Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 232 of 322
Found at i:77147101 original size:27 final size:27
Alignment explanation
Indices: 77147071--77147227 Score: 90
Period size: 27 Copynumber: 5.6 Consensus size: 27
77147061 TTAGAAGCTC
*
77147071 AAATTATTAAAATATTTTTATTTATAT
1 AAATTATTAAAATATTTATATTTATAT
* * * *
77147098 AAATTATTTAAAA-CTTTAGATTAATTT
1 AAATTA-TTAAAATATTTATATTTATAT
*
77147125 AAA-TATT-AAATATTTAAAATTTATAT
1 AAATTATTAAAATATTT-ATATTTATAT
* * * *
77147151 AAA-AATCAGATTAATTTATATTTTATAT
1 AAATTATTAAAAT-ATTTATA-TTTATAT
*
77147179 AAATTATTTAAATATTATTTATTATTATATTT
1 AAATTA-TTAAA-A-TATTTA-TATT-TATAT
77147211 AAAATT-TTAAAATATTT
1 -AAATTATTAAAATATTT
77147228 TATGTATCAT
Statistics
Matches: 98, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
24 3 0.03
25 5 0.05
26 14 0.14
27 22 0.22
28 20 0.20
29 6 0.06
30 4 0.04
31 12 0.12
32 7 0.07
33 5 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
AAATTATTAAAATATTTATATTTATAT
Found at i:77154820 original size:496 final size:496
Alignment explanation
Indices: 77153887--77154878 Score: 1975
Period size: 496 Copynumber: 2.0 Consensus size: 496
77153877 ACCGCTTCGA
77153887 ACTCGACGAAAAGACCACGATCGACAAACGGTCCGTTTCGTTAAGCAAAGAGATAACTAACCTCA
1 ACTCGACGAAAAGACCACGATCGACAAACGGTCCGTTTCGTTAAGCAAAGAGATAACTAACCTCA
77153952 TCGCGCGTTTCACCATCTGCAACCGCATCCCGCTCCCGCTAACGTCCAATACCGTAACCAAGTCA
66 TCGCGCGTTTCACCATCTGCAACCGCATCCCGCTCCCGCTAACGTCCAATACCGTAACCAAGTCA
77154017 AACGGAGCCCTCCTCACTCTCCGCGTCGCCGTTGGAGCGTGCACTTTCATAACCACCACATAACT
131 AACGGAGCCCTCCTCACTCTCCGCGTCGCCGTTGGAGCGTGCACTTTCATAACCACCACATAACT
*
77154082 CTCATGGCTCCTCCCCACTGCCACCATCGCTGCCTCTTGTAGCAACCTAACCTCTACATTTCTTG
196 CTCATGGCTCCTCCCCACTGCCACCATCGCCGCCTCTTGTAGCAACCTAACCTCTACATTTCTTG
77154147 GATGAACTCCAATTTCTTTCGCAATCGTAGGAGTCACAGAGAATCCTTGGAATTCCTCTTCAACG
261 GATGAACTCCAATTTCTTTCGCAATCGTAGGAGTCACAGAGAATCCTTGGAATTCCTCTTCAACG
77154212 TCGTCGTTTTCGGTTTCGTCGGATTCCGGAATGGGATTAAACTGAGAAACAGAAACCGGGGAGGC
326 TCGTCGTTTTCGGTTTCGTCGGATTCCGGAATGGGATTAAACTGAGAAACAGAAACCGGGGAGGC
77154277 CAATGGCTCATCGTCGTTGTAGACCCGAAACGACTTCGTGTTGATGTTCTCGAGTGATGTTTTAC
391 CAATGGCTCATCGTCGTTGTAGACCCGAAACGACTTCGTGTTGATGTTCTCGAGTGATGTTTTAC
77154342 TAGGTTGTTGTTCAAGGGAGAGTAAAGGGAGCTCCTTCCAG
456 TAGGTTGTTGTTCAAGGGAGAGTAAAGGGAGCTCCTTCCAG
77154383 ACTCGACGAAAAGACCACGATCGACAAACGGTCCGTTTCGTTAAGCAAAGAGATAACTAACCTCA
1 ACTCGACGAAAAGACCACGATCGACAAACGGTCCGTTTCGTTAAGCAAAGAGATAACTAACCTCA
77154448 TCGCGCGTTTCACCATCTGCAACCGCATCCCGCTCCCGCTAACGTCCAATACCGTAACCAAGTCA
66 TCGCGCGTTTCACCATCTGCAACCGCATCCCGCTCCCGCTAACGTCCAATACCGTAACCAAGTCA
77154513 AACGGAGCCCTCCTCACTCTCCGCGTCGCCGTTGGAGCGTGCACTTTCATAACCACCACATAACT
131 AACGGAGCCCTCCTCACTCTCCGCGTCGCCGTTGGAGCGTGCACTTTCATAACCACCACATAACT
77154578 CTCATGGCTCCTCCCCACTGCCACCATCGCCGCCTCTTGTAGCAACCTAACCTCTACATTTCTTG
196 CTCATGGCTCCTCCCCACTGCCACCATCGCCGCCTCTTGTAGCAACCTAACCTCTACATTTCTTG
77154643 GATGAACTCCAATTTCTTTCGCAATCGTAGGAGTCACAGAGAATCCTTGGAATTCCTCTTCAACG
261 GATGAACTCCAATTTCTTTCGCAATCGTAGGAGTCACAGAGAATCCTTGGAATTCCTCTTCAACG
77154708 TCGTCGTTTTCGGTTTCGTCGGATTCCGGAATGGGATTAAACTGAGAAACAGAAACCGGGGAGGC
326 TCGTCGTTTTCGGTTTCGTCGGATTCCGGAATGGGATTAAACTGAGAAACAGAAACCGGGGAGGC
77154773 CAATGGCTCATCGTCGTTGTAGACCCGAAACGACTTCGTGTTGATGTTCTCGAGTGATGTTTTAC
391 CAATGGCTCATCGTCGTTGTAGACCCGAAACGACTTCGTGTTGATGTTCTCGAGTGATGTTTTAC
77154838 TAGGTTGTTGTTCAAGGGAGAGTAAAGGGAGCTCCTTCCAG
456 TAGGTTGTTGTTCAAGGGAGAGTAAAGGGAGCTCCTTCCAG
77154879 GAGGTGGAAC
Statistics
Matches: 495, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
496 495 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (496 bp):
ACTCGACGAAAAGACCACGATCGACAAACGGTCCGTTTCGTTAAGCAAAGAGATAACTAACCTCA
TCGCGCGTTTCACCATCTGCAACCGCATCCCGCTCCCGCTAACGTCCAATACCGTAACCAAGTCA
AACGGAGCCCTCCTCACTCTCCGCGTCGCCGTTGGAGCGTGCACTTTCATAACCACCACATAACT
CTCATGGCTCCTCCCCACTGCCACCATCGCCGCCTCTTGTAGCAACCTAACCTCTACATTTCTTG
GATGAACTCCAATTTCTTTCGCAATCGTAGGAGTCACAGAGAATCCTTGGAATTCCTCTTCAACG
TCGTCGTTTTCGGTTTCGTCGGATTCCGGAATGGGATTAAACTGAGAAACAGAAACCGGGGAGGC
CAATGGCTCATCGTCGTTGTAGACCCGAAACGACTTCGTGTTGATGTTCTCGAGTGATGTTTTAC
TAGGTTGTTGTTCAAGGGAGAGTAAAGGGAGCTCCTTCCAG
Found at i:77157543 original size:30 final size:30
Alignment explanation
Indices: 77157507--77157567 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
77157497 TGAAGAGAAT
77157507 GTACAGACTAAGAGTTGTTGATAGAATGTA
1 GTACAGACTAAGAGTTGTTGATAGAATGTA
*
77157537 GTACAGACTGAGAGTTGTTGATAGAATGTA
1 GTACAGACTAAGAGTTGTTGATAGAATGTA
77157567 G
1 G
77157568 GCCTAGTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (30 bp):
GTACAGACTAAGAGTTGTTGATAGAATGTA
Found at i:77161084 original size:20 final size:20
Alignment explanation
Indices: 77161059--77161100 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77161049 ATATTATTTT
*
77161059 TATATATACATA-TTTAAAAA
1 TATATATA-ATACATTAAAAA
77161079 TATATATAATACATTAAAAA
1 TATATATAATACATTAAAAA
77161099 TA
1 TA
77161101 CTAAAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATATAATACATTAAAAA
Found at i:77161344 original size:32 final size:32
Alignment explanation
Indices: 77161299--77161367 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
77161289 GAAATGGTAG
** * *
77161299 CAAAATAGTAAAAAGCAACATGAAAATATTAA
1 CAAAATAAAAAAAAACAACAAGAAAATATTAA
77161331 CAAAATAAAAAAAAACAACAAGAAAATATTAA
1 CAAAATAAAAAAAAACAACAAGAAAATATTAA
*
77161363 AAAAA
1 CAAAA
77161368 AAGCAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.14
Consensus pattern (32 bp):
CAAAATAAAAAAAAACAACAAGAAAATATTAA
Found at i:77163685 original size:25 final size:26
Alignment explanation
Indices: 77163634--77163686 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
77163624 TAAATTTGTG
* *
77163634 TTTAAAGAATAATGATTATGGAAATT
1 TTTAAAGAAAAATGATTATAGAAATT
* *
77163660 TTTAAA-AAAAATTATTATAGATATT
1 TTTAAAGAAAAATGATTATAGAAATT
77163685 TT
1 TT
77163687 CTAGGATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
TTTAAAGAAAAATGATTATAGAAATT
Found at i:77167683 original size:26 final size:26
Alignment explanation
Indices: 77167651--77167701 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
77167641 AATAAGGTAG
77167651 TTTTCACAGAGCCAAGACGTGTGTTT
1 TTTTCACAGAGCCAAGACGTGTGTTT
*
77167677 TTTTCACAGAGCCAGGACGTGTGTT
1 TTTTCACAGAGCCAAGACGTGTGTT
77167702 CTTTCCAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (26 bp):
TTTTCACAGAGCCAAGACGTGTGTTT
Found at i:77169784 original size:69 final size:69
Alignment explanation
Indices: 77169698--77170057 Score: 305
Period size: 69 Copynumber: 5.2 Consensus size: 69
77169688 TTATCTTAAG
* * *
77169698 AGCCCTAATATGCCAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGT-AGTTTTTCAC
1 AGCCCTAATATGACAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGA-CTCTTCAC
77169762 CTACA
65 CTACA
* *
77169767 AGCCCTAGTGTGACAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCACC
1 AGCCCTAATATGACAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCACC
77169832 TACA
66 TACA
* * * * * * * * * * *
77169836 AGCCTTAATATGACAGCTAGGAGCTTTGTTTTAGCTAACTGTGTTAGAGGCTGTGGCTTTTCTCC
1 AGCCCTAATATGACAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCACC
**
77169901 TGTA
66 TACA
* * * * * * * *
77169905 AGGCTTAATATGACA-TCTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTTCAC
1 AGCCCTAATATGACAGT-TGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCAC
* *
77169969 CTGCG
65 CTACA
* * * * * * *
77169974 AGCCTTAATATGACTA-CTAGGAACTTTGCTCTCGCTAACTATGTTGAAGGCTGT-AGCTCTTCA
1 AGCCCTAATATGAC-AGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGA-CTCTTCA
***
77170037 CCTGTG
64 CCTACA
*
77170043 AGCCTTAATATGACA
1 AGCCCTAATATGACA
77170058 TAAATGTTGT
Statistics
Matches: 249, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.00
69 246 0.99
70 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (69 bp):
AGCCCTAATATGACAGTTGGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCACC
TACA
Found at i:77169932 original size:138 final size:138
Alignment explanation
Indices: 77169721--77170058 Score: 367
Period size: 138 Copynumber: 2.4 Consensus size: 138
77169711 CAGTTGGGAG
* * * * * * ** * * *
77169721 CTTTGTTCTCGCTAACTATGTTGGAGGTTGTAGTTTTTCACCTACAAGCCCTAGTGTGACAGT-T
1 CTTTGCTCTAGCTAACTATGTTGAAGGCTGTAGCTCTTCACCTGTAAGCCTTAATATGACA-TCT
* * *
77169785 GGGAGCTTTGTTCTCGCTAACTATGTTGGAGGTTGTGACTCTTCACCTACAAGCCTTAATATGAC
65 AGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGACTCTTCACCTACAAGCCTTAATATGAC
*
77169850 -AGCTAGGAG
130 TA-CTAGGAA
* * * * * * *
77169859 CTTTGTTTTAGCTAACTGTGTT-AGAGGCTGTGGCTTTTCTCCTGTAAGGCTTAATATGACATCT
1 CTTTGCTCTAGCTAACTATGTTGA-AGGCTGTAGCTCTTCACCTGTAAGCCTTAATATGACATCT
* * * * *
77169923 AGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTTCACCTGCGAGCCTTAATATGAC
65 AGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGACTCTTCACCTACAAGCCTTAATATGAC
77169988 TACTAGGAA
130 TACTAGGAA
* *
77169997 CTTTGCTCTCGCTAACTATGTTGAAGGCTGTAGCTCTTCACCTGTGAGCCTTAATATGACAT
1 CTTTGCTCTAGCTAACTATGTTGAAGGCTGTAGCTCTTCACCTGTAAGCCTTAATATGACAT
77170059 AAATGTTGTC
Statistics
Matches: 164, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
137 1 0.01
138 161 0.98
139 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (138 bp):
CTTTGCTCTAGCTAACTATGTTGAAGGCTGTAGCTCTTCACCTGTAAGCCTTAATATGACATCTA
GGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGACTCTTCACCTACAAGCCTTAATATGACT
ACTAGGAA
Found at i:77178240 original size:3 final size:3
Alignment explanation
Indices: 77178232--77178269 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
77178222 TCGTATTGAG
77178232 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
77178270 GTGATTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:77178748 original size:21 final size:21
Alignment explanation
Indices: 77178718--77178769 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
77178708 ATATGACTGC
77178718 TAAC-TTTATTGAGTACATAA
1 TAACATTTATTGAGTACATAA
* * *
77178738 TAATATTTATTGATTATATAA
1 TAACATTTATTGAGTACATAA
*
77178759 TAGCATTTATT
1 TAACATTTATT
77178770 TTAGATTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (21 bp):
TAACATTTATTGAGTACATAA
Found at i:77181224 original size:22 final size:23
Alignment explanation
Indices: 77181193--77181236 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
77181183 AGTCAAATAT
*
77181193 CATATTCAGAAACGAATACAGAA
1 CATATTCAGAAACAAATACAGAA
*
77181216 CATA-TCAGATACAAATACAGA
1 CATATTCAGAAACAAATACAGA
77181237 TTCAGATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.18
Consensus pattern (23 bp):
CATATTCAGAAACAAATACAGAA
Found at i:77183364 original size:30 final size:30
Alignment explanation
Indices: 77183330--77183540 Score: 128
Period size: 30 Copynumber: 7.1 Consensus size: 30
77183320 TTCCTAGCTC
*
77183330 GATAGCCGAAGCTATCCCTTTTCATTATTT
1 GATAGTCGAAGCTATCCCTTTTCATTATTT
* * * *
77183360 GATAGTCGTCA-CCATCTCTTTTCATT-GTT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
* * * * *
77183389 GATATTTGTCA-CCATCCCTTTTCATAATTT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
** *
77183419 GATAGGT-GAAGCTATCTGTTTTCATTATTC
1 GATA-GTCGAAGCTATCCCTTTTCATTATTT
* *
77183449 GATAGTCGAAGCTATCCCTTTCCATTGTTT
1 GATAGTCGAAGCTATCCCTTTTCATTATTT
* * * **
77183479 -ATGGTCGTCA-CCATCCCTTTTCACAATTT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
* * * *
77183508 GATAGTCGAGGCTATCCCCTTCCATTAGTT
1 GATAGTCGAAGCTATCCCTTTTCATTATTT
77183538 GAT
1 GAT
77183541 GATCGTTGAT
Statistics
Matches: 135, Mismatches: 38, Indels: 16
0.71 0.20 0.08
Matches are distributed among these distances:
29 47 0.35
30 86 0.64
31 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (30 bp):
GATAGTCGAAGCTATCCCTTTTCATTATTT
Found at i:77183441 original size:89 final size:89
Alignment explanation
Indices: 77183337--77183534 Score: 229
Period size: 89 Copynumber: 2.2 Consensus size: 89
77183327 CTCGATAGCC
* * * * * *
77183337 GAAGCTATCCCTTTTCATTATTTGATAGTCGTCA-CCATCTCTTTTCATTGTTGATATTTGTCAC
1 GAAGCTATCCCTTTTCATTATTCGATAGTCG-AAGCCATCCCTTTCCATTGTTGATAGTCGTCAC
*
77183401 CATCCCTTTTCATAATTTGATAGGT
65 CATCCCTTTTCACAATTTGATAGGT
** * * *
77183426 GAAGCTATCTGTTTTCATTATTCGATAGTCGAAGCTATCCCTTTCCATTGTTTATGGTCGTCACC
1 GAAGCTATCCCTTTTCATTATTCGATAGTCGAAGCCATCCCTTTCCATTGTTGATAGTCGTCACC
77183491 ATCCCTTTTCACAATTTGATA-GT
66 ATCCCTTTTCACAATTTGATAGGT
* * *
77183514 CGAGGCTATCCCCTTCCATTA
1 -GAAGCTATCCCTTTTCATTA
77183535 GTTGATGATC
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 3 0.03
89 87 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (89 bp):
GAAGCTATCCCTTTTCATTATTCGATAGTCGAAGCCATCCCTTTCCATTGTTGATAGTCGTCACC
ATCCCTTTTCACAATTTGATAGGT
Found at i:77183690 original size:20 final size:20
Alignment explanation
Indices: 77183665--77183722 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
77183655 GATAAAAGTA
*
77183665 GAAATGTAGTTGATTAATCT
1 GAAATGTAGTCGATTAATCT
77183685 GAAATGTAGTCGATTAATCT
1 GAAATGTAGTCGATTAATCT
77183705 GAAATGTAGTCGATTAAT
1 GAAATGTAGTCGATTAAT
77183723 TCGAAGCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (20 bp):
GAAATGTAGTCGATTAATCT
Found at i:77184949 original size:50 final size:50
Alignment explanation
Indices: 77184881--77184977 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
77184871 CGTGTCCCTG
* * * **
77184881 GCCCGTGTGGCCCTAAAGCCAAAACAA-TGAGTTACATGGCCTGGACATAC
1 GCCCGTGTGACCCCAAAGCCAAAA-AAGTAAGTTACACAGCCTGGACATAC
77184931 GCCCGTGTGACCCCAAAGCCAAAAAAGTAAGTTACACAGCCTGGACA
1 GCCCGTGTGACCCCAAAGCCAAAAAAGTAAGTTACACAGCCTGGACA
77184978 CATGCTTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.15
Consensus pattern (50 bp):
GCCCGTGTGACCCCAAAGCCAAAAAAGTAAGTTACACAGCCTGGACATAC
Found at i:77189853 original size:16 final size:18
Alignment explanation
Indices: 77189834--77189879 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
77189824 CTATAAGATA
77189834 AATATTAAATAA-A-TTT
1 AATATTAAATAACACTTT
77189850 AATATTAAGATAATCACTTT
1 AATATTAA-ATAA-CACTTT
77189870 AATATTAAAT
1 AATATTAAAT
77189880 TAATATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.31
17 4 0.15
19 3 0.12
20 11 0.42
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
AATATTAAATAACACTTT
Found at i:77189876 original size:71 final size:68
Alignment explanation
Indices: 77189789--77189925 Score: 179
Period size: 68 Copynumber: 2.0 Consensus size: 68
77189779 TGGTTAAATT
* *
77189789 TAATCACTTTATTATTAAATTAAAAGAATATTTA-TCTATAAGATAAATATTAAA-TAAATTTAA
1 TAATCACTTTAATATTAAATT--AA-AATA-GTACTCT-TAAGATAAATATTAAATTAAATTTAA
77189852 TATTAAGA
61 TATTAAGA
* *
77189860 TAATCACTTTAATATTAAATTAATATAGTACTCTTAAGATAAATATTAAATTTAATTTAATATTA
1 TAATCACTTTAATATTAAATTAAAATAGTACTCTTAAGATAAATATTAAATTAAATTTAATATTA
77189925 A
66 A
77189926 ATCTATTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 18 0.30
68 20 0.33
69 2 0.03
71 20 0.33
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAAAATAGTACTCTTAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:77190272 original size:19 final size:19
Alignment explanation
Indices: 77190244--77190285 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
77190234 CTTGGACCCC
* * *
77190244 ATTTATGATCTCGGGTCCA
1 ATTTACGATCTCAGATCCA
77190263 ATTTACGATCTCAGATCCA
1 ATTTACGATCTCAGATCCA
77190282 ATTT
1 ATTT
77190286 TCAAGTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (19 bp):
ATTTACGATCTCAGATCCA
Found at i:77191980 original size:50 final size:50
Alignment explanation
Indices: 77191926--77192021 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
77191916 CAGGGCCTTA
* * *
77191926 TTTATCATTATGTTCATGGTTTTATAGTTTTTACGTCTTTCTTGTAATTT
1 TTTATCATTATGTCCATGGCTTGATAGTTTTTACGTCTTTCTTGTAATTT
*
77191976 TTTATCATTATGTCCATGGCTTGATAGTTTTTACTTCTTTCTTGTA
1 TTTATCATTATGTCCATGGCTTGATAGTTTTTACGTCTTTCTTGTA
77192022 TTTATTTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.57
Consensus pattern (50 bp):
TTTATCATTATGTCCATGGCTTGATAGTTTTTACGTCTTTCTTGTAATTT
Found at i:77194968 original size:2 final size:2
Alignment explanation
Indices: 77194961--77194989 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77194951 TTATATGTCT
77194961 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
77194990 TTTAAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:77196214 original size:265 final size:264
Alignment explanation
Indices: 77195719--77197150 Score: 1595
Period size: 265 Copynumber: 5.4 Consensus size: 264
77195709 AACTTCTTGA
* * * * *
77195719 GCAAGCATGATTTATAGTCTAAGACATACATGCCTTCATGTTGATCATTAGAAATCTTATTT-TA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTA-CAATTTTTTTTCTA
* * * * * * ***
77195783 ATATTTTTTTTCTAGTTGTTGTT-CCTCTATAAGGGTAATGATTCATCATACTTTTTGTGGCATG
65 ATCTTTTTTTACTAGTTGTTGTTGCTTC-ATAAGGGTAATGATTCCTCATACTTTATGCGATGTG
* * * *
77195847 TTTACATATTTGCTCTTAACATAATACTG-AGGAAACCTCTTTTTGCTTTTCACAGGTTCAACC-
129 TTTACATATTTCCCCTTAACATAATACTGAAGG-AACCTC-CTTTGCTTTTCACACGTTCAACCG
** * * * *
77195910 AAACTTTGAGCA-AAGAAGAATATAAATCCACAGGTGAAATTAGGTATTGATAACTTCTTAAGGC
192 AAA-TTTGAG-AGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGC
77195974 CAAATGTTGT
255 CAAATGTTGT
* ** * *
77195984 GTAAGCATGATTTATAGTCTGAGACATACGTACCTTCATGTTAATCATTACAATTTTTTTTCTAA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTACAATTTTTTTTCTAA
* * * *
77196049 TCTTTCTTTACTAGTTGTTGTTCCTTCATAAGGATTATGATTCCTCATACTTTATGCGATGTGTT
66 TCTTTTTTTACTAGTTGTTGTTGCTTCATAAGGGTAATGATTCCTCATACTTTATGCGATGTGTT
* * * ** *
77196114 TATATATTTCCCCTTAACATAATACTGAGGGAACCTCCTATTGCTTTTGACATATTCAACCAAAA
131 TACATATTTCCCCTTAACATAATACTGAAGGAACCTCCT-TTGCTTTTCACACGTTCAACCGAAA
* * * * *
77196179 TTTAAAAGAAAAAGAACGTAATTACACATGTGAAATTAAGTATTGATAAGTTCTTGAGGCCAAAT
195 TTTGAGAGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAAT
77196244 GTTGT
260 GTTGT
* * ** *
77196249 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCACGTTGATCATTACAAATCCTATTCTAA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTACAATTTTTTTTCTAA
* * * * *
77196314 TCTTTTTTTGCCAGTTGTTGTTGCTTCATAAGGGTGATGATTACTTATACTTTATGCGATGTGTT
66 TCTTTTTTTACTAGTTGTTGTTGCTTCATAAGGGTAATGATTCCTCATACTTTATGCGATGTGTT
* * * *
77196379 TACATATTTCCCTTTAACATAATACTGAAGGAACCTCCCTTTGTTTTTCACACGGTCAATCGAAA
131 TACATATTTCCCCTTAACATAATACTGAAGGAACCT-CCTTTGCTTTTCACACGTTCAACCGAAA
* * *
77196444 TTTGTGGGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAAT
195 TTTGAGAGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAAT
77196509 GTTGT
260 GTTGT
* * * * *
77196514 GCAAGCATGATTTATAGTCCAAGACATATGTGCTTTCATGTTGATCATTACAAATCTTGTTCTAA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTACAATTTTTTTTCTAA
* * *
77196579 TCTTTTTTTACTAGTTGTTGTTGC-TCTAGAAGGGTAATGATTCGTCATACTTTATGCAATGTGT
66 TCTTTTTTTACTAGTTGTTGTTGCTTC-ATAAGGGTAATGATTCCTCATACTTTATGCGATGTGT
** * * * *
77196643 TTACGCATTTGCCCTTAACATATTATTAAAGGAACCTCCCTTTGCTTTTCACACGTTCAACCGAA
130 TTACATATTTCCCCTTAACATAATACTGAAGGAACCT-CCTTTGCTTTTCACACGTTCAACCGAA
*
77196708 ATTTGAGGGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAA
194 ATTTGAGAGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAA
*
77196773 TGTTAT
259 TGTTGT
* * * * * * * * *
77196779 GCAAGCATGAATTATAGTACAATAAATATGTACCTTCATGTCGATCATTACAAATCTTGTTT-TA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTAC-AATTTTTTTTCTA
* * * * * * *
77196843 ATCATTTTTTGCCAGTTGTTGTTGCTCCAGAAGGGTAATGATTTCTCATACTTTATG-TAGTGTG
65 ATCTTTTTTTACTAGTTGTTGTTGCTTCATAAGGGTAATGATTCCTCATACTTTATGCGA-TGTG
* * * ** * *
77196907 TTTTCGTATTTGCCCC-TAACATAATACTGAAAGAACCTTATTTTTCTTTTCACACGTTCAACTG
129 TTTACATATTT-CCCCTTAACATAATACTGAAGGAACC-TCCTTTGCTTTTCACACGTTCAACCG
* * * * * *
77196971 AAATTTGAGTGAAGAAGAATGTAAATCCACAGGAGAAATTAAGTATTGATAACTTCCTGAGGCCA
192 AAATTTGAGAGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCA
*
77197036 AATATTGT
257 AATGTTGT
* * * * * ****
77197044 GTAAGCATGATTTATAGTCCAAAACATACATGCCTTCACGTTGATCATTACAAATACCATTCTAA
1 GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTACAATTTTTTTTCTAA
* * * *
77197109 TCCTTTTTTGCTAGTTGTTGTTGCTCCGTAAGGGTAATGATT
66 TCTTTTTTTACTAGTTGTTGTTGCTTCATAAGGGTAATGATT
77197151 GCTCCATAAG
Statistics
Matches: 994, Mismatches: 159, Indels: 28
0.84 0.13 0.02
Matches are distributed among these distances:
264 17 0.02
265 956 0.96
266 21 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (264 bp):
GCAAGCATGATTTATAGTCCAAGACATACGTGCCTTCATGTTGATCATTACAATTTTTTTTCTAA
TCTTTTTTTACTAGTTGTTGTTGCTTCATAAGGGTAATGATTCCTCATACTTTATGCGATGTGTT
TACATATTTCCCCTTAACATAATACTGAAGGAACCTCCTTTGCTTTTCACACGTTCAACCGAAAT
TTGAGAGAAGAAGAACGTAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATG
TTGT
Found at i:77196726 original size:530 final size:527
Alignment explanation
Indices: 77195502--77197333 Score: 1965
Period size: 530 Copynumber: 3.5 Consensus size: 527
77195492 CCAAATGTTA
* * * * * * *
77195502 TGCCTTCAGGTTGATCTTTACAAATGTTATTCTAATCTTGTTTTGCTAGTTTTTGTTGCTC-CAT
1 TGCCTTCATGTTGATCATTACAAATCTTATTCTAATCTTTTTTTACTAGTTGTTGTTGCTCTCAG
* * ** * *
77195566 AAGGGTAATAATTCCTCATACTTTATACGGTGTGCTTACGTATTTGCCCTTAACATAATAATGAG
66 AAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* *
77195631 GGAACCTCCC--T--TTTTACACGTTCAACCAAAATTTGATGGAAGAAGAACATAATTACACATG
131 GGAACCTCCCTTTGCTTTTACACGTTCAACCAAAATTTGAGGGAAGAAGAACGTAATTACACATG
* *
77195692 TGAAATTAAGTATTGATAA---CTT-----C---T-TGA-GCAAGCATGATTTATAGTCTAAGAC
196 TGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAGTCCAAGAC
* * * * * *
77195744 ATACATGCCTTCATGTTGATCATTAGAAATCTTATTTTAATATTTTTTTTCTAGTTGTTGTT-CC
261 ATACGTGCCTTCATGTTGATCATTACAAATCTTATTTTAATCTTTTTTTGCCAGTTGTTGTTGCT
* *** *
77195808 TCTATAAGGGTAATGATTCATCATACTTTTTGTGGCATGTTTACATATTT-GCTCTTAACATAAT
326 TC-ATAAGGGTAATGATTC-TCATACTTTATG-GATGTGTTTACATATTTCCCT-TTAACATAAT
* * * * *
77195872 ACTG-AGGAAACCTCTTTTTGCTTTTCACA-GGTTCAACCAAACTTTGAGCAAAGAAGAATATAA
387 ACTGAAGG-AACCTCTATTTGTTTTTCACACGG-TCAACGAAA-TTTGAGCGAAGAAGAATGTAA
*
77195935 ATCCACAGGTGAAATTAGGTATTGATAACTTCTTAAGGCCAAATGTTGTGTAAGCATGATTTATA
449 ATCCACAGGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAATGTTGTGTAAGCATGATTTATA
**
77196000 GTCTGAGACATACG
514 GTCCAAGACATACG
* * * * * * * *
77196014 TACCTTCATGTTAATCATTACAATTTTTTTTCTAATCTTTCTTTACTAGTTGTTGTTCCT-TCAT
1 TGCCTTCATGTTGATCATTACAAATCTTATTCTAATCTTTTTTTACTAGTTGTTGTTGCTCTCAG
* * * ** *
77196078 AAGGATTATGATTCCTCATACTTTATGCGATGTGTTTATATATTTCCCCTTAACATAATACTGAG
66 AAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATACTGAG
** * ** *
77196143 GGAACCT-CCTATTGCTTTTGACATATTCAACCAAAATTTAAAAGAAAAAGAACGTAATTACACA
131 GGAACCTCCCT-TTGCTTTT-ACACGTTCAACCAAAATTTGAGGGAAGAAGAACGTAATTACACA
*
77196207 TGTGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAG
194 TGTGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAGTCCAAG
* * *
77196272 ACATACGTGCCTTCACGTTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTG
259 ACATACGTGCCTTCATGTTGATCATTACAAATCTTATTTTAATCTTTTTTTGCCAGTTGTTGTTG
* *
77196337 CTTCATAAGGGTGATGATTACTTATACTTTATGCGATGTGTTTACATATTTCCCTTTAACATAAT
324 CTTCATAAGGGTAATGATT-CTCATACTTTATG-GATGTGTTTACATATTTCCCTTTAACATAAT
** * * * *
77196402 ACTGAAGGAACCTCCCTTTGTTTTTCACACGGTCAATCGAAATTTGTGGGAAGAAGAACGTAATT
387 ACTGAAGGAACCTCTATTTGTTTTTCACACGGTCAA-CGAAATTTGAGCGAAGAAGAATGTAAAT
* *
77196467 ACACAGGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAATGTTGTGCAAGCATGATTTATAGT
451 CCACAGGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAATGTTGTGTAAGCATGATTTATAGT
*
77196532 CCAAGACATATG
516 CCAAGACATACG
* *
77196544 TGCTTTCATGTTGATCATTACAAATCTTGTTCTAATCTTTTTTTACTAGTTGTTGTTGCTCT-AG
1 TGCCTTCATGTTGATCATTACAAATCTTATTCTAATCTTTTTTTACTAGTTGTTGTTGCTCTCAG
* * * * * *
77196608 AAGGGTAATGATTCGTCATACTTTATGCAATGTGTTTACGCATTTGCCCTTAACATATTATTAAA
66 AAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* *
77196673 GGAACCTCCCTTTGCTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTACACAG
131 GGAACCTCCCTTTGCTTTT-ACACGTTCAACCAAAATTTGAGGGAAGAAGAACGTAATTACACAT
* * * *
77196738 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGAATTATAGTACAATA
195 GTGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAGTCCAAGA
* * * * * *
77196803 AATATGTACCTTCATGTCGATCATTACAAATCTTGTTTTAATCATTTTTTGCCAGTTGTTGTTGC
260 CATACGTGCCTTCATGTTGATCATTACAAATCTTATTTTAATCTTTTTTTGCCAGTTGTTGTTGC
* * * * * *
77196868 TCCAGAAGGGTAATGATTTCTCATACTTTATGTAGTGTGTTTTCGTATTTGCCC-CTAACATAAT
325 TTCATAAGGGTAATGA-TTCTCATACTTTATGGA-TGTGTTTACATATTT-CCCTTTAACATAAT
* * * *
77196932 ACTGAAAGAACCT-TATTTTTCTTTTCACACGTTCAACTGAAATTTGAGTGAAGAAGAATGTAAA
387 ACTGAAGGAACCTCTATTTGT-TTTTCACACGGTCAAC-GAAATTTGAGCGAAGAAGAATGTAAA
* * * *
77196996 TCCACAGGAGAAATTAAGTATTGATAACTTCCTGAGGCCAAATATTGTGTAAGCATGATTTATAG
450 TCCACAGGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAATGTTGTGTAAGCATGATTTATAG
* *
77197061 TCCAAAACATACA
515 TCCAAGACATACG
* * * *
77197074 TGCCTTCACGTTGATCATTACAAATAC-CATTCTAATCCTTTTTTGCTAGTTGTTGTTGCTCCGT
1 TGCCTTCATGTTGATCATTACAAAT-CTTATTCTAATCTTTTTTTACTAGTTGTTGTTG---C--
* * * * *
77197138 AAGGGTAATGATTGCTCCATAAGGGTAACGATTCCTCATACTTAATGCAGTGTGTTTATGTATTT
60 ------------T-CT-CAGAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTT
* * * * * **
77197203 TCCCTTAATATAATACCGAGGGAAGCTCCCTTTGTTTTTTACACGTTCAACTGAAATTTGAGGGA
111 GCCCTTAACATAATACTGAGGGAACCTCCCTTTG-CTTTTACACGTTCAACCAAAATTTGAGGGA
* * * * *
77197268 AGAAGAATGTAATTATACAAGTGAAATTAAGTATCGATAAGTTCTTAAGGCCAAATGTTATGCAA
175 AGAAGAACGTAATTACACATGTGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTATGCAA
77197333 G
240 G
77197334 GGAGATTTTA
Statistics
Matches: 1101, Mismatches: 164, Indels: 72
0.82 0.12 0.05
Matches are distributed among these distances:
511 2 0.00
512 113 0.10
514 1 0.00
516 4 0.00
517 58 0.05
520 3 0.00
525 1 0.00
528 1 0.00
529 7 0.01
530 728 0.66
531 25 0.02
533 1 0.00
547 1 0.00
548 2 0.00
550 150 0.14
551 4 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (527 bp):
TGCCTTCATGTTGATCATTACAAATCTTATTCTAATCTTTTTTTACTAGTTGTTGTTGCTCTCAG
AAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATACTGAG
GGAACCTCCCTTTGCTTTTACACGTTCAACCAAAATTTGAGGGAAGAAGAACGTAATTACACATG
TGAAATTAAGTATTGATAAGTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAGTCCAAGAC
ATACGTGCCTTCATGTTGATCATTACAAATCTTATTTTAATCTTTTTTTGCCAGTTGTTGTTGCT
TCATAAGGGTAATGATTCTCATACTTTATGGATGTGTTTACATATTTCCCTTTAACATAATACTG
AAGGAACCTCTATTTGTTTTTCACACGGTCAACGAAATTTGAGCGAAGAAGAATGTAAATCCACA
GGTGAAATTAAGTATTGATAACTTCTTAAGGCCAAATGTTGTGTAAGCATGATTTATAGTCCAAG
ACATACG
Found at i:77197154 original size:20 final size:20
Alignment explanation
Indices: 77197129--77197170 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
77197119 CTAGTTGTTG
* *
77197129 TTGCTCCGTAAGGGTAATGA
1 TTGCTCCATAAGGGTAACGA
77197149 TTGCTCCATAAGGGTAACGA
1 TTGCTCCATAAGGGTAACGA
77197169 TT
1 TT
77197171 CCTCATACTT
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:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCTCCATAAGGGTAACGA
Found at i:77198385 original size:14 final size:15
Alignment explanation
Indices: 77198363--77198400 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
77198353 AATTAAATAT
*
77198363 AAATATTAAACTTTA
1 AAATATTAAACATTA
77198378 AAAT-TTAAACATT-
1 AAATATTAAACATTA
77198391 AAATATTAAA
1 AAATATTAAA
77198401 TTCTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 13 0.62
15 4 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATTAAACATTA
Found at i:77198399 original size:21 final size:21
Alignment explanation
Indices: 77198357--77198400 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
77198347 ATTTATAATT
* *
77198357 AAATATAAATATTAAACTTTA
1 AAATATAAACATTAAACATTA
* *
77198378 AAATTTAAACATTAAATATTA
1 AAATATAAACATTAAACATTA
77198399 AA
1 AA
77198401 TTCTAAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATATAAACATTAAACATTA
Found at i:77198460 original size:7 final size:7
Alignment explanation
Indices: 77198445--77198515 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
77198435 CTTAAGCTCT
*
77198445 AATACTA
1 AATATTA
77198452 AATATTA
1 AATATTA
77198459 AATATTA
1 AATATTA
77198466 AACT-TTCA
1 AA-TATT-A
*
77198474 ACTA-TA
1 AATATTA
77198480 AATATT-
1 AATATTA
*
77198486 AGTATTA
1 AATATTA
77198493 AAGT-TTA
1 AA-TATTA
77198500 AATATTA
1 AATATTA
77198507 AATATTA
1 AATATTA
77198514 AA
1 AA
77198516 CTCTAATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 10 0.19
7 38 0.73
8 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (7 bp):
AATATTA
Found at i:77198491 original size:27 final size:27
Alignment explanation
Indices: 77198445--77198514 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
77198435 CTTAAGCTCT
*
77198445 AATACTAAATATTAAATATTAAACTTTCA
1 AATATTAAATATT-AATATTAAACTTT-A
* * *
77198474 ACTA-TAAATATTAGTATTAAAGTTTA
1 AATATTAAATATTAATATTAAACTTTA
77198500 AATATTAAATATTAA
1 AATATTAAATATTAA
77198515 ACTCTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.11
27 20 0.57
28 8 0.23
29 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (27 bp):
AATATTAAATATTAATATTAAACTTTA
Found at i:77199467 original size:17 final size:17
Alignment explanation
Indices: 77199445--77199479 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
77199435 GGTTTGGAAA
77199445 AGTTTTAGATTGTACTG
1 AGTTTTAGATTGTACTG
*
77199462 AGTTTTAGATTGTTCTG
1 AGTTTTAGATTGTACTG
77199479 A
1 A
77199480 AAATACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.49
Consensus pattern (17 bp):
AGTTTTAGATTGTACTG
Found at i:77200413 original size:15 final size:15
Alignment explanation
Indices: 77200393--77200423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77200383 ATGATGTCCC
77200393 TTCATTGACATTACA
1 TTCATTGACATTACA
*
77200408 TTCATTGGCATTACA
1 TTCATTGACATTACA
77200423 T
1 T
77200424 GACATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (15 bp):
TTCATTGACATTACA
Found at i:77201101 original size:18 final size:18
Alignment explanation
Indices: 77201078--77201115 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
77201068 TTAATTAAGA
*
77201078 AATTAATTTAGTTAGTTT
1 AATTAATTTAGTTAATTT
77201096 AATTAATTTAGTTAATTT
1 AATTAATTTAGTTAATTT
77201114 AA
1 AA
77201116 CTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
AATTAATTTAGTTAATTT
Found at i:77201105 original size:9 final size:9
Alignment explanation
Indices: 77201064--77201115 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
77201054 GTTGAGAAAA
77201064 TAATTTAAT
1 TAATTTAAT
**
77201073 TAA-GAAAT
1 TAATTTAAT
*
77201081 TAATTTAGT
1 TAATTTAAT
*
77201090 TAGTTTAAT
1 TAATTTAAT
*
77201099 TAATTTAGT
1 TAATTTAAT
77201108 TAATTTAA
1 TAATTTAA
77201116 CTTATTAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (9 bp):
TAATTTAAT
Found at i:77207705 original size:49 final size:49
Alignment explanation
Indices: 77207631--77207765 Score: 144
Period size: 51 Copynumber: 2.7 Consensus size: 49
77207621 ATATGGTACG
* *
77207631 CATAGTAGCCTGCTCATAGTACTACACATGCGACCAATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACA
* * * * * ** * *
77207680 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCTCAGTTTTTGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGATACA
*
77207731 TATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
77207766 TCACAATAGA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 29 0.42
50 2 0.03
51 38 0.55
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACA
Found at i:77209364 original size:15 final size:15
Alignment explanation
Indices: 77209308--77209372 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
77209298 TAAAGATAAC
*
77209308 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
77209322 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
77209337 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
77209352 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
77209367 AAGAAA
1 AAGAAA
77209373 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:77209374 original size:30 final size:31
Alignment explanation
Indices: 77209308--77209376 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
77209298 TAAAGATAAC
*
77209308 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
77209338 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
77209367 AAGAAACCCA
1 AAGAAACCCA
77209377 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:77212547 original size:50 final size:49
Alignment explanation
Indices: 77212380--77212604 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
77212370 CTGGTACGCA
* * *
77212380 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
77212429 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
77212478 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
77212528 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
77212579 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
77212605 TGCGACCTCA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
49 79 0.50
50 43 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:77212551 original size:99 final size:100
Alignment explanation
Indices: 77212367--77212611 Score: 332
Period size: 99 Copynumber: 2.5 Consensus size: 100
77212357 TAGCCAAAGC
* * * * ** *
77212367 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
77212432 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
77212465 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
77212530 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
77212566 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
77212612 TCACAATAGA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:77219742 original size:46 final size:47
Alignment explanation
Indices: 77219593--77219867 Score: 237
Period size: 46 Copynumber: 5.8 Consensus size: 47
77219583 TTATTTGTGT
* * *
77219593 GCCAGTGTAAAACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGA
* * *
77219639 GCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGA
*
77219687 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
* * *
77219733 GCCAATGTAAGACATGTCTGGGATATGCATCGG-CTACAAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGA
* * * * *
77219777 GTCAGTGTAAGGCCATGTCTGGGACATG-A-CGTTGACACGGATATGTGAGA
1 GCCAGTGTAA-GACATGTCTGGGACATGCATCG--GCCTC-GAGATGT-AGA
*
77219827 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA
77219868 TTTCGATAGT
Statistics
Matches: 185, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 9 0.05
45 19 0.10
46 70 0.38
47 27 0.15
48 25 0.14
49 2 0.01
50 24 0.13
51 4 0.02
52 1 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:77219900 original size:99 final size:96
Alignment explanation
Indices: 77219777--77219957 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 96
77219767 TACAAGATGT
* * * * * *
77219777 GTCAGTGTAAGGCCATGTCTGGGACATGACGTTGACACGGATATGTGA-GAGCTAGTGTAAGACC
1 GTCAATGTAAGACCATGCCCGGGACATGACATTGAC-CGG--ATG-GATGAGCCAGTGTAAGACC
77219841 ATGTCTGGGACATGGCATCGGCCTCGATTTCGATA
62 ATGTCTGGGACATGGCATCGGCCTCGATTTCGATA
* **
77219876 GTCAATGTAAGACCATGCCCGGGACATGGCATTGACTTGATGGATGAGCCAGTGTAAGACCATGT
1 GTCAATGTAAGACCATGCCCGGGACATGACATTGACCGGATGGATGAGCCAGTGTAAGACCATGT
*
77219941 TTGGGACATGGCATCGG
66 CTGGGACATGGCATCGG
77219958 TATTATACCC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
95 2 0.03
96 38 0.54
98 1 0.01
99 30 0.42
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
GTCAATGTAAGACCATGCCCGGGACATGACATTGACCGGATGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCTCGATTTCGATA
Found at i:77219946 original size:146 final size:140
Alignment explanation
Indices: 77219683--77219950 Score: 331
Period size: 146 Copynumber: 1.9 Consensus size: 140
77219673 GCATTGAGAC
77219683 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAAGACAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAAGACAT
* * * * * * *
77219748 GTCTGGGATATGCATCGGCTACAAGATGTGTCAGTGTAAGGCCATGTCTGGGACATGACGTTGAC
66 GCCCGGGACATGCATCGACTACAAGATGAGCCAGTGTAAGACCATGTCTGGGACATGACGTTGAC
77219813 ACGGATATGT
131 ACGGATATGT
** *
77219823 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCG-ATAGTCAATGTAAG
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GTA-AGCCAATGTAAG
* ** * *
77219887 ACCATGCCCGGGACATGGCATTGACTTGATGGATGAGCCAGTGTAAGACCATGTTTGGGACATG
62 A-CATGCCCGGGACAT-GCATCGACTACA-AGATGAGCCAGTGTAAGACCATGTCTGGGACATG
77219951 GCATCGGTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
140 16 0.15
141 14 0.13
142 15 0.14
143 13 0.12
144 11 0.10
145 8 0.08
146 29 0.27
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (140 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAAGACAT
GCCCGGGACATGCATCGACTACAAGATGAGCCAGTGTAAGACCATGTCTGGGACATGACGTTGAC
ACGGATATGT
Found at i:77224836 original size:5 final size:5
Alignment explanation
Indices: 77224819--77224851 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77224809 GATGCCAACT
*
77224819 ATAAA ATATA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
77224852 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
ATAAA
Found at i:77226537 original size:20 final size:20
Alignment explanation
Indices: 77226512--77226557 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
77226502 GGGAACAATT
* *
77226512 TTTCAATCAATTTTAAAATG
1 TTTCAATCAATTTAAAAAGG
**
77226532 TTTCAATTGATTTAAAAAGG
1 TTTCAATCAATTTAAAAAGG
77226552 TTTCAA
1 TTTCAA
77226558 CCATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTCAATCAATTTAAAAAGG
Found at i:77228062 original size:29 final size:30
Alignment explanation
Indices: 77228015--77228082 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
77228005 TTGCCTAAGA
* **
77228015 GTAAATACTCAAAACTTGAGGGGTTAA-AGT
1 GTAAATA-TCAAAACTTGAAGGGCCAATAGT
* *
77228045 GTAAATATGAAAAGTTGAAGGGCCAATAGT
1 GTAAATATCAAAACTTGAAGGGCCAATAGT
77228075 GTAAATAT
1 GTAAATAT
77228083 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
GTAAATATCAAAACTTGAAGGGCCAATAGT
Found at i:77230083 original size:40 final size:40
Alignment explanation
Indices: 77229966--77230103 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
77229956 CTCGAGAATA
* ** *
77229966 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
77230006 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
77230046 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
77230086 TAAGGCGGGTAGGATTTG
1 TAAAGTGGATAGGATTTG
77230104 ACCTGAAAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:77233532 original size:25 final size:25
Alignment explanation
Indices: 77233482--77233532 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
77233472 CCCCTATAAT
* *
77233482 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
77233507 GTGAAAATGACCATTATACCCTTAG
1 GTGAAAATGACCATTATACCCCTAG
77233532 G
1 G
77233533 GATATGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:77233588 original size:10 final size:10
Alignment explanation
Indices: 77233573--77233610 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
77233563 TGTTCTGTAC
77233573 ATGATATGCA
1 ATGATATGCA
77233583 ATGATATGCA
1 ATGATATGCA
*
77233593 CATGATATGCC
1 -ATGATATGCA
77233604 ATGATAT
1 ATGATAT
77233611 ATTCATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (10 bp):
ATGATATGCA
Found at i:77233597 original size:21 final size:21
Alignment explanation
Indices: 77233571--77233610 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
77233561 ACTGTTCTGT
77233571 ACATGATATGCAATGATATGC
1 ACATGATATGCAATGATATGC
*
77233592 ACATGATATGCCATGATAT
1 ACATGATATGCAATGATAT
77233611 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCAATGATATGC
Found at i:77249838 original size:5 final size:5
Alignment explanation
Indices: 77249828--77249857 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
77249818 TTTTCCAACA
77249828 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
77249858 CTTATTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:77251985 original size:21 final size:21
Alignment explanation
Indices: 77251956--77251995 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
77251946 TAATATGTTA
* * *
77251956 TATGTTAAGTGTGATCTATAT
1 TATGATAAGTATGAGCTATAT
77251977 TATGATAAGTATGAGCTAT
1 TATGATAAGTATGAGCTAT
77251996 TATTCATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (21 bp):
TATGATAAGTATGAGCTATAT
Found at i:77255309 original size:25 final size:26
Alignment explanation
Indices: 77255258--77255308 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
77255248 GGCATTAAGG
*
77255258 GTTTTCTTTTAAAAGAAAGAACAAAA
1 GTTTTCTTTTAAAAGAAAAAACAAAA
77255284 GTTTTC-TTTAAAAGCAAAAAACAAA
1 GTTTTCTTTTAAAAG-AAAAAACAAA
77255309 GGGTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (26 bp):
GTTTTCTTTTAAAAGAAAAAACAAAA
Found at i:77255807 original size:29 final size:29
Alignment explanation
Indices: 77255767--77255827 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
77255757 TTCTTTTATG
77255767 TATATATTATTTATTCACACATATATATA
1 TATATATTATTTATTCACACATATATATA
*
77255796 TATATATTATTTATTCACATATATATATA
1 TATATATTATTTATTCACACATATATATA
77255825 TAT
1 TAT
77255828 TGTTTGGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TATATATTATTTATTCACACATATATATA
Found at i:77255849 original size:21 final size:20
Alignment explanation
Indices: 77255815--77255853 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
77255805 TTTATTCACA
77255815 TATATATATATATTGTTTGG
1 TATATATATATATTGTTTGG
*
77255835 TATATCATCTATATTGTTT
1 TATAT-ATATATATTGTTT
77255854 TGTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (20 bp):
TATATATATATATTGTTTGG
Found at i:77256178 original size:15 final size:14
Alignment explanation
Indices: 77256157--77256198 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
77256147 AAATTTCATC
77256157 TATATATTATTATT
1 TATATATTATTATT
77256171 TCATATATTATT-TT
1 T-ATATATTATTATT
*
77256185 TAT-TTTTATTATT
1 TATATATTATTATT
77256198 T
1 T
77256199 TGATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 4 0.16
15 10 0.40
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TATATATTATTATT
Found at i:77256187 original size:18 final size:19
Alignment explanation
Indices: 77256149--77256189 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
77256139 GTATTTTGAA
*
77256149 ATTTCATCTATATATTATT
1 ATTTCATATATATATTATT
*
77256168 ATTTCATATAT-TATTTTT
1 ATTTCATATATATATTATT
77256186 ATTT
1 ATTT
77256190 TTATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTCATATATATATTATT
Found at i:77268335 original size:177 final size:177
Alignment explanation
Indices: 77268030--77268415 Score: 666
Period size: 177 Copynumber: 2.2 Consensus size: 177
77268020 TGAAAGTTAC
*
77268030 AGATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
*
77268095 GGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTGAAGA
66 AGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTGAAGA
*
77268160 TACAAGTCTTATCTTCCTGAAGTTGCA-AGAAGTAGACTGAAAATTGT
131 TACAAGTCTTATCTTCCTGAAGTTGCAGA-AAGCAGACTGAAAATTGT
* *
77268207 AGATCTTATATCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
* * * *
77268272 AGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
66 AGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTGAAGA
*
77268337 TACAGGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAAATTGT
131 TACAAGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAAATTGT
77268384 AGATCTTATCTCCATGTATCGGCTATGGAGCA
1 AGATCTTATCTCCATGTATCGGCTATGGAGCA
77268416 TATTTAAGCC
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
177 195 0.99
178 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (177 bp):
AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
AGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTGAAGA
TACAAGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAAATTGT
Found at i:77269342 original size:26 final size:26
Alignment explanation
Indices: 77269291--77269343 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
77269281 GGCATTAAGG
* *
77269291 GTTTTCTTTTAAAAGAAAGAACAAAA
1 GTTTTCTTTTAAAAGAAAAAAAAAAA
77269317 GTTTTC-TTTAAAAGCAAAAAAAAAAA
1 GTTTTCTTTTAAAAG-AAAAAAAAAAA
77269343 G
1 G
77269344 GGTTTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (26 bp):
GTTTTCTTTTAAAAGAAAAAAAAAAA
Found at i:77269351 original size:25 final size:24
Alignment explanation
Indices: 77269297--77269352 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
77269287 AAGGGTTTTC
* * **
77269297 TTTTAAAAGAAAGAACAAAAGTTT
1 TTTTAAAAGAAAAAAAAAAAGGGT
77269321 TCTTTAAAAGCAAAAAAAAAAAGGGT
1 T-TTTAAAAG-AAAAAAAAAAAGGGT
77269347 TTTTAA
1 TTTTAA
77269353 GCAGGTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 12 0.46
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (24 bp):
TTTTAAAAGAAAAAAAAAAAGGGT
Found at i:77269891 original size:21 final size:20
Alignment explanation
Indices: 77269857--77269895 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
77269847 TTTATTCATA
77269857 TATATATATATATTGTTTGG
1 TATATATATATATTGTTTGG
*
77269877 TATATCATCTATATTGTTT
1 TATAT-ATATATATTGTTT
77269896 TGATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (20 bp):
TATATATATATATTGTTTGG
Found at i:77270216 original size:15 final size:14
Alignment explanation
Indices: 77270192--77270236 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
77270182 TTGAAATATC
77270192 ATTTATATATTATT
1 ATTTATATATTATT
77270206 ATTTCATATATTATT
1 ATTT-ATATATTATT
*
77270221 -TTTAT-TTTTATT
1 ATTTATATATTATT
77270233 ATTT
1 ATTT
77270237 TGATTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 7 0.25
15 10 0.36
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTATATATTATT
Found at i:77275783 original size:37 final size:37
Alignment explanation
Indices: 77275733--77275811 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
77275723 AATCAAAAGT
77275733 GTAAATAATAGTATATAGATACAACTTACGGAAATAA
1 GTAAATAATAGTATATAGATACAACTTACGGAAATAA
*
77275770 GTAAATAATAGTATATAGGTACAACTTACGGAAATAA
1 GTAAATAATAGTATATAGATACAACTTACGGAAATAA
77275807 -TAAAT
1 GTAAAT
77275812 TGTGCATAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (37 bp):
GTAAATAATAGTATATAGATACAACTTACGGAAATAA
Found at i:77279001 original size:54 final size:53
Alignment explanation
Indices: 77278863--77279066 Score: 162
Period size: 53 Copynumber: 3.8 Consensus size: 53
77278853 AGGGTTTAAG
* * * *
77278863 GATACCATGTAAGACCATGCTAAGGCATGGAAATT-AGTAAGGTTTC-TAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGA-TAA-G-TTCATAAGGCAAA
* * * * *
77278918 GAAATCATGTAAGACAATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGCAAA
* * * * * *
77278973 G-TCCCATGTAAGACCATGCCGAGGCATGGCATTGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
** * *
77279025 GATACCATGTAAGACCATATCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT
77279067 TCAAAAGGAT
Statistics
Matches: 118, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
52 12 0.10
53 36 0.31
54 36 0.31
55 34 0.29
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
Found at i:77279065 original size:107 final size:109
Alignment explanation
Indices: 77278867--77279066 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 109
77278857 TTTAAGGATA
* *
77278867 CCATGTAAGACCATGCTAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
77278932 CAATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGTC
66 CAATATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGTC
* * * * *
77278976 CCATGTAAGACCATGCCGAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
77279038 ACCATATCAAGACATGGCAATGGTAAGTT
65 ACAATATCAAGACATGGCAATGATAAGTT
77279067 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 3 0.04
107 45 0.58
108 6 0.08
109 24 0.31
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CAATATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGTC
Found at i:77281853 original size:8 final size:8
Alignment explanation
Indices: 77281840--77281864 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77281830 GAAGAGACAT
77281840 CCTCTTTG
1 CCTCTTTG
77281848 CCTCTTTG
1 CCTCTTTG
77281856 CCTCTTTG
1 CCTCTTTG
77281864 C
1 C
77281865 GCTAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.40, G:0.12, T:0.48
Consensus pattern (8 bp):
CCTCTTTG
Found at i:77287770 original size:55 final size:53
Alignment explanation
Indices: 77287640--77287835 Score: 191
Period size: 55 Copynumber: 3.6 Consensus size: 53
77287630 GTTACCATTA
*
77287640 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * *
77287693 CCATGCCTTGGCATGGTTTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
*** *
77287748 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * *
77287803 CCATGCCTT-AGCATGGTCTTACATCGTATCCTT
1 CCATGTCTTGA-CATGGTCTTACATGGGATCCTT
77287836 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 36 0.31
54 9 0.08
55 69 0.58
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:77288724 original size:18 final size:18
Alignment explanation
Indices: 77288693--77288739 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
77288683 AATTACATAT
* *
77288693 TTTATATTTTAAAA-TAA
1 TTTAAATTTAAAAATTAA
*
77288710 TATTGAATTTAAAAATTAA
1 T-TTAAATTTAAAAATTAA
77288729 TTTAAATTTAA
1 TTTAAATTTAA
77288740 TATGCACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.79
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAATTTAAAAATTAA
Found at i:77291995 original size:16 final size:16
Alignment explanation
Indices: 77291971--77292001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77291961 TAAACATGTC
77291971 AAACAATATATATTTG
1 AAACAATATATATTTG
*
77291987 AAACTATATATATTT
1 AAACAATATATATTT
77292002 TTATAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
AAACAATATATATTTG
Found at i:77292029 original size:20 final size:19
Alignment explanation
Indices: 77291998--77292043 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
77291988 AACTATATAT
*
77291998 ATTTTTATAAATTT-TAATA
1 ATTTTTACAAATTTATAA-A
77292017 ATGTTTTACAAATTTATAAA
1 AT-TTTTACAAATTTATAAA
77292037 ATTTTTA
1 ATTTTTA
77292044 AAAAAATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 14 0.58
21 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTTTACAAATTTATAAA
Found at i:77294033 original size:40 final size:40
Alignment explanation
Indices: 77293933--77294197 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
77293923 GCTCCTCGTT
* * * *
77293933 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
77293973 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
77294012 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
77294052 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
77294092 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
77294132 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
77294173 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
77294198 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:77294157 original size:80 final size:80
Alignment explanation
Indices: 77293900--77294197 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
77293890 AAATCACGTA
* ** * * *
77293900 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
77293962 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
77293978 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
77294041 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
77294058 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
77294122 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
77294138 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
77294198 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:77294206 original size:41 final size:41
Alignment explanation
Indices: 77294129--77294206 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77294119 TTTGTATCTC
* * *
77294129 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77294170 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77294207 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:77296295 original size:17 final size:17
Alignment explanation
Indices: 77296273--77296305 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77296263 ATTTAAATAC
*
77296273 TTTTTTTAATTTTATAG
1 TTTTTTAAATTTTATAG
77296290 TTTTTTAAATTTTATA
1 TTTTTTAAATTTTATA
77296306 TATTATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTAAATTTTATAG
Found at i:77299104 original size:25 final size:26
Alignment explanation
Indices: 77299075--77299137 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
77299065 AAACACAAGC
** *
77299075 CATTTAAATGGCTAGTTTCAACAAAA
1 CATTTAAATACCTAGTTTCAAAAAAA
*
77299101 -ATTTATATACCTAGTTTCAAAAAAA
1 CATTTAAATACCTAGTTTCAAAAAAA
*
77299126 CATTTATATACC
1 CATTTAAATACC
77299138 AACATTGACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (26 bp):
CATTTAAATACCTAGTTTCAAAAAAA
Found at i:77299137 original size:26 final size:25
Alignment explanation
Indices: 77299086--77299137 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
77299076 ATTTAAATGG
*
77299086 CTAGTTTCAACAAAAATTTATATAC
1 CTAGTTTCAAAAAAAATTTATATAC
77299111 CTAGTTTCAAAAAAACATTTATATAC
1 CTAGTTTCAAAAAAA-ATTTATATAC
77299137 C
1 C
77299138 AACATTGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (25 bp):
CTAGTTTCAAAAAAAATTTATATAC
Found at i:77299749 original size:25 final size:23
Alignment explanation
Indices: 77299721--77299794 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
77299711 GAAACTCCTC
77299721 TGAGCTGAATAATAGGAAGCTCATG
1 TGAGCT-AAT-ATAGGAAGCTCATG
**
77299746 TGAGCTAAGTAGCGGAAGCTCATG
1 TGAGCTAA-TATAGGAAGCTCATG
* *
77299770 CGAGCTAAATATCAAGAAGCTCATG
1 TGAGCT-AATAT-AGGAAGCTCATG
77299795 CGATCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (23 bp):
TGAGCTAATATAGGAAGCTCATG
Found at i:77299795 original size:25 final size:24
Alignment explanation
Indices: 77299736--77299797 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
77299726 TGAATAATAG
* * *
77299736 GAAGCTCATGTGAGCTAAGTAGCG
1 GAAGCTCATGCGAGCTAAATAGCA
*
77299760 GAAGCTCATGCGAGCTAAATATCAA
1 GAAGCTCATGCGAGCTAAATAGC-A
77299785 GAAGCTCATGCGA
1 GAAGCTCATGCGA
77299798 TCTATGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
GAAGCTCATGCGAGCTAAATAGCA
Found at i:77301944 original size:13 final size:13
Alignment explanation
Indices: 77301926--77301955 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
77301916 AAACTAGATT
*
77301926 TTAACTAAGAAGA
1 TTAACTAAGAAAA
77301939 TTAACTAAGAAAA
1 TTAACTAAGAAAA
77301952 TTAA
1 TTAA
77301956 AAGGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:77309471 original size:27 final size:27
Alignment explanation
Indices: 77309433--77309484 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
77309423 CGATTTTGGG
*
77309433 CATGCACTTCATGCATTCTATGCAAAA
1 CATGCACTTCATGCATTCCATGCAAAA
*
77309460 CATGCATTTCATGCATTCCATGCAA
1 CATGCACTTCATGCATTCCATGCAA
77309485 CCCATACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (27 bp):
CATGCACTTCATGCATTCCATGCAAAA
Found at i:77309494 original size:27 final size:27
Alignment explanation
Indices: 77309440--77309501 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
77309430 GGGCATGCAC
* *
77309440 TTCATGCATTCTATGCAAAACATGCAT
1 TTCATGCATTCCATGCAAAACATACAT
**
77309467 TTCATGCATTCCATGCAACCCATACAT
1 TTCATGCATTCCATGCAAAACATACAT
*
77309494 TTGATGCA
1 TTCATGCA
77309502 ATGTGTTGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (27 bp):
TTCATGCATTCCATGCAAAACATACAT
Found at i:77320624 original size:28 final size:28
Alignment explanation
Indices: 77320578--77320634 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
77320568 TACTGTGATT
* * *
77320578 GGGAAGTTGAGAAGGGATCAAGAGGTTC
1 GGGAAGTCGAAAAGCGATCAAGAGGTTC
*
77320606 GGGAAGTCGAAAAGCGATCAAGGGGTTC
1 GGGAAGTCGAAAAGCGATCAAGAGGTTC
77320634 G
1 G
77320635 AAATGCTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.42, T:0.16
Consensus pattern (28 bp):
GGGAAGTCGAAAAGCGATCAAGAGGTTC
Found at i:77326452 original size:14 final size:14
Alignment explanation
Indices: 77326433--77326464 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
77326423 TTTTTAATTT
*
77326433 TTTTCTTTATTTTC
1 TTTTCTTTATTTTA
77326447 TTTTCTTTATTTTA
1 TTTTCTTTATTTTA
77326461 TTTT
1 TTTT
77326465 TACCTCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTATTTTA
Found at i:77327614 original size:31 final size:32
Alignment explanation
Indices: 77327571--77327651 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
77327561 GAAAAATAAG
** *
77327571 AAAATACAAAAGAAGAAAGTAA-AGAATGAGTT
1 AAAA-ACAAAAGAAGAAACAAAGAGAATGAGGT
*
77327603 AAAAACAAAAGAGAAAAACAAAGAGAATGAGGT
1 AAAAACAAAAGA-AGAAACAAAGAGAATGAGGT
*
77327636 AAAAACACAAG-AGAAA
1 AAAAACAAAAGAAGAAA
77327652 AATGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
31 12 0.29
32 10 0.24
33 19 0.46
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.09
Consensus pattern (32 bp):
AAAAACAAAAGAAGAAACAAAGAGAATGAGGT
Found at i:77329821 original size:19 final size:21
Alignment explanation
Indices: 77329780--77329821 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
77329770 AATGTAATAT
* *
77329780 TTAAAACTATACAAATTATCA
1 TTAAAACTATACAAATAAACA
77329801 TTAAAA-TATA-AAATAAACA
1 TTAAAACTATACAAATAAACA
77329820 TT
1 TT
77329822 CACTGCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAACTATACAAATAAACA
Found at i:77330113 original size:25 final size:24
Alignment explanation
Indices: 77330068--77330114 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
77330058 TGAAATTGAG
* *
77330068 AAAAAAATTAAAATACTAAAATAA
1 AAAAAAAATAAAATACAAAAATAA
*
77330092 AAAAATAAATAAAATTCAAAAAT
1 AAAAA-AAATAAAATACAAAAAT
77330115 CAAATTTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAAAAAATAAAATACAAAAATAA
Found at i:77331086 original size:19 final size:20
Alignment explanation
Indices: 77331062--77331105 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
77331052 ATTTATTTAT
77331062 TAAAATAATAAT-TT-CATAA
1 TAAAATAATAATCTTACA-AA
77331081 TAAAATAATAATCTTACAAA
1 TAAAATAATAATCTTACAAA
77331101 TAAAA
1 TAAAA
77331106 CAATTTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATAATAATCTTACAAA
Found at i:77340908 original size:40 final size:40
Alignment explanation
Indices: 77340793--77340917 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
77340783 TATAAACTAT
* * * *
77340793 CAGTAATGTGGACAAGCCACCAGGATTGCAAACAAATTGC
1 CAGTAATATGGACAAGCCACAAGAATTGCAAACAAGTTGC
* *
77340833 CAATATTATGGACAAGCCACCAA-AATTGCAAACAAGTTGC
1 CAGTAATATGGACAAGCCA-CAAGAATTGCAAACAAGTTGC
* * *
77340873 CAGTAATATGGACAAGCGACAAGAATTGCAGACAAGCTGC
1 CAGTAATATGGACAAGCCACAAGAATTGCAAACAAGTTGC
*
77340913 TAGTA
1 CAGTA
77340918 TTTCCTCCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 66 0.93
41 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (40 bp):
CAGTAATATGGACAAGCCACAAGAATTGCAAACAAGTTGC
Found at i:77341953 original size:17 final size:17
Alignment explanation
Indices: 77341931--77341963 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
77341921 AATAAATAAA
77341931 AATAATATATCAACTTT
1 AATAATATATCAACTTT
77341948 AATAATATATCAACTT
1 AATAATATATCAACTT
77341964 GGAAAAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATATATCAACTTT
Found at i:77343630 original size:29 final size:29
Alignment explanation
Indices: 77343597--77343652 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
77343587 GATGAAGTTT
77343597 ATTTTCTCTTCAGTTTACAGCTTCTTTTC
1 ATTTTCTCTTCAGTTTACAGCTTCTTTTC
*
77343626 ATTTTCTCTTCAGTTTACAGTTTCTTT
1 ATTTTCTCTTCAGTTTACAGCTTCTTT
77343653 CTTGTTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (29 bp):
ATTTTCTCTTCAGTTTACAGCTTCTTTTC
Found at i:77354743 original size:48 final size:48
Alignment explanation
Indices: 77354667--77354900 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
77354657 ATACTAGGGT
*
77354667 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGA
* * * * * *
77354715 TATGAGAGCTGGTGTAAGACCATCTCTGGGACATGACATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGA
* * * *
77354763 TATGTGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGA
* * * * * *
77354811 CATGTGGGCTAGTGTAAAACCATGTTTGGAACATGGCATCAACA-CTGATA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATC-G--A
* * *
77354861 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
77354901 TGCATCTTAC
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 120 0.78
50 33 0.21
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGA
Found at i:77361885 original size:358 final size:358
Alignment explanation
Indices: 77361217--77361916 Score: 1159
Period size: 358 Copynumber: 2.0 Consensus size: 358
77361207 ATAGACTGAG
* * *
77361217 TAGCTAAGGGGTTAGTTGTTTGCTCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTCATGAGTGA
1 TAGCTAAGGGGTTAGCTGTTTACTCCATCCATCCTTTTAGTCAAAAGCCTTAGCTTCATGAGTGA
* * * * *
77361282 GTCCCATTCAAATTGTGACATGATTGAGTATTTGGCAATTTGTTTTATGCTCCATTGTGATTGTT
66 GTCCCATTCAAATTGTGACATGATTGAGTATCTGGCAATTAGTTTTATGCTCCACTATGATTGTC
* *
77361347 GAGTCAAAAAATCATATGAAAAGTTGAATCCCCTAATAAAAAATGTAATAAATATATATGTATGT
131 GAGTCAAAAAATCATATGAAAAGTTGAATCCCCTAATAAAAAATATAATAAATAGATATGTATGT
*
77361412 ATTTGAGTATGTATAAGGCCAGCAAAAAAGAGAGGAAAAAATGAAACTGGGCTTAGTTAAAAGAT
196 ATTTGAGTATGTATAAGGCCAGCAAAAAAGAGAGGAAAAAATGAAACTGGGCTTAGTTAAAAAAT
* * * ** * *
77361477 GAACTGGGTAAAATAGGAGATACTTTCTATAGTGGAAGTTTATGGGTACTTAAAATTTCTTGTTT
261 GAACTAGGTAAAATAGGAGATACATGCTATAGTAAAAGTGTATCGGTACTTAAAATTTCTTGTTT
77361542 TTAGGGCAATATTTTCTGCACTCCTTTCCTCTA
326 TTAGGGCAATATTTTCTGCACTCCTTTCCTCTA
*
77361575 TAGCTAAGGGGTTAGCTGTTTACTTCATCCATCCTTTTAGTCAAAAGCCTTAGCTTCATGAGTGA
1 TAGCTAAGGGGTTAGCTGTTTACTCCATCCATCCTTTTAGTCAAAAGCCTTAGCTTCATGAGTGA
*
77361640 GTCCCATTCATATTGTGACATGATTGAGTATCTGGCAATTCAG-TTTATGCTCCACTATGATTGT
66 GTCCCATTCAAATTGTGACATGATTGAGTATCTGGCAATT-AGTTTTATGCTCCACTATGATTGT
77361704 CGAGTCAAAAAATCATATGAAAAGTTGAATCCCCTAATAAAAAATATAATAAATAGATATGTATG
130 CGAGTCAAAAAATCATATGAAAAGTTGAATCCCCTAATAAAAAATATAATAAATAGATATGTATG
* * *
77361769 TATTTGAGTATGTATAAGGCTAGCAAAATAGAGAGGAAAAAATGAAACTGGGTTTAGTTAAAAAA
195 TATTTGAGTATGTATAAGGCCAGCAAAAAAGAGAGGAAAAAATGAAACTGGGCTTAGTTAAAAAA
* *
77361834 TGAACTAGGTAAATTAGGAGATACATGCTATAGTAAAAGTGTATCGGTACTTAAGATTTCTTGTT
260 TGAACTAGGTAAAATAGGAGATACATGCTATAGTAAAAGTGTATCGGTACTTAAAATTTCTTGTT
77361899 TTTAGGGCAATATTTTCT
325 TTTAGGGCAATATTTTCT
77361917 ACACCGCCTT
Statistics
Matches: 316, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
358 315 1.00
359 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (358 bp):
TAGCTAAGGGGTTAGCTGTTTACTCCATCCATCCTTTTAGTCAAAAGCCTTAGCTTCATGAGTGA
GTCCCATTCAAATTGTGACATGATTGAGTATCTGGCAATTAGTTTTATGCTCCACTATGATTGTC
GAGTCAAAAAATCATATGAAAAGTTGAATCCCCTAATAAAAAATATAATAAATAGATATGTATGT
ATTTGAGTATGTATAAGGCCAGCAAAAAAGAGAGGAAAAAATGAAACTGGGCTTAGTTAAAAAAT
GAACTAGGTAAAATAGGAGATACATGCTATAGTAAAAGTGTATCGGTACTTAAAATTTCTTGTTT
TTAGGGCAATATTTTCTGCACTCCTTTCCTCTA
Found at i:77370152 original size:39 final size:40
Alignment explanation
Indices: 77370109--77370359 Score: 353
Period size: 40 Copynumber: 6.3 Consensus size: 40
77370099 GGACTAAGAT
* * *
77370109 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
77370148 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
77370188 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
77370228 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
77370268 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
77370308 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
77370347 CCGAAGGCATTTG
1 CCGAAGGCATTTG
77370360 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 68 0.35
40 129 0.65
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:77370258 original size:80 final size:79
Alignment explanation
Indices: 77370057--77370357 Score: 367
Period size: 79 Copynumber: 3.8 Consensus size: 79
77370047 TTGAATGCTG
* * * * **
77370057 TCCGGGCTAAGTCCCGAAGGC-GTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCAT
* * * *
77370119 TTGTGCGAGATACTAAT
63 TCGTGCGAGTTATTAAA
*
77370136 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
77370200 GTGCGAGTTATTAAA
65 GTGCGAGTTATTAAA
*
77370215 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
77370280 GTGCGAGTTGTTAAA
65 GTGCGAGTTATTAAA
* * * * *
77370295 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
77370358 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
78 10 0.05
79 95 0.48
80 93 0.47
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTATTAAA
Found at i:77378203 original size:79 final size:81
Alignment explanation
Indices: 77378067--77378251 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
77378057 TTGAATGATG
*
77378067 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
77378131 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
77378146 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
77378208 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
77378226 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77378252 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:77378265 original size:40 final size:39
Alignment explanation
Indices: 77378068--77378251 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
77378058 TGAATGATGT
* * *
77378068 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
77378108 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
77378148 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
77378186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
77378227 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
77378252 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:77378273 original size:79 final size:79
Alignment explanation
Indices: 77378068--77378284 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
77378058 TGAATGATGT
** * * * **
77378068 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
77378131 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
77378148 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
77378213 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
77378227 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
77378285 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:77380512 original size:42 final size:42
Alignment explanation
Indices: 77380388--77380548 Score: 160
Period size: 42 Copynumber: 3.8 Consensus size: 42
77380378 TATCGTACCA
* * * *** *
77380388 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATTG
1 ATGCCATATCCCAGATATAGTCTTACACGAAATCCCATATAG
* * * * * * *
77380430 ATGCCAATAGCACAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATAGTCTTACACGAAATCCCATATAG
*
77380473 ATGTCATATCCCAGATATAGTCTTACACGAAATCCCATATAG
1 ATGCCATATCCCAGATATAGTCTTACACGAAATCCCATATAG
* *
77380515 ATGCCATATCCCAGATATGGTCTTACACGTAATC
1 ATGCCATATCCCAGATATAGTCTTACACGAAATC
77380549 TCAATAACCG
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATAGTCTTACACGAAATCCCATATAG
Found at i:77380518 original size:85 final size:84
Alignment explanation
Indices: 77380392--77380551 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 84
77380382 GTACCAATGC
* * * *** * *
77380392 CATATCCCAGATATGGTCTTACATGTAATCTTGTATTGATGCCAATAGCACAGCTATGGTCTTAC
1 CATATCCCAGATATAGTCTTACACGAAATCCCATATAGATGCC-ATAGCACAGATATGGTCTTAC
77380457 ACG-AAGTCTCATATCGATGT
65 ACGTAA-TCTCATATCGATGT
* *
77380477 CATATCCCAGATATAGTCTTACACGAAATCCCATATAGATGCCATATCCCAGATATGGTCTTACA
1 CATATCCCAGATATAGTCTTACACGAAATCCCATATAGATGCCATAGCACAGATATGGTCTTACA
77380542 CGTAATCTCA
66 CGTAATCTCA
77380552 ATAACCGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 26 0.41
85 38 0.59
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (84 bp):
CATATCCCAGATATAGTCTTACACGAAATCCCATATAGATGCCATAGCACAGATATGGTCTTACA
CGTAATCTCATATCGATGT
Found at i:77383380 original size:27 final size:27
Alignment explanation
Indices: 77383321--77383471 Score: 212
Period size: 27 Copynumber: 5.5 Consensus size: 27
77383311 TAAATTGTAC
* *
77383321 AGCATTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
77383349 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
77383376 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
77383403 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
77383431 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
77383458 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
77383472 AGACTTAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 70 0.62
28 42 0.38
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:77383391 original size:55 final size:55
Alignment explanation
Indices: 77383321--77383471 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 55
77383311 TAAATTGTAC
*
77383321 AGCATTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
77383376 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
77383431 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGC
77383472 AGACTTAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 24 0.28
55 62 0.72
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:77383435 original size:82 final size:82
Alignment explanation
Indices: 77383321--77383471 Score: 239
Period size: 82 Copynumber: 1.8 Consensus size: 82
77383311 TAAATTGTAC
* * *
77383321 AGCATTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
77383386 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
77383403 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
77383468 GTGC
66 GTGC
77383472 AGACTTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 62 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:77393671 original size:84 final size:84
Alignment explanation
Indices: 77393525--77393687 Score: 238
Period size: 84 Copynumber: 1.9 Consensus size: 84
77393515 GATGCGACCG
* * *
77393525 TGTGTACCACACGGCCTGGACACACGGGCGTGTCTTCAGGCTGTGTGACGATTGGGCAATAAAAT
1 TGTGCACCACACGGCCTAGACACACGGGCGTGTCCTCAGGCTGTGTGACGATTGGGCAATAAAAT
*
77393590 TAATCGATAAACATGGCCC
66 TAAGCGATAAACATGGCCC
* * *
77393609 TGTGCACCACATGGCCTAGACACACGGGTGTGTCCTCAAG-TCGTGTGACGATTGGGCAATAAAA
1 TGTGCACCACACGGCCTAGACACACGGGCGTGTCCTCAGGCT-GTGTGACGATTGGGCAATAAAA
*
77393673 TTACGCGATAAACAT
65 TTAAGCGATAAACAT
77393688 AGGCGTGTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
83 1 0.01
84 69 0.99
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (84 bp):
TGTGCACCACACGGCCTAGACACACGGGCGTGTCCTCAGGCTGTGTGACGATTGGGCAATAAAAT
TAAGCGATAAACATGGCCC
Found at i:77398923 original size:39 final size:40
Alignment explanation
Indices: 77398878--77399009 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
77398868 GCTCCTCGTT
* * *
77398878 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
77398918 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
77398957 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
77398997 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
77399010 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77399071 original size:41 final size:41
Alignment explanation
Indices: 77398994--77399071 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77398984 TTAGTATCTC
* * *
77398994 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77399035 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77399072 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:77402128 original size:44 final size:44
Alignment explanation
Indices: 77402065--77402154 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
77402055 CAACATTGCT
* *
77402065 GATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCG
1 GATATTACAGCCGGCATCCCCTCCAAGTCCGCAGACTCAACTCG
*
77402109 GATATTACAGCCGGCATCCCCTCCAAGTCCGCAGACTCAATTCG
1 GATATTACAGCCGGCATCCCCTCCAAGTCCGCAGACTCAACTCG
77402153 GA
1 GA
77402155 CTACTTCGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (44 bp):
GATATTACAGCCGGCATCCCCTCCAAGTCCGCAGACTCAACTCG
Found at i:77402516 original size:49 final size:49
Alignment explanation
Indices: 77402463--77402562 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
77402453 GTCAATCAAA
* *
77402463 GCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAACATCAG
1 GCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAATAACATCAG
77402512 GCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAATAACATCAG
1 GCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAATAACATCAG
77402561 GC
1 GC
77402563 GAAGAAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (49 bp):
GCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAATAACATCAG
Found at i:77404440 original size:45 final size:45
Alignment explanation
Indices: 77404376--77404465 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
77404366 TTATAGTGAA
*
77404376 TTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGT
1 TTTCCAAAGGCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGT
*
77404421 TTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGT
1 TTTCCAAAGGCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGT
77404466 CTCACGAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.22
Consensus pattern (45 bp):
TTTCCAAAGGCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGT
Found at i:77405483 original size:40 final size:40
Alignment explanation
Indices: 77405339--77405469 Score: 199
Period size: 40 Copynumber: 3.3 Consensus size: 40
77405329 TCCTCGTTCA
* * *
77405339 AATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
77405379 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
77405419 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
77405459 AAGGCCTTCGG
1 AATGCCTTCGG
77405470 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:77405506 original size:80 final size:79
Alignment explanation
Indices: 77405337--77405522 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 79
77405327 GCTCCTCGTT
* * * *
77405337 CAAATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGG
* *
77405402 ATTTAATAACTCGCA
65 ATATAATAACTAGCA
* ** * **
77405417 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCG
1 C-AAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCG
* *
77405481 GATATATTCACTTAGCA
64 GATATAATAAC-TAGCA
* *
77405498 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAACCCGGA
77405523 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
79 3 0.03
80 76 0.88
81 7 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGA
TATAATAACTAGCA
Found at i:77405531 original size:41 final size:41
Alignment explanation
Indices: 77405454--77405531 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77405444 TTAGTATCTC
* * *
77405454 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77405495 GCACAAA-GCCTTCAGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77405532 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:77415720 original size:55 final size:55
Alignment explanation
Indices: 77415614--77415724 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
77415604 CGAGACTGCC
* * *
77415614 AAAACAACACGGGGGTACGACACGCCCGTGTAGAAGAACCGTAGGTGAACCTGTT
1 AAAACAACACGGGCGTACGACACGCCCGTGTAGAACAACCGTAGGTAAACCTGTT
** ** *
77415669 AAAACAACACGGGCGTGTGACACGCCCGTGTCTAACACCCGT-GGTCAAACCTGTT
1 AAAACAACACGGGCGTACGACACGCCCGTGTAGAACAACCGTAGGT-AAACCTGTT
77415724 A
1 A
77415725 GATTGACACC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.06
55 44 0.94
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTACGACACGCCCGTGTAGAACAACCGTAGGTAAACCTGTT
Found at i:77418298 original size:45 final size:45
Alignment explanation
Indices: 77418248--77418354 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
77418238 GTAGCAGTAG
** *
77418248 CAGTAACAATAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCCGTAA
**
77418293 CAGTAACGGTAACAGTATTTGACACACAAAGTGTCGAATCCGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCCGTAA
77418338 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
77418355 ACAGTAGTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCCGTAA
Found at i:77419475 original size:26 final size:27
Alignment explanation
Indices: 77419446--77419496 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
77419436 AATTTATTAT
77419446 ATTATTA-TATTAACTT-AATAATAATA
1 ATTATTATTATT-ACTTAAATAATAATA
*
77419472 ATTATTATTATTTCTTAAATAATAA
1 ATTATTATTATTACTTAAATAATAA
77419497 GTAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTATTATTATTACTTAAATAATAATA
Found at i:77420026 original size:5 final size:5
Alignment explanation
Indices: 77419971--77420015 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
77419961 ATAATAATCA
77419971 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
77420016 CTAAATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:77422968 original size:13 final size:13
Alignment explanation
Indices: 77422930--77422969 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
77422920 GCTCGACAAG
77422930 GACACGCCCGTGT
1 GACACGCCCGTGT
* * *
77422943 GATAAGCCAGTGT
1 GACACGCCCGTGT
77422956 GACACGCCCGTGT
1 GACACGCCCGTGT
77422969 G
1 G
77422970 CGATTACTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:77423060 original size:28 final size:28
Alignment explanation
Indices: 77423029--77423086 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
77423019 GTTTGCCCGT
* *
77423029 GTGAGGAGGTCCAGGCGGTTTTGATTTC
1 GTGAGGAGGTCCAAGCGGTGTTGATTTC
77423057 GTGAGGAGGTCCAAGCGGTGTTGATTTC
1 GTGAGGAGGTCCAAGCGGTGTTGATTTC
77423085 GT
1 GT
77423087 ACTTTAGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.14, G:0.40, T:0.31
Consensus pattern (28 bp):
GTGAGGAGGTCCAAGCGGTGTTGATTTC
Found at i:77424527 original size:6 final size:6
Alignment explanation
Indices: 77424506--77424539 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
77424496 TTTGAAACCC
*
77424506 TTTTAT TATTATT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTT
77424540 CCTTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:77433031 original size:87 final size:87
Alignment explanation
Indices: 77432924--77433098 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
77432914 AAAATGTTGC
*
77432924 AATTCTTGTCTCAAAAATAGTTTTAATTCTGGGATCATAAAACTCATCCTCTGATTTGAATGATC
1 AATTCTTGTCTCAAAAATAGTTTTAATTCTGGGATCATAAAACTCATCCTCTGATTTGAACGATC
77432989 CCACCTCTCAAAATCTCTTTTA
66 CCACCTCTCAAAATCTCTTTTA
*
77433011 AATTCTTGTCTCAAAAATAGTTTTAATTTTGGGATCATAAAACTCATCCTCTGATTTGAACGATC
1 AATTCTTGTCTCAAAAATAGTTTTAATTCTGGGATCATAAAACTCATCCTCTGATTTGAACGATC
77433076 CCACCTCTCAAAATCTCTTTTA
66 CCACCTCTCAAAATCTCTTTTA
77433098 A
1 A
77433099 CATAAGGGGT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (87 bp):
AATTCTTGTCTCAAAAATAGTTTTAATTCTGGGATCATAAAACTCATCCTCTGATTTGAACGATC
CCACCTCTCAAAATCTCTTTTA
Found at i:77435173 original size:6 final size:6
Alignment explanation
Indices: 77435130--77435191 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
77435120 AATAAATATT
* * * *
77435130 TATTTA TATTATT TATTCA AATCTTA TATTTAA TATTTA TATTTG TATTTA
1 TATTTA TATT-TA TATTTA TAT-TTA TATTT-A TATTTA TATTTA TATTTA
77435181 TATTTA TATTT
1 TATTTA TATTT
77435192 GTTCGCTAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 30 0.67
7 15 0.33
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (6 bp):
TATTTA
Found at i:77435180 original size:12 final size:12
Alignment explanation
Indices: 77435130--77435191 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 12
77435120 AATAAATATT
*
77435130 TATTTATATTATT
1 TATTTATATT-TA
* *
77435143 TATTCAAATCTTA
1 TATTTATAT-TTA
77435156 TATTTAATATTTA
1 TATTT-ATATTTA
*
77435169 TATTTGTATTTA
1 TATTTATATTTA
77435181 TATTTATATTT
1 TATTTATATTT
77435192 GTTCGCTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 16 0.40
13 20 0.50
14 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTTATATTTA
Found at i:77435185 original size:18 final size:19
Alignment explanation
Indices: 77435156--77435193 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
77435146 TCAAATCTTA
77435156 TATTTAATATTTATATTTG
1 TATTTAATATTTATATTTG
77435175 TATTT-ATATTTATATTTG
1 TATTTAATATTTATATTTG
77435193 T
1 T
77435194 TCGCTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TATTTAATATTTATATTTG
Found at i:77437022 original size:5 final size:6
Alignment explanation
Indices: 77437009--77437049 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
77436999 ATAATTTAAT
*
77437009 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
77437050 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Done.