Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 226 of 373
Found at i:76763175 original size:49 final size:48
Alignment explanation
Indices: 76763029--76763201 Score: 174
Period size: 49 Copynumber: 3.5 Consensus size: 48
76763019 GACGAGAGCT
* *
76763029 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCT-CATGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCA--ATATGA-AAGCC
* * * * *
76763077 AGTGTAAGACCTGTCTGGGACATAGCA-TCGACACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCAAT--ATGAAAGCC
*
76763126 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGCCATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTC-CAATATGAAAGCC
*
76763175 AGTGTAAGACCATGTCTAGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
76763202 GTCGGCATCT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
47 2 0.02
48 25 0.24
49 55 0.53
50 19 0.18
51 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCAATATGAAAGCC
Found at i:76768725 original size:43 final size:43
Alignment explanation
Indices: 76768664--76768749 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
76768654 ACAGCATGAA
* *
76768664 TCGCATCCATTATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
* * *
76768707 TCGCATCCATAATGAACTCGAACCTCTTAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
76768750 CACATATCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
Found at i:76770775 original size:46 final size:46
Alignment explanation
Indices: 76770703--76770795 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
76770693 TTATCGCTTG
* *
76770703 AGCGACAGAAATGTACTTGTCATCGAAATGAATCGAAGAGATAGTC
1 AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
** * *
76770749 AGCGACAAAAATGTGTTTGTCGTCGAAATGAATCGAAAAGGTAGTC
1 AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
76770795 A
1 A
76770796 TTCGTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
Found at i:76774182 original size:5 final size:5
Alignment explanation
Indices: 76774172--76774196 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
76774162 AAAAATTTTA
76774172 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
76774197 GAGATTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:76777925 original size:40 final size:40
Alignment explanation
Indices: 76777870--76778007 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
76777860 CGGATGACAG
76777870 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
76777910 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* * ** *
76777950 CCAGGCTAAGTCCCGAAGGCAGTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
*
76777990 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
76778008 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 15 0.17
40 73 0.83
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:76781595 original size:40 final size:40
Alignment explanation
Indices: 76781516--76781692 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
76781506 CAGATGATAA
* * * *
76781516 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * * *
76781556 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* *
76781596 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
76781636 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
76781676 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
76781693 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 101 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:76781654 original size:80 final size:80
Alignment explanation
Indices: 76781516--76781692 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
76781506 CAGATGATAA
* * * * *
76781516 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
*
76781581 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* *
76781596 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
76781661 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
76781676 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
76781693 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 71 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:76784042 original size:39 final size:39
Alignment explanation
Indices: 76783867--76784090 Score: 306
Period size: 40 Copynumber: 5.7 Consensus size: 39
76783857 TCGGATGATA
* ** *
76783867 ACCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-TATTAT
* * * *
76783907 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* * *
76783946 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCAAGCTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
76783986 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
76784026 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
76784065 ACCGGGCTAAGTCCCGAAGGCATTTG
1 ACCGGGCTAAGTCCCGAAGGCATTTG
76784091 AGCTAGTGGC
Statistics
Matches: 166, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 66 0.40
40 98 0.59
41 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
Found at i:76792164 original size:39 final size:40
Alignment explanation
Indices: 76792088--76792228 Score: 207
Period size: 39 Copynumber: 3.6 Consensus size: 40
76792078 GTGGCTAATT
* **
76792088 CGGGCTAAGT-CCGAAGGCATTCGTGCGAGCTGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATC
* *
76792127 TGGGCTAAGTCCCGAAGGCGTTTGTGCGAG-TATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATC
*
76792166 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATC
76792205 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
76792229 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 69 0.74
40 24 0.26
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATATC
Found at i:76792250 original size:39 final size:38
Alignment explanation
Indices: 76792050--76792251 Score: 182
Period size: 39 Copynumber: 5.2 Consensus size: 38
76792040 CAGATGATAA
**
76792050 CCGGCTAAGTCCCG-AGAG-ATTTGTGATAGTGGCTA-ATT
1 CCGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTATA-T
* *
76792088 CGGGCTAAGT-CCGAAGGCATTCGTGCGAGCTGCTATAT
1 CCGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTATAT
* * **
76792126 CTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTATTATAT
1 C-CGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTATAT
76792165 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA-TAT
* *
76792203 ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 -CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTATAT
76792244 CCGGCTAA
1 CCGGCTAA
76792252 ACTCCGAAGG
Statistics
Matches: 140, Mismatches: 12, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
37 6 0.04
38 28 0.20
39 82 0.59
40 19 0.14
41 3 0.02
42 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (38 bp):
CCGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTATAT
Found at i:76792250 original size:78 final size:78
Alignment explanation
Indices: 76792052--76792261 Score: 223
Period size: 78 Copynumber: 2.7 Consensus size: 78
76792042 GATGATAACC
* *
76792052 GGCTAAGTCCCG-AGAG-ATTTGTGATAGTGGCTA-ATTCGGGCTAAGTCCGAAGGCATTCGTGC
1 GGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTATA-TCCGGCTAAGTCCGAAGGCATTCGTGC
* *
76792114 GAGCTGCTATATCTG
64 GAGCTACTATATCCG
* * ** *
76792129 GGCTAAGTCCCGAAGGCGTTTGTGCGAGT-ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCC-GGCTAAGT-CCGAAGGCATTCGTGC
* *
76792193 GAGTTATTATA-CCG
64 GAGCTACTATATCCG
* *
76792207 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAAACTCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGCT-AAGTCCGAAGG
76792262 TACTTGGTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
77 17 0.16
78 59 0.54
79 33 0.30
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGCTAAGTCCGAAGGCATTCGTGCGA
GCTACTATATCCG
Found at i:76794074 original size:743 final size:746
Alignment explanation
Indices: 76792630--76794120 Score: 2046
Period size: 743 Copynumber: 2.0 Consensus size: 746
76792620 CGGGATTGTT
* *
76792630 GAAGTCGAAGTCGTCCACACTATCAAAGCCCCTTTTTGGTACACTTTTGGTTGAACTTTGAAATG
1 GAAGTCGAAGTCGTCCACACTATCAAAG-CCCTTTTTGGTACACTTTTAGTTGAACTCTGAAATG
*
76792695 GCATGTATAGACTACCCTTTTTGTTGTGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGC
65 GCATGTATAGACTACCCTTTTTGTTGTGGTCATGGACCCTTTGGATTTGTATAAATTTGGATAGC
* **
76792760 CATGCGAAAATGGCTTATATATGTTTTGAGCATAATGTTATAATCATTTGGTATGATATGGTTAT
130 CATGCGAAAATGGCTTATATA-GTCTTGAGCATAACATTATAATCATTTGGTATGATATGGTTAT
* * * * * *
76792825 TGAGAGGTGTGGATATGCTTGGCAAGGATTGGCCATTAGAATGGTTATTCACTATCATAATTTGT
194 TGAGAGGTATGGAAATGCTTGGCAACGATTAGCCATTAGAATGGTTAATCACGATCAT-ATTTGT
* * * *
76792890 GCTATATATGCTAAAGGGTTAGTTGAATCATGAAAACTATGTAATAGGTAAAGTCTACCCTAAAG
258 GCTATATACGCTAAAGGGCTAGTTGAATCATGAAAACTATGAAATAGGTAAAGTCTACCCTAAAA
* * * *
76792955 GCAGATGTTCACAGCAGCAGTGGTGTGAATTTTCAAAAATCACTAAAAATAGTAGGAATGTAATT
323 ACAGATGCTCACAGCAGCAGTGATGTGAATTTTCAAAAATCACTAAAAATAGTAGGAATGGAATT
* * *
76793020 AAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTCCATATGGAAGAAAGAAAACG
388 AAATAGGGAATAAATTATGTAATCGAACCTTGATCAATCTACTTCCATATGGAAGAAAGAAAACA
* *** * * **
76793085 GTCATATGAGTTGTCTTTTAAGAGATATTTAAGTTTTCGTGGGACTAGGCCAGAGCGATTTCTAG
453 ATCATATGAGCCATATTTTAAGAGATATTGAAGTTTTCGTGAAACTAGGCCAGAGCGATTTCTAG
*
76793150 ATCCCCTGATCTGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATA
518 ATCCCCTGATCTGACTTTGGAAATTCACTATAAATTAACCAGAGATAATTAGAAGTCATGCCATA
* * ** *
76793215 TATGTATAGATTTATTTTTGAGTCTAGTTTCATTAGAAACAAATTTCATAAGTATTAAATCCCTG
583 TATGTATAAAATTATTTTTGAGTCTAGTTTCATTAGAAACAAACGTCATAAGTATTAAAGCCCTG
* * *
76793280 TACAAGGAGTTATCTAAGTCGCATTTCAGGAAGGTCAGAGTAGTCGAACCCTGTAACAGGGGAGA
648 TACAAGGAGATATCTAAGTCGCAATGCAGGAAGGTCAGAGTAGTCGAACCCTGTAACAGGGGAGA
76793345 CTTTAACTAATAAACTGTACTAATTGGCCTGACC
713 CTTTAACTAATAAACTGTACTAATTGGCCTGACC
*
76793379 GAAGTCGAAGTCTGTCCACACTATCAAAG-CC-TTTTGGTACTCTTTTAGTTGAACTCTGAAAAT
1 GAAGTCGAAGTC-GTCCACACTATCAAAGCCCTTTTTGGTACACTTTTAGTTGAACTCTG-AAAT
* * *
76793442 GGCATGTATAGGACTGCCC-TTTTGTTGTTGGTCATGTACCTTTTGG-TATTGTATAAATTTGGA
64 GGCATGTATA-GACTACCCTTTTTGTTG-TGGTCATGGACCCTTTGGAT-TTGTATAAATTTGGA
* *
76793505 TAGCCATGCGAAAATGGCTTATATA-TCTTGAGCATAGCATTATAATCATTTTGTAT-AT-T-GT
126 TAGCCATGCGAAAATGGCTTATATAGTCTTGAGCATAACATTATAATCATTTGGTATGATATGGT
* * *
76793566 TCATTGAGTGGTATGGAAATGCTTGGTAACGATTAGCCATTGGAATGGTTAATCACGATCAT-TT
191 T-ATTGAGAGGTATGGAAATGCTTGGCAACGATTAGCCATTAGAATGGTTAATCACGATCATATT
* * *
76793630 TAGTGCTATGTACGAC-AAATGGCTAGTTG-ATCCATGGAAAA-TCATGAAATAGGTATAGTCTA
255 T-GTGCTATATACG-CTAAAGGGCTAGTTGAAT-CAT-GAAAACT-ATGAAATAGGTAAAGTCTA
* * * *
76793692 CCTTAAAAACAGATGCTGACAGCAGTAGTGATGTGAA-TTTGAAAAATCACTAAAAATAGTAGGA
315 CCCTAAAAACAGATGCTCACAGCAGCAGTGATGTGAATTTTCAAAAATCACTAAAAATAGTAGGA
* * *
76793756 ATGGAATTAAATAGGGAATAAATTATGTAATCGAACCTTGATCAGTCTATTTTCATATGGAAGAA
380 ATGGAATTAAATAGGGAATAAATTATGTAATCGAACCTTGATCAATCTACTTCCATATGGAAGAA
* *
76793821 ACG-AAACAATCATATGAGCCATATTTTAAGGGATGTTGAAGTTTTCGTGAAAC-AGGGCCAGAG
445 A-GAAAACAATCATATGAGCCATATTTTAAGAGATATTGAAGTTTTCGTGAAACTA-GGCCAGAG
* *
76793884 CGATTTCTGGAT-CCCTGTTCTGACTTTGGAAATTCACTATAAATTAACCAGAGATAATTAGAAG
508 CGATTTCTAGATCCCCTGATCTGACTTTGGAAATTCACTATAAATTAACCAGAGATAATTAGAAG
* *
76793948 TCATTCCTTATATGTA-AAAATTATTCTTCT-AGTCTAGTTTCATTAGAAACAAACGTCATAAGT
573 TCATGCCATATATGTATAAAATTATT-TT-TGAGTCTAGTTTCATTAGAAACAAACGTCATAAGT
* * * * * *
76794011 TTTGAAGCCCTGTACAGGGAGATATCTAAGTCGCAATGCATGAAGGTCATAGTAGTTGAACCCTG
636 ATTAAAGCCCTGTACAAGGAGATATCTAAGTCGCAATGCAGGAAGGTCAGAGTAGTCGAACCCTG
*
76794076 TAACAGGGGAGACTTTAACTAATAAACTGTACTGATTGGCCTGAC
701 TAACAGGGGAGACTTTAACTAATAAACTGTACTAATTGGCCTGAC
76794121 AAAAATTCTA
Statistics
Matches: 655, Mismatches: 72, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
742 7 0.01
743 202 0.31
744 173 0.26
745 106 0.16
746 2 0.00
747 50 0.08
748 25 0.04
749 74 0.11
750 16 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (746 bp):
GAAGTCGAAGTCGTCCACACTATCAAAGCCCTTTTTGGTACACTTTTAGTTGAACTCTGAAATGG
CATGTATAGACTACCCTTTTTGTTGTGGTCATGGACCCTTTGGATTTGTATAAATTTGGATAGCC
ATGCGAAAATGGCTTATATAGTCTTGAGCATAACATTATAATCATTTGGTATGATATGGTTATTG
AGAGGTATGGAAATGCTTGGCAACGATTAGCCATTAGAATGGTTAATCACGATCATATTTGTGCT
ATATACGCTAAAGGGCTAGTTGAATCATGAAAACTATGAAATAGGTAAAGTCTACCCTAAAAACA
GATGCTCACAGCAGCAGTGATGTGAATTTTCAAAAATCACTAAAAATAGTAGGAATGGAATTAAA
TAGGGAATAAATTATGTAATCGAACCTTGATCAATCTACTTCCATATGGAAGAAAGAAAACAATC
ATATGAGCCATATTTTAAGAGATATTGAAGTTTTCGTGAAACTAGGCCAGAGCGATTTCTAGATC
CCCTGATCTGACTTTGGAAATTCACTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATAT
GTATAAAATTATTTTTGAGTCTAGTTTCATTAGAAACAAACGTCATAAGTATTAAAGCCCTGTAC
AAGGAGATATCTAAGTCGCAATGCAGGAAGGTCAGAGTAGTCGAACCCTGTAACAGGGGAGACTT
TAACTAATAAACTGTACTAATTGGCCTGACC
Found at i:76800293 original size:48 final size:48
Alignment explanation
Indices: 76800222--76800593 Score: 453
Period size: 48 Copynumber: 7.8 Consensus size: 48
76800212 TAAAGTACCA
* * * * *
76800222 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGCCG
** * *
76800270 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACT-TATCACCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACA-TATATCATCGCCG
* * *
76800318 ATGCCATGTCCCAGACATGGTTTTACACTAGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
* * * *
76800366 ATGCCATG-CCCTAGACATGTTCTTACACAGGTACATATATCATCACCG
1 ATGCCATGTCCC-AGACATGGTCTTACACAAGCACATATATCATCGCCG
** * * *
76800414 ATGCCATGTCCTGGACATGGTCTTATACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
* * *
76800462 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATTGACG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
* *
76800510 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
*
76800558 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACAT
76800594 TTAGTACAGT
Statistics
Matches: 286, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
47 4 0.01
48 280 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
Found at i:76807227 original size:48 final size:48
Alignment explanation
Indices: 76807160--76807390 Score: 249
Period size: 48 Copynumber: 4.9 Consensus size: 48
76807150 CACATGGTAG
* * * *
76807160 GATGCCAATGCCATATCCCAGATATGGTCTTAAATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *** * *
76807208 GATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
76807256 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
76807304 GATGCCAAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
76807347 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
76807391 CATAACCCTA
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.74
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:76807368 original size:91 final size:95
Alignment explanation
Indices: 76807160--76807390 Score: 283
Period size: 91 Copynumber: 2.5 Consensus size: 95
76807150 CACATGGTAG
* * * *
76807160 GATGCCAATGCCATATCCCAGATATGGTCTTAAATGGGATCACATATTGATGCCAATGTCATGTC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAA-GTCATGTC
* ** ** *
76807225 CCAGACATGGTCTTACATGGGATTGTAGATT
65 CCAGACATGGTCTTACACGAAATTACAGATC
*
76807256 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATATCGATGCCAA-T-A-G-CC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAAGTCATGTCC
*
76807317 CAG-CTATGGTCTTACACGAAATTACATATC
66 CAGAC-ATGGTCTTACACGAAATTACAGATC
* *
76807347 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACA
76807391 CATAACCCTA
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 65 0.54
92 1 0.01
93 1 0.01
94 1 0.01
96 51 0.43
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (95 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAAGTCATGTCC
CAGACATGGTCTTACACGAAATTACAGATC
Found at i:76818220 original size:24 final size:24
Alignment explanation
Indices: 76818176--76818223 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
76818166 TTACACTTCA
* *
76818176 AACCTAAAATCTTTTCGAATTTTG
1 AACCTAAAATATTTTCAAATTTTG
76818200 AACCTAAAAATATTTT-AAATTTTG
1 AACCT-AAAATATTTTCAAATTTTG
76818224 GGCTCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (24 bp):
AACCTAAAATATTTTCAAATTTTG
Found at i:76818461 original size:31 final size:32
Alignment explanation
Indices: 76818412--76818474 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
76818402 TTTAAAACCT
*
76818412 TAATTTTCACTTTTAATAACTTTCTAAACATC
1 TAATTTCCACTTTTAATAACTTTCTAAACATC
76818444 TAATTTCCAC-TTTAATAACTTTCTAAACATC
1 TAATTTCCACTTTTAATAACTTTCTAAACATC
76818475 CCTTAAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (32 bp):
TAATTTCCACTTTTAATAACTTTCTAAACATC
Found at i:76822749 original size:46 final size:46
Alignment explanation
Indices: 76822691--76822955 Score: 197
Period size: 46 Copynumber: 5.7 Consensus size: 46
76822681 TGGGCATCCA
* *
76822691 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
* * *
76822737 AACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G--TCCG
*
76822784 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-TCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAACGTCCG
* *
76822830 AACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G--TCCG
* * * * * *
76822877 AGCTCGTTAAGTTGAGTCTGAGTTCACTTATGGATGCGTACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
** * **
76822923 AGTTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76822956 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 26, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
42 6 0.03
43 8 0.05
44 1 0.01
45 6 0.03
46 81 0.47
47 52 0.30
48 6 0.03
49 1 0.01
50 7 0.04
51 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
Found at i:76822796 original size:47 final size:47
Alignment explanation
Indices: 76822739--76822902 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
76822729 AACGTCTGAA
* *
76822739 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
* * * * *
76822786 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-T--CGA-ACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCATCCGAG
*
76822832 CTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
* *
76822879 CTCGTTAAGTTGAGTCTGAGTTCA
1 CTCGTTGAGTTGAGTCCGAGTTCA
76822903 CTTATGGATG
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 31 0.33
47 51 0.54
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
Found at i:76822933 original size:93 final size:93
Alignment explanation
Indices: 76822700--76822946 Score: 377
Period size: 93 Copynumber: 2.7 Consensus size: 93
76822690 AAACTTGTTG
* * * *
76822700 AGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTGAACTCGTTGAGTTAAGTCCGAGTTCGTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
*
76822765 AGATGTAACTAGGCATCCGAGCTCGTTG
66 AGATGTAACTAGGCATCCGAGCTCGTTA
* *
76822793 AGTTGAGTCCGAGTTCACTTATGGATTCGAACGTCCGAACTCGTTGAGTTGAGTCCAAGTTCATG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
76822858 AGATGTAACTAGGCATCCGAGCTCGTTA
66 AGATGTAACTAGGCATCCGAGCTCGTTA
* * * ** *
76822886 AGTTGAGTCTGAGTTCACTTATGGATGCGTACGCCCGAGTTCATTGAGTTGAGTCCGAGTT
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTT
76822947 TGCTTATGGG
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 139 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
AGATGTAACTAGGCATCCGAGCTCGTTA
Found at i:76832813 original size:21 final size:20
Alignment explanation
Indices: 76832774--76832818 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
76832764 TTTGCCTAAG
*
76832774 ATGTGAATTTGATGGAATTGA
1 ATGTGAATTTGATGAAATT-A
* *
76832795 ATGTGAATTTTATTAAATTA
1 ATGTGAATTTGATGAAATTA
76832815 ATGT
1 ATGT
76832819 TAAATTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (20 bp):
ATGTGAATTTGATGAAATTA
Found at i:76833333 original size:26 final size:25
Alignment explanation
Indices: 76833304--76833371 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
76833294 CTATTATATG
76833304 GCTCTATGTGAGCTTCTCGATTAAAA
1 GCTCTATGTGAGCTTC-CGATTAAAA
* **
76833330 GCTCTTTGTGAGCTTCCAGATTAATG
1 GCTCTATGTGAGCTTCC-GATTAAAA
*
76833356 GCTCTCTG-GAGCTTCC
1 GCTCTATGTGAGCTTCC
76833372 CGATATGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.24
26 28 0.76
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GCTCTATGTGAGCTTCCGATTAAAA
Found at i:76833492 original size:25 final size:23
Alignment explanation
Indices: 76833425--76833497 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
76833415 TTCTTTTTTA
*
76833425 ATGGCTCTT-TGGAGCTACCCGTT
1 ATGGCTCTTAT-GAGCTTCCCGTT
**
76833448 ATTGGCTCGCATGAGCTTCCCGATT
1 A-TGGCTCTTATGAGCTTCCCG-TT
*
76833473 ATGGCTCTTATGAGCTTTCCGTT
1 ATGGCTCTTATGAGCTTCCCGTT
76833496 AT
1 AT
76833498 ATAGCCCCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.12
24 32 0.78
25 4 0.10
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCCGTT
Found at i:76852763 original size:41 final size:41
Alignment explanation
Indices: 76852693--76852948 Score: 223
Period size: 41 Copynumber: 6.1 Consensus size: 41
76852683 GAAGAATAAT
* *
76852693 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATTGCACATACATGTCCCTGTTTGTACTTCGGTACC
* * *
76852734 CCTGAATTGCACATACATGTCCTTATTTGTACTTCGATACC
1 CCTGAATTGCACATACATGTCCCTGTTTGTACTTCGGTACC
** * *
76852775 CCT-AATTTGCACATGTATG-CCATTGTTTGTACTTCGATACC
1 CCTGAA-TTGCACATACATGTCC-CTGTTTGTACTTCGGTACC
* ***
76852816 CCTGAATTGTACATGTGTGTCCCTGTTTG-ATCTTCGGTACC
1 CCTGAATTGCACATACATGTCCCTGTTTGTA-CTTCGGTACC
* *
76852857 CCTAAATTGCACAGACATCATGTGTGTCCCTGTTTG-ATCTTCGGTACC
1 CCTGAATTGCAC--ATA-CA----TGTCCCTGTTTGTA-CTTCGGTACC
* * *
76852905 CCTAAATTGCACAGACATGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATTGCACATACATGTCCCTGTTTGTACTTCGGTACC
76852946 CCT
1 CCT
76852949 AGATGTACTT
Statistics
Matches: 182, Mismatches: 20, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
40 5 0.03
41 131 0.72
42 5 0.03
43 1 0.01
45 2 0.01
46 2 0.01
48 36 0.20
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
CCTGAATTGCACATACATGTCCCTGTTTGTACTTCGGTACC
Found at i:76852898 original size:48 final size:48
Alignment explanation
Indices: 76852827--76852922 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
76852817 CTGAATTGTA
76852827 CATGTGTGTCCCTGTTTGATCTTCGGTACCCCTAAATTGCACAGACAT
1 CATGTGTGTCCCTGTTTGATCTTCGGTACCCCTAAATTGCACAGACAT
76852875 CATGTGTGTCCCTGTTTGATCTTCGGTACCCCTAAATTGCACAGACAT
1 CATGTGTGTCCCTGTTTGATCTTCGGTACCCCTAAATTGCACAGACAT
76852923 GCCCCTGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (48 bp):
CATGTGTGTCCCTGTTTGATCTTCGGTACCCCTAAATTGCACAGACAT
Found at i:76854108 original size:30 final size:30
Alignment explanation
Indices: 76854074--76854142 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
76854064 CCGTGCGCTG
76854074 GGCCGTGTCCTTCACACGGCTGAGCCATAT
1 GGCCGTGTCCTTCACACGGCTGAGCCATAT
76854104 GGCCGTGTCCTTCACACGGCTGAGCCATAT
1 GGCCGTGTCCTTCACACGGCTGAGCCATAT
76854134 GGCCGTGTC
1 GGCCGTGTC
76854143 TCTGCCCTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.23
Consensus pattern (30 bp):
GGCCGTGTCCTTCACACGGCTGAGCCATAT
Found at i:76860547 original size:17 final size:17
Alignment explanation
Indices: 76860504--76860555 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
76860494 ATCTAACAAA
*
76860504 GCCCAGTAAATGATAAT
1 GCCCAATAAATGATAAT
*
76860521 GCTTCCAATAAATGATATT
1 GC--CCAATAAATGATAAT
76860540 GCCCAATAAATGATAA
1 GCCCAATAAATGATAA
76860556 ATGATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 15 0.50
19 15 0.50
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (17 bp):
GCCCAATAAATGATAAT
Found at i:76862589 original size:15 final size:15
Alignment explanation
Indices: 76862565--76862599 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
76862555 TATGATATGG
* *
76862565 GTGTGTCACTTGGCC
1 GTGTGGCACTTGCCC
76862580 GTGTGGCACTTGCCC
1 GTGTGGCACTTGCCC
76862595 GTGTG
1 GTGTG
76862600 AGCCACATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.26, G:0.37, T:0.31
Consensus pattern (15 bp):
GTGTGGCACTTGCCC
Found at i:76864917 original size:42 final size:41
Alignment explanation
Indices: 76864807--76864972 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 41
76864797 AGTACCGTAC
* * *
76864807 CAATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAT
* * * * *
76864849 CGATGCTAATAGCCCAGCTATGGTCTTACACGAAGCCTCATAT
1 CAATGC-CATATCCCAGATATGGTCTTACACGAA-TCTCATAT
*
76864892 CAATGCCATATCCCAGATTTGGTCTTACACGAAATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAT
** * * *
76864934 TGATGCCATATCCCAAATATAGTCTTACACAAAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACAC-GAATCTCA
76864973 ATTACCCTAA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 67 0.67
43 33 0.33
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (41 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAATCTCATAT
Found at i:76873665 original size:52 final size:52
Alignment explanation
Indices: 76873593--76873706 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 52
76873583 AAATTACATA
* * * *
76873593 ATATATAAATAAAAATGGTTAATTTTTTTAG-TTTCAAGACCAAATTGACATG
1 ATATATAAATAAAAATGGTTAAATATTTTAGATTT-AAAACCAAATTGACACG
* * **
76873645 TTATATAAATATTAAA-GGTTAAATATTTTAGATTTAAAATTAAATTGACACG
1 ATATATAAATA-AAAATGGTTAAATATTTTAGATTTAAAACCAAATTGACACG
76873697 ATATATAAAT
1 ATATATAAAT
76873707 TTTGAAGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 45 0.88
53 6 0.12
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (52 bp):
ATATATAAATAAAAATGGTTAAATATTTTAGATTTAAAACCAAATTGACACG
Found at i:76874948 original size:24 final size:23
Alignment explanation
Indices: 76874920--76874964 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
76874910 TTTAAAATAT
* *
76874920 GTTTAATATATTTATAATTTTATA
1 GTTTAATAAATATAT-ATTTTATA
76874944 GTTTAATAAATATATATTTTA
1 GTTTAATAAATATATATTTTA
76874965 AATTATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
GTTTAATAAATATATATTTTATA
Found at i:76876310 original size:22 final size:21
Alignment explanation
Indices: 76876270--76876310 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
76876260 CACTTGACAT
*
76876270 AGGGGCACACGCCTATGTGGG
1 AGGGGCACACGCCCATGTGGG
*
76876291 AGGGGCAACACGCCCCTGTG
1 AGGGGC-ACACGCCCATGTG
76876311 AGCATTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:76880388 original size:47 final size:47
Alignment explanation
Indices: 76880299--76880388 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
76880289 GGTAAGGTGC
* * * *
76880299 CGATGCCATGTCCTAAACACGGTCTTACATTGGCTCATATCTCAAGT
1 CGATACCATGTCCTAAACACAGTCTTACACTGACTCATATCTCAAGT
* *
76880346 CGATACCATGTCCTAGACATAGTCTTACACTGACT-ATCATCTC
1 CGATACCATGTCCTAAACACAGTCTTACACTGACTCAT-ATCTC
76880389 GTAGCCGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 2 0.06
47 34 0.94
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (47 bp):
CGATACCATGTCCTAAACACAGTCTTACACTGACTCATATCTCAAGT
Found at i:76880479 original size:46 final size:44
Alignment explanation
Indices: 76880352--76880502 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 44
76880342 AAGTCGATAC
* *
76880352 CATGTCCTAGACATAGTCTTACACTGACTATCATCTCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTG-CCATCGTCTCG-AGCCGATG
* * *
76880399 CATGTCCCAGACATGT-TTGACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTT-ACACTGCCAT-CGTCTCGA-GCCGATG
* * *
76880445 CATGTCCTAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACT-GCCATCGTCTCGA-GCCGATG
76880491 CCATGTCCTAGA
1 -CATGTCCTAGA
76880503 ACGGTCTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.05
46 54 0.63
47 28 0.33
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
CATGTCCTAGACATGTCTTACACTGCCATCGTCTCGAGCCGATG
Found at i:76886920 original size:17 final size:18
Alignment explanation
Indices: 76886898--76886936 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
76886888 TAGAATTGGG
76886898 TTGAAAAAATT-ATTTAA
1 TTGAAAAAATTAATTTAA
*
76886915 TTG-AAAAATTAATTTAT
1 TTGAAAAAATTAATTTAA
76886932 TTGAA
1 TTGAA
76886937 TTAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 11 0.58
18 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TTGAAAAAATTAATTTAA
Found at i:76892587 original size:52 final size:46
Alignment explanation
Indices: 76892505--76892727 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 46
76892495 CTATACATAT
*
76892505 CGATGCCATGTCCCAGGCATGGTCTTACACTGACACATTGACACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTG--AC-TT---ACATCTCG-AGGC
*
76892559 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGC
* * * * *
76892605 CGATGCATGTCCCAGACATATCTTACACT-AGCTCTA-GTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CT-TACATCTCGAGGC
* * * * *
76892651 TGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACT-TACAT-CTCGAGGC
*
76892699 CGATGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
76892728 AGCACACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 27 0.19
48 19 0.14
49 3 0.02
50 1 0.01
52 11 0.08
53 13 0.09
54 5 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGC
Found at i:76892600 original size:46 final size:48
Alignment explanation
Indices: 76892547--76892727 Score: 189
Period size: 46 Copynumber: 3.9 Consensus size: 48
76892537 ACACATTGAC
76892547 ACATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
76892593 ACATCTCG-AGGCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
1 ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * * ** *
76892640 A-GTCTC-AATGTTGATGCCATATCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGTAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* *
76892688 -CATAAT-GT-GGCCGATGCATGTCCCAAACATGTCTTACACT
1 ACAT-CTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACT
76892728 AGCACACAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 61 0.55
47 27 0.25
48 20 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:76892677 original size:94 final size:92
Alignment explanation
Indices: 76892560--76892730 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
76892550 TCTCGTAGCC
* * *
76892560 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGACA
1 GATGCATATCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAAACA
76892623 TATCTTACACTAGCTCTAGTCTCAATGTT
64 TATCTTACACTAGCTCTAGTCTCAATGTT
*
76892652 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACA
1 GATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACA
*
76892717 TGTCTTACACTAGC
64 TATCTTACACTAGC
76892731 ACACAAATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 51 0.73
95 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATATCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACATA
TCTTACACTAGCTCTAGTCTCAATGTT
Found at i:76897284 original size:40 final size:40
Alignment explanation
Indices: 76897229--76897488 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
76897219 TATTCGAATG
*
76897229 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
76897269 ATATCCGGGCTAAGTCCCGAAGG--TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
76897307 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
76897347 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76897387 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76897427 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
76897467 AGATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
76897489 TACTTGGGTT
Statistics
Matches: 205, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
38 38 0.19
39 14 0.07
40 151 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:76904410 original size:39 final size:39
Alignment explanation
Indices: 76904367--76904466 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 39
76904357 CTTGTTTTTA
* *
76904367 AGTATTGTGATATATACTTAAATGTTATGCAATTATATG
1 AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
** * * *
76904406 AGTATTACGATATGTGCTTAAACGTTATGTAATTATATC
1 AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
* * *
76904445 TGTAATGTGATACATACTTAAA
1 AGTATTGTGATATATACTTAAA
76904467 AGTGAATATG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (39 bp):
AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
Found at i:76909836 original size:15 final size:14
Alignment explanation
Indices: 76909810--76909847 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
76909800 ATTTATTATT
76909810 TTAATTTTAATTAA
1 TTAATTTTAATTAA
76909824 TTAATTTTCAATTAA
1 TTAATTTT-AATTAA
*
76909839 ATAATTTTA
1 TTAATTTTA
76909848 TCAATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTTAATTAA
Found at i:76913673 original size:46 final size:45
Alignment explanation
Indices: 76913566--76913847 Score: 165
Period size: 46 Copynumber: 5.9 Consensus size: 45
76913556 CGGCCACATT
* *
76913566 ATGAGAGCCAGTGTAAGACCATGTTTGGGAAATGGCATCGGCATTGAG
1 ATGAGAG-CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* * *
76913614 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGTATTGGCCTTGAG
1 ATGAGAGC-AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG
* *
76913660 ATGTA-AGGCAGTGTAAGACATGTCTGGGACATGCATCAGC-TACGAG
1 ATG-AGA-GCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAG
**** * ** *
76913706 ATG-TTTTAGTGTGAGACCATGTCTGGGACATGGCATCGGCACGGAT
1 ATGAGAGCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* ** * * *
76913752 ATGTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCTCGAT
1 A--TGAGAGC-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* * *
76913802 TTCGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGTCATT
1 AT-GAGAG-CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT
76913848 ATACCCTATG
Statistics
Matches: 184, Mismatches: 36, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 8 0.04
45 15 0.08
46 59 0.32
47 16 0.09
48 19 0.10
49 34 0.18
50 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (45 bp):
ATGAGAGCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG
Found at i:76913777 original size:50 final size:48
Alignment explanation
Indices: 76913712--76913842 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 48
76913702 CGAGATGTTT
* *
76913712 TAGTGTGAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGT-GAGAG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-T-TCGAGAG
* ** *
76913761 CTAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCTCGATTTCGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCGAGAG
76913810 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCG
76913843 TCATTATACC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.03
49 34 0.49
50 33 0.48
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCGAGAG
Found at i:76936773 original size:16 final size:16
Alignment explanation
Indices: 76936752--76936834 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
76936742 ATACTCCTAT
76936752 TTTTTA-GTTAGTTTTA
1 TTTTTATGTTA-TTTTA
*
76936768 TTTTTATTTTATTTTA
1 TTTTTATGTTATTTTA
* *
76936784 TTTTAATTTTAATTTTAA
1 TTTTTATGTT-ATTTT-A
*
76936802 TTTTT-T-TTCATTTCA
1 TTTTTATGTT-ATTTTA
*
76936817 ATTTTA--TTATTTTA
1 TTTTTATGTTATTTTA
76936831 TTTT
1 TTTT
76936835 GAAAGACATA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.15
15 7 0.13
16 26 0.47
17 9 0.16
18 5 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTATGTTATTTTA
Found at i:76936777 original size:5 final size:5
Alignment explanation
Indices: 76936763--76936834 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 5
76936753 TTTTAGTTAG
76936763 TTTTA TTTTTA TTTTA TTTTA TTTTAA TTTTAA TTTTAA TTTT- TTTTCA
1 TTTTA -TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTT-A TTTTA TTTT-A
*
76936812 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
76936835 GAAAGACATA
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 22 0.38
6 29 0.50
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:76936829 original size:22 final size:21
Alignment explanation
Indices: 76936773--76936829 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
76936763 TTTTATTTTT
*
76936773 ATTTTATTTTATTTTAATTTTA
1 ATTTTATTTT-TTTTAATTTCA
*
76936795 ATTTTAATTTTTTTTCATTTCA
1 ATTTT-ATTTTTTTTAATTTCA
*
76936817 ATTTTATTATTTT
1 ATTTTATTTTTTT
76936830 ATTTTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 19 0.61
23 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTATTTTTTTTAATTTCA
Found at i:76951294 original size:19 final size:21
Alignment explanation
Indices: 76951256--76951295 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76951246 TTGTTTCCTC
76951256 AGCCTCCTCAGGCTCCCATGT
1 AGCCTCCTCAGGCTCCCATGT
*
76951277 AGCCTCTTCA-GC-CCCATGT
1 AGCCTCCTCAGGCTCCCATGT
76951296 CTTTGCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.15, C:0.42, G:0.17, T:0.25
Consensus pattern (21 bp):
AGCCTCCTCAGGCTCCCATGT
Found at i:76960278 original size:50 final size:50
Alignment explanation
Indices: 76960203--76960302 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
76960193 ACATCTCCCC
76960203 AATTGGAGTCGATAAACGACATATTAGTCTTTCAATCAGTTTGCTCATTT
1 AATTGGAGTCGATAAACGACATATTAGTCTTTCAATCAGTTTGCTCATTT
76960253 AATTGGAGTCGATAAACGACATATTAGTCTTTCAATCAGTTTGCTCATTT
1 AATTGGAGTCGATAAACGACATATTAGTCTTTCAATCAGTTTGCTCATTT
76960303 CTGATTAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (50 bp):
AATTGGAGTCGATAAACGACATATTAGTCTTTCAATCAGTTTGCTCATTT
Found at i:76965377 original size:17 final size:16
Alignment explanation
Indices: 76965349--76965398 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
76965339 CATAGTTATA
76965349 AAAATTAATATTTTAAT
1 AAAATT-ATATTTTAAT
*
76965366 AATATTATTATTATT-AT
1 AAAATTA-TATT-TTAAT
76965383 AAAATTATATTTTAAT
1 AAAATTATATTTTAAT
76965399 GTAAAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.07
16 7 0.25
17 17 0.61
18 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTATATTTTAAT
Found at i:76965579 original size:21 final size:23
Alignment explanation
Indices: 76965554--76965606 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
76965544 ATGTTTTTAA
76965554 ATTTAA-A-AAGTTAGTCAAATT
1 ATTTAATATAAGTTAGTCAAATT
**
76965575 ATTTAATATTATTTTAGTCAAATT
1 ATTTAATA-TAAGTTAGTCAAATT
76965599 ATTTAATA
1 ATTTAATA
76965607 CTATTAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
24 20 0.74
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTTAATATAAGTTAGTCAAATT
Found at i:76965593 original size:24 final size:24
Alignment explanation
Indices: 76965564--76965611 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
76965554 ATTTAAAAAG
*
76965564 TTAGTCAAATTATTTAATATTATT
1 TTAGTCAAATTATTTAATACTATT
76965588 TTAGTCAAATTATTTAATACTATT
1 TTAGTCAAATTATTTAATACTATT
76965612 AAACTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAGTCAAATTATTTAATACTATT
Found at i:76965619 original size:24 final size:24
Alignment explanation
Indices: 76965568--76965623 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
76965558 AAAAAGTTAG
* ** *
76965568 TCAAATTATTTAATATTATTTTAG
1 TCAAATTATTTAATACTATTAAAC
76965592 TCAAATTATTTAATACTATTAAAC
1 TCAAATTATTTAATACTATTAAAC
76965616 TC-AATTAT
1 TCAAATTAT
76965624 CAAATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
TCAAATTATTTAATACTATTAAAC
Found at i:76966467 original size:43 final size:42
Alignment explanation
Indices: 76966429--76966508 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
76966419 ATTTAGTGTT
**
76966429 GTTTTATAA-AAATTATTTAAATTAGGG-TTTAGGGTTTAGGG
1 GTTTTA-AATAAATTAACTAAATTAGGGTTTTAGGGTTTAGGG
76966470 GTTTTAAATAAATTAACTAAATTAGGGTTTTTAGGGTTT
1 GTTTTAAATAAATTAACTAAATTAGGG-TTTTAGGGTTT
76966509 TAAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 2 0.06
41 22 0.65
43 10 0.29
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (42 bp):
GTTTTAAATAAATTAACTAAATTAGGGTTTTAGGGTTTAGGG
Found at i:76966561 original size:88 final size:90
Alignment explanation
Indices: 76966446--76966660 Score: 305
Period size: 88 Copynumber: 2.4 Consensus size: 90
76966436 AAAAATTATT
* * *
76966446 TAAATTAGGGTTTAGGGTTTAGGGGTTTTAAATAAATTAACTAAATTAGGGTTTTTAGGGTTTTA
1 TAAATTAGGATTTAGGGTTTA-TGGTTTTAAATAAATTAACTAAATTAGGG-TTCTAGGGTTTTA
76966511 AATAAATT-AAG-TTAGGG-TTTTAAA
64 AATAAATTAAAGTTTAGGGTTTTTAAA
* * *
76966535 TAATTTAGGATTTAGGATTTATGGTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
1 TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTAACTAAATTAGGGTTCTAGGGTTTTAAA
76966600 TAAATTAAAGTTTAGGGTTTTTAAA
66 TAAATTAAAGTTTAGGGTTTTTAAA
* *
76966625 TAAACTA--AGTTAGGGTTTATGGTTTTAAATAAATTA
1 TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTA
76966661 GGGTTTATGG
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
87 20 0.18
88 57 0.50
89 24 0.21
90 12 0.11
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.42
Consensus pattern (90 bp):
TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTAACTAAATTAGGGTTCTAGGGTTTTAAA
TAAATTAAAGTTTAGGGTTTTTAAA
Found at i:76966598 original size:25 final size:24
Alignment explanation
Indices: 76966570--76966709 Score: 154
Period size: 25 Copynumber: 5.5 Consensus size: 24
76966560 TTTAAATAAA
*
76966570 TTAAGTAAATTAGGGTTCTAGGGTT
1 TTAAATAAATTAGGGTT-TAGGGTT
**
76966595 TTAAATAAATTAAAGTTTAGGGTTT
1 TTAAATAAATTAGGGTTTAGGG-TT
*
76966620 TTAAATAAACTAAGTTAGGGTTTATGGTT
1 TTAAAT--A--AA-TTAGGGTTTAGGGTT
*
76966649 TTAAATAAATTAGGGTTTATGGTT
1 TTAAATAAATTAGGGTTTAGGGTT
*
76966673 TTAAATAAATTAGGGTTCTAGGATT
1 TTAAATAAATTAGGGTT-TAGGGTT
76966698 TTAAATAAATTA
1 TTAAATAAATTA
76966710 AATTAGAGTT
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
24 37 0.37
25 41 0.41
27 2 0.02
29 10 0.10
30 10 0.10
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.42
Consensus pattern (24 bp):
TTAAATAAATTAGGGTTTAGGGTT
Found at i:76966599 original size:34 final size:32
Alignment explanation
Indices: 76966522--76966607 Score: 102
Period size: 34 Copynumber: 2.7 Consensus size: 32
76966512 ATAAATTAAG
* * *
76966522 TTAGGGTTTTAAAT-AATTTAGGATTTAGGAT
1 TTAGGGTTTTAAATAAATTAAGAAATTAGGAT
* *
76966553 TTATGGTTTTAAATAAATTAAGTAAATTAGGGT
1 TTAGGGTTTTAAATAAATTAAG-AAATTAGGAT
76966586 TCTAGGGTTTTAAATAAATTAA
1 T-TAGGGTTTTAAATAAATTAA
76966608 AGTTTAGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 13 0.28
32 6 0.13
33 8 0.17
34 19 0.41
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (32 bp):
TTAGGGTTTTAAATAAATTAAGAAATTAGGAT
Found at i:76966680 original size:78 final size:80
Alignment explanation
Indices: 76966570--76966750 Score: 215
Period size: 78 Copynumber: 2.2 Consensus size: 80
76966560 TTTAAATAAA
* * *
76966570 TTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAAGTT-TAGGGTTTTTAAATAAACTAAG
1 TTAAATAAATTAGGGTT-TAGGGTTTTAAATAAATTAAAGTTCTA-GGATTTTAAATAAACTAAA
* *
76966634 TTAGGGTTTATGG-T-T
64 TTAGAGTTTAGGGTTAT
* ** *
76966649 TTAAATAAATTAGGGTTTATGGTTTTAAATAAATTAGGGTTCTAGGATTTTAAATAAATTAAATT
1 TTAAATAAATTAGGGTTTAGGGTTTTAAATAAATTAAAGTTCTAGGATTTTAAATAAACTAAATT
76966714 AGAGTTTAGGGTTAAAT
66 AGAGTTTAGGGTT--AT
*
76966731 TTAATTAAATTAGGGTTTAG
1 TTAAATAAATTAGGGTTTAG
76966751 TTTTTTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
78 48 0.56
79 19 0.22
82 19 0.22
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (80 bp):
TTAAATAAATTAGGGTTTAGGGTTTTAAATAAATTAAAGTTCTAGGATTTTAAATAAACTAAATT
AGAGTTTAGGGTTAT
Found at i:76966712 original size:54 final size:53
Alignment explanation
Indices: 76966570--76966726 Score: 134
Period size: 54 Copynumber: 3.0 Consensus size: 53
76966560 TTTAAATAAA
* *
76966570 TTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAAGTTTAGGGTTT-T--TAA
1 TTAAATAAATTAGGGTTCTA-GGTTTTAAATAAATTAAA--TTAGGGTTTATGGT-T
* *
76966624 ATAAACTAAGTTAGGGTT-TATGG-TTT---TAAA-TAAATTAGGGTTTATGGTT
1 TTAAA-TAAATTAGGGTTCTA-GGTTTTAAATAAATTAAATTAGGGTTTATGGTT
* *
76966673 TTAAATAAATTAGGGTTCTAGGATTTTAAATAAATTAAATTAGAGTTTAGGGTT
1 TTAAATAAATTAGGGTTCTAGG-TTTTAAATAAATTAAATTAGGGTTTATGGTT
76966727 AAATTTAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
47 9 0.11
48 14 0.17
49 10 0.12
50 8 0.10
53 7 0.08
54 24 0.29
55 11 0.13
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (53 bp):
TTAAATAAATTAGGGTTCTAGGTTTTAAATAAATTAAATTAGGGTTTATGGTT
Found at i:76967044 original size:126 final size:126
Alignment explanation
Indices: 76966812--76967189 Score: 546
Period size: 126 Copynumber: 3.0 Consensus size: 126
76966802 TTGTACCCTA
*
76966812 AAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* * * * *
76966877 TG-CAAGCAAAAATACAAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
66 TGTC-AGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
* * *
76966938 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGTAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* *
76967003 TGTCAGCAAAATTACGAAAAAAAGCTACCACGTCGATGCTCTTTTTCTATAGTAGTTCATG
66 TGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
* * * * * *
76967064 AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAGCGTTTCAAGCACGATGCAA
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* *
76967129 TGTCAGCAAAATTTCTG--AAAAAGCTCCCACATGGATGCTCTTTTTCTATAGTAGTTCATG
66 TGTCAGCAAAATTAC-GAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
76967189 A
1 A
76967190 TTGACCTTAG
Statistics
Matches: 226, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 41 0.18
126 183 0.81
127 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
TGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
Found at i:76971337 original size:25 final size:24
Alignment explanation
Indices: 76971300--76971351 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
76971290 ATTGTTATAA
* *
76971300 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAAAT-ATT
76971324 AAAATTACATAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
76971349 AAA
1 AAA
76971352 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:76971349 original size:19 final size:19
Alignment explanation
Indices: 76971327--76971392 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
76971317 ATTAATTAAA
*
76971327 ATTACATAAATGAAAAAAT
1 ATTAAATAAATGAAAAAAT
** *
76971346 ATTAAATAATATTTAAAACT
1 ATTAAATAA-ATGAAAAAAT
*
76971366 -TAAAATAAATGAAAAAAT
1 ATTAAATAAATGAAAAAAT
76971384 ATTAAATAA
1 ATTAAATAA
76971393 TATTCAAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 7 0.19
19 22 0.61
20 7 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
ATTAAATAAATGAAAAAAT
Found at i:76971380 original size:38 final size:38
Alignment explanation
Indices: 76971332--76971412 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
76971322 TTAAAATTAC
*
76971332 ATAAATGAAAAAATATTAAATAATATTTAAAACTTAAA
1 ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
**
76971370 ATAAATGAAAAAATATTAAATAATATTCAAATTTTAAA
1 ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
76971408 ATAAA
1 ATAAA
76971413 CCGTTACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (38 bp):
ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
Found at i:76971600 original size:21 final size:21
Alignment explanation
Indices: 76971567--76971610 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
76971557 TATAAAGAGT
*
76971567 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
76971588 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
76971609 TT
1 TT
76971611 GTAGAGATTT
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:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:76986466 original size:30 final size:30
Alignment explanation
Indices: 76986430--76986489 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
76986420 TTCCCGAGCC
* *
76986430 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATACCAAAGTT
*
76986460 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACCAAAGTT
76986490 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACCAAAGTT
Found at i:76987413 original size:65 final size:65
Alignment explanation
Indices: 76987333--76987463 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
76987323 GTCTTGGTGT
76987333 TGTTTGTGCAAATGATGTTTTATGTGAGATTGTGTGATTATGTTACTTGCTATTTGCATGTGAAC
1 TGTTTGTGCAAATGATGTTTTATGTGAGATTGTGTGATTATGTTACTTGCTATTTGCATGTGAAC
76987398 TGTTTGTGCAAATGATGTTTTATGTGAGATTGTGTGATTATGTTACTTGCTATTTGCATGTGAAC
1 TGTTTGTGCAAATGATGTTTTATGTGAGATTGTGTGATTATGTTACTTGCTATTTGCATGTGAAC
76987463 T
1 T
76987464 TACTAAGCAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (65 bp):
TGTTTGTGCAAATGATGTTTTATGTGAGATTGTGTGATTATGTTACTTGCTATTTGCATGTGAAC
Found at i:76992024 original size:46 final size:46
Alignment explanation
Indices: 76991923--76992045 Score: 115
Period size: 46 Copynumber: 2.6 Consensus size: 46
76991913 ATTGTGTGCT
*
76991923 AGTGTAAGACATGTCTGGGACATGCATCGTCCTCGAGACATAAGCC
1 AGTGTAAGACATGCCTGGGACATGCATCGTCCTCGAGACATAAGCC
** * * * *
76991969 AACGAAAGACATGCCTGGGACATGCATCG-GCTACGAGATGAT-AGTC
1 AGTGTAAGACATGCCTGGGACATGCATCGTCCT-CGAGA-CATAAGCC
* *
76992015 AGTGTAAGACCATGCCAGGGACTTGGCATCG
1 AGTGTAAGA-CATGCCTGGGACAT-GCATCG
76992046 ACACCTTACT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.03
46 39 0.64
47 14 0.23
48 6 0.10
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGCCTGGGACATGCATCGTCCTCGAGACATAAGCC
Found at i:76994048 original size:63 final size:63
Alignment explanation
Indices: 76993949--76994078 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
76993939 TTGCATGGAT
76993949 GAAATTTTAAAGAAAGGGCATGAGGGCATTTTGGTCATTAGGTATTTTAATGAAATAAAAAGG
1 GAAATTTTAAAGAAAGGGCATGAGGGCATTTTGGTCATTAGGTATTTTAATGAAATAAAAAGG
76994012 GAAATTTTAAAGAAAGGGCATGAGGGCATTTTGGTCATTAGGTATTTTAATGAAATAAAAAGG
1 GAAATTTTAAAGAAAGGGCATGAGGGCATTTTGGTCATTAGGTATTTTAATGAAATAAAAAGG
76994075 GAAA
1 GAAA
76994079 AATAAAGCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (63 bp):
GAAATTTTAAAGAAAGGGCATGAGGGCATTTTGGTCATTAGGTATTTTAATGAAATAAAAAGG
Found at i:76996286 original size:55 final size:55
Alignment explanation
Indices: 76996182--76996296 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
76996172 CAAAGTTGTG
* *
76996182 CACGGGTAGGCCACACGGGCGTGCGCCATGGCCGTGTTAAAATGACAGTGTCGTC
1 CACGGGTAGGCCACACGGGCGTGCGCCAAGGCCGTGTTAAAATGACAGTGTCGCC
* ** * * *
76996237 CACGGGTAGG-CAGTACGGGCGTGTTCCAAGGCCGTGTTGATAA-GTCAGTGTTGCC
1 CACGGGTAGGCCA-CACGGGCGTGCGCCAAGGCCGTGTT-AAAATGACAGTGTCGCC
76996292 CACGG
1 CACGG
76996297 TTGAAGGGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 2 0.04
55 45 0.90
56 3 0.06
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.20
Consensus pattern (55 bp):
CACGGGTAGGCCACACGGGCGTGCGCCAAGGCCGTGTTAAAATGACAGTGTCGCC
Found at i:76998771 original size:23 final size:23
Alignment explanation
Indices: 76998745--76998789 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
76998735 GTTAAGAGTG
76998745 AAAGAGCAAGATGTACCGAAGAT
1 AAAGAGCAAGATGTACCGAAGAT
76998768 AAAGAGCAAGATGTACCGAAGA
1 AAAGAGCAAGATGTACCGAAGA
76998790 CTGCATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.27, T:0.11
Consensus pattern (23 bp):
AAAGAGCAAGATGTACCGAAGAT
Found at i:77002527 original size:47 final size:47
Alignment explanation
Indices: 77002462--77002722 Score: 175
Period size: 47 Copynumber: 5.6 Consensus size: 47
77002452 GTGAGCTAGA
* * *
77002462 GTAAGACATGTTTAGGACAT-GCATCGGCCATATTATGA-GAGCCAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCATA-GATGACGAGCCAGT
* *
77002508 GTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GACGAGTGCTAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCCATAGATGACGA--GCCAGT
* * * *
77002556 GTAAGACATGTCTGGGACAT-GCATCAGTC-TCGA-GACGTAAGCTAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCATAGATGACG--AGCCAGT
* * * * * *
77002602 GAAAGACATGTCTGGGACAT-GCATCAGCTACGAGATGA-TAGTCAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCA-TAGATGACGAGCCAGT
** * * *
77002648 GTAAGACCATGTCCAGGACATGGCATC-GACTTGAGAT-ATGAGCCAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCCAT-AGATGACGAGCCAGT
77002695 GTAAGACCATGTCTGGGACATGGCATCG
1 GTAAGA-CATGTCTGGGACATGGCATCG
77002723 ACACCTTACC
Statistics
Matches: 173, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.01
46 65 0.38
47 78 0.45
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGGCATCGGCCATAGATGACGAGCCAGT
Found at i:77002723 original size:47 final size:47
Alignment explanation
Indices: 77002500--77002724 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 47
77002490 CATATTATGA
* * *
77002500 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGA-TAT
* * * **
77002548 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGTCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATAT
* * *
77002594 AAGCTAGTGAAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-CGAGAT-AT
* ** *
77002641 -AGTCAGTGTAAGACCATGTCCAGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATAT
77002687 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
77002725 ACCTTACCCC
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 57 0.39
47 68 0.46
48 19 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATAT
Found at i:77007943 original size:215 final size:215
Alignment explanation
Indices: 77007567--77007999 Score: 731
Period size: 215 Copynumber: 2.0 Consensus size: 215
77007557 TTGGTTGCCC
* ** *
77007567 CTTCGAACCATGCATTTATCGAGGATACAGTTTGGTTCCTTAAGTATAGCTCCATCAAAACCTAT
1 CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
* *
77007632 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGTTGAGACACATGGAAGG
66 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
* *
77007697 TAGGGTGGATTTGAGTGCCTGGTGGCAATTGGAGCTTATATGCTACCTTTCCAACTTTAGCCTCC
131 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
* * *
77007762 ATAATAAAAGGACCAAAAAA
196 ACAAAAAAAGAACCAAAAAA
*
77007782 CTTCAAACCATGCATTTATCGGGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
1 CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
* * *
77007847 TGGAGGCAGAGTCAATTGGGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
66 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
77007912 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
131 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
77007977 ACAAAAAAAGAACCAAAAAA
196 ACAAAAAAAGAACCAAAAAA
77007997 CTT
1 CTT
77008000 GGGACAGAGT
Statistics
Matches: 203, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
215 203 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (215 bp):
CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
ACAAAAAAAGAACCAAAAAA
Found at i:77017869 original size:33 final size:32
Alignment explanation
Indices: 77017808--77017870 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
77017798 GCTTGCCCTC
* *
77017808 AAAAAAACTAAACGAAAGCAAAATAAAAACCA
1 AAAAAAACTAAACAAAAACAAAATAAAAACCA
*
77017840 AAAACAAACTAAACAAAAAACAAAAAAAAAA
1 AAAA-AAACTAAAC-AAAAACAAAATAAAAA
77017871 TTCAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 4 0.15
33 9 0.35
34 13 0.50
ACGTcount: A:0.78, C:0.14, G:0.03, T:0.05
Consensus pattern (32 bp):
AAAAAAACTAAACAAAAACAAAATAAAAACCA
Found at i:77019082 original size:13 final size:13
Alignment explanation
Indices: 77019047--77019075 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
77019037 TAAAACTATG
77019047 AAAAAC-TAGAAT
1 AAAAACATAGAAT
77019059 AAAAACATAGAAT
1 AAAAACATAGAAT
77019072 AAAA
1 AAAA
77019076 TAATAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAACATAGAAT
Found at i:77027254 original size:26 final size:27
Alignment explanation
Indices: 77027225--77027284 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
77027215 AACCATAAAA
77027225 TCAAACATTAA-AACC-AATATAACGTC
1 TCAAACATTAATAACCAAATATAA-GTC
* *
77027251 TCAAA-ATTAATATCCAAATGTAAGTC
1 TCAAACATTAATAACCAAATATAAGTC
77027277 TCAAACAT
1 TCAAACAT
77027285 CCATTACAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 16 0.55
27 8 0.28
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAAACATTAATAACCAAATATAAGTC
Found at i:77027836 original size:59 final size:59
Alignment explanation
Indices: 77027769--77027885 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
77027759 GTTAGATAAA
*
77027769 CAAAACTCCAATCTTCGAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
1 CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
*
77027828 CAAAACTCCAATCTTCCAAATATCGAATACCATACTCTGGTTGAGTGGGGCATAGCCA
1 CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCA
77027886 TACACTCCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (59 bp):
CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
Found at i:77033186 original size:24 final size:23
Alignment explanation
Indices: 77033146--77033190 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
77033136 ATTTATTTAC
77033146 TTATTATTTAAGAAATAATAATTA
1 TTATTATTTAAGAAAT-ATAATTA
*
77033170 TTATTA-TTAAGTTAATATAAT
1 TTATTATTTAAG-AAATATAAT
77033191 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATTATTTAAGAAATATAATTA
Found at i:77033860 original size:12 final size:12
Alignment explanation
Indices: 77033843--77033867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77033833 GCCGACTATT
77033843 GTTACTGTTACC
1 GTTACTGTTACC
77033855 GTTACTGTTACC
1 GTTACTGTTACC
77033867 G
1 G
77033868 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:77033895 original size:45 final size:45
Alignment explanation
Indices: 77033845--77033955 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
77033835 CGACTATTGT
* *
77033845 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
77033890 TACTGTTACTGTTACTGTTACATATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
77033935 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
77033956 TGCTACTGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:77033946 original size:6 final size:6
Alignment explanation
Indices: 77033935--77033982 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
77033925 GTGTGTTGAA
* * *
77033935 TACTGT TACTGT TACTGT TACTGC TACTGC TACCGT TACTGAT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
77033983 ATTAGGTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (6 bp):
TACTGT
Found at i:77035944 original size:47 final size:45
Alignment explanation
Indices: 77035737--77036144 Score: 281
Period size: 47 Copynumber: 8.7 Consensus size: 45
77035727 GATAAGTTGT
* *
77035737 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTAGCATCATCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCGAGGC
* ** * * *
77035786 CGATGCCATGTCCCAGACATGGTCTTATACTACCTCTCGTATATACG-TGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCT-CGAGGC
* * * * * *
77035836 TGATGCATGTCTCAGACAAGTCTTACACTAGCA-CAAATCT-TA-GT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATC--ATCTCGAGGC
* *
77035880 CGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATC-TCGAGGC
* * * * * *
77035927 CGATGCATGTCCTAGACATATCTTACACTAGCA-CAGCTCTTA-GT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTC-GAGGC
*
77035971 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATC-TCGAGGC
* * * * *
77036018 CGATGCATGTCCTAGACATGTCTTACATTGGCACTCATCTCTACGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCGAGGC
* * *
77036064 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCAT-CTCGAGGC
*
77036112 CGATGCATGTCCTAGACATGTCTTACACTGGCA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA
77036145 CACAAGAAAT
Statistics
Matches: 286, Mismatches: 55, Indels: 39
0.75 0.14 0.10
Matches are distributed among these distances:
44 62 0.22
45 7 0.02
46 34 0.12
47 91 0.32
48 34 0.12
49 47 0.16
50 7 0.02
51 4 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCGAGGC
Found at i:77035951 original size:91 final size:91
Alignment explanation
Indices: 77035837--77036146 Score: 394
Period size: 91 Copynumber: 3.4 Consensus size: 91
77035827 TATACGTGCT
*
77035837 GATGCATGT-CTCAGACA-AGTCTTACACTAGCACAAATCTTAGTCGATGCGTGTCCCAGACACG
1 GATGCATGTCCT-AGACATA-TCTTACACTAGCACAAATCTTAGTCGATGCATGTCCCAGACACG
*
77035900 TCTTACACTGGCTATCATCGTCGAGGCC
64 TCTTACACTGGCTATCATCATCGAGGCC
**
77035928 GATGCATGTCCTAGACATATCTTACACTAGCACAGCTCTTAGTCGATGCATGTCCCAGACACGTC
1 GATGCATGTCCTAGACATATCTTACACTAGCACAAATCTTAGTCGATGCATGTCCCAGACACGTC
77035993 TTACACTGGCTATCATCATCGAGGCC
66 TTACACTGGCTATCATCATCGAGGCC
* * * **
77036019 GATGCATGTCCTAGACATGTCTTACATTGGCACTCATCTCTACGTCGATGCCATGTCCCAGACAT
1 GATGCATGTCCTAGACATATCTTACACTAGCACAAATCT-TA-GTCGATG-CATGTCCCAGACA-
* * * *
77036084 GGTCTTATACTGGC-ACTCATAAT-GTGGCC
62 CGTCTTACACTGGCTA-TCATCATCGAGGCC
* *
77036113 GATGCATGTCCTAGACATGTCTTACACTGGCACA
1 GATGCATGTCCTAGACATATCTTACACTAGCACA
77036147 CAAGAAATCC
Statistics
Matches: 196, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
91 115 0.59
92 5 0.03
93 7 0.04
94 51 0.26
95 18 0.09
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (91 bp):
GATGCATGTCCTAGACATATCTTACACTAGCACAAATCTTAGTCGATGCATGTCCCAGACACGTC
TTACACTGGCTATCATCATCGAGGCC
Found at i:77037997 original size:14 final size:16
Alignment explanation
Indices: 77037974--77038005 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77037964 AGATTCACAT
77037974 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
77037989 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
77038004 AC
1 AC
77038006 ATACCATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:77051455 original size:43 final size:43
Alignment explanation
Indices: 77051391--77051562 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
77051381 TCTGAATTCA
* * **
77051391 TTCACCGGTATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* ** *
77051433 TTCACCGGCATTATAGCCTGCTAGGCCCGAGGCCTTTATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCC-CGATATCAT
* *
77051477 CTCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
77051520 TTCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
77051563 CATTTCGATA
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 11 0.10
43 55 0.50
44 43 0.39
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:77051560 original size:87 final size:86
Alignment explanation
Indices: 77051392--77051560 Score: 257
Period size: 87 Copynumber: 2.0 Consensus size: 86
77051382 CTGAATTCAT
* ** *
77051392 TCACCGGTATTTCGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAG
1 TCACCGGTATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTAG
* **
77051457 GCCCGAGGCCTTTATATTATC
66 GCCCGAAGCCCGTATATTATC
77051478 TCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTA
1 TCACCGGTATT-TAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTA
*
77051543 GGCTCGAAGCCCGTATAT
65 GGCCCGAAGCCCGTATAT
77051561 CACATTTCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 11 0.15
87 63 0.85
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (86 bp):
TCACCGGTATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTAG
GCCCGAAGCCCGTATATTATC
Found at i:77052451 original size:70 final size:70
Alignment explanation
Indices: 77052334--77052468 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
77052324 TAGCACATAA
* * * * *
77052334 CACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
77052399 CCAAG
66 CCAAG
77052404 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
77052469 TAATAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
CCAAG
Found at i:77056070 original size:20 final size:20
Alignment explanation
Indices: 77056023--77056063 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
77056013 AAAAGCAGGG
77056023 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
77056043 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
77056061 AAA
1 AAA
77056064 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:77057603 original size:12 final size:12
Alignment explanation
Indices: 77057586--77057610 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77057576 GCCGACTACT
77057586 GTTACTGTTACC
1 GTTACTGTTACC
77057598 GTTACTGTTACC
1 GTTACTGTTACC
77057610 G
1 G
77057611 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:77057638 original size:45 final size:45
Alignment explanation
Indices: 77057588--77057698 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
77057578 CGACTACTGT
*
77057588 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
** * * *
77057633 TACTGTTACTATTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
77057678 TACTGTTACCGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
77057699 TGTTTCGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:77057640 original size:51 final size:49
Alignment explanation
Indices: 77057565--77057702 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 49
77057555 TTACTGATCA
* * *
77057565 GGCAC-TTATGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT--CGATTC
*
77057615 GGCACTTTGTGTGTCGAATACTGTTACTATTACCGTTA----TCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
* * * *
77057660 AGCACTTTGTGTGTTGAATACTGTTACCGTTACTGTTACTGTT
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT
77057703 TCGGATTTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
45 39 0.53
47 1 0.01
49 1 0.01
50 5 0.07
51 28 0.38
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (49 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
Found at i:77058127 original size:18 final size:18
Alignment explanation
Indices: 77057866--77058258 Score: 215
Period size: 18 Copynumber: 21.1 Consensus size: 18
77057856 AAAGGTATAA
* * *
77057866 AATAACTGATTATTGCTG
1 AATAATTGATTGTTACTG
* *
77057884 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
* *
77057902 GATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
77057920 GAT-ATTAGACTGTTACTG
1 AATAATT-GATTGTTACTG
* * *
77057938 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
*
77057956 AATAATTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
77057974 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
77057992 AATGAA-TGACTGCTACTG
1 AAT-AATTGATTGTTACTG
*
77058010 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
77058029 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
77058046 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
77058065 ATAACCGATTAATTGATCGATACTG
1 ---A---A-TAATTGATTGTTACTG
* * * *
77058090 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
77058108 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
*
77058126 AAT-ATCTGATT-TTACTA
1 AATAAT-TGATTGTTACTG
*
77058143 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
77058162 ATAACCGATTAATTGATCGATACTG
1 ---A---A-TAATTGATTGTTACTG
* * * *
77058187 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
77058205 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* *
77058223 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
77058241 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
77058258 A
1 A
77058259 GAGTTAATGA
Statistics
Matches: 290, Mismatches: 58, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
17 37 0.13
18 202 0.70
19 19 0.07
22 4 0.01
25 4 0.01
26 24 0.08
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:77058141 original size:97 final size:97
Alignment explanation
Indices: 77058008--77058245 Score: 422
Period size: 97 Copynumber: 2.4 Consensus size: 97
77057998 TGACTGCTAC
*
77058008 TGAATAACTTAATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGA
1 TGAATAA-TTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGA
77058073 TTAATTGATCGATACTGAATAACTGGTTATTAT
65 TTAATTGATCGATACTGAATAACTGGTTATTAT
*
77058106 TGAATAATTGATTGTTACTGAATATCTGATTTTACTAAATAATTGACTGTTACTGGATAACCGAT
1 TGAATAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
77058171 TAATTGATCGATACTGAATAACTGGTTATTAT
66 TAATTGATCGATACTGAATAACTGGTTATTAT
* *
77058203 TGAATAATTGATTGTTACTGAATAACTGACTGTTACTGAATAA
1 TGAATAATTGATTGTTACTGAATATCTGA-TTTTACTGAATAA
77058246 ATAATTGTTC
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 116 0.87
98 18 0.13
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (97 bp):
TGAATAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
TAATTGATCGATACTGAATAACTGGTTATTAT
Found at i:77058157 original size:35 final size:36
Alignment explanation
Indices: 77058085--77058172 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 36
77058075 AATTGATCGA
* * * *
77058085 TACTGAATAACTGGTTATTATTGAATAATTGATTGT
1 TACTGAATAACTGATTATTACTAAATAATTGACTGT
*
77058121 TACTGAATATCTGATT-TTACTAAATAATTGACTGT
1 TACTGAATAACTGATTATTACTAAATAATTGACTGT
* *
77058156 TACTGGATAACCGATTA
1 TACTGAATAACTGATTA
77058173 ATTGATCGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 29 0.67
36 14 0.33
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (36 bp):
TACTGAATAACTGATTATTACTAAATAATTGACTGT
Found at i:77058222 original size:62 final size:61
Alignment explanation
Indices: 77058110--77058228 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
77058100 TATTATTGAA
* * * *
77058110 TAATTGATTGTTACTGAATATCTGATTTTACTAAATAATTGACTGTTACTGGATAACCGAT
1 TAATTGATCGATACTGAATAACTGATTTTACTAAATAATTGACTGTTACTGAATAACCGAT
* * * *
77058171 TAATTGATCGATACTGAATAACTGGTTATTATTGAATAATTGATTGTTACTGAATAAC
1 TAATTGATCGATACTGAATAACTGATT-TTACTAAATAATTGACTGTTACTGAATAAC
77058229 TGACTGTTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
61 23 0.47
62 26 0.53
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (61 bp):
TAATTGATCGATACTGAATAACTGATTTTACTAAATAATTGACTGTTACTGAATAACCGAT
Found at i:77061824 original size:19 final size:19
Alignment explanation
Indices: 77061787--77061824 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
77061777 AAAGTGTCCA
*
77061787 GGTTCAATGTATCTAGCTT
1 GGTTCAATGTACCTAGCTT
77061806 GGTTCAATGATACCT-GCTT
1 GGTTCAATG-TACCTAGCTT
77061825 ACGTAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (19 bp):
GGTTCAATGTACCTAGCTT
Found at i:77067829 original size:20 final size:20
Alignment explanation
Indices: 77067792--77067829 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77067782 CACAAAATCC
*
77067792 TTGATTCAATAGATTAGAAT
1 TTGATTCAATAGACTAGAAT
77067812 TTGATTCGAAT-GACTAGA
1 TTGATTC-AATAGACTAGA
77067830 CTACATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGATTCAATAGACTAGAAT
Found at i:77068522 original size:67 final size:67
Alignment explanation
Indices: 77068408--77068540 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
77068398 TAAAAAGAAT
* * ** *
77068408 TTCGTCCTCGAAATTTACTTGAACTAAACAAATAGGGATATTTTCGCTTCATCGCATCTTCGGCT
1 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
77068473 TC
66 TC
77068475 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
1 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
77068540 T
66 T
77068541 TTCAAGTAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (67 bp):
TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
TC
Found at i:77070677 original size:43 final size:43
Alignment explanation
Indices: 77070622--77070730 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
77070612 TTTATTTGAA
*
77070622 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
1 AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
* * * * *
77070665 ACAAACTCCGCTAAAGATCACGATCTTTAGCGGCGCTTTTCTT
1 AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
77070708 AAAAACACCGCTAAA-AGTCATGA
1 AAAAACACCGCTAAAGA-TCATGA
77070731 AATTCAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
Found at i:77070958 original size:19 final size:21
Alignment explanation
Indices: 77070929--77070970 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
77070919 AAGTTATCTT
77070929 AAATATTAAAAT-AAAAATAA
1 AAATATTAAAATCAAAAATAA
*
77070949 AAAT-TTAAAATCAAAACTAA
1 AAATATTAAAATCAAAAATAA
77070969 AA
1 AA
77070971 TAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATATTAAAATCAAAAATAA
Found at i:77071968 original size:15 final size:15
Alignment explanation
Indices: 77071948--77071981 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
77071938 CTCGGATGAA
*
77071948 CAAAAATGGTACATC
1 CAAAAATGGAACATC
77071963 CAAAAATGGAACATC
1 CAAAAATGGAACATC
77071978 CAAA
1 CAAA
77071982 CATCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:77076444 original size:7 final size:7
Alignment explanation
Indices: 77076432--77076536 Score: 56
Period size: 7 Copynumber: 14.7 Consensus size: 7
77076422 ACTAATTAAT
77076432 CTAAACC
1 CTAAACC
77076439 CTAAACC
1 CTAAACC
*
77076446 TCTTAACCC
1 -C-TAAACC
*
77076455 CT-ATCC
1 CTAAACC
*
77076461 CATAAACA
1 C-TAAACC
77076469 CTAAACC
1 CTAAACC
77076476 CTAAACC
1 CTAAACC
*
77076483 CTTAACC
1 CTAAACC
*
77076490 CCAAACC
1 CTAAACC
*
77076497 CTTACACC
1 C-TAAACC
*
77076505 TTAAACTC
1 CTAAAC-C
*
77076513 C--AACA
1 CTAAACC
77076518 CT-AACAC
1 CTAAAC-C
77076525 CTAAACC
1 CTAAACC
77076532 CTAAA
1 CTAAA
77076537 TTATAATCCC
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
5 1 0.01
6 10 0.14
7 45 0.61
8 13 0.18
9 5 0.07
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:77076489 original size:14 final size:14
Alignment explanation
Indices: 77076432--77076510 Score: 59
Period size: 15 Copynumber: 5.4 Consensus size: 14
77076422 ACTAATTAAT
*
77076432 CTAAACCCTAAACC
1 CTAAACCCTTAACC
* * *
77076446 TCTTAACCCCTATCC
1 -CTAAACCCTTAACC
* *
77076461 CATAAACACTAAACC
1 C-TAAACCCTTAACC
77076476 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
77076490 CCAAACCCTTACACC
1 CTAAACCCTTA-ACC
*
77076505 TTAAAC
1 CTAAAC
77076511 TCCAACACTA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
14 22 0.46
15 26 0.54
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:77076603 original size:7 final size:7
Alignment explanation
Indices: 77076591--77076644 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
77076581 AGTTAACTCC
77076591 TAAACCT
1 TAAACCT
77076598 TAAACCT
1 TAAACCT
*
77076605 TAAACCC
1 TAAACCT
* *
77076612 TAAAACA
1 TAAACCT
* *
77076619 TATATCT
1 TAAACCT
*
77076626 TAAACCA
1 TAAACCT
77076633 TAAACCT
1 TAAACCT
77076640 TAAAC
1 TAAAC
77076645 TATAATGATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:77076608 original size:14 final size:14
Alignment explanation
Indices: 77076591--77076649 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
77076581 AGTTAACTCC
*
77076591 TAAACCTTAAACCT
1 TAAACCTTAAACCA
* *
77076605 TAAACCCTAAAACA
1 TAAACCTTAAACCA
* *
77076619 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
77076633 TAAACCTTAAACTA
1 TAAACCTTAAACCA
77076647 TAA
1 TAA
77076650 TGATAATTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:77076864 original size:41 final size:41
Alignment explanation
Indices: 77076807--77077025 Score: 325
Period size: 41 Copynumber: 5.4 Consensus size: 41
77076797 GTTATATGAC
*
77076807 TTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
77076848 TTTTAGCGGCGTTTTACCAAAAAGCGCC-CTAACGCTCTGGT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
* * * *
77076889 TTTTAACGGCATTTTACCGAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
77076930 TTTTTGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
77076971 TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
77077011 TTTTAGCAGCGTTTT
1 TTTTAGCGGCGTTTT
77077026 TTTACTAAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 24 0.15
41 127 0.79
42 9 0.06
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:77077056 original size:42 final size:43
Alignment explanation
Indices: 77076941--77077068 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
77076931 TTTTGCGGCG
* * ** *
77076941 TTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG---
1 TTTTACCAAAAGCACCACTAATGCTC-CATTTTTAGCAGCGTTT
**
77076982 TTTTACCAAAAGCACCACTAATGCTCTGTTTTTAGCAGCGTTT
1 TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
* * * *
77077025 TTTTACTAAAA-CGCCACTATTGCTCCATTTTTAGCGGCGTTT
1 TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
77077067 TT
1 TT
77077069 GGTAAAACGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
40 12 0.16
41 24 0.32
42 28 0.38
43 10 0.14
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (43 bp):
TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
Found at i:77077083 original size:123 final size:123
Alignment explanation
Indices: 77076807--77077067 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
77076797 GTTATATGAC
*
77076807 TTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
* * * **
77076872 CGCCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAGCGCCGCCAATGCTCTGGT
66 CACCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
*
77076930 TTTTTGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACC-AAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
* *** * * *
77076994 CACCACTAATGCTCT-GTTTTTAGCAGCGTTTTTTTA-CTAAAACGCCACTATTGCTC-CAT
66 CACC-CTAACGCTCTGGTTTTTA--A-CGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
77077053 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
77077068 TGGTAAAACG
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
122 15 0.13
123 81 0.68
124 16 0.13
125 7 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
CACCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
Found at i:77081283 original size:27 final size:27
Alignment explanation
Indices: 77081253--77081307 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
77081243 CAACTATGTC
77081253 ATGAATTTGCAATAACCCATACCTAAA
1 ATGAATTTGCAATAACCCATACCTAAA
77081280 ATGAATTTGCAATAACCCATACCTAAA
1 ATGAATTTGCAATAACCCATACCTAAA
77081307 A
1 A
77081308 CATGTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.25
Consensus pattern (27 bp):
ATGAATTTGCAATAACCCATACCTAAA
Found at i:77081332 original size:16 final size:16
Alignment explanation
Indices: 77081304--77081336 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77081294 ACCCATACCT
77081304 AAAACATGTCCAAAAC
1 AAAACATGTCCAAAAC
77081320 AAAACCATG-CCAAAAC
1 AAAA-CATGTCCAAAAC
77081336 A
1 A
77081337 CAATATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.58, C:0.27, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAACATGTCCAAAAC
Found at i:77082473 original size:108 final size:107
Alignment explanation
Indices: 77082285--77082491 Score: 247
Period size: 108 Copynumber: 1.9 Consensus size: 107
77082275 ATGTCATCCC
* *
77082285 GGATTGCCCGACAATGATGGTTTCTTAATTCATTTATGTCATCCCAGATTGTCCGGCAACAATGA
1 GGATTGCCCGACAATGATGGTTTCTTAATTCATTCATGTCATCCCAGATTGTCCAGCAACAATGA
* *
77082350 CCTACCACCCCGGGTTGCCTGACGATAATGGCTTACCACCTT
66 CCTACCACCCCGGGTTGCCCGACGACAATGGCTTACCACCTT
* * * * *
77082392 GGATTGCTCGACAATGATGGTTTTTTTAATTCATTCATGTCATCTC-GAATTG-CACAGTAACGA
1 GGATTGCCCGACAATGATGG-TTTCTTAATTCATTCATGTCATCCCAG-ATTGTC-CAGCAACAA
* ** * *
77082455 TGACTTGTCACCTCGGGTTGCCCGACGACGATGGCTT
63 TGACCTACCACCCCGGGTTGCCCGACGACAATGGCTT
77082492 TGTCGAGTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
107 21 0.25
108 62 0.75
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (107 bp):
GGATTGCCCGACAATGATGGTTTCTTAATTCATTCATGTCATCCCAGATTGTCCAGCAACAATGA
CCTACCACCCCGGGTTGCCCGACGACAATGGCTTACCACCTT
Found at i:77083440 original size:33 final size:32
Alignment explanation
Indices: 77083397--77083460 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
77083387 CTCTTCTTTT
*
77083397 CTTTTATTTTGTTTTGCTCTTCAAATTAAAACA
1 CTTTTATTTTGCTTTGCTCTTC-AATTAAAACA
* *
77083430 CTTTTGTTTTGCTTTGTTCTTCAATTAAAAC
1 CTTTTATTTTGCTTTGCTCTTCAATTAAAAC
77083461 TTTTTCTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.53
Consensus pattern (32 bp):
CTTTTATTTTGCTTTGCTCTTCAATTAAAACA
Found at i:77084065 original size:14 final size:14
Alignment explanation
Indices: 77084046--77084075 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
77084036 CTTACTTTTT
77084046 AGATATCGAAATTC
1 AGATATCGAAATTC
77084060 AGATATCGAAATTC
1 AGATATCGAAATTC
77084074 AG
1 AG
77084076 GCTTAGCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (14 bp):
AGATATCGAAATTC
Found at i:77086782 original size:119 final size:119
Alignment explanation
Indices: 77086571--77086813 Score: 459
Period size: 119 Copynumber: 2.0 Consensus size: 119
77086561 TATAGTATCT
*
77086571 AACATGATATATTGTTACATCCATTCACGCTTAAATCTTACCTTTCTCAATCAATCAATAATAAA
1 AACATGATATATTGTTACATCCATTCACGCTTAAATCTTACCTTTCTAAATCAATCAATAATAAA
77086636 CACTTATGTTATCTCCATAAAGTAAACTTAAATACATATATATACATATACCAA
66 CACTTATGTTATCTCCATAAAGTAAACTTAAATACATATATATACATATACCAA
*
77086690 AACATGATATATTGTTACATGCATTCACGCTTAAATCTTACCTTTCTAAATCAATCAATAATAAA
1 AACATGATATATTGTTACATCCATTCACGCTTAAATCTTACCTTTCTAAATCAATCAATAATAAA
*
77086755 TACTTATGTTATCTCCATAAAGTAAACTTAAATACATATATATACATATACCAA
66 CACTTATGTTATCTCCATAAAGTAAACTTAAATACATATATATACATATACCAA
77086809 AACAT
1 AACAT
77086814 AATCATCACT
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 121 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (119 bp):
AACATGATATATTGTTACATCCATTCACGCTTAAATCTTACCTTTCTAAATCAATCAATAATAAA
CACTTATGTTATCTCCATAAAGTAAACTTAAATACATATATATACATATACCAA
Found at i:77087471 original size:14 final size:15
Alignment explanation
Indices: 77087447--77087479 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
77087437 TATCATCATC
77087447 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
77087462 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
77087476 TCAT
1 TCAT
77087480 CATTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:77090513 original size:13 final size:13
Alignment explanation
Indices: 77090497--77090521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77090487 ACTAGATTGA
77090497 TAAATATTTTTAT
1 TAAATATTTTTAT
77090510 TAAATATTTTTA
1 TAAATATTTTTA
77090522 GAGATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:77092074 original size:17 final size:17
Alignment explanation
Indices: 77092034--77092091 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
77092024 GACAACAATT
* *
77092034 TTGAAATGGAAAATGATA
1 TTGAAAT-GACAATGTTA
*
77092052 TGGAAATGACAATGTTA
1 TTGAAATGACAATGTTA
*
77092069 TTGAAATAACAAATGTTA
1 TTGAAATGAC-AATGTTA
*
77092087 CTGAA
1 TTGAA
77092092 TGAAATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (17 bp):
TTGAAATGACAATGTTA
Found at i:77092085 original size:18 final size:18
Alignment explanation
Indices: 77092044--77092091 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
77092034 TTGAAATGGA
* * *
77092044 AAATGATATGGAAATGAC
1 AAATGTTATTGAAATAAC
77092062 -AATGTTATTGAAATAAC
1 AAATGTTATTGAAATAAC
*
77092079 AAATGTTACTGAA
1 AAATGTTATTGAA
77092092 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (18 bp):
AAATGTTATTGAAATAAC
Found at i:77094308 original size:30 final size:31
Alignment explanation
Indices: 77094272--77094349 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
77094262 TTTAACGGTT
77094272 ACTGGGCCGAAGCCTTTTCAT-AATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
77094302 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
77094333 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
77094350 ATTGTAAACG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 21 0.46
31 25 0.54
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:77094433 original size:42 final size:42
Alignment explanation
Indices: 77094373--77094464 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
77094363 TGGCCCATAG
*
77094373 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
77094415 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
77094457 GCCCATTT
1 GCCCATTT
77094465 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:77094673 original size:26 final size:26
Alignment explanation
Indices: 77094609--77094783 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
77094599 CCTCTTTAAT
* **
77094609 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
77094634 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
77094659 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
77094685 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
77094711 AATTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
77094737 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
77094763 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
77094784 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.23
26 104 0.77
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Done.