2 0.02
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 (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:77039478 original size:94 final size:93
Alignment explanation
Indices: 77039314--77039484 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 93
77039304 GCCCATAAGT
** *
77039314 GAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
77039379 CGAGTTCTGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
77039407 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CAGTTCACATCCATAAGTGAACTCGGACTCAACTCA
*
77039472 ATGAGTTCGGATG
65 ACGAGTTCGGATG
77039485 TTCAACCGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 27 0.39
94 43 0.61
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77039938 original size:30 final size:30
Alignment explanation
Indices: 77039904--77039963 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
77039894 ACTTAATACG
77039904 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
77039934 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
77039964 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:77040628 original size:47 final size:47
Alignment explanation
Indices: 77040476--77040652 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
77040466 TGTAACCCGC
* ** *
77040476 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
77040522 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-AGTTCACAT
* * *
77040572 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
77040616 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77040653 TGTTCAACCG
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 1 0.01
46 36 0.32
47 55 0.50
48 2 0.02
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 (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:77040648 original size:94 final size:93
Alignment explanation
Indices: 77040484--77040654 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 93
77040474 GCCCATAAGT
** *
77040484 GAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
77040549 CGAGTTCTGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
77040577 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CAGTTCACATCCATAAGTGAACTCGGACTCAACTCA
*
77040642 ATGAGTTCGGATG
65 ACGAGTTCGGATG
77040655 TTCAACCGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 27 0.39
94 43 0.61
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77041108 original size:30 final size:30
Alignment explanation
Indices: 77041074--77041133 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
77041064 ACTTAATACG
77041074 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
77041104 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
77041134 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:77062246 original size:2 final size:2
Alignment explanation
Indices: 77062239--77062264 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77062229 AGCTAGGTTA
77062239 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
77062265 TTGATGCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77063024 original size:22 final size:22
Alignment explanation
Indices: 77062984--77063025 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77062974 AATGAAAAAT
* **
77062984 AAAAAGAATTAAATTAAACTAA
1 AAAAAAAATTAAACAAAACTAA
77063006 AAAAAAAATTAAACAAAACT
1 AAAAAAAATTAAACAAAACT
77063026 CACACAGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAAAATTAAACAAAACTAA
Found at i:77064311 original size:14 final size:15
Alignment explanation
Indices: 77064292--77064332 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
77064282 AATGACGTTG
77064292 TAATAATTTAAAT-T
1 TAATAATTTAAATAT
*
77064306 TAATAAATT-AATAT
1 TAATAATTTAAATAT
77064320 TAATAATATTAAA
1 TAATAAT-TTAAA
77064333 AATTTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 15 0.68
15 2 0.09
16 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTTAAATAT
Found at i:77064816 original size:107 final size:107
Alignment explanation
Indices: 77064630--77064845 Score: 432
Period size: 107 Copynumber: 2.0 Consensus size: 107
77064620 ATATTAACCT
77064630 AGTTTTAGGTATACTTGTAGGCCCACTAGTGCTTCGACTTGTTAATTTATTTGATCCGATTTAAT
1 AGTTTTAGGTATACTTGTAGGCCCACTAGTGCTTCGACTTGTTAATTTATTTGATCCGATTTAAT
77064695 TCGAATTATCATTTTTAAAAATAAAAATTATTTTTTAAAATA
66 TCGAATTATCATTTTTAAAAATAAAAATTATTTTTTAAAATA
77064737 AGTTTTAGGTATACTTGTAGGCCCACTAGTGCTTCGACTTGTTAATTTATTTGATCCGATTTAAT
1 AGTTTTAGGTATACTTGTAGGCCCACTAGTGCTTCGACTTGTTAATTTATTTGATCCGATTTAAT
77064802 TCGAATTATCATTTTTAAAAATAAAAATTATTTTTTAAAATA
66 TCGAATTATCATTTTTAAAAATAAAAATTATTTTTTAAAATA
77064844 AG
1 AG
77064846 GGTTAGAATT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (107 bp):
AGTTTTAGGTATACTTGTAGGCCCACTAGTGCTTCGACTTGTTAATTTATTTGATCCGATTTAAT
TCGAATTATCATTTTTAAAAATAAAAATTATTTTTTAAAATA
Found at i:77065676 original size:3 final size:3
Alignment explanation
Indices: 77065668--77065695 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
77065658 AAATTTATCA
77065668 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
77065696 TCTATGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:77067070 original size:12 final size:13
Alignment explanation
Indices: 77067053--77067085 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
77067043 GAATCAAACT
77067053 ATAAAAAT-TGAA
1 ATAAAAATCTGAA
77067065 ATAAAAATCTGAA
1 ATAAAAATCTGAA
77067078 ATAAAAAT
1 ATAAAAAT
77067086 AATATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (13 bp):
ATAAAAATCTGAA
Found at i:77067201 original size:189 final size:189
Alignment explanation
Indices: 77066881--77067259 Score: 758
Period size: 189 Copynumber: 2.0 Consensus size: 189
77066871 ACGTTAATTT
77066881 AATCTGAAATAAAAATAATATCAATAGATGGATGAAAATGTTAATGCGCTGTATGCATGGGCTTA
1 AATCTGAAATAAAAATAATATCAATAGATGGATGAAAATGTTAATGCGCTGTATGCATGGGCTTA
77066946 TTATTATTATTATTATATGTATTTCCTAAGTAATTATGAGCTAGATCCCACTGAAAAACCAAAGT
66 TTATTATTATTATTATATGTATTTCCTAAGTAATTATGAGCTAGATCCCACTGAAAAACCAAAGT
77067011 CAAAAACTTAGTTTTCCAATAAAATAAGAAAAGAATCAAACTATAAAAATTGAAATAAA
131 CAAAAACTTAGTTTTCCAATAAAATAAGAAAAGAATCAAACTATAAAAATTGAAATAAA
77067070 AATCTGAAATAAAAATAATATCAATAGATGGATGAAAATGTTAATGCGCTGTATGCATGGGCTTA
1 AATCTGAAATAAAAATAATATCAATAGATGGATGAAAATGTTAATGCGCTGTATGCATGGGCTTA
77067135 TTATTATTATTATTATATGTATTTCCTAAGTAATTATGAGCTAGATCCCACTGAAAAACCAAAGT
66 TTATTATTATTATTATATGTATTTCCTAAGTAATTATGAGCTAGATCCCACTGAAAAACCAAAGT
77067200 CAAAAACTTAGTTTTCCAATAAAATAAGAAAAGAATCAAACTATAAAAATTGAAATAAA
131 CAAAAACTTAGTTTTCCAATAAAATAAGAAAAGAATCAAACTATAAAAATTGAAATAAA
77067259 A
1 A
77067260 GGGGTGTTTA
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 190 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (189 bp):
AATCTGAAATAAAAATAATATCAATAGATGGATGAAAATGTTAATGCGCTGTATGCATGGGCTTA
TTATTATTATTATTATATGTATTTCCTAAGTAATTATGAGCTAGATCCCACTGAAAAACCAAAGT
CAAAAACTTAGTTTTCCAATAAAATAAGAAAAGAATCAAACTATAAAAATTGAAATAAA
Found at i:77072133 original size:3 final size:3
Alignment explanation
Indices: 77072125--77072160 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
77072115 TTTGTTGCAC
77072125 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77072161 TGTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:77072687 original size:13 final size:14
Alignment explanation
Indices: 77072666--77072712 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
77072656 GAGTAAGAAT
77072666 ATATATTAAGGATA
1 ATATATTAAGGATA
77072680 ATAT-TTAAGGATA
1 ATATATTAAGGATA
*
77072693 AAATATTAA--A-A
1 ATATATTAAGGATA
77072704 ATATATTAA
1 ATATATTAA
77072713 AAATGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 12 0.40
14 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (14 bp):
ATATATTAAGGATA
Found at i:77073655 original size:27 final size:28
Alignment explanation
Indices: 77073616--77073673 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
77073606 TACCCGTAAG
77073616 CCCCTGGTGGTGGAGGAGGATA-CGCATA
1 CCCCTGGTGGTGGAGGAGGATATC-CATA
* *
77073644 CCCC-GGTGGTGGATGTGGATATCCATA
1 CCCCTGGTGGTGGAGGAGGATATCCATA
77073671 CCC
1 CCC
77073674 AGGCGGAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (28 bp):
CCCCTGGTGGTGGAGGAGGATATCCATA
Found at i:77076082 original size:42 final size:42
Alignment explanation
Indices: 77076023--77076106 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
77076013 ACTTTAACTT
77076023 AACATAATTTAATCCATCTACTTTTATAATACTATTATAATA
1 AACATAATTTAATCCATCTACTTTTATAATACTATTATAATA
77076065 AACATAATTTAATCCATCTACTTTTATAATACTATTATAATA
1 AACATAATTTAATCCATCTACTTTTATAATACTATTATAATA
77076107 TCCAATTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (42 bp):
AACATAATTTAATCCATCTACTTTTATAATACTATTATAATA
Found at i:77085851 original size:29 final size:29
Alignment explanation
Indices: 77085792--77085856 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
77085782 AAAAATCTGG
* * **
77085792 TTAAATTAGTTCCTATACTATTAAATGGA
1 TTAAATTAGTTCATACACTATTAAAAAGA
*
77085821 TTAACTTAGTTCATACACTATTAAAAAGA
1 TTAAATTAGTTCATACACTATTAAAAAGA
77085850 TTCAAAT
1 TT-AAAT
77085857 AAAGTTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (29 bp):
TTAAATTAGTTCATACACTATTAAAAAGA
Found at i:77101418 original size:92 final size:92
Alignment explanation
Indices: 77101261--77101437 Score: 291
Period size: 92 Copynumber: 1.9 Consensus size: 92
77101251 TACATTTTTT
* * * *
77101261 TGTTCTGTCATTTGAATTGATTTCTTTGCTTCATTGATGAGAACTGCACCGTATTGCGGTAGGAT
1 TGTTCTGTCATTTGAATCGATTTATTTGCTTCATTGATGAGAACTGCACCATATGGCGGTAGGAT
*
77101326 GCTATAAAGCCTACATGCTCGGTGCCG
66 GCTATAAAACCTACATGCTCGGTGCCG
* *
77101353 TGTTCTGTCATTTGAATCGATTTATTTGCTTCATTGATGAGAACTGTACCATATGGTGGTAGGAT
1 TGTTCTGTCATTTGAATCGATTTATTTGCTTCATTGATGAGAACTGCACCATATGGCGGTAGGAT
77101418 GCTATAAAACCTACATGCTC
66 GCTATAAAACCTACATGCTC
77101438 AGTGTTGTGG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (92 bp):
TGTTCTGTCATTTGAATCGATTTATTTGCTTCATTGATGAGAACTGCACCATATGGCGGTAGGAT
GCTATAAAACCTACATGCTCGGTGCCG
Found at i:77125186 original size:3 final size:3
Alignment explanation
Indices: 77125178--77125209 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
77125168 TGACGTAAAA
77125178 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
77125210 ACTGACCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:77126104 original size:53 final size:53
Alignment explanation
Indices: 77126046--77126156 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 53
77126036 GTAACAAACT
* * * *
77126046 TATATTTACACACACATATTTATATAGATATAATTGTGATATATTTGTATGTA
1 TATATTCACACACACATATTTATACAGATATAATTATCATATATTTGTATGTA
* * * * * *
77126099 TATATTCACATATATATATTTGTACAGATGTAATTATCATATATTTTTATGTA
1 TATATTCACACACACATATTTATACAGATATAATTATCATATATTTGTATGTA
77126152 TATAT
1 TATAT
77126157 AATATAGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (53 bp):
TATATTCACACACACATATTTATACAGATATAATTATCATATATTTGTATGTA
Found at i:77126724 original size:24 final size:24
Alignment explanation
Indices: 77126697--77126748 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
77126687 TTAGTAAGTC
*
77126697 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
77126721 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
77126745 AAAT
1 AAAT
77126749 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:77128690 original size:24 final size:24
Alignment explanation
Indices: 77128663--77128714 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
77128653 TTAGTAAGTC
*
77128663 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
77128687 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
77128711 AAAT
1 AAAT
77128715 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:77130114 original size:2 final size:2
Alignment explanation
Indices: 77130107--77130131 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77130097 ATGAGTGAAA
77130107 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
77130132 ATTGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77132494 original size:23 final size:23
Alignment explanation
Indices: 77132468--77132520 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
77132458 TTATGTGTTC
77132468 ATGCTATA-TACTAAAAAAATAAT
1 ATGCTATATTACTAAAAAAA-AAT
**
77132491 ATGCT-TATTTGTAAAAAAAAAT
1 ATGCTATATTACTAAAAAAAAAT
*
77132513 ATGTTATA
1 ATGCTATA
77132521 ATTTTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (23 bp):
ATGCTATATTACTAAAAAAAAAT
Found at i:77133932 original size:22 final size:21
Alignment explanation
Indices: 77133892--77133937 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
77133882 TTAGGGAGGG
77133892 TTTTATAGATTAAAATATAAAT
1 TTTTATAGATTAAAATAT-AAT
* **
77133914 TTTTATATATTAATTTATAAT
1 TTTTATAGATTAAAATATAAT
77133935 TTT
1 TTT
77133938 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTATAGATTAAAATATAAT
Found at i:77139166 original size:25 final size:26
Alignment explanation
Indices: 77139129--77139180 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
77139119 TCAAACATGC
77139129 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
77139155 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
77139180 A
1 A
77139181 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:77140701 original size:25 final size:26
Alignment explanation
Indices: 77140667--77140721 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
77140657 TGAAATTCCA
77140667 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
77140692 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77140718 ATCA
1 ATCA
77140722 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77145442 original size:22 final size:21
Alignment explanation
Indices: 77145413--77145479 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 21
77145403 TGCACAAACG
77145413 AACAGAGAGCACTTAAGTGCTA
1 AACAGAGAGCAC-TAAGTGCTA
*
77145435 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-A-GTGCTA
77145457 AACAGAGAGCACTAATGTGCTA
1 AACAGAGAGCACTAA-GTGCTA
77145479 A
1 A
77145480 TAATCAGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 37 0.93
23 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
AACAGAGAGCACTAAGTGCTA
Found at i:77146621 original size:7 final size:7
Alignment explanation
Indices: 77146611--77146704 Score: 59
Period size: 7 Copynumber: 13.3 Consensus size: 7
77146601 TTCTTATGTT
77146611 TTATATA
1 TTATATA
77146618 TTATATA
1 TTATATA
*
77146625 TAATATA
1 TTATATA
*
77146632 ATATAATA
1 TTAT-ATA
*
77146640 TAATAATA
1 TTAT-ATA
*
77146648 TAATATA
1 TTATATA
77146655 TTATATA
1 TTATATA
77146662 TTA-ATA
1 TTATATA
*
77146668 CTTAAATA
1 -TTATATA
77146676 TTA-AGT-
1 TTATA-TA
*
77146682 TAATATA
1 TTATATA
*
77146689 ATATATA
1 TTATATA
*
77146696 ATATATA
1 TTATATA
77146703 TT
1 TT
77146705 TTTATATAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
6 7 0.10
7 48 0.68
8 16 0.23
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (7 bp):
TTATATA
Found at i:77146630 original size:5 final size:5
Alignment explanation
Indices: 77146613--77146659 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
77146603 CTTATGTTTT
* *
77146613 ATATA TTAT- ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA TTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
77146660 TATTAATACT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
3 2 0.06
4 5 0.14
5 29 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATATA
Found at i:77146647 original size:8 final size:9
Alignment explanation
Indices: 77146612--77146667 Score: 60
Period size: 10 Copynumber: 6.0 Consensus size: 9
77146602 TCTTATGTTT
*
77146612 TATATATTA
1 TATATAATA
77146621 TATATAATA
1 TATATAATA
77146630 TAATATAATA
1 T-ATATAATA
77146640 TA-ATAATA
1 TATATAATA
*
77146648 TAATATATTA
1 T-ATATAATA
77146658 TATATTAATA
1 TATA-TAATA
77146668 CTTAAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.17
9 14 0.35
10 19 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATATAATA
Found at i:77146994 original size:11 final size:11
Alignment explanation
Indices: 77146978--77147002 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77146968 CGAGAATGCA
77146978 TTTTTTTTCTT
1 TTTTTTTTCTT
77146989 TTTTTTTTCTT
1 TTTTTTTTCTT
77147000 TTT
1 TTT
77147003 AACAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:77148807 original size:16 final size:17
Alignment explanation
Indices: 77148776--77148808 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77148766 TTCATAAGCA
*
77148776 TATATCATTCATTTCGT
1 TATATCAATCATTTCGT
77148793 TATATCAAT-ATTTCGT
1 TATATCAATCATTTCGT
77148809 GCACCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCGT
Found at i:77150286 original size:13 final size:14
Alignment explanation
Indices: 77150270--77150305 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
77150260 CAATCTCATA
77150270 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
77150283 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
77150296 TCTC-ATTTCA
1 TCTCAATTTCA
77150306 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:77150295 original size:18 final size:19
Alignment explanation
Indices: 77150257--77150297 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
77150247 TGGTTCATGT
77150257 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
77150276 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
77150294 TTTC
1 TTTC
77150298 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:77150432 original size:23 final size:23
Alignment explanation
Indices: 77150402--77150528 Score: 227
Period size: 23 Copynumber: 5.5 Consensus size: 23
77150392 GCGGATTCCT
77150402 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
*
77150425 CCCAAACACACCAGAATATTCAA
1 CCCAAACACACCAGAATATCCAA
*
77150448 CCCAAACACACTAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
*
77150471 CACAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
77150494 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
77150517 CCCAAACACACC
1 CCCAAACACACC
77150529 CGGATTATTA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.48, C:0.39, G:0.04, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:77150816 original size:8 final size:10
Alignment explanation
Indices: 77150787--77150827 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
77150777 ATTCTAATAA
*
77150787 TCACATATTT
1 TCACACATTT
77150797 TCACACATTT
1 TCACACATTT
77150807 TCACA-A-TT
1 TCACACATTT
*
77150815 TCATACATTT
1 TCACACATTT
77150825 TCA
1 TCA
77150828 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:77151048 original size:15 final size:15
Alignment explanation
Indices: 77151024--77151076 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
77151014 ATATATATAT
*
77151024 TATAATTTCAATCAA
1 TATAAATTCAATCAA
77151039 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
77151054 AATGATTTCAATCAA
1 TATAAATTCAATCAA
77151069 TATAAATT
1 TATAAATT
77151077 TGATAAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:77151777 original size:6 final size:6
Alignment explanation
Indices: 77151766--77151792 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
77151756 AAACCCCAAA
77151766 TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
77151793 CTTTCTCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:77151850 original size:15 final size:15
Alignment explanation
Indices: 77151811--77151856 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
77151801 CCTGTTTCTT
77151811 CTCTGTTTCGTTTCCA
1 CTCTGTTTC-TTTCCA
*
77151827 CATTCTGTTTCTTTTCA
1 C--TCTGTTTCTTTCCA
77151844 CTCTGTTTCTTTC
1 CTCTGTTTCTTTC
77151857 TTTTATTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
16 1 0.04
17 6 0.23
18 8 0.31
ACGTcount: A:0.07, C:0.28, G:0.09, T:0.57
Consensus pattern (15 bp):
CTCTGTTTCTTTCCA
Found at i:77157088 original size:46 final size:46
Alignment explanation
Indices: 77157036--77157309 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
77157026 AGTGTGCTCT
77157036 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
77157082 CTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
77157128 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
77157174 CTGATATGATATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
77157220 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
77157266 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
77157310 TCACGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:77160277 original size:28 final size:28
Alignment explanation
Indices: 77160245--77160329 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
77160235 TGTGAATGAA
77160245 TATGTGTGCGAGATCGGGTGTAAGGCAC
1 TATGTGTGCGAGATCGGGTGTAAGGCAC
* **
77160273 TATGTGTGCGAAAT--TAT-TAACCGAGCAC
1 TATGTGTGCGAGATCGGGTGTAA--G-GCAC
*
77160301 TATGTGTACGAGATCGGGTGTAAGGCAC
1 TATGTGTGCGAGATCGGGTGTAAGGCAC
77160329 T
1 T
77160330 GCGTGTGTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 1 0.02
28 34 0.77
29 1 0.02
30 1 0.02
31 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
TATGTGTGCGAGATCGGGTGTAAGGCAC
Found at i:77168400 original size:14 final size:14
Alignment explanation
Indices: 77168381--77168410 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77168371 AACAATTATC
*
77168381 TTTAATTTTGGGTT
1 TTTAATTCTGGGTT
77168395 TTTAATTCTGGGTT
1 TTTAATTCTGGGTT
77168409 TT
1 TT
77168411 ATTTGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.20, T:0.63
Consensus pattern (14 bp):
TTTAATTCTGGGTT
Found at i:77172745 original size:40 final size:40
Alignment explanation
Indices: 77172690--77172770 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
77172680 TATGATGCAC
77172690 AGGCATAAATAACACAAATAAAACTAAGGTGAACCCAAAA
1 AGGCATAAATAACACAAATAAAACTAAGGTGAACCCAAAA
77172730 AGGCATAAATAACACAAATAAAACTAAGGTGAACCCAAAA
1 AGGCATAAATAACACAAATAAAACTAAGGTGAACCCAAAA
77172770 A
1 A
77172771 TAAATCATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.12
Consensus pattern (40 bp):
AGGCATAAATAACACAAATAAAACTAAGGTGAACCCAAAA
Found at i:77172768 original size:21 final size:21
Alignment explanation
Indices: 77172704--77172768 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
77172694 ATAAATAACA
77172704 CAAATAAAACTAAGGTGAACC
1 CAAATAAAACTAAGGTGAACC
** * *
77172725 CAAA-AAGGCATAA-AT-AACA
1 CAAATAAAAC-TAAGGTGAACC
77172744 CAAATAAAACTAAGGTGAACC
1 CAAATAAAACTAAGGTGAACC
77172765 CAAA
1 CAAA
77172769 AATAAATCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 10 0.31
20 8 0.25
21 14 0.44
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.12
Consensus pattern (21 bp):
CAAATAAAACTAAGGTGAACC
Found at i:77179015 original size:32 final size:27
Alignment explanation
Indices: 77178944--77178999 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
77178934 AGAAATCAAC
*
77178944 GTACCCTTTTTATTTTGGTATTGTTAT
1 GTACCTTTTTTATTTTGGTATTGTTAT
77178971 GTACCTTTTTTATTTTGGTATTGTTAT
1 GTACCTTTTTTATTTTGGTATTGTTAT
77178998 GT
1 GT
77179000 GATGTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.61
Consensus pattern (27 bp):
GTACCTTTTTTATTTTGGTATTGTTAT
Found at i:77179416 original size:80 final size:80
Alignment explanation
Indices: 77179311--77179466 Score: 276
Period size: 80 Copynumber: 1.9 Consensus size: 80
77179301 AAAAGGATTC
*
77179311 ATCCACACATTAAAATCATGCTTTAATTTTGTTATAATATTATTGTTTTTGTATGCTTTAAAAAT
1 ATCCACACATTAAAATCATGCTTTAATTTTGTTATAATATTATTATTTTTGTATGCTTTAAAAAT
77179376 ATAAATTTCAAATTG
66 ATAAATTTCAAATTG
* * *
77179391 ATCCGCACATTAAAATCGTGTTTTAATTTTGTTATAATATTATTATTTTTGTATGCTTTAAAAAT
1 ATCCACACATTAAAATCATGCTTTAATTTTGTTATAATATTATTATTTTTGTATGCTTTAAAAAT
77179456 ATAAATTTCAA
66 ATAAATTTCAA
77179467 CAATAATGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.47
Consensus pattern (80 bp):
ATCCACACATTAAAATCATGCTTTAATTTTGTTATAATATTATTATTTTTGTATGCTTTAAAAAT
ATAAATTTCAAATTG
Found at i:77179953 original size:16 final size:16
Alignment explanation
Indices: 77179934--77179997 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
77179924 TTGTAAGTTC
77179934 AATTATTTTAGATTTT
1 AATTATTTTAGATTTT
*
77179950 AATTATTTT-GAATTTG
1 AATTATTTTAG-ATTTT
* *
77179966 AGTTACTTGTA-ATTTT
1 AATTA-TTTTAGATTTT
* *
77179982 AATTAATTTAAATTTT
1 AATTATTTTAGATTTT
77179998 CAAGGTCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
15 4 0.11
16 30 0.81
17 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (16 bp):
AATTATTTTAGATTTT
Found at i:77186951 original size:30 final size:31
Alignment explanation
Indices: 77186912--77186980 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 31
77186902 AGCTCAACAT
77186912 TTTAATGACTTAGATAAAA-CTTTTGAATAA
1 TTTAATGACTTAGATAAAATCTTTTGAATAA
* * *
77186942 TTTAGTGACTTATATAAAATTTTTTGAATAA
1 TTTAATGACTTAGATAAAATCTTTTGAATAA
77186973 TTTAATGA
1 TTTAATGA
77186981 TAATTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (31 bp):
TTTAATGACTTAGATAAAATCTTTTGAATAA
Found at i:77187452 original size:21 final size:22
Alignment explanation
Indices: 77187426--77187466 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
77187416 TTCAAAGTTT
77187426 TTTTAATAAT-TTTATTATAGA
1 TTTTAATAATATTTATTATAGA
*
77187447 TTTTAATAATATTTTTTATA
1 TTTTAATAATATTTATTATA
77187467 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAATAATATTTATTATAGA
Found at i:77187468 original size:24 final size:25
Alignment explanation
Indices: 77187435--77187484 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
77187425 TTTTTAATAA
77187435 TTTTATTATAGAT-TTTAATAA-TATT
1 TTTTATTATA-ATATTTAA-AATTATT
77187460 TTTTA-TATAATATTTAAAATTATT
1 TTTTATTATAATATTTAAAATTATT
77187484 T
1 T
77187485 ATAGCTCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTATTATAATATTTAAAATTATT
Found at i:77188250 original size:22 final size:21
Alignment explanation
Indices: 77188217--77188257 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
77188207 TATTTCGTCT
77188217 TTGAATTATATTATTTTTTATA
1 TTGAATTATATT-TTTTTTATA
77188239 TTGATATT-TATTTTTTTTA
1 TTGA-ATTATATTTTTTTTA
77188258 ATTTAGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTGAATTATATTTTTTTTATA
Found at i:77188443 original size:9 final size:9
Alignment explanation
Indices: 77188422--77188571 Score: 52
Period size: 9 Copynumber: 15.6 Consensus size: 9
77188412 AAGGTTGTAA
77188422 AAAAATTATT
1 AAAAATTA-T
77188432 AAAAATTAT
1 AAAAATTAT
***
77188441 AAAAAAGCT
1 AAAAATTAT
*
77188450 GAAAATTAT
1 AAAAATTAT
*
77188459 AAAAAAATTGT
1 --AAAAATTAT
77188470 AAAAA-TAGT
1 AAAAATTA-T
*
77188479 AAAAA-AATT
1 AAAAATTA-T
* *
77188488 AAAATTTGT
1 AAAAATTAT
77188497 AAATAATTAT
1 AAA-AATTAT
* *
77188507 CAAATATTTT
1 -AAAAATTAT
*
77188517 AAAAATATTTT
1 -AAAA-ATTAT
* *
77188528 AAAATTGTAA
1 AAAAAT-TAT
77188538 AAAAAGTTATT
1 AAAAA-TTA-T
77188549 AAAAATTAT
1 AAAAATTAT
*
77188558 AAAAATTGT
1 AAAAATTAT
77188567 AAAAA
1 AAAAA
77188572 AATTAACAAA
Statistics
Matches: 103, Mismatches: 27, Indels: 21
0.68 0.18 0.14
Matches are distributed among these distances:
8 1 0.01
9 48 0.47
10 33 0.32
11 21 0.20
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:77188499 original size:18 final size:20
Alignment explanation
Indices: 77188418--77188487 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 20
77188408 AAGAAAGGTT
*
77188418 GTAAAAAAATTATTAAAAATTA
1 GTAAAAAAATT-GTAAAAA-TA
** *
77188440 -TAAAAAAGCTG-AAAATTA
1 GTAAAAAAATTGTAAAAATA
77188458 -TAAAAAAATTGTAAAAATA
1 GTAAAAAAATTGTAAAAATA
77188477 GTAAAAAAATT
1 GTAAAAAAATT
77188488 AAAATTTGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 11 0.28
19 10 0.26
20 10 0.26
21 8 0.21
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (20 bp):
GTAAAAAAATTGTAAAAATA
Found at i:77188576 original size:20 final size:20
Alignment explanation
Indices: 77188416--77188562 Score: 90
Period size: 20 Copynumber: 7.5 Consensus size: 20
77188406 TAAAGAAAGG
77188416 TTGTAAAAAAATTATTAAAAA
1 TTGTAAAAAAATTA-TAAAAA
* ** *
77188437 TTAT-AAAAAA-GCTGAAAA
1 TTGTAAAAAAATTATAAAAA
* *
77188455 TTATAAAAAAATTGTAAAAA
1 TTGTAAAAAAATTATAAAAA
* *
77188475 TAGTAAAAAAA-T-TAAAAT
1 TTGTAAAAAAATTATAAAAA
* *
77188493 TTGT-AAATAATTATCAAATA
1 TTGTAAAAAAATTAT-AAAAA
* * *
77188513 TTTTAAAAATATT-TTAAAA
1 TTGTAAAAAAATTATAAAAA
77188532 TTGTAAAAAAAGTTATTAAAAA
1 TTGTAAAAAAA-TTA-TAAAAA
*
77188554 TTATAAAAA
1 TTGTAAAAA
77188563 TTGTAAAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
17 5 0.05
18 18 0.19
19 20 0.21
20 29 0.31
21 9 0.10
22 13 0.14
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
TTGTAAAAAAATTATAAAAA
Found at i:77194461 original size:20 final size:22
Alignment explanation
Indices: 77194420--77194461 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
77194410 ACGAAATAAT
77194420 TTTAACAGTATTAATAATTGAA
1 TTTAACAGTATTAATAATTGAA
77194442 TTTAA-AGT-TTAA-AATCTGAA
1 TTTAACAGTATTAATAAT-TGAA
77194462 AAGTAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.16
20 8 0.42
21 3 0.16
22 5 0.26
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTAACAGTATTAATAATTGAA
Found at i:77194609 original size:22 final size:22
Alignment explanation
Indices: 77194584--77194636 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
77194574 TTAAATTTTT
77194584 TACTTAAATAATGGGTA-TTTGG
1 TACTTAAATAATGGGTACTTT-G
*
77194606 TACTTAAATAATGGGTACTTTT
1 TACTTAAATAATGGGTACTTTG
77194628 TACTTAAAT
1 TACTTAAAT
77194637 TTAAAAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (22 bp):
TACTTAAATAATGGGTACTTTG
Found at i:77198129 original size:2 final size:2
Alignment explanation
Indices: 77198116--77198147 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
77198106 TCATTTTAGA
*
77198116 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77198148 TAAGTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:77202945 original size:29 final size:30
Alignment explanation
Indices: 77202894--77202962 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
77202884 TGAATATAAG
*
77202894 TTTGATTTAATGTGTAATATTATATATAAAAT
1 TTTGATTT--TGTGTAATATTATAAATAAAAT
* *
77202926 TTT-ATTTTGTGTGATTTTATAAATAAAAT
1 TTTGATTTTGTGTAATATTATAAATAAAAT
77202955 TTTGATTT
1 TTTGATTT
77202963 GATTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.67
30 4 0.12
31 4 0.12
32 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (30 bp):
TTTGATTTTGTGTAATATTATAAATAAAAT
Found at i:77211563 original size:17 final size:17
Alignment explanation
Indices: 77211543--77211576 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77211533 ATTTTGATCT
77211543 AAGATATGTTCTTTTAC
1 AAGATATGTTCTTTTAC
77211560 AAGATATGTTCTTTTAC
1 AAGATATGTTCTTTTAC
77211577 TCGTCGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
AAGATATGTTCTTTTAC
Found at i:77212000 original size:31 final size:31
Alignment explanation
Indices: 77211962--77212037 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
77211952 GAAAAAATTT
*
77211962 AATAATTCGATAACT-TAAATGAAAAT-TTTTA
1 AATAATTCAATAA-TGTAAAT-AAAATCTTTTA
*
77211993 AATAATTCAATAATGTAAATAAATTCTTTTA
1 AATAATTCAATAATGTAAATAAAATCTTTTA
*
77212024 AATAATTTAATAAT
1 AATAATTCAATAAT
77212038 TATCTTATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (31 bp):
AATAATTCAATAATGTAAATAAAATCTTTTA
Found at i:77218526 original size:129 final size:130
Alignment explanation
Indices: 77218307--77218628 Score: 472
Period size: 129 Copynumber: 2.5 Consensus size: 130
77218297 ATTCTAATGT
* * *
77218307 TATGTTTAAGAACGTGAACTTGAAA-ATTTG-GATTTAGGTTTCAATTACTATATAAATCGTGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAG-TTTAGATTTCAATTACTCTATAAATCGTGAG
* *
77218370 GAGAATGGAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTA
65 GAGAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTACATATCTCGAATTCAATTA
77218435 G
130 G
*
77218436 TATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTAC-CTATAAATC-TCGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGT-GAG
* * *
77218499 TAGAATGAAATTTCTACTTAAAATTAGTTGAGTTTCAGTATGATTACATATTTCGAATTCAATTA
65 GAGAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTACATATCTCGAATTCAATTA
77218564 G
130 G
* * * * *
77218565 CATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAG
77218629 AAGAGTAAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
128 1 0.01
129 138 0.80
130 32 0.18
131 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (130 bp):
TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGG
AGAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTACATATCTCGAATTCAATTAG
Found at i:77218723 original size:85 final size:85
Alignment explanation
Indices: 77218561--77218724 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
77218551 TCGAATTCAA
**
77218561 TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGT
1 TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCAC
*
77218626 GAGAAGAGTAAAATCTATAG
66 GAGAAGAATAAAATCTATAG
* * * * * *
77218646 TTAGTATGATTAAGAATATGAATTTGAAA-CATTTGAGTTTGGATTTC-AGTTACTCTATAAGTC
1 TTAGCATGATTAAGAACATGAACTTGAAAGC-TCTGAGTTTAGATTTCAAG-TACTCTATAAATC
*
77218709 ACGAGGAGAATAAAAT
64 ACGAGAAGAATAAAAT
77218725 GTTTACTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.04
85 64 0.96
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (85 bp):
TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCAC
GAGAAGAATAAAATCTATAG
Found at i:77218801 original size:214 final size:214
Alignment explanation
Indices: 77218432--77218853 Score: 591
Period size: 214 Copynumber: 2.0 Consensus size: 214
77218422 TCGAATTCAA
* * *
77218432 TTAGTATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTACCTATAAATCTCG
1 TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACCTATAAATCACG
* * *
77218497 AGTAGAATGAAATTTCTACTTAAAATTAGTTGAGTTTCAGTATGATTACATATTTCGAATTCAAT
66 AGGAGAATAAAATTTCTACTTAAAATTAGTTAAGTTTCAGTATGATTACATATTTCGAATTCAAT
*
77218562 TAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTG
131 TAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTG
77218627 AGAAGAGTAAAATCTATAG
196 AGAAGAGTAAAATCTATAG
* * * *
77218646 TTAGTATGATTAAGAATATGAATTTGAAACATTTGAGTTTGGATTTCAGTTACTCTATAAGTCAC
1 TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTAC-CTATAAATCAC
* * *
77218711 GAGGAGAATAAAATGTT-TACTT-AAATTA-TTCAAGTTTCTGTTTGATTATATATTTCGAATT-
65 GAGGAGAATAAAAT-TTCTACTTAAAATTAGTT-AAGTTTCAGTATGATTACATATTTCGAATTC
* * * * *
77218772 TATATAGTATGATTAAGAACAGGAACTTGAAAGCTTTGAGTTTAGTTTTCAATTACTCTATAAAT
128 AAT-TAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAAT
**
77218837 CGTGAGGGGAGTAAAAT
192 CGTGAGAAGAGTAAAAT
77218854 GCATATTTAA
Statistics
Matches: 183, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
213 4 0.02
214 151 0.83
215 26 0.14
216 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (214 bp):
TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACCTATAAATCACG
AGGAGAATAAAATTTCTACTTAAAATTAGTTAAGTTTCAGTATGATTACATATTTCGAATTCAAT
TAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTG
AGAAGAGTAAAATCTATAG
Found at i:77218886 original size:129 final size:129
Alignment explanation
Indices: 77218644--77219023 Score: 480
Period size: 129 Copynumber: 2.9 Consensus size: 129
77218634 TAAAATCTAT
* * * *
77218644 AGTTAGTATGATTAAGAATATGAATTTGAAACATTTGAGTTTGGATTTCAGTTACTCTATAAGTC
1 AGTTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATC
** * * *
77218709 ACGAGGAGAATAAAATGTTTACTTAAATTA-TTCAAGTTTCT-GTTTGATTATATATTTCGAATT
66 GTGAGGAGAATAAAATGTATACTTAAATTAGTT-GAGTTT-TAGTATGATTATATATTTCGAATT
*
77218772 T
129 C
* * *
77218773 A-TATAGTATGATTAAGAACAGGAACTTGAAAGC-TTTGAGTTTAGTTTTCAATTACTCTATAAA
1 AGT-TAGTATGATTAAGAACATGAATTTGAAA-CATTTGAGTTTAGATTTCAATTACTCTATAAA
* * * * * *
77218836 TCGTGAGGGGAGTAAAATGCATATTTAAATTAGTTGAGTTTTAGCATGATTATATATTCCGAATT
64 TCGTGAGGAGAATAAAATGTATACTTAAATTAGTTGAGTTTTAGTATGATTATATATTTCGAATT
77218901 C
129 C
* *
77218902 AGTTAGTACGATTAAGAACATGAATTTGAGACATTTGAGTTTAGATTTCAATTACTCTATAAATC
1 AGTTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATC
* * *
77218967 GTGAGGAGAAAAAAATGTATACTTAAATTAGTTGAGATTTAGTGTGATTATATATTT
66 GTGAGGAGAATAAAATGTATACTTAAATTAGTTGAGTTTTAGTATGATTATATATTT
77219024 AAGATATAAA
Statistics
Matches: 212, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
128 3 0.01
129 205 0.97
130 4 0.02
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.39
Consensus pattern (129 bp):
AGTTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATC
GTGAGGAGAATAAAATGTATACTTAAATTAGTTGAGTTTTAGTATGATTATATATTTCGAATTC
Found at i:77223125 original size:2 final size:2
Alignment explanation
Indices: 77223120--77223144 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77223110 AGGATATATA
77223120 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
77223145 ATAACGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:77224165 original size:20 final size:20
Alignment explanation
Indices: 77224140--77224179 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
77224130 AAATAAATAT
77224140 TTATTTTTCTTATTTTCTAA
1 TTATTTTTCTTATTTTCTAA
77224160 TTATTTTTCTTATTTTCTAA
1 TTATTTTTCTTATTTTCTAA
77224180 CATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTCTTATTTTCTAA
Found at i:77252253 original size:17 final size:19
Alignment explanation
Indices: 77252221--77252259 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
77252211 GATTTAGTAC
77252221 TTAAACTATATA-TTTTAT
1 TTAAACTATATATTTTTAT
*
77252239 TTAAATTAT-TATTTTTAT
1 TTAAACTATATATTTTTAT
77252257 TTA
1 TTA
77252260 TTTATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAACTATATATTTTTAT
Found at i:77262953 original size:17 final size:17
Alignment explanation
Indices: 77262931--77262964 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77262921 TAGAAATGAA
77262931 TGTCCAATTCTTAACGT
1 TGTCCAATTCTTAACGT
77262948 TGTCCAATTCTTAACGT
1 TGTCCAATTCTTAACGT
77262965 CGTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
TGTCCAATTCTTAACGT
Found at i:77263136 original size:22 final size:22
Alignment explanation
Indices: 77263106--77263147 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77263096 ATTAGACCTG
* *
77263106 AATTTTAAAAATTAAAAAATTA
1 AATTCTAAAAATAAAAAAATTA
*
77263128 AATTCTAAATATAAAAAAAT
1 AATTCTAAAAATAAAAAAAT
77263148 ACCGTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTCTAAAAATAAAAAAATTA
Found at i:77265715 original size:16 final size:16
Alignment explanation
Indices: 77265676--77265731 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
77265666 TAATATATTT
77265676 TTAA-ATAAATAAAT-
1 TTAATATAAATAAATA
*
77265690 TATAAAATAAATAAATA
1 T-TAATATAAATAAATA
*
77265707 TTAATATAAAAATAATA
1 TTAATATAAATA-AATA
77265724 TTTAATAT
1 -TTAATAT
77265732 TTAATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 19 0.54
17 5 0.14
18 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAATATAAATAAATA
Found at i:77266206 original size:186 final size:178
Alignment explanation
Indices: 77265880--77266208 Score: 419
Period size: 186 Copynumber: 1.8 Consensus size: 178
77265870 TATAAGTTAC
* * *
77265880 ATTTGAGTTGTCACTTAACACTAAAAATTTAATGACTAAACTAATGAAAGGACATGATTGATACG
1 ATTTGAGTTGTCACTTAACACTAAAAAATTAATGACTAAACTAATGAAAGGACATAATTGATACC
* * * * * *
77265945 TTACTTGTTATACTCCAAGGTATTACTTTCATCGCAATGAAATAGCCTACGTTGTTATTGACATT
66 TTACTTGTTATACTCCAAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGTTATTGACATT
77266010 TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCGTGGACATG
131 TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCGTGGACATG
* * *
77266058 ATTTGAGTTGTCACTTAACACTCAAAAAATT-ATGGCTAAGCTAATGAAATGACATAATTGATAC
1 ATTTGAGTTGTCACTTAACACT-AAAAAATTAATGACTAAACTAATGAAAGGACATAATTGATAC
**
77266122 AATACTTACGATCCTTGTTATAC-CTTAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGT
65 ----CTT---A--CTTGTTATACTCCAAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGT
*
77266186 TGTTGACATTTAGTAGGCAACGC
121 TATTGACATTTAGTAGGCAACGC
77266209 CACAATGCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
178 51 0.40
179 7 0.06
182 2 0.02
185 1 0.01
186 55 0.44
187 10 0.08
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (178 bp):
ATTTGAGTTGTCACTTAACACTAAAAAATTAATGACTAAACTAATGAAAGGACATAATTGATACC
TTACTTGTTATACTCCAAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGTTATTGACATT
TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCGTGGACATG
Found at i:77270664 original size:29 final size:29
Alignment explanation
Indices: 77270641--77270697 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
77270631 TAAATACATC
*
77270641 AATTTATTTTTATATTAAATAAATATAAT
1 AATTTATTTTTATAATAAATAAATATAAT
* *
77270670 TATTTATTTTTATAATATATAAATATAA
1 AATTTATTTTTATAATAAATAAATATAA
77270698 AATGATGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATTTATTTTTATAATAAATAAATATAAT
Found at i:77272167 original size:20 final size:20
Alignment explanation
Indices: 77272128--77272169 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
77272118 ATGTTAGAGT
*
77272128 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
77272148 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
77272168 TA
1 TA
77272170 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:77272198 original size:15 final size:15
Alignment explanation
Indices: 77272178--77272208 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77272168 TACCGTTGTA
77272178 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
77272193 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
77272208 A
1 A
77272209 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:77276883 original size:20 final size:20
Alignment explanation
Indices: 77276844--77276885 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
77276834 ATGTTAGAGT
*
77276844 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
77276864 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
77276884 TA
1 TA
77276886 TCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:77276914 original size:15 final size:15
Alignment explanation
Indices: 77276894--77276924 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77276884 TATCGTTGTA
77276894 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
77276909 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
77276924 A
1 A
77276925 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:77281341 original size:14 final size:13
Alignment explanation
Indices: 77281314--77281359 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
77281304 TTTTTAAAAA
77281314 TAAATA-AATATT
1 TAAATATAATATT
*
77281326 TAAATATAATTCTT
1 TAAATATAA-TATT
77281340 TAAA-A-AATATT
1 TAAATATAATATT
77281351 TAAATATAA
1 TAAATATAA
77281360 AATATACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 7 0.25
12 9 0.32
13 5 0.18
14 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATAATATT
Found at i:77281363 original size:32 final size:33
Alignment explanation
Indices: 77281299--77281365 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
77281289 TCAATTTTTT
* * *
77281299 TAATTTTTTTAAAAATAAATAAATATTTAAATA
1 TAATTCTTTAAAAAATAAATAAATATTAAAATA
**
77281332 TAATTCTTTAAAAAATATTTAAATA-TAAAATA
1 TAATTCTTTAAAAAATAAATAAATATTAAAATA
77281364 TA
1 TA
77281366 CAATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
TAATTCTTTAAAAAATAAATAAATATTAAAATA
Found at i:77282422 original size:23 final size:22
Alignment explanation
Indices: 77282377--77282420 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
77282367 CAATGCCAGT
77282377 TTTTAACAATAAAAATGATAAA
1 TTTTAACAATAAAAATGATAAA
*
77282399 TTTTAACAGTAAAAGA-GATAAA
1 TTTTAACAATAAAA-ATGATAAA
77282421 ATGCAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
TTTTAACAATAAAAATGATAAA
Found at i:77293429 original size:30 final size:30
Alignment explanation
Indices: 77293393--77293452 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
77293383 CAACACCTGT
77293393 TTGTATCTAGAATGACATTATTATAGGTAA
1 TTGTATCTAGAATGACATTATTATAGGTAA
*
77293423 TTGTATCTAGAATGATATTATTATAGGTAA
1 TTGTATCTAGAATGACATTATTATAGGTAA
77293453 AAGTACCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (30 bp):
TTGTATCTAGAATGACATTATTATAGGTAA
Found at i:77300190 original size:17 final size:18
Alignment explanation
Indices: 77300165--77300204 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
77300155 ACAATATCGA
*
77300165 TAAAA-TTAAAAT-ATTT
1 TAAAATTTAAAATCAATT
77300181 TAAAATTTAAAATCAATT
1 TAAAATTTAAAATCAATT
77300199 TAAAAT
1 TAAAAT
77300205 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 9 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATTTAAAATCAATT
Found at i:77303425 original size:51 final size:51
Alignment explanation
Indices: 77303349--77303462 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
77303339 AGTGACAAGC
* *
77303349 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
77303400 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
77303451 GACAAGTGATAA
1 GACAAGTGATAA
77303463 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:77307766 original size:110 final size:111
Alignment explanation
Indices: 77307606--77307821 Score: 312
Period size: 110 Copynumber: 2.0 Consensus size: 111
77307596 GGACTTCCTA
* *
77307606 AAATGGTAAGTTTTCTATTTAATCCTTTAAATTTTTATGAAATTACATGTTAGTATAATGATAAG
1 AAATGGTAAGTTTTCCATTTAATCCTTTAAATTTTTATAAAATTACATGTTAGTATAATGATAA-
* **
77307671 A-TTTCACTTTTTCCCTCCCAATAATTAATGATTCATCTTTGCTCTC
65 ATTTTCACCTTAACCCTCCCAATAATTAATGATTCATCTTTGCTCTC
* *
77307717 AAATGGT-AGATTTTCCATTTAGTGC-TTAAATTTTTATAAAATTACATGTTAGTATAATGATAA
1 AAATGGTAAG-TTTTCCATTTAATCCTTTAAATTTTTATAAAATTACATGTTAGTATAATGATAA
* *
77307780 ATTTTCACCTTAACCCTTCCAATAATTTATGATTCATCTTTG
65 ATTTTCACCTTAACCCTCCCAATAATTAATGATTCATCTTTG
77307822 GTCCCCTTAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
109 1 0.01
110 74 0.79
111 19 0.20
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (111 bp):
AAATGGTAAGTTTTCCATTTAATCCTTTAAATTTTTATAAAATTACATGTTAGTATAATGATAAA
TTTTCACCTTAACCCTCCCAATAATTAATGATTCATCTTTGCTCTC
Found at i:77315710 original size:18 final size:18
Alignment explanation
Indices: 77315683--77315725 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
77315673 TTGAACCAGG
*
77315683 TTTTTT-ATTTTTAATAT
1 TTTTTTAATTTTTAATAA
77315700 TTTTTTAATTTTTAATAA
1 TTTTTTAATTTTTAATAA
77315718 TTTTTTAA
1 TTTTTTAA
77315726 GCGAACAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTAATTTTTAATAA
Found at i:77328025 original size:2 final size:2
Alignment explanation
Indices: 77328020--77328055 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77328010 TGGTTTTTTT
77328020 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
77328056 GGTTCGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77330011 original size:13 final size:14
Alignment explanation
Indices: 77329993--77330021 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77329983 AAAATTTATT
77329993 AAAATTA-TTAAAA
1 AAAATTATTTAAAA
77330006 AAAATTATTTAAAA
1 AAAATTATTTAAAA
77330020 AA
1 AA
77330022 TGCTCTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTATTTAAAA
Found at i:77337632 original size:5 final size:5
Alignment explanation
Indices: 77337622--77337655 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
77337612 TTTATGATGT
77337622 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
77337656 TATCTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:77344612 original size:29 final size:29
Alignment explanation
Indices: 77344579--77344644 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
77344569 AATTGAATAT
77344579 TTGAGTGACCATTTTATAACTTTTCATAA
1 TTGAGTGACCATTTTATAACTTTTCATAA
*
77344608 TTGAGTGACCATTTTATAGCTTTTCATAA
1 TTGAGTGACCATTTTATAACTTTTCATAA
*
77344637 TTAAGTGA
1 TTGAGTGA
77344645 TAAAAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (29 bp):
TTGAGTGACCATTTTATAACTTTTCATAA
Found at i:77349024 original size:35 final size:35
Alignment explanation
Indices: 77348963--77349044 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 35
77348953 TAAAATAAAC
* *
77348963 ATTAAAAAAATGT-TAATATAACTAAATATAAAAT
1 ATTAAAAAAATATATAAAATAACTAAATATAAAAT
* * *
77348997 ATTAAAAAAATATATAAAATCATTAAATATTAAAT
1 ATTAAAAAAATATATAAAATAACTAAATATAAAAT
* *
77349032 -TTAAGATAATATA
1 ATTAAAAAAATATA
77349045 AATATAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 23 0.57
35 17 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (35 bp):
ATTAAAAAAATATATAAAATAACTAAATATAAAAT
Found at i:77354823 original size:27 final size:27
Alignment explanation
Indices: 77354793--77354856 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
77354783 AGGTCCAACA
77354793 CCAGGAGCTCCAGGTGGAGGTGGAGGT
1 CCAGGAGCTCCAGGTGGAGGTGGAGGT
77354820 CCAGGAGCTCCAGGTGGAGGTGGAGGT
1 CCAGGAGCTCCAGGTGGAGGTGGAGGT
*
77354847 CCTGGAGCTC
1 CCAGGAGCTC
77354857 GACCTCCAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.16
Consensus pattern (27 bp):
CCAGGAGCTCCAGGTGGAGGTGGAGGT
Found at i:77360400 original size:28 final size:27
Alignment explanation
Indices: 77360348--77360402 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
77360338 TTCAATCTTC
* *
77360348 TTAAGAAAAAAATTAAAATTAAAATAA
1 TTAAGAAAAAAAATAAAATCAAAATAA
77360375 TTAAGAAAAAATAATAAAA-CACAAATAA
1 TTAAGAAAAAA-AATAAAATCA-AAATAA
77360403 ATAAATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (27 bp):
TTAAGAAAAAAAATAAAATCAAAATAA
Found at i:77361052 original size:16 final size:16
Alignment explanation
Indices: 77361031--77361063 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
77361021 CAACAAAGTA
77361031 ACACTAAATAAGCCTT
1 ACACTAAATAAGCCTT
77361047 ACACTAAATAAGCCTT
1 ACACTAAATAAGCCTT
77361063 A
1 A
77361064 ATCATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (16 bp):
ACACTAAATAAGCCTT
Found at i:77367720 original size:6 final size:6
Alignment explanation
Indices: 77367709--77367734 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
77367699 ACAAAAATGC
77367709 ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT AT
77367735 TTTATTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:77372048 original size:6 final size:6
Alignment explanation
Indices: 77372037--77372072 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
77372027 AATATTGATA
77372037 ATTTAT ATTTAT ATTTAT ATTTTATT ATTTAT ATTT
1 ATTTAT ATTTAT ATTTAT A-TTTA-T ATTTAT ATTT
77372073 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 18 0.64
7 8 0.29
8 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTAT
Found at i:77372067 original size:14 final size:13
Alignment explanation
Indices: 77372037--77372072 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
77372027 AATATTGATA
77372037 ATTTATA-TTTAT
1 ATTTATATTTTAT
77372049 ATTTATATTTTATT
1 ATTTATATTTTA-T
77372063 ATTTATATTT
1 ATTTATATTT
77372073 GTTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTATATTTTAT
Found at i:77372070 original size:26 final size:25
Alignment explanation
Indices: 77372037--77372085 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
77372027 AATATTGATA
77372037 ATTTATATTTATATTTATATTTTATT
1 ATTTATATTTAT-TTTATATTTTATT
* *
77372063 ATTTATATTTGTTTTATTTTTTA
1 ATTTATATTTATTTTATATTTTA
77372086 ATAGCGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTATATTTATTTTATATTTTATT
Found at i:77373030 original size:23 final size:23
Alignment explanation
Indices: 77372987--77373031 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77372977 CCAATTATTA
*
77372987 ATGCCATTTCAACATCTTTTTTC
1 ATGCCATTTCAACATCGTTTTTC
*
77373010 ATGCCATTTGACACAT-GTTTTT
1 ATGCCATTTCA-ACATCGTTTTT
77373032 GATAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (23 bp):
ATGCCATTTCAACATCGTTTTTC
Found at i:77401992 original size:23 final size:23
Alignment explanation
Indices: 77401966--77402047 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
77401956 GGGAAAAATC
*
77401966 ATTTTATCTTTTTAATTTCTTTT
1 ATTTTATCTTTTTAATTTCATTT
**** *
77401989 ATTTTATCTTTTTAAGAAAAATT
1 ATTTTATCTTTTTAATTTCATTT
*
77402012 ATTTTAT-TTTTTAATTTCCTTT
1 ATTTTATCTTTTTAATTTCATTT
77402034 ATTTT-TCTCTTTTA
1 ATTTTATCT-TTTTA
77402048 GAATGAGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 29 0.64
ACGTcount: A:0.23, C:0.09, G:0.01, T:0.67
Consensus pattern (23 bp):
ATTTTATCTTTTTAATTTCATTT
Found at i:77402035 original size:45 final size:46
Alignment explanation
Indices: 77401958--77402047 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
77401948 ATTTTGCAGG
*
77401958 GAAAAATCATTTTATCTTTTTAATTTCTTTTATTTTATCT-TTTTAA
1 GAAAAATCATTTTATCTTTTTAATTTCCTTTATTTT-TCTCTTTTAA
*
77402004 GAAAAATTATTTTAT-TTTTTAATTTCCTTTATTTTTCTCTTTTA
1 GAAAAATCATTTTATCTTTTTAATTTCCTTTATTTTTCTCTTTTA
77402048 GAATGAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 3 0.07
45 24 0.59
46 14 0.34
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (46 bp):
GAAAAATCATTTTATCTTTTTAATTTCCTTTATTTTTCTCTTTTAA
Found at i:77407083 original size:40 final size:40
Alignment explanation
Indices: 77407039--77407130 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
77407029 TCATCTTTGA
77407039 AATTCAAAGAAGAGAATAGTATTCTGAAATCTTATCTTAT
1 AATTCAAAGAAGAGAATAGTATTCTGAAATCTTATCTTAT
77407079 AATTCAAAGAAGAGAATAGTATTCTGAAATCTTATCTTAT
1 AATTCAAAGAAGAGAATAGTATTCTGAAATCTTATCTTAT
77407119 AATTCAAAGAAG
1 AATTCAAAGAAG
77407131 GTAATCTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.33
Consensus pattern (40 bp):
AATTCAAAGAAGAGAATAGTATTCTGAAATCTTATCTTAT
Found at i:77415652 original size:18 final size:18
Alignment explanation
Indices: 77415626--77415662 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
77415616 ATTTTTCCCT
* *
77415626 TGCCTAGTAAAACAGAAA
1 TGCCCAGTAAAACACAAA
77415644 TGCCCAGTAAAACACAAA
1 TGCCCAGTAAAACACAAA
77415662 T
1 T
77415663 TACTGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.16
Consensus pattern (18 bp):
TGCCCAGTAAAACACAAA
Found at i:77422980 original size:30 final size:30
Alignment explanation
Indices: 77422922--77423003 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
77422912 TCTAAAATTT
* * *
77422922 TTTTGAAATTTTTATTTAGAACCCTTCAAAAA
1 TTTTGAAAATTTTAATTA-AA-TCTTCAAAAA
* *
77422954 TTTT-AAAATTTCTCATTAAATCTTCAAAAG
1 TTTTGAAAATTT-TAATTAAATCTTCAAAAA
77422984 TTTTGAAAATTTTAATTAAA
1 TTTTGAAAATTTTAATTAAA
77423004 CCTCTTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
30 19 0.45
31 15 0.36
32 8 0.19
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTTGAAAATTTTAATTAAATCTTCAAAAA
Found at i:77425692 original size:172 final size:172
Alignment explanation
Indices: 77425406--77425749 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 172
77425396 ATTGGAACTA
77425406 GGTTACTTCTAAGATTAAGGATGAATGTGGTTTTAGAAGGTTTTCCTAATTTATTAGGTTCAAGA
1 GGTTACTTCTAAGATTAAGGATGAATGTGGTTTTAGAAGGTTTTCCTAATTTATTAGGTTCAAGA
77425471 ATGTTTCGTTTTGATGAGATTATGAACATCATGAGATTTTAAATGTTGGTATATGGATCTTAAAG
66 ATGTTTCGTTTTGATGAGATTATGAACATCATGAGATTTTAAATGTTGGTATATGGATCTTAAAG
77425536 TTTGAAGGTAGACTTCTACGGGAATTTTTTGTTGCTTCGATG
131 TTTGAAGGTAGACTTCTACGGGAATTTTTTGTTGCTTCGATG
77425578 GGTTACTTCTAAGATTAAGGATGAATGTGGTTTTAGAAGGTTTTCCTAATTTATTAGGTTCAAGA
1 GGTTACTTCTAAGATTAAGGATGAATGTGGTTTTAGAAGGTTTTCCTAATTTATTAGGTTCAAGA
*
77425643 ATGTTTCGTTTTGATGGGATTATGAACATCATGAGATTTTAAATGTTGGTATATGGATCTTAAAG
66 ATGTTTCGTTTTGATGAGATTATGAACATCATGAGATTTTAAATGTTGGTATATGGATCTTAAAG
77425708 TTTGAAGGTAGACTTCTACGGGAATTTTTTGTTGCTTCGATG
131 TTTGAAGGTAGACTTCTACGGGAATTTTTTGTTGCTTCGATG
77425750 CACTAGAGGT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (172 bp):
GGTTACTTCTAAGATTAAGGATGAATGTGGTTTTAGAAGGTTTTCCTAATTTATTAGGTTCAAGA
ATGTTTCGTTTTGATGAGATTATGAACATCATGAGATTTTAAATGTTGGTATATGGATCTTAAAG
TTTGAAGGTAGACTTCTACGGGAATTTTTTGTTGCTTCGATG
Found at i:77437906 original size:18 final size:19
Alignment explanation
Indices: 77437875--77437910 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
77437865 TAATAAACAA
*
77437875 TTTTAAATTATAAAAATAT
1 TTTTAAAATATAAAAATAT
77437894 TTTTAAAAT-TAAAAATA
1 TTTTAAAATATAAAAATA
77437911 AAAATGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTAAAATATAAAAATAT
Found at i:77441296 original size:17 final size:15
Alignment explanation
Indices: 77441274--77441317 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
77441264 AGCATTCATA
77441274 AAAAATATATAATCTAG
1 AAAAATATA-AAT-TAG
*
77441291 AAAAATATAAATTAT
1 AAAAATATAAATTAG
77441306 AAAAATA-AAATT
1 AAAAATATAAATT
77441318 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 9 0.35
16 3 0.12
17 9 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAAATATAAATTAG
Found at i:77441316 original size:14 final size:15
Alignment explanation
Indices: 77441274--77441328 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
77441264 AGCATTCATA
*
77441274 AAAAATATATAATCTAG
1 AAAAATATA-AAT-TAT
77441291 AAAAATATAAATTAT
1 AAAAATATAAATTAT
*
77441306 AAAAATA-AAATTTT
1 AAAAATATAAATTAT
77441320 AAAAA-ATAA
1 AAAAATATAA
77441329 GATAATTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 1 0.03
14 13 0.37
15 9 0.26
16 3 0.09
17 9 0.26
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATATAAATTAT
Found at i:77441804 original size:27 final size:29
Alignment explanation
Indices: 77441735--77441804 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
77441725 TAATGTTTTA
* *
77441735 TAATA-TTTAAATATTTAATATTATAATT
1 TAATATTTTTAATTTTTAATATTATAATT
* *
77441763 T-TTATTTGTTTATTTTTAAT-TTA-AATT
1 TAATATTT-TTAATTTTTAATATTATAATT
77441790 TAATATTTTTAATTT
1 TAATATTTTTAATTT
77441805 AAAAAATCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
27 13 0.39
28 11 0.33
29 9 0.27
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (29 bp):
TAATATTTTTAATTTTTAATATTATAATT
Found at i:77444399 original size:63 final size:63
Alignment explanation
Indices: 77444280--77444400 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
77444270 GCACTTCTTC
* ** *
77444280 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTCCTGTCTCTATAATGTTGT
1 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
*
77444343 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTG-AC-TGGTTAGTGAAATATATAAT
1 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGG-TACTG-AATATATAAT
77444401 TTCAACCTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 3 0.06
62 5 0.10
63 43 0.84
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (63 bp):
CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
Done.