Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 54 of 207
Found at i:15805004 original size:44 final size:42
Alignment explanation
Indices: 15804937--15805101 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 42
15804927 TCCGATATGT
* *
15804937 GATTTCGTGTAAGACCACATCTGGGACGTTGGCATTGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* * * *
15804980 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATAA
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTA
* * * *
15805023 TGATTTCGTGTAAGACC-CTGTTTGGGATAG-TGGCATCAATATTT
1 -GATTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TTA
* *
15805067 GATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
15805102 TGTACGACCT
Statistics
Matches: 96, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 58 0.60
44 37 0.39
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
Found at i:15816879 original size:78 final size:78
Alignment explanation
Indices: 15816728--15817152 Score: 559
Period size: 78 Copynumber: 5.5 Consensus size: 78
15816718 ATATATGTAT
*
15816728 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTC--AGATATA--TAT
1 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
15816789 ATACATGAATAAA
66 ATACATGAATAAA
* *
15816802 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGTATATATACGTAT
1 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
15816867 ATACATGAATAAA
66 ATACATGAATAAA
*
15816880 TTCTTGAATTTAGCTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
1 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
15816945 ATACATGAATAAA
66 ATACATGAATAAA
*
15816958 TTCTTGAATTTAGTTAAAAGTACGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
1 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
*
15817023 ATACATGAATAAG
66 ATACATGAATAAA
* * * * * * **
15817036 TT-TTGAATTTAGTT-AATGT-TGAATGTTATA--TATGTTTACAAGAGGTTCGAATAGGTATGT
1 TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAA-A-GTTCGGATATATATGT
15817096 ATAT--ATGAGTATAAA
64 ATATACATGA--ATAAA
* * * *
15817111 TTCTTGGATTTTA-TTAAAAGTATGGATGTTACATATATATAT
1 TTCTT-GAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
15817153 GTATAATATA
Statistics
Matches: 314, Mismatches: 23, Indels: 22
0.87 0.06 0.06
Matches are distributed among these distances:
73 12 0.04
74 52 0.17
75 32 0.10
76 14 0.04
77 22 0.07
78 177 0.56
80 5 0.02
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.43
Consensus pattern (78 bp):
TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAAGTTCGGATATATATGTAT
ATACATGAATAAA
Found at i:15817389 original size:78 final size:76
Alignment explanation
Indices: 15817223--15817414 Score: 217
Period size: 78 Copynumber: 2.5 Consensus size: 76
15817213 ATATTGAGTA
* * * *
15817223 TAAGTATGAAATTATATATGTATATGTTAAATTCGAAAATGTATGTGTATACAAGTATAAGTGCT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTGCT
15817288 TGTTTCGAATG
66 TGTTTCGAATG
* * * *
15817299 TAAGTATAAAATTATATATGTATATATGTTAGATTCGAATATGTATATATGTACATGTATAAGTT
1 TAAGTATGAAATTATATATG--TATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTG
*
15817364 TTTGTATT-GAAATG
64 CTTGT-TTCG-AATG
** * *
15817378 -GGGTATGAAATTATATAGGTATATGTGAGATTCGAAT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAAT
15817415 GTTAAATGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
76 36 0.37
78 56 0.57
79 6 0.06
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.41
Consensus pattern (76 bp):
TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTGCT
TGTTTCGAATG
Found at i:15817850 original size:41 final size:41
Alignment explanation
Indices: 15817748--15818110 Score: 449
Period size: 41 Copynumber: 8.8 Consensus size: 41
15817738 CGTTTCAGAC
* ** * *
15817748 TATAAGTCTAGCAGGCTAAAAGCTGGTGAACTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
* * * * * *
15817789 TTTAAAACCTAGCAAGCTAAGTGCCGGTGACCTTAACCAGGT
1 TAT-AAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
15817831 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
* ** * * *
15817872 TATAAGCCTAGCAAGCTAAGTGCTAGTGATCTAAACCGGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
15817913 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
* *
15817954 TATAAGCCTAGCAGGCTCAGTGCCGGTGATCTGAATCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
15817995 TATAAGCCTAGCAGGCTAAGGGCCGGTGATCTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
* *
15818036 TATAAGCCTAGCAGGCAAAGTGCTGGTGATCTGAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-T
* * *
15818078 T-TAAGCCTAACAGGTTAAGTACCGGTGAATCTG
1 TATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
15818111 TTTAAATTAA
Statistics
Matches: 276, Mismatches: 43, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
41 238 0.86
42 38 0.14
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
Found at i:15818317 original size:34 final size:34
Alignment explanation
Indices: 15818279--15818392 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
15818269 GTTGGATATA
* * *
15818279 TATATGTATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATATGCATTCGGCACATGT-AATTGATAAG
*
15818313 TATATATGTGCATTCGGCACATGTAATTGATAAG
1 TATATATATGCATTCGGCACATGTAATTGATAAG
* * * * *
15818347 TATAAATATATGCTTTTGGCATATGTATTTGAATAAT
1 TAT--ATATATGCATTCGGCACATGTAATTG-ATAAG
15818384 TATATATAT
1 TATATATAT
15818393 AAAAGCATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 3 0.05
34 29 0.44
35 6 0.09
36 21 0.32
37 7 0.11
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
TATATATATGCATTCGGCACATGTAATTGATAAG
Found at i:15821353 original size:24 final size:24
Alignment explanation
Indices: 15821307--15821380 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
15821297 ATTGCACAAC
*
15821307 TTAAGGAAGATGGAAA-GTTAAAGG
1 TTAAGGAAGAT-GAAAGGTGAAAGG
* *
15821331 TTAAAGAAGATGAAAGGTGAAAGA
1 TTAAGGAAGATGAAAGGTGAAAGG
* *
15821355 TCAAGGGAA-ATGAAAGATGAAAGG
1 TTAA-GGAAGATGAAAGGTGAAAGG
15821379 TT
1 TT
15821381 GAACATCCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 4 0.10
24 33 0.82
25 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.31, T:0.19
Consensus pattern (24 bp):
TTAAGGAAGATGAAAGGTGAAAGG
Found at i:15822018 original size:14 final size:16
Alignment explanation
Indices: 15821999--15822038 Score: 66
Period size: 14 Copynumber: 2.6 Consensus size: 16
15821989 AAGATTTAAA
15821999 TATTGAATTTT-TA-G
1 TATTGAATTTTATAGG
15822013 TATTGAATTTTATAGG
1 TATTGAATTTTATAGG
15822029 TATTGAATTT
1 TATTGAATTT
15822039 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
TATTGAATTTTATAGG
Found at i:15822993 original size:5 final size:5
Alignment explanation
Indices: 15822983--15823018 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
15822973 TTAAAGAGAT
15822983 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
15823019 AATCTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:15825130 original size:16 final size:18
Alignment explanation
Indices: 15825104--15825136 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15825094 TTCAATTAAC
15825104 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
15825121 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
15825137 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:15825209 original size:5 final size:5
Alignment explanation
Indices: 15825199--15825257 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
15825189 AAGAAAATAT
*
15825199 ATTTA ATTTA ATTTA ATTTA ATTTA TTTTTGA ACTTTA A-TT- ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA -ATTT-A A-TTTA ATTTA ATTTA
15825245 ATTATA A-TTA ATT
1 ATT-TA ATTTA ATT
15825258 AAATAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 7 0.16
5 25 0.56
6 8 0.18
7 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:15825254 original size:14 final size:13
Alignment explanation
Indices: 15825198--15825259 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
15825188 TAAGAAAATA
15825198 TATTTAATTTAATT
1 TATTTAATTTAA-T
15825212 TAATTTAATTT-AT
1 T-ATTTAATTTAAT
15825225 T-TTTGAACTTTAAT
1 TATTT-AA-TTTAAT
15825239 TATTTAATTATAAT
1 TATTTAATT-TAAT
*
15825253 TAATTAA
1 TATTTAA
15825260 ATAATAATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
11 3 0.07
12 2 0.05
13 7 0.17
14 17 0.41
15 12 0.29
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTAATTTAAT
Found at i:15829106 original size:18 final size:18
Alignment explanation
Indices: 15829074--15829119 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
15829064 AATCTCACAA
*
15829074 TTAAACAATTTAATT-TT
1 TTAAAAAATTTAATTATT
15829091 TTAAAAAATATTAATTATT
1 TTAAAAAAT-TTAATTATT
*
15829110 ATAAAAAATT
1 TTAAAAAATT
15829120 ATCAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAAAAATTTAATTATT
Found at i:15838581 original size:72 final size:72
Alignment explanation
Indices: 15838481--15838629 Score: 289
Period size: 72 Copynumber: 2.1 Consensus size: 72
15838471 GTTGGCCTTC
*
15838481 TAACTCCAAAACCAACCAAAAAAAACAAAACAATGTGTGCTTCAGTTAGACCATGTAGTTTAAAA
1 TAACACCAAAACCAACCAAAAAAAACAAAACAATGTGTGCTTCAGTTAGACCATGTAGTTTAAAA
15838546 TAGAGTT
66 TAGAGTT
15838553 TAACACCAAAACCAACCAAAAAAAACAAAACAATGTGTGCTTCAGTTAGACCATGTAGTTTAAAA
1 TAACACCAAAACCAACCAAAAAAAACAAAACAATGTGTGCTTCAGTTAGACCATGTAGTTTAAAA
15838618 TAGAGTT
66 TAGAGTT
15838625 TAACA
1 TAACA
15838630 GCCTATCTTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (72 bp):
TAACACCAAAACCAACCAAAAAAAACAAAACAATGTGTGCTTCAGTTAGACCATGTAGTTTAAAA
TAGAGTT
Found at i:15840864 original size:9 final size:10
Alignment explanation
Indices: 15840847--15840875 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
15840837 ATGTATGTAT
15840847 TTATTTATTA
1 TTATTTATTA
15840857 TT-TTTATTA
1 TTATTTATTA
15840866 TTATTTATTA
1 TTATTTATTA
15840876 ACATTATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTATTA
Found at i:15850298 original size:9 final size:9
Alignment explanation
Indices: 15850284--15850312 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15850274 TAAACAATTC
15850284 AATAATATA
1 AATAATATA
15850293 AATAATATA
1 AATAATATA
15850302 AATAATATA
1 AATAATATA
15850311 AA
1 AA
15850313 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:15850698 original size:23 final size:23
Alignment explanation
Indices: 15850651--15850700 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
15850641 AAATACTTTA
* *
15850651 AAAATATATTTTTTTTTATTTTT
1 AAAATATATTTTTTTGTATTATT
15850674 AAAATATATTTTTTGTGT-TTATT
1 AAAATATATTTTTT-TGTATTATT
15850697 AAAA
1 AAAA
15850701 ATCGGGCCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
AAAATATATTTTTTTGTATTATT
Found at i:15855583 original size:15 final size:15
Alignment explanation
Indices: 15855563--15855593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15855553 ATTTACGTAC
15855563 ATAATCAAAAAAATG
1 ATAATCAAAAAAATG
*
15855578 ATAATCAAGAAAATG
1 ATAATCAAAAAAATG
15855593 A
1 A
15855594 GTCATTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATCAAAAAAATG
Found at i:15855830 original size:31 final size:31
Alignment explanation
Indices: 15855793--15855863 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
15855783 CTAAATTAAA
15855793 TGTCATGTGATACTTTAACTCAATTAAAAAG
1 TGTCATGTGATACTTTAACTCAATTAAAAAG
*
15855824 TGTCATGTGATACTTTAACTTAATTAAAAAG
1 TGTCATGTGATACTTTAACTCAATTAAAAAG
*
15855855 TATCATGTG
1 TGTCATGTG
15855864 GCATCTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (31 bp):
TGTCATGTGATACTTTAACTCAATTAAAAAG
Found at i:15856131 original size:19 final size:20
Alignment explanation
Indices: 15856085--15856131 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
15856075 TATCAATTAA
* *
15856085 ACTATTTTTTAAATTTTTTT
1 ACTATTTTTTAAATCTATTT
*
15856105 A-TAATTTTT-AATCTATTT
1 ACTATTTTTTAAATCTATTT
15856123 ACTATTTTT
1 ACTATTTTT
15856132 ATTACATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 8 0.36
19 13 0.59
20 1 0.05
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
ACTATTTTTTAAATCTATTT
Found at i:15868107 original size:14 final size:15
Alignment explanation
Indices: 15868085--15868115 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15868075 TTGTCACGTA
15868085 TATTTTTTTAAATAT
1 TATTTTTTTAAATAT
15868100 TATTTTTTTAAATAT
1 TATTTTTTTAAATAT
15868115 T
1 T
15868116 TTACTGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTTAAATAT
Found at i:15870000 original size:12 final size:12
Alignment explanation
Indices: 15869983--15870007 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15869973 AATAATACAT
15869983 TAATATGTATTA
1 TAATATGTATTA
15869995 TAATATGTATTA
1 TAATATGTATTA
15870007 T
1 T
15870008 TAGGGGCAAA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATATGTATTA
Found at i:15870545 original size:13 final size:13
Alignment explanation
Indices: 15870529--15870569 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
15870519 AATAAATTAT
15870529 TTAAAGTAAAAAC
1 TTAAAGTAAAAAC
15870542 TTAAA--AAAAA-
1 TTAAAGTAAAAAC
*
15870552 ATAAAGTAAAAAC
1 TTAAAGTAAAAAC
15870565 TTAAA
1 TTAAA
15870570 AAAATTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 5 0.22
13 9 0.39
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (13 bp):
TTAAAGTAAAAAC
Found at i:15870557 original size:23 final size:23
Alignment explanation
Indices: 15870530--15870573 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
15870520 ATAAATTATT
15870530 TAAAGTAAAAACTTAAAAAAAAA
1 TAAAGTAAAAACTTAAAAAAAAA
15870553 TAAAGTAAAAACTTAAAAAAA
1 TAAAGTAAAAACTTAAAAAAA
15870574 TTTATGTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (23 bp):
TAAAGTAAAAACTTAAAAAAAAA
Found at i:15879744 original size:30 final size:30
Alignment explanation
Indices: 15879703--15879775 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
15879693 AGTGATTTAA
15879703 TATAA-ATATATAAAAATATATAATTATTAT
1 TATAACATATATAAAAA-ATATAATTATTAT
** *
15879733 T-TAACATATATAATTAATATAATTATTTT
1 TATAACATATATAAAAAATATAATTATTAT
15879762 TATAACATAATATA
1 TATAACAT-ATATA
15879776 TTCAAGCCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 16 0.43
30 16 0.43
31 5 0.14
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TATAACATATATAAAAAATATAATTATTAT
Found at i:15884594 original size:28 final size:28
Alignment explanation
Indices: 15884553--15884607 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
15884543 CAAGGTTGAT
* *
15884553 AGTTATTTCTTTATCT-TTGTTAATCTAC
1 AGTTATTTCATTATATGTTGTT-ATCTAC
15884581 AGTTATTTCATTATATGTTGTTATCTA
1 AGTTATTTCATTATATGTTGTTATCTA
15884608 TATGCTACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (28 bp):
AGTTATTTCATTATATGTTGTTATCTAC
Found at i:15884827 original size:21 final size:23
Alignment explanation
Indices: 15884797--15884838 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15884787 TTCTCCTTTT
*
15884797 CCGGCCACCGCAGA-CGGCGGTG
1 CCGGCCACCGAAGATCGGCGGTG
15884819 CCGG-CACCGAAGATCGGCGG
1 CCGGCCACCGAAGATCGGCGG
15884839 CCGGCGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.38, G:0.40, T:0.05
Consensus pattern (23 bp):
CCGGCCACCGAAGATCGGCGGTG
Found at i:15885173 original size:23 final size:21
Alignment explanation
Indices: 15885134--15885175 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
15885124 ATTAAGTTTA
*
15885134 TTTTGTTTTTTTTAAATTCGC
1 TTTTGTTTTTTTAAAATTCGC
15885155 TTTTAGTTTATTTTAAAATTC
1 TTTT-GTTT-TTTTAAAATTC
15885176 AATTTGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTGTTTTTTTAAAATTCGC
Found at i:15885473 original size:21 final size:23
Alignment explanation
Indices: 15885449--15885506 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
15885439 ATCCGCATAT
15885449 TTATTTTTTAATGTAATGTAATTA
1 TTATTTTTTAATGTAATGTAA-TA
* * *
15885473 TTATTTTTTTATTTTATGT-A-A
1 TTATTTTTTAATGTAATGTAATA
15885494 TTATTTTTATAAT
1 TTATTTTT-TAAT
15885507 CTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.31
22 3 0.10
23 1 0.03
24 16 0.55
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTATTTTTTAATGTAATGTAATA
Found at i:15885476 original size:24 final size:24
Alignment explanation
Indices: 15885449--15885498 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
15885439 ATCCGCATAT
15885449 TTATTTTTTAATGTAATGTAATTA
1 TTATTTTTTAATGTAATGTAATTA
* * *
15885473 TTATTTTTTTATTTTATGTAATTA
1 TTATTTTTTAATGTAATGTAATTA
15885497 TT
1 TT
15885499 TTTATAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
TTATTTTTTAATGTAATGTAATTA
Found at i:15885553 original size:16 final size:16
Alignment explanation
Indices: 15885508--15885560 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
15885498 TTTTATAATC
*
15885508 TATATATATGTATATA
1 TATATATATGTATGTA
* *
15885524 TATTTAT-TCT-TGTA
1 TATATATATGTATGTA
15885538 TATATATATGTATGTA
1 TATATATATGTATGTA
*
15885554 TACATAT
1 TATATAT
15885561 TAATATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 16 0.55
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (16 bp):
TATATATATGTATGTA
Found at i:15899045 original size:22 final size:23
Alignment explanation
Indices: 15899020--15899062 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15899010 ATTAAGTTTA
* *
15899020 TTTT-GTTTTTTTTTAAATTCGC
1 TTTTAGTTTATTTTAAAATTCGC
15899042 TTTTAGTTTATTTTAAAATTC
1 TTTTAGTTTATTTTAAAATTC
15899063 AATTTGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (23 bp):
TTTTAGTTTATTTTAAAATTCGC
Found at i:15899362 original size:21 final size:23
Alignment explanation
Indices: 15899338--15899395 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
15899328 ATCTGCATAT
15899338 TTATTTTTTAATGTAATGTAATTA
1 TTATTTTTTAATGTAATGTAA-TA
* * *
15899362 TTATTTTTTTATTTTATGT-A-A
1 TTATTTTTTAATGTAATGTAATA
15899383 TTATTTTTATAAT
1 TTATTTTT-TAAT
15899396 CTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.31
22 3 0.10
23 1 0.03
24 16 0.55
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTATTTTTTAATGTAATGTAATA
Found at i:15899365 original size:24 final size:24
Alignment explanation
Indices: 15899338--15899387 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
15899328 ATCTGCATAT
15899338 TTATTTTTTAATGTAATGTAATTA
1 TTATTTTTTAATGTAATGTAATTA
* * *
15899362 TTATTTTTTTATTTTATGTAATTA
1 TTATTTTTTAATGTAATGTAATTA
15899386 TT
1 TT
15899388 TTTATAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
TTATTTTTTAATGTAATGTAATTA
Found at i:15899412 original size:10 final size:10
Alignment explanation
Indices: 15899397--15899442 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
15899387 TTTTATAATC
15899397 TATATATATG
1 TATATATATG
*
15899407 TATATATATT
1 TATATATATG
*
15899417 TAT-TCT-TG
1 TATATATATG
15899425 TATATATATG
1 TATATATATG
*
15899435 TATGTATA
1 TATATATA
15899443 CATATTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 21 0.72
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (10 bp):
TATATATATG
Found at i:15899440 original size:14 final size:14
Alignment explanation
Indices: 15899397--15899447 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15899387 TTTTATAATC
*
15899397 TATATATATGTATA
1 TATATATATGTATG
* *
15899411 TATATTTAT-TCTTG
1 TATATATATGT-ATG
15899425 TATATATATGTATG
1 TATATATATGTATG
*
15899439 TATACATAT
1 TATATATAT
15899448 TAATATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (14 bp):
TATATATATGTATG
Found at i:15906145 original size:9 final size:9
Alignment explanation
Indices: 15906131--15906215 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
15906121 TTTGGTTAAA
15906131 AATTAACCG
1 AATTAACCG
15906140 AATTAACCG
1 AATTAACCG
*
15906149 AATTAATCG
1 AATTAACCG
*
15906158 AATTAACCA
1 AATTAACCG
*
15906167 AATTACCCG
1 AATTAACCG
15906176 AATTAACCG
1 AATTAACCG
* *
15906185 AATTACCCA
1 AATTAACCG
15906194 AATTAACCG
1 AATTAACCG
*
15906203 AATTAACTG
1 AATTAACCG
15906212 AATT
1 AATT
15906216 GAATCACTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 65 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:15906350 original size:18 final size:18
Alignment explanation
Indices: 15906310--15906353 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15906300 AATTTTTATG
**
15906310 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
15906328 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
15906346 CTTGGGTT
1 ATTGGGTT
15906354 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:15907598 original size:30 final size:30
Alignment explanation
Indices: 15907549--15907605 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15907539 TGAGGAAATG
15907549 AAAAAGAAAAGAAGGAAGAACAGGAAAAAC
1 AAAAAGAAAAGAAGGAAGAACAGGAAAAAC
* *
15907579 AAAAA-AAAATAAGGAAAGAAGAGGAAA
1 AAAAAGAAAAGAAGG-AAGAACAGGAAA
15907606 CATTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.02
Consensus pattern (30 bp):
AAAAAGAAAAGAAGGAAGAACAGGAAAAAC
Found at i:15907973 original size:7 final size:7
Alignment explanation
Indices: 15907956--15907987 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
15907946 AGAATTTGAA
15907956 TTTTTATT
1 TTTTTA-T
15907964 TTTTTAT
1 TTTTTAT
15907971 TTTTTAT
1 TTTTTAT
15907978 TTTTTAT
1 TTTTTAT
15907985 TTT
1 TTT
15907988 GTTAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:15908033 original size:45 final size:46
Alignment explanation
Indices: 15907976--15908071 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 46
15907966 TTTATTTTTT
* *
15907976 ATTTTTTATTTTGTTAATT-TGTTGCATGTAAATTGTCAAACTATTG
1 ATTTTTTATTTTGTTAATTCT-TTGCATATAAATTATCAAACTATTG
* **
15908022 ATTTTTT-TTTTGTTAATTCTTTGCATATAAGTTATTGAACTATTG
1 ATTTTTTATTTTGTTAATTCTTTGCATATAAATTATCAAACTATTG
15908067 ATTTT
1 ATTTT
15908072 AGGTCAATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.57
Consensus pattern (46 bp):
ATTTTTTATTTTGTTAATTCTTTGCATATAAATTATCAAACTATTG
Found at i:15915907 original size:3 final size:3
Alignment explanation
Indices: 15915899--15915923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15915889 CAAACTTTAG
15915899 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
15915924 TTGTTTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15921120 original size:11 final size:11
Alignment explanation
Indices: 15921104--15921139 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15921094 TATAGTGGGA
15921104 TTTTATTTTAT
1 TTTTATTTTAT
*
15921115 TTTTATTTGAT
1 TTTTATTTTAT
*
15921126 TTTTATTTTGT
1 TTTTATTTTAT
15921137 TTT
1 TTT
15921140 CAAAAATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:15932580 original size:39 final size:39
Alignment explanation
Indices: 15932537--15932702 Score: 224
Period size: 39 Copynumber: 4.3 Consensus size: 39
15932527 TGAAAGTGCT
* *
15932537 ATCAGGAGTACCGAAGTACAACAGGGGCACGTAAGTTCG
1 ATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACG
* *
15932576 ATCAGGGGTACCGAAGTACAATAGCGGCACGTAAGTACG
1 ATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACG
* * *
15932615 ATCAAGGGTACCGAAGTACAATAGGGGCAGGTAAGTACG
1 ATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACG
* * * * *
15932654 ATCAGGGGTGCCAAAATACAACAAGGGCACGTAAGTTCG
1 ATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACG
15932693 ATCAGGGGTA
1 ATCAGGGGTA
15932703 TAATTATATA
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (39 bp):
ATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACG
Found at i:15932583 original size:20 final size:20
Alignment explanation
Indices: 15932558--15932661 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
15932548 CGAAGTACAA
*
15932558 CAGGGGCACGTAAGTTCGAT
1 CAGGGGCACGTAAGTACGAT
* *
15932578 CAGGGGTACCG-AAGTACAAT
1 CAGGGGCA-CGTAAGTACGAT
*
15932598 -AGCGGCACGTAAGTACGAT
1 CAGGGGCACGTAAGTACGAT
* * *
15932617 CAAGGGTACCG-AAGTACAAT
1 CAGGGGCA-CGTAAGTACGAT
*
15932637 -AGGGGCAGGTAAGTACGAT
1 CAGGGGCACGTAAGTACGAT
15932656 CAGGGG
1 CAGGGG
15932662 TGCCAAAATA
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
18 3 0.05
19 26 0.41
20 31 0.48
21 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.15
Consensus pattern (20 bp):
CAGGGGCACGTAAGTACGAT
Found at i:15935585 original size:34 final size:34
Alignment explanation
Indices: 15935493--15935592 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 34
15935483 ACCACATGAT
* * * * *
15935493 AAGCATATTATTTACCACCGTATCGAACTGTTAT
1 AAGCATATTAATTGCCACCGTATTGATCTGTTAA
** * * *
15935527 AAGCATATTGGTTGCTACCATATTGTTCTGTTAA
1 AAGCATATTAATTGCCACCGTATTGATCTGTTAA
*
15935561 AAGCATATTAAATGCCACCGTATTGATCTGTT
1 AAGCATATTAATTGCCACCGTATTGATCTGTT
15935593 TTGAACATGC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (34 bp):
AAGCATATTAATTGCCACCGTATTGATCTGTTAA
Found at i:15939265 original size:2 final size:2
Alignment explanation
Indices: 15939258--15939316 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
15939248 AGAAAGAAAA
15939258 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
15939300 GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT G
15939317 AGGAAAATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:15940732 original size:18 final size:19
Alignment explanation
Indices: 15940711--15940750 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15940701 ATTTTGGAAT
*
15940711 TTTTATAAA-TATTTTTAA
1 TTTTAAAAATTATTTTTAA
15940729 TTTTAAAAATTATTTTTAA
1 TTTTAAAAATTATTTTTAA
15940748 TTT
1 TTT
15940751 CTGAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAAATTATTTTTAA
Found at i:15940757 original size:20 final size:19
Alignment explanation
Indices: 15940711--15940763 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
15940701 ATTTTGGAAT
*
15940711 TTTTATAAA-TATTTTTAA
1 TTTTAAAAACTATTTTTAA
*
15940729 TTTTAAAAATTATTTTTAA
1 TTTTAAAAACTATTTTTAA
*
15940748 TTTCTGAAAACTATTT
1 TTT-TAAAAACTATTT
15940764 GGATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAAAAACTATTTTTAA
Found at i:15943344 original size:20 final size:19
Alignment explanation
Indices: 15943319--15943359 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15943309 GTAGAAATTA
*
15943319 TTATTCCCAGAAAATAGAAT
1 TTATTCCAAGAAAATA-AAT
*
15943339 TTATTCTAAGAAAATAAAT
1 TTATTCCAAGAAAATAAAT
15943358 TT
1 TT
15943360 TCACTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (19 bp):
TTATTCCAAGAAAATAAAT
Found at i:15952948 original size:3 final size:3
Alignment explanation
Indices: 15952942--15952983 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
15952932 ATCTTTTGAC
15952942 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
15952984 TTGTATACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:15955676 original size:69 final size:69
Alignment explanation
Indices: 15955581--15955713 Score: 257
Period size: 69 Copynumber: 1.9 Consensus size: 69
15955571 TCCTCATGCC
*
15955581 AAAAAAATAGCAAACTCAAAGTTGTGTATGTAATTTGCCAGCGGGTTGATTACATCTAGACTTAG
1 AAAAAAATAGCAAACTCAAAGTTGTGTATGTAATTTGCCAGCAGGTTGATTACATCTAGACTTAG
15955646 ATCA
66 ATCA
15955650 AAAAAAATAGCAAACTCAAAGTTGTGTATGTAATTTGCCAGCAGGTTGATTACATCTAGACTTA
1 AAAAAAATAGCAAACTCAAAGTTGTGTATGTAATTTGCCAGCAGGTTGATTACATCTAGACTTA
15955714 TCAAAGATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (69 bp):
AAAAAAATAGCAAACTCAAAGTTGTGTATGTAATTTGCCAGCAGGTTGATTACATCTAGACTTAG
ATCA
Found at i:15961065 original size:20 final size:20
Alignment explanation
Indices: 15961027--15961065 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15961017 TAGAGCAGAA
*
15961027 ATATCAATACCATAGGAAAT
1 ATATCAATACCATAAGAAAT
* *
15961047 ATATCGATACCTTAAGAAA
1 ATATCAATACCATAAGAAA
15961066 AGTTTCGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (20 bp):
ATATCAATACCATAAGAAAT
Found at i:15961474 original size:33 final size:33
Alignment explanation
Indices: 15961426--15961492 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
15961416 TGAATAGGTT
*
15961426 GCTCCCCCTTAATAAAAGTCATTTCCAATTTAA
1 GCTCCCCCTTAATAAAAATCATTTCCAATTTAA
**
15961459 GCTCCCCC-TAGATAAAAATCATTTTGAATTTAA
1 GCTCCCCCTTA-ATAAAAATCATTTCCAATTTAA
15961492 G
1 G
15961493 GCATAAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (33 bp):
GCTCCCCCTTAATAAAAATCATTTCCAATTTAA
Found at i:15971171 original size:26 final size:26
Alignment explanation
Indices: 15971135--15971200 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
15971125 TCCAACCCAT
* * *
15971135 AGCTCATGTGAGTAGGCCTATTTCAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
15971161 AGCTCGTGTGAGCAGGCCCATTTCAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
15971187 AGCTCGTGTGAGCA
1 AGCTCGTGTGAGCA
15971201 ACGATGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTTCAC
Found at i:15974066 original size:17 final size:18
Alignment explanation
Indices: 15974044--15974098 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
15974034 CGAATATAAT
15974044 AAATA-TATTTATTTTTA
1 AAATATTATTTATTTTTA
*
15974061 AAATATTTTTTTATTTTTA
1 AAATA-TTATTTATTTTTA
*
15974080 AAATACTTTTTTTATTTTT
1 AAATA--TTATTTATTTTT
15974099 TTAAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 5 0.15
19 16 0.47
20 13 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
AAATATTATTTATTTTTA
Found at i:15974089 original size:20 final size:19
Alignment explanation
Indices: 15974051--15974111 Score: 88
Period size: 19 Copynumber: 3.1 Consensus size: 19
15974041 AATAAATATA
15974051 TTTATTTTTAAAATATTTT
1 TTTATTTTTAAAATATTTT
15974070 TTTATTTTTAAAATACTTTT
1 TTTATTTTTAAAATA-TTTT
15974090 TTTATTTTTTTAAAAT-TTTT
1 TTTA--TTTTTAAAATATTTT
15974110 TT
1 TT
15974112 GGTGTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.38
20 14 0.36
22 10 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTTTAAAATATTTT
Found at i:15980138 original size:12 final size:12
Alignment explanation
Indices: 15980121--15980145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15980111 TAAAATGGTT
15980121 AGTTTATTCCAA
1 AGTTTATTCCAA
15980133 AGTTTATTCCAA
1 AGTTTATTCCAA
15980145 A
1 A
15980146 AATGTTGACA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
AGTTTATTCCAA
Found at i:15981709 original size:33 final size:34
Alignment explanation
Indices: 15981661--15981733 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
15981651 CCCAACCTTA
*
15981661 TTTG-TTTTCAGATTTGGGAAC-AAAACAGTCAT
1 TTTGTTTTTCAGATTTGAGAACTAAAACAGTCAT
* *
15981693 TTTGTTTTTCATATTTGAGAACTAAAACAGTGAT
1 TTTGTTTTTCAGATTTGAGAACTAAAACAGTCAT
15981727 TATTGTT
1 T-TTGTT
15981734 GGTTTCTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 4 0.11
33 15 0.43
34 11 0.31
35 5 0.14
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (34 bp):
TTTGTTTTTCAGATTTGAGAACTAAAACAGTCAT
Found at i:15987056 original size:11 final size:11
Alignment explanation
Indices: 15987042--15987108 Score: 68
Period size: 11 Copynumber: 6.4 Consensus size: 11
15987032 TTTTTTTTAA
15987042 TTTTAAAATAC
1 TTTTAAAATAC
15987053 TTTTAAAATAC
1 TTTTAAAATAC
****
15987064 TTTTTTTTTA-
1 TTTTAAAATAC
*
15987074 TTTTTAAA-A-
1 TTTTAAAATAC
15987083 TTTTAAAATAC
1 TTTTAAAATAC
15987094 TTTTAAAATAC
1 TTTTAAAATAC
15987105 TTTT
1 TTTT
15987109 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
9 8 0.17
10 6 0.13
11 32 0.70
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:15987127 original size:27 final size:28
Alignment explanation
Indices: 15987094--15987159 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
15987084 TTTAAAATAC
15987094 TTTTAAAATACTTTTTTTA-TTTTTTAT
1 TTTTAAAATACTTTTTTTATTTTTTTAT
15987121 TTTTAAAATACTTTTTTTATTTTTTTTAT
1 TTTTAAAATACTTTTTTTA-TTTTTTTAT
15987150 TTTTAAAATA
1 TTTTAAAATA
15987160 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 19 0.51
29 18 0.49
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTAAAATACTTTTTTTATTTTTTTAT
Found at i:15987139 original size:41 final size:39
Alignment explanation
Indices: 15987034--15987135 Score: 161
Period size: 41 Copynumber: 2.6 Consensus size: 39
15987024 TTTTTTAATT
15987034 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTTTA
1 TTTTTTAATTTTAAAATACTTTTAAAATAC-TTTTTTTTA
*
15987074 TTTTTAAAATTTTAAAATACTTTTAAAATAC-TTTTTTTA
1 TTTTT-TAATTTTAAAATACTTTTAAAATACTTTTTTTTA
*
15987113 TTTTTTATTTTTAAAATACTTTT
1 TTTTTTAATTTTAAAATACTTTT
15987136 TTTATTTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 16 0.28
39 13 0.22
40 5 0.09
41 24 0.41
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTTA
Found at i:16000549 original size:124 final size:124
Alignment explanation
Indices: 16000324--16000699 Score: 617
Period size: 124 Copynumber: 3.0 Consensus size: 124
16000314 TTAGAGTTTT
* *** * *
16000324 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTAATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
16000389 AGTATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
16000449 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* *
16000514 GGATGCTATTTGAGAAGAATTTGTAAAATCACGCCCTCGTGGACGCGCTTTTGCTATAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
16000573 TCGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAACA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
16000638 GGATGCTATTTGAGAAGAATTTGTAAAATTGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
16000697 TAG
1 TAG
16000700 CATGTTTGGC
Statistics
Matches: 234, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
124 213 0.91
125 21 0.09
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:16003772 original size:38 final size:38
Alignment explanation
Indices: 16003730--16003898 Score: 91
Period size: 38 Copynumber: 4.4 Consensus size: 38
16003720 TGATAAATTG
16003730 TATTAATGGTTAGTAAAAATTATCAAATTATATAAAAT-
1 TATTAATGGTTAGTAAAAATTATCAAATT-TATAAAATC
* * * * * * *
16003768 TATTAATTGTTAGTACAAGTCA-AAACATTTTTCCAAATC
1 TATTAATGGTTAGTAAAAATTATCAA-ATTTAT-AAAATC
* * * * *
16003807 TAACATT-AT-GTGAATGT-AAAATTAT-TAATTGATAAATTG
1 T---ATTAATGGT-TA-GTAAAAATTATCAAATTTATAAAATC
16003846 TATTAATGGTTAGTAAAAATTATCAAATTATATAAAAT-
1 TATTAATGGTTAGTAAAAATTATCAAATT-TATAAAATC
*
16003884 TATTAATTGTTAGTA
1 TATTAATGGTTAGTA
16003899 CCAGTCAAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
36 5 0.05
37 15 0.16
38 45 0.47
39 11 0.12
40 6 0.06
41 8 0.08
42 5 0.05
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (38 bp):
TATTAATGGTTAGTAAAAATTATCAAATTTATAAAATC
Found at i:16003915 original size:116 final size:116
Alignment explanation
Indices: 16003711--16004069 Score: 648
Period size: 116 Copynumber: 3.1 Consensus size: 116
16003701 AGTTTGTGAT
16003711 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
*
16003776 GTTAGTACAAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
66 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
16003827 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
16003892 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
66 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
*
16003943 ATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
** *
16004007 GTTAGTACCAGAAAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTAAA
66 GTTAGTACCAG--TCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
16004060 ATTATTAATT
1 ATTATTAATT
16004070 TAGTTTAAGG
Statistics
Matches: 236, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
115 42 0.18
116 147 0.62
117 47 0.20
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (116 bp):
ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
Found at i:16004006 original size:17 final size:17
Alignment explanation
Indices: 16003939--16004006 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
16003929 TATGTGAATG
*
16003939 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
16003955 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
16003974 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
16003993 TAAAATTATTAATT
1 TAAAATTATTAATT
16004007 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:16004095 original size:23 final size:22
Alignment explanation
Indices: 16004063--16004603 Score: 485
Period size: 23 Copynumber: 24.1 Consensus size: 22
16004053 AAGTAAAATT
* *
16004063 ATTAATTTAGTTTAAGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
16004086 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
16004109 AGT--TTAGGGTTTACGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
**
16004131 ATTAAATTAGGTTAGAATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
16004154 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
16004177 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
16004200 AGTTAA-GAGGGTTAGGGTTTTTA
1 A-TTAATTA-GGTTAGGGTTTTTA
* *
16004223 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
16004245 ATTAAATTAGGTTAGGGGTTTTTA
1 ATT-AATTAGGTTA-GGGTTTTTA
*
16004269 AGTT--TAAGGTTTAGGGTTTTTA
1 A-TTAATTAGG-TTAGGGTTTTTA
*
16004291 ATTAAATTAGGTTAAGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
16004314 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
16004337 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
**
16004360 AGTTAA-GGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
16004382 AGT--TTAGGGTTTAGGGTTCTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
16004404 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
16004427 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
16004449 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
16004472 ATCTAATTAGGTTAGGGTTTTTA
1 AT-TAATTAGGTTAGGGTTTTTA
*
16004495 AGT--TTAGG--A---TTTTTA
1 ATTAATTAGGTTAGGGTTTTTA
*
16004510 ATTAAATTAAGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
16004533 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
16004555 ATTAAGTTAGGTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
16004578 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
16004601 ATT
1 ATT
16004604 TAAGGGTATT
Statistics
Matches: 434, Mismatches: 38, Indels: 93
0.77 0.07 0.16
Matches are distributed among these distances:
15 8 0.02
18 5 0.01
20 15 0.03
21 14 0.03
22 101 0.23
23 240 0.55
24 34 0.08
25 17 0.04
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:16004511 original size:38 final size:38
Alignment explanation
Indices: 16004460--16004540 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 38
16004450 TTAAATTAGG
* *
16004460 TTAGGGTTTTTAATCT-AATTAGGTTAGGGTTTTTAAGT
1 TTAGGATTTTTAAT-TAAATTAAGTTAGGGTTTTTAAGT
16004498 TTAGGATTTTTAATTAAATTAAGTTAGGGTTTTTAAGT
1 TTAGGATTTTTAATTAAATTAAGTTAGGGTTTTTAAGT
16004536 TTAGG
1 TTAGG
16004541 GTTTAGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (38 bp):
TTAGGATTTTTAATTAAATTAAGTTAGGGTTTTTAAGT
Found at i:16004535 original size:14 final size:15
Alignment explanation
Indices: 16004516--16004544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16004506 TTTAATTAAA
16004516 TTAAG-TTAGGGTTT
1 TTAAGTTTAGGGTTT
16004530 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
16004545 AGGGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTAAGTTTAGGGTTT
Found at i:16004610 original size:68 final size:67
Alignment explanation
Indices: 16004078--16004606 Score: 481
Period size: 68 Copynumber: 7.9 Consensus size: 67
16004068 TTTAGTTTAA
* * *
16004078 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTTACGGTTTTTAATTAAATTA
1 GGTTTTTAATT-AATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAATTTAA-TA
16004140 GGTTAG
62 GGTTAG
** * * *
16004146 AATTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGAGGG
1 GGTTTTTAA-TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATA-GG
16004211 TTAG
64 TTAG
* * *
16004215 GGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGGTTTTTAAGTTT-A-A
1 GGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTA-GGGTTTTTAA-TTTAATA
16004276 GGTTTAG
62 GG-TTAG
* *
16004283 GGTTTTTAATTAAATTAGGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 GGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA-TAGG
16004348 TTAG
64 TTAG
** * *
16004352 GGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGTTCTTAATTTAATTA
1 GGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAATTTAA-TA
16004413 GGTTAG
62 GGTTAG
* * *
16004419 GGTTTTTAAGT--TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATCTAATTAG
1 GGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA-TAG
16004482 GTTAG
63 GTTAG
* * * *
16004487 GGTTTTTAAGT--TTAGG--A---TTTTTAATTAAATTAAGTTAGGGTTTTTAAGTTT-A-GGGT
1 GGTTTTTAATTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAATAGG-
16004543 TTAG
64 TTAG
16004547 GGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA
1 GGTTTTTAATTAA-TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA
16004607 GGGTATTAAA
Statistics
Matches: 388, Mismatches: 37, Indels: 72
0.78 0.07 0.14
Matches are distributed among these distances:
59 2 0.01
60 14 0.04
61 30 0.08
62 2 0.01
63 5 0.01
64 1 0.00
65 1 0.00
66 10 0.03
67 61 0.16
68 162 0.42
69 86 0.22
70 11 0.03
71 3 0.01
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (67 bp):
GGTTTTTAATTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATAGGTT
AG
Found at i:16004679 original size:25 final size:25
Alignment explanation
Indices: 16004649--16004696 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16004639 TATCAAAAAT
16004649 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
16004674 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
16004697 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:16005152 original size:18 final size:18
Alignment explanation
Indices: 16005129--16005164 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16005119 CAGAAAATGG
*
16005129 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
16005147 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
16005165 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:16005825 original size:7 final size:7
Alignment explanation
Indices: 16005815--16005839 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16005805 TTATATACAT
16005815 AATACTA
1 AATACTA
16005822 AATACTA
1 AATACTA
16005829 AATACTA
1 AATACTA
16005836 AATA
1 AATA
16005840 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:16006963 original size:12 final size:12
Alignment explanation
Indices: 16006939--16006981 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
16006929 ATTTTTACGG
16006939 TTTAAAAAA-AT
1 TTTAAAAAATAT
16006950 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
16006962 TTTTAAAATTA-
1 TTTAAAAAATAT
16006973 TTTAAAAAA
1 TTTAAAAAA
16006982 AGGGAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:16007004 original size:11 final size:11
Alignment explanation
Indices: 16006988--16007029 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
16006978 AAAAAGGGAG
16006988 TTAAGAGAAAC
1 TTAAGAGAAAC
*
16006999 TTAAGAGGAAC
1 TTAAGAGAAAC
*
16007010 TTAAGAGTAAC
1 TTAAGAGAAAC
16007021 TTAAGAGAA
1 TTAAGAGAA
16007030 TTTTTGAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:16015814 original size:23 final size:22
Alignment explanation
Indices: 16015754--16015839 Score: 95
Period size: 23 Copynumber: 3.9 Consensus size: 22
16015744 CCTGATCAAT
*
16015754 ATACAACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
** * *
16015775 A-ACGACACACGAGGTGCTTGGA
1 ATACGACACATAAAGTGCCT-GA
16015797 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
16015819 TATACGACACATAAAGTGCCT
1 -ATACGACACATAAAGTGCCT
16015840 AATCAGCAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.13
21 7 0.13
22 5 0.09
23 34 0.64
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:16016804 original size:13 final size:13
Alignment explanation
Indices: 16016763--16016804 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
16016753 CTACGAAAAT
*
16016763 AATAATAATTTAC
1 AATATTAATTTAC
*
16016776 ACTATTAA-TTAC
1 AATATTAATTTAC
*
16016788 AATATTAATTTAT
1 AATATTAATTTAC
16016801 AATA
1 AATA
16016805 ATAGAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATTAATTTAC
Found at i:16019326 original size:14 final size:14
Alignment explanation
Indices: 16019304--16019338 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16019294 GTTGCTTTTG
*
16019304 AAAATTGTTATAAA
1 AAAAGTGTTATAAA
*
16019318 AAAAGTGTTGTAAA
1 AAAAGTGTTATAAA
16019332 AAAAGTG
1 AAAAGTG
16019339 CTTTTGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AAAAGTGTTATAAA
Found at i:16028583 original size:172 final size:166
Alignment explanation
Indices: 16028253--16028564 Score: 399
Period size: 168 Copynumber: 1.8 Consensus size: 166
16028243 ATGAGACACA
* * **
16028253 GTTAAGTGTCTTGTAATCAACGATAGAATTGATTACTAACGACAAGTTATTTATATGATTGATCT
1 GTTAACTGTCTTGAAATCAAAAATAGAATTGATTACTAACGACAAGTTATTTATATGATTGATCT
* * * * *
16028318 GAAAGCTCTCACACGCTAAGAATTCTCAATAAAAACAAGTGCAGTTGCCTTTTTGCAGAACATTA
66 GAAAGCTCTCACACACTAAGAATTCTAAACAAAAACAAGTGAAGTTGCCTTTATGCAGAACATTA
*
16028383 ACAAATTTTAAAACGAAGTCAGTGATATTGCCTTTG
131 ACAAATTTTAAAACGAAGTCAGTGATATTACCTTTG
* *
16028419 GTTAACTGTCTTGAAATCAAAAATAGAATTGATTACTAACAATACAAGTTATTTGTATGATTGAT
1 GTTAACTGTCTTGAAATCAAAAATAGAATTGATTACTAAC--GACAAGTTATTTATATGATTGAT
* ** * * * *
16028484 TTGTTATCTGTCACATACTGAGAATTCCTAAACAAAAACAAGTGAAGTTGCATCCTTTATGCAGA
64 CTGAAAGCTCTCACACACTAAGAATT-CTAAACAAAAACAAGTGAAGTTG---CCTTTATGCAGA
16028549 ACATTAACAAATTTTA
125 ACATTAACAAATTTTA
16028565 GAATGTGTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
166 36 0.30
168 39 0.32
169 20 0.16
172 27 0.22
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (166 bp):
GTTAACTGTCTTGAAATCAAAAATAGAATTGATTACTAACGACAAGTTATTTATATGATTGATCT
GAAAGCTCTCACACACTAAGAATTCTAAACAAAAACAAGTGAAGTTGCCTTTATGCAGAACATTA
ACAAATTTTAAAACGAAGTCAGTGATATTACCTTTG
Found at i:16031256 original size:18 final size:16
Alignment explanation
Indices: 16031229--16031264 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
16031219 ATTAAAATAA
16031229 TATTTAATAATAGTTAT
1 TATTTAATAATAG-TAT
16031246 TATTATAATAATAGTAT
1 TATT-TAATAATAGTAT
16031263 TA
1 TA
16031265 ATGTGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TATTTAATAATAGTAT
Found at i:16032466 original size:22 final size:20
Alignment explanation
Indices: 16032434--16032478 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
16032424 GATGATATTT
*
16032434 TTAATTATTTTTATTTTTAA
1 TTAATTATTTTTACTTTTAA
16032454 TTAATGTACTTTTTACTTTTAA
1 TTAAT-TA-TTTTTACTTTTAA
16032476 TTA
1 TTA
16032479 TTTTTATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 15 0.68
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (20 bp):
TTAATTATTTTTACTTTTAA
Found at i:16037104 original size:16 final size:17
Alignment explanation
Indices: 16037076--16037107 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16037066 GACATTATTT
16037076 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
16037093 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
16037108 CAACTCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:16040239 original size:12 final size:11
Alignment explanation
Indices: 16040194--16040245 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
16040184 AATAAATACG
16040194 AAAAATATATAA
1 AAAAATA-ATAA
* *
16040206 AAAAAGAACAAA
1 AAAAATAA-TAA
16040218 AAATAATAATAA
1 AAA-AATAATAA
16040230 AAAAATTAATAA
1 AAAAA-TAATAA
16040242 AAAA
1 AAAA
16040246 TAAAGAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 3 0.09
12 26 0.79
13 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:16040498 original size:13 final size:13
Alignment explanation
Indices: 16040480--16040504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16040470 ATTAAAAGTC
16040480 GGAGGGGCTAAAT
1 GGAGGGGCTAAAT
16040493 GGAGGGGCTAAA
1 GGAGGGGCTAAA
16040505 AGCGTAATTT
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:0.32, C:0.08, G:0.48, T:0.12
Consensus pattern (13 bp):
GGAGGGGCTAAAT
Found at i:16041756 original size:44 final size:43
Alignment explanation
Indices: 16041696--16042222 Score: 156
Period size: 44 Copynumber: 12.0 Consensus size: 43
16041686 TTGTGGTTCC
* *
16041696 AATCCGCTCCATTGCAACTTCAAGGAGATAAGATTATTGGTTTT
1 AATCTGCTCCACTGCAACTTC-AGGAGATAAGATTATTGGTTTT
* *
16041740 AATCTGCTCCACTGCAACTTCATGGAGATAAGATCCATCT--TTCT
1 AATCTGCTCCACTGCAACTTCA-GGAGATAAGAT-TAT-TGGTTTT
* * * * *
16041784 AATTCTAAGACTTTCATCTACAACTTCAGGAAGATAGGATTATCGGCTTT
1 AA-TCT--G-C-TCCA-CTGCAACTTCAGG-AGATAAGATTATTGGTTTT
* * * *
16041834 AACCTGCTCCACTGCAACTTCGGGGAGATAAGA-T-TTGCCATCTTC
1 AATCTGCTCCACTGCAACTTC-AGGAGATAAGATTATTG--GT-TTT
* * * * **
16041879 AGTCTGACT-CACTGCAACTTTAGGAGAATAAGA--CTT-GCTGC
1 AATCTG-CTCCACTGCAACTTCAGGAG-ATAAGATTATTGGTTTT
* * * *
16041920 GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATTCA-AGGTTTTT
1 AATCTGCTCCACTGCAACTTCAG-GAGATAAGATT-ATTGG-TTTT
** * * * * * *
16041964 AATCCACTTCACTGCAACTTCAAGAAGATAGGGTTATCGGCTTT
1 AATCTGCTCCACTGCAACTTC-AGGAGATAAGATTATTGGTTTT
* * ** *
16042008 AACCTACTCCACTGCAACTTCAGGGAGATAAGATT-TGTCATCTTC
1 AATCTGCTCCACTGCAACTTCA-GGAGATAAGATTAT-TGGT-TTT
* * *
16042053 AGTCTGC-CTCACTGCAACTTCAGGAGAATAAGACTTGCTT-G-CTT
1 AATCTGCTC-CACTGCAACTTCAGGAG-ATAAGA-TT-ATTGGTTTT
* * * * **
16042097 AGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTA---GATGC
1 AATCTGCTCCACTGCAACTTCA-GGAGATAAGATTATTGGTTTT
* * * *
16042138 GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGATTTT
1 AATCTGCTCCACTGCAACTTCAG-GAGATAAGAT-TATTGGTTTT
** * *
16042181 AATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGTT
1 AATCTGCTCCACTGCAACTTCAGG-AGATAAGATTATTGGTT
16042223 ATGGATTTGT
Statistics
Matches: 349, Mismatches: 87, Indels: 94
0.66 0.16 0.18
Matches are distributed among these distances:
39 1 0.00
40 40 0.11
41 16 0.05
42 2 0.01
43 14 0.04
44 147 0.42
45 85 0.24
46 8 0.02
47 3 0.01
48 2 0.01
49 9 0.03
50 22 0.06
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGAGATAAGATTATTGGTTTT
Found at i:16042065 original size:89 final size:89
Alignment explanation
Indices: 16041708--16042074 Score: 255
Period size: 94 Copynumber: 4.1 Consensus size: 89
16041698 TCCGCTCCAT
* * * * * *
16041708 TGCAACTTCAAGGAGATAAGATTATTGGTTTTAATCTGCTCCACTGCAACTTCATGGAGATAAGA
1 TGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
16041773 --T-CCATCTTTCTAATTCTAAGACTTTCATC
66 TTTGACATC-TTC--AGTCT--G-C-CTCA-C
* * *
16041802 TACAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCGGGGAGATAAGA
1 TGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
16041867 TTTGCCATCTTCAGTCTGACTCAC
66 TTTGACATCTTCAGTCTGCCTCAC
* * * * *** * * * *
16041891 TGCAACTT-TAGGAGAATAAGACT-T--GCTGCGATCTGCT-CTCTGTAACTTCAGAGAGATAAG
1 TGCAACTTCAAGAAG-ATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAG
** ** * * * ** *
16041951 ATTCAAGGTTTTTAATCCACTTCAC
65 ATTTGACATCTTCAGTCTGCCTCAC
* *
16041976 TGCAACTTCAAGAAGATAGGGTTATCGGCTTTAACCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA
*
16042041 TTTGTCATCTTCAGTCTGCCTCAC
66 TTTGACATCTTCAGTCTGCCTCAC
16042065 TGCAACTTCA
1 TGCAACTTCA
16042075 GGAGAATAAG
Statistics
Matches: 202, Mismatches: 62, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
85 45 0.22
86 14 0.07
88 12 0.06
89 58 0.29
90 3 0.01
92 1 0.00
94 60 0.30
96 4 0.02
97 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
TGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTTGACATCTTCAGTCTGCCTCAC
Found at i:16042069 original size:45 final size:44
Alignment explanation
Indices: 16042014--16042210 Score: 169
Period size: 44 Copynumber: 4.5 Consensus size: 44
16042004 CTTTAACCTA
*
16042014 CTCCACTGCAACTTCAGGGAGATAAGATTTGTCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATGCTT-AGTCTG
*
16042059 C-CTCACTGCAACTTCA-GGAGAATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGAG-ATAAGACTTGCATGCTTAGTCTG
* * *
16042103 CTCCACTGCAACTTCAGGGAGACAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATGCTTAGTCTG
* * * * **
16042144 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTG-AT-TTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATGCTTAGTCTG
*
16042187 CTCCACTGCAACTTCAGGAAGATA
1 CTCCACTGCAACTTCAGGGAGATA
16042211 GGATTATCGG
Statistics
Matches: 125, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
40 21 0.17
41 8 0.06
42 5 0.04
43 7 0.06
44 53 0.42
45 31 0.25
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATGCTTAGTCTG
Found at i:16042107 original size:89 final size:88
Alignment explanation
Indices: 16041837--16042129 Score: 256
Period size: 89 Copynumber: 3.3 Consensus size: 88
16041827 CGGCTTTAAC
* * * *
16041837 CTGCTCCACTGCAACTTCGGGGAGATAAGATTTGCCATCTTCAGTCTGACTCACTGCAACTTTAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATCTTCAGTCTGCCTCACTGCAACTTCAG
*
16041902 GAGAATAAGACTTGC-TGC-GAT
66 GAGAATAAGACTTGCTTGCTTAT
* * * ** ** * * * ** * *
16041923 CTGCT-CTCTGTAACTTCAGAGAGATAAGATTCAAGGTTTTTAATCCACTTCACTGCAACTTCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATCTTCAGTCTGCCTCACTGCAACTTCAG
* ** * *
16041987 GA-AGATAGGGTTATCGGCTT--TAAC
66 GAGA-ATAAGACT-T--GCTTGCTTAT
* *
16042011 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATCTTCAGTCTGCCTCACTGCAACTTCAG
16042076 GAGAATAAGACTTGCTTGCTTAGT
66 GAGAATAAGACTTGCTTGCTTA-T
*
16042100 CTGCTCCACTGCAACTTCAGGGAGACAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
16042130 CTAGATGCGA
Statistics
Matches: 150, Mismatches: 46, Indels: 19
0.70 0.21 0.09
Matches are distributed among these distances:
84 1 0.01
85 48 0.32
86 10 0.07
88 10 0.07
89 80 0.53
90 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATCTTCAGTCTGCCTCACTGCAACTTCAG
GAGAATAAGACTTGCTTGCTTAT
Found at i:16056689 original size:18 final size:16
Alignment explanation
Indices: 16056666--16056699 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
16056656 ACTGAAATTT
16056666 TTTAAAATGTAGATAAAA
1 TTTAAAA-GTA-ATAAAA
16056684 TTTAAAAGTAATAAAA
1 TTTAAAAGTAATAAAA
16056700 AATTTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (16 bp):
TTTAAAAGTAATAAAA
Found at i:16059183 original size:24 final size:23
Alignment explanation
Indices: 16059156--16059211 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
16059146 AAATATTATC
* *
16059156 AAATATAATAGTAATAACGATAAT
1 AAATATAATA-TAAAAACAATAAT
*
16059180 AAATAGTAATATAAAAATAATAAT
1 AAATA-TAATATAAAAACAATAAT
16059204 AAAT-TAAT
1 AAATATAAT
16059212 TAATAGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 4 0.14
24 19 0.68
25 5 0.18
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATATAATATAAAAACAATAAT
Found at i:16062487 original size:25 final size:26
Alignment explanation
Indices: 16062457--16062517 Score: 90
Period size: 24 Copynumber: 2.4 Consensus size: 26
16062447 CTGTTGTTGA
*
16062457 AGTTTTCAATTGAAATTGGTTTCTGT
1 AGTTTTCAATTGAAAATGGTTTCTGT
*
16062483 ATTTTTC--TTGAAAATGGTTTCTGT
1 AGTTTTCAATTGAAAATGGTTTCTGT
16062507 AGTTTTCAATT
1 AGTTTTCAATT
16062518 TGTGAGTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 22 0.73
26 8 0.27
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.52
Consensus pattern (26 bp):
AGTTTTCAATTGAAAATGGTTTCTGT
Found at i:16064217 original size:16 final size:16
Alignment explanation
Indices: 16064198--16064256 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
16064188 CTATTACGCA
*
16064198 TCTATTCCATTACAGC
1 TCTATTCCATTACACC
16064214 TCTATTCCATTACACC
1 TCTATTCCATTACACC
16064230 TCTATTCCATTACACC
1 TCTATTCCATTACACC
16064246 TCTATTCCATT
1 TCTATTCCATT
16064257 CCATTCAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.41
Consensus pattern (16 bp):
TCTATTCCATTACACC
Found at i:16064352 original size:45 final size:43
Alignment explanation
Indices: 16064302--16064393 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 43
16064292 GGTTCGCTGT
16064302 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAAT-G
*
16064347 AATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATG
16064390 AATG
1 AATG
16064394 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 6 0.13
44 17 0.38
45 22 0.49
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (43 bp):
AATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATG
Found at i:16064668 original size:120 final size:120
Alignment explanation
Indices: 16064538--16064998 Score: 827
Period size: 120 Copynumber: 3.9 Consensus size: 120
16064528 ATATTTTAAC
*
16064538 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATGAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
16064603 TCTTATATGAATTTACTAAAATCAAAATATATAATAGTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCAAAATATATAATACTATAAAATATAATCTAAA
16064658 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
16064723 TCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATCTAAA
66 TCTTATATGAATTTACTAAAATCAAAATATATAATACTATAAAATATAATCTAAA
16064778 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
16064843 TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
66 TCTTATATGAATTTACTAAAATCAAAATATATAATACTATAAAATATAATCTAAA
*
16064898 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-TAATTAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
16064962 TCTTATATGAATTTACTAAAAT-AATAATATATAATAC
66 TCTTATATGAATTTACTAAAATCAA-AATATATAATAC
16064999 AAGACTCTTG
Statistics
Matches: 330, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
118 1 0.00
119 39 0.12
120 290 0.88
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCAAAATATATAATACTATAAAATATAATCTAAA
Found at i:16067869 original size:29 final size:29
Alignment explanation
Indices: 16067827--16067886 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
16067817 AAAAATTACC
16067827 TGAAATATCTATGTCTCCTCTGCAATCAA
1 TGAAATATCTATGTCTCCTCTGCAATCAA
16067856 TGAAATATCTATGTCTCCTCTGCAATCAA
1 TGAAATATCTATGTCTCCTCTGCAATCAA
16067885 TG
1 TG
16067887 GAAAAAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (29 bp):
TGAAATATCTATGTCTCCTCTGCAATCAA
Found at i:16068065 original size:14 final size:14
Alignment explanation
Indices: 16068048--16068077 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16068038 ATTAAGCAGC
16068048 CAATTTTAAGAATA
1 CAATTTTAAGAATA
16068062 CAATTTTAAGAATA
1 CAATTTTAAGAATA
16068076 CA
1 CA
16068078 CTTGTAATCT
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:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
CAATTTTAAGAATA
Found at i:16071010 original size:18 final size:19
Alignment explanation
Indices: 16070987--16071023 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16070977 CGATTGAACC
16070987 GAAATTTT-TAAATTTTTT
1 GAAATTTTATAAATTTTTT
16071005 GAAATTTTAATAAATTTTT
1 GAAATTTT-ATAAATTTTT
16071024 AATTGGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
GAAATTTTATAAATTTTTT
Found at i:16071912 original size:25 final size:25
Alignment explanation
Indices: 16071865--16071915 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
16071855 TTTAATCGAA
**
16071865 TTTTGATTTTGATTTTGGGTTTTTT
1 TTTTGATTTTGATTTTAAGTTTTTT
*
16071890 TTTTGTTTTTGATTTTAA-TTTTTT
1 TTTTGATTTTGATTTTAAGTTTTTT
16071914 TT
1 TT
16071916 GTCAAAGGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (25 bp):
TTTTGATTTTGATTTTAAGTTTTTT
Found at i:16079597 original size:16 final size:16
Alignment explanation
Indices: 16079568--16079637 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
16079558 TTTGGTTCGC
*
16079568 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
16079584 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
16079600 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
16079616 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
16079632 TGTAAT
1 TGTAAT
16079638 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:16079682 original size:45 final size:44
Alignment explanation
Indices: 16079616--16079706 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
16079606 GGATTAGAGG
* *
16079616 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
16079661 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
16079705 TG
1 TG
16079707 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:16079886 original size:16 final size:17
Alignment explanation
Indices: 16079849--16079886 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
16079839 ATTTAATCAT
16079849 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
16079866 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
16079881 ATTTAA
1 ATTTAA
16079887 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:16079922 original size:22 final size:21
Alignment explanation
Indices: 16079832--16079997 Score: 91
Period size: 22 Copynumber: 8.0 Consensus size: 21
16079822 ATTATCAATA
* *
16079832 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
16079852 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
16079873 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
16079894 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
16079916 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
16079933 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
16079957 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
16079978 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
16079998 CTTAATATTA
Statistics
Matches: 111, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
17 7 0.06
18 23 0.21
19 1 0.01
20 11 0.10
21 20 0.18
22 29 0.26
23 3 0.03
24 7 0.06
26 10 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:16079956 original size:13 final size:12
Alignment explanation
Indices: 16079932--16079972 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
16079922 TATAATAGTA
16079932 TAAAATATAATT
1 TAAAATATAATT
16079944 TAAAATAATAATT
1 TAAAAT-ATAATT
*
16079957 ATTAAATATAATT
1 -TAAAATATAATT
16079970 TAA
1 TAA
16079973 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:16079981 original size:18 final size:18
Alignment explanation
Indices: 16079960--16079995 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16079950 AATAATTATT
16079960 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
16079978 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
16079996 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:16080106 original size:18 final size:17
Alignment explanation
Indices: 16080083--16080117 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
16080073 TTATTATTAA
16080083 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
16080101 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16080118 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16080176 original size:61 final size:60
Alignment explanation
Indices: 16079887--16080178 Score: 183
Period size: 59 Copynumber: 4.8 Consensus size: 60
16079877 TATAATTTAA
* * *
16079887 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * * *
16079944 TAAAATAATAATTATTA-AATATAATTTAATAAAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* * *
16080006 TAAAATATTCTTATATGAATTAACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
16080066 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
16080127 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
16080179 ATAATCTAAA
Statistics
Matches: 172, Mismatches: 42, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 7 0.04
59 55 0.32
60 26 0.15
61 48 0.28
62 34 0.20
63 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:16080215 original size:121 final size:120
Alignment explanation
Indices: 16079887--16080194 Score: 519
Period size: 121 Copynumber: 2.6 Consensus size: 120
16079877 TATAATTTAA
* * *
16079887 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
16079951 ATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
16080006 TAAAATATTCTTATATGAATTAACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* * *
16080071 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
16080127 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
16080192 ATT
66 ATT
16080195 GATTTTGTGG
Statistics
Matches: 177, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
119 1 0.01
120 68 0.38
121 108 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:16081694 original size:13 final size:13
Alignment explanation
Indices: 16081678--16081707 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16081668 TAGACCAAGC
16081678 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
16081691 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
16081704 TTTT
1 TTTT
16081708 TTTGCAGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:16092429 original size:16 final size:16
Alignment explanation
Indices: 16092408--16092440 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16092398 TTCGCTATAT
16092408 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
16092424 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
16092440 T
1 T
16092441 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:16092693 original size:18 final size:17
Alignment explanation
Indices: 16092672--16092706 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16092662 TTATTATTAA
*
16092672 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16092690 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16092707 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16092752 original size:61 final size:61
Alignment explanation
Indices: 16092681--16092994 Score: 254
Period size: 61 Copynumber: 5.2 Consensus size: 61
16092671 AATATATTTT
* * * *
16092681 AATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATGATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAA
* * * * * * * *
16092742 AATCATAATATATGATACT-ATAAAATATAATTTAA-CATAATTATTATTAAATAAATTT--T--
1 AATTATAATATATGAT-TTAATAAAAT-T--CTTAATAATAAATATTCTTATATGAATTTACTAA
* *
16092801 AATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
1 AATTATAATATATGATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAA
* * * * * * * **
16092862 AATTATAATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTT
1 AATTATAATATATGAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATGAATTTACTAA
* *
16092921 AATTAAAATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATTATAATATATGATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAA
*
16092982 AATCATAATATAT
1 AATTATAATATAT
16092995 AATACTATAA
Statistics
Matches: 192, Mismatches: 43, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
56 4 0.02
57 17 0.09
58 4 0.02
59 57 0.30
60 16 0.08
61 68 0.35
62 5 0.03
63 17 0.09
64 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AATTATAATATATGATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAA
Found at i:16092815 original size:59 final size:58
Alignment explanation
Indices: 16092748--16092936 Score: 197
Period size: 59 Copynumber: 3.2 Consensus size: 58
16092738 CTCAAATCAT
16092748 AATATATGATACTATAAAATATAATTTAACATAATTATTATTAAATAAATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATAAATTTTAATTAA
* * * * * * *
16092807 AATATATGAT-TTAATAAAAT-T-CTTAATAATCAA-TATTCTTATATGAATTTACTAAAATTAT
1 AATATATGATACT-ATAAAATATAATTTA-AAT-AATTATTATTAAATAAATTT--T--AATTAA
*
16092868 AATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATAAATTTTAATTAA
16092927 AATATATGAT
1 AATATATGAT
16092937 TTAATAAAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 24
0.73 0.11 0.17
Matches are distributed among these distances:
57 19 0.18
58 5 0.05
59 33 0.32
61 23 0.22
62 4 0.04
63 18 0.17
64 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATAAATTTTAATTAA
Found at i:16092870 original size:120 final size:120
Alignment explanation
Indices: 16092652--16093023 Score: 647
Period size: 120 Copynumber: 3.1 Consensus size: 120
16092642 TTAATCATAT
*
16092652 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
16092717 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
16092772 TTTAACATAATTATTATTAAATAAATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
16092837 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
16092892 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAA
* *
16092956 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
16093012 TCTAAAATAATT
1 TTTAACATAATT
16093024 GATTTTGTGG
Statistics
Matches: 240, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.01
120 236 0.98
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:16092933 original size:18 final size:17
Alignment explanation
Indices: 16092910--16092946 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
16092900 AATTATTATT
16092910 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
16092926 AAATATATGATTTAATA
1 AAATATATGATTTAATA
16092943 AAAT
1 AAAT
16092947 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:16096199 original size:16 final size:16
Alignment explanation
Indices: 16096175--16096212 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
16096165 TTTGGTTCGC
* *
16096175 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
16096191 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
16096207 TGTAAT
1 TGTAAT
16096213 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:16096257 original size:45 final size:44
Alignment explanation
Indices: 16096191--16096285 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
16096181 GGATTAGAGG
* *
16096191 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
16096236 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
16096280 TGTAAT
1 TGTAAT
16096286 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:16096468 original size:18 final size:17
Alignment explanation
Indices: 16096447--16096481 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16096437 TTATTATTTA
*
16096447 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16096465 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16096482 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16096475 original size:28 final size:27
Alignment explanation
Indices: 16096405--16096477 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
16096395 TTTATTATCA
*
16096405 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
16096433 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
16096460 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
16096478 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:16096615 original size:18 final size:17
Alignment explanation
Indices: 16096594--16096628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16096584 TTATTATTAA
*
16096594 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16096612 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16096629 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16096640 original size:147 final size:149
Alignment explanation
Indices: 16096366--16096640 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
16096356 ATGATTATTG
*
16096366 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
16096431 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
16096496 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
16096515 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
16096578 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
16096641 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:16096672 original size:54 final size:54
Alignment explanation
Indices: 16096614--16096792 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
16096604 ATTAAAATAT
*
16096614 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
16096668 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
16096731 TAT
53 -AC
*
16096734 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
16096788 ATAAT
1 ATAAT
16096793 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Done.