Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 308 of 316
Found at i:101119968 original size:21 final size:20
Alignment explanation
Indices: 101119931--101119969 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
101119921 TTGGACTTCG
**
101119931 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
101119951 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
101119970 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:101125381 original size:21 final size:20
Alignment explanation
Indices: 101125344--101125382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101125334 TATATTTCAA
*
101125344 AAAAGAATAGTAATAATATG
1 AAAAGAATACTAATAATATG
*
101125364 AAAAGAATAACTATTAATA
1 AAAAGAAT-ACTAATAATA
101125383 ATGTTACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAAGAATACTAATAATATG
Found at i:101125492 original size:23 final size:23
Alignment explanation
Indices: 101125465--101125508 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
101125455 AGTGGAAACT
101125465 AATAATA-TAATATAAAATAAAGA
1 AATAATAGTAATA-AAAATAAAGA
*
101125488 AATAATAGTAATAATAATAAA
1 AATAATAGTAATAAAAATAAA
101125509 TAAAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAATAGTAATAAAAATAAAGA
Found at i:101125707 original size:11 final size:11
Alignment explanation
Indices: 101125693--101125730 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
101125683 ATACATTAAG
*
101125693 AATATATACAT
1 AATATATACAA
101125704 AATATATACAA
1 AATATATACAA
101125715 AATATATACAA
1 AATATATACAA
*
101125726 TATAT
1 AATAT
101125731 GCTTATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (11 bp):
AATATATACAA
Found at i:101125847 original size:3 final size:3
Alignment explanation
Indices: 101125833--101125868 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
101125823 AAACATATAC
*
101125833 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101125869 AGATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:101125953 original size:22 final size:22
Alignment explanation
Indices: 101125874--101125960 Score: 77
Period size: 26 Copynumber: 3.7 Consensus size: 22
101125864 AATAAAGATA
* *
101125874 ATATAAAAAATACATACATGAA-
1 ATATATAAAATATATACAT-AAC
*
101125896 ATAGTATAAAATATATATATAAC
1 ATA-TATAAAATATATACATAAC
*
101125919 TAATAACATTAAAATATATACATAAC
1 --AT-ATA-TAAAATATATACATAAC
101125945 ATATATAAAATATATA
1 ATATATAAAATATATA
101125961 ATTGATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 16 0.30
23 15 0.28
24 2 0.04
25 3 0.06
26 17 0.32
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATATAAAATATATACATAAC
Found at i:101128007 original size:15 final size:15
Alignment explanation
Indices: 101127983--101128012 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101127973 TGAGTTGACT
*
101127983 TTTGACAAACAGAAA
1 TTTGAAAAACAGAAA
101127998 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
101128013 CTGAAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:101128266 original size:19 final size:19
Alignment explanation
Indices: 101128242--101128278 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
101128232 TTTATTTTTG
*
101128242 AAAAATATAAATTGAAAAA
1 AAAAATAGAAATTGAAAAA
101128261 AAAAATAGAAATTGAAAA
1 AAAAATAGAAATTGAAAA
101128279 TACCTCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (19 bp):
AAAAATAGAAATTGAAAAA
Found at i:101128320 original size:94 final size:90
Alignment explanation
Indices: 101128169--101128442 Score: 333
Period size: 94 Copynumber: 3.0 Consensus size: 90
101128159 GATTTTTTTG
* * * *
101128169 AAAAATATAATTTGAAAATACCTCAGCGTGCCCCGAGGTTCAACTCACATCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTG-ACCGAGGTTCAACTCACCTCTCGCAATATGAGTT
*
101128234 TATTTTTGAAAAATATAAATTGAAAAA
65 GATTTTTGAAAAATATAAATTG-AAAA
*
101128261 AAAAATAGAAATTGAAAATACCTCAGTACGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAG--CGTG-ACCGAGGTTCAACTCACCTCTCGCAATATGAG
* * *
101128326 TTGACTTTTTTGAAAAGTAGAATTTG----
63 TTGA--TTTTTGAAAAATATAAATTGAAAA
* *
101128352 -AAAATCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAT-AGAAATTGAAAATACCTCAGCGTGACC-GAGGTTCAACTCACCTCTCGCAATATGAGT
101128416 TGATTTTTGAAAAATATAAATTGAAAA
64 TGATTTTTGAAAAATATAAATTGAAAA
101128443 GCAGAAATGG
Statistics
Matches: 156, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
87 17 0.11
88 2 0.01
89 35 0.22
90 5 0.03
91 20 0.13
92 24 0.15
94 36 0.23
96 17 0.11
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (90 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGACCGAGGTTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAATATAAATTGAAAA
Found at i:101128441 original size:14 final size:14
Alignment explanation
Indices: 101128433--101128484 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
101128423 TGAAAAATAT
101128433 AAATTGAAAAGCAG
1 AAATTGAAAAGCAG
* *
101128447 AAATGGAAAAGTAG
1 AAATTGAAAAGCAG
101128461 AAATTGAAAAGCAG
1 AAATTGAAAAGCAG
101128475 AAATTGAAAA
1 AAATTGAAAA
101128485 TATCTCAGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.60, C:0.04, G:0.21, T:0.15
Consensus pattern (14 bp):
AAATTGAAAAGCAG
Found at i:101128464 original size:28 final size:28
Alignment explanation
Indices: 101128424--101128484 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
101128414 GTTGATTTTT
*
101128424 GAAAAATATAAATTGAAAAGCAGAAATG
1 GAAAAATAGAAATTGAAAAGCAGAAATG
* *
101128452 GAAAAGTAGAAATTGAAAAGCAGAAATT
1 GAAAAATAGAAATTGAAAAGCAGAAATG
101128480 GAAAA
1 GAAAA
101128485 TATCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.61, C:0.03, G:0.20, T:0.16
Consensus pattern (28 bp):
GAAAAATAGAAATTGAAAAGCAGAAATG
Found at i:101128541 original size:204 final size:206
Alignment explanation
Indices: 101128267--101128647 Score: 633
Period size: 204 Copynumber: 1.9 Consensus size: 206
101128257 AAAAAAAAAT
*
101128267 AGAAATTGAAAATACCTCAGTACGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAGTTGACT
1 AGAAATTGAAAATACCTCAG-ACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGACT
*
101128332 TTTTTGAAAAGTAGAATTTGAAAATCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
65 TTTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
* *
101128397 CACCTCTCGCAATATGAGTTGATTTTT-GAAAAATATAAATTGAAAAGCAGAAATGGAAAAGTAG
130 CACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAAGCAGAAATGGAAAAGTAG
101128461 AAATTGAAAAGC
195 AAATTGAAAAGC
* * * *
101128473 AGAAATTGAAAATATCTCAG-CGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGACGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGACT
*
101128536 TTTTTGAAAAGTAGAATTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
65 TTTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
*
101128601 CACCTCTCGCAATATGAGTTGATTTTTGGAAAAGTAGAAATTAAAAA
130 CACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAA
101128648 CAAAATTTTG
Statistics
Matches: 163, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
203 2 0.01
204 126 0.77
205 16 0.10
206 19 0.12
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (206 bp):
AGAAATTGAAAATACCTCAGACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGACTT
TTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAAGCAGAAATGGAAAAGTAGA
AATTGAAAAGC
Found at i:101128603 original size:89 final size:88
Alignment explanation
Indices: 101128450--101128654 Score: 333
Period size: 89 Copynumber: 2.3 Consensus size: 88
101128440 AAAGCAGAAA
* *
101128450 TGGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAATATCTCAGCGTGCCCTGAGGCTCAACTCAC
1 TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
101128515 CTCTCGCAATATGAGTTGATTTTT
66 CTCTCGCAATATGAGTTGA-TTTT
* * * *
101128539 TTGAAAAGTAGAATTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
1 TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
101128604 CTCTCGCAATATGAGTTGATTTT
66 CTCTCGCAATATGAGTTGATTTT
101128627 TGGAAAAGTAGAAATT-AAAAACA-AAATT
1 TGGAAAAGTAGAAATTGAAAAACAGAAATT
101128655 TTGAACAACA
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
86 5 0.05
87 6 0.06
88 18 0.17
89 78 0.73
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (88 bp):
TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTT
Found at i:101142757 original size:23 final size:23
Alignment explanation
Indices: 101142730--101142773 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
101142720 AGTGGAAACT
101142730 AATAATA-TAATATAAAATAAAGA
1 AATAATAGTAATA-AAAATAAAGA
*
101142753 AATAATAGTAATAATAATAAA
1 AATAATAGTAATAAAAATAAA
101142774 TAAAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAATAGTAATAAAAATAAAGA
Found at i:101142972 original size:11 final size:11
Alignment explanation
Indices: 101142958--101142995 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
101142948 ATACATTAAG
*
101142958 AATATATACAT
1 AATATATACAA
101142969 AATATATACAA
1 AATATATACAA
101142980 AATATATACAA
1 AATATATACAA
*
101142991 TATAT
1 AATAT
101142996 GCTTATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (11 bp):
AATATATACAA
Found at i:101143112 original size:3 final size:3
Alignment explanation
Indices: 101143098--101143133 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
101143088 AAACATATAC
*
101143098 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101143134 AGATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:101143218 original size:22 final size:22
Alignment explanation
Indices: 101143139--101143225 Score: 77
Period size: 26 Copynumber: 3.7 Consensus size: 22
101143129 AATAAAGATA
* *
101143139 ATATAAAAAATACATACATGAA-
1 ATATATAAAATATATACAT-AAC
*
101143161 ATAGTATAAAATATATATATAAC
1 ATA-TATAAAATATATACATAAC
*
101143184 TAATAACATTAAAATATATACATAAC
1 --AT-ATA-TAAAATATATACATAAC
101143210 ATATATAAAATATATA
1 ATATATAAAATATATA
101143226 ATTGATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 16 0.30
23 15 0.28
24 2 0.04
25 3 0.06
26 17 0.32
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATATAAAATATATACATAAC
Found at i:101143804 original size:11 final size:11
Alignment explanation
Indices: 101143788--101143815 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
101143778 ATTTAAGTTA
101143788 TTTTTTTATAT
1 TTTTTTTATAT
101143799 TTTTTTTATAT
1 TTTTTTTATAT
101143810 TTTTTT
1 TTTTTT
101143816 GCTTCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTATAT
Found at i:101150832 original size:26 final size:26
Alignment explanation
Indices: 101150795--101150876 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
101150785 TGATACAAAT
*
101150795 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101150821 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
101150847 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
101150873 TGAT
1 TGAT
101150877 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101152391 original size:26 final size:26
Alignment explanation
Indices: 101152362--101152414 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
101152352 TTTACAGTTT
101152362 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
101152388 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
101152414 T
1 T
101152415 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:101153538 original size:67 final size:67
Alignment explanation
Indices: 101153430--101153566 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
101153420 AAACACTAAG
* *
101153430 TAAGTTTTTCTAGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGTCGGATCCGGC
1 TAAGTTTTTCTAGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGAC
101153495 CA
66 CA
*
101153497 TAAGTTTTTCTGGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGAC
1 TAAGTTTTTCTAGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGAC
101153562 CA
66 CA
101153564 TAA
1 TAA
101153567 CTTCTGGGCC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (67 bp):
TAAGTTTTTCTAGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGAC
CA
Found at i:101160139 original size:32 final size:32
Alignment explanation
Indices: 101160103--101160172 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
101160093 ATTACATTCG
101160103 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
1 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
101160135 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
1 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
*
101160167 TTCATT
1 ATCATT
101160173 ATATGTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (32 bp):
ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
Found at i:101161487 original size:3 final size:3
Alignment explanation
Indices: 101161479--101161761 Score: 102
Period size: 3 Copynumber: 94.3 Consensus size: 3
101161469 TATTTTGCTA
* * * *
101161479 TAT TAT TAT TAA AAT TGATT TAT T-T TAT T-T TAT TGT TAAT TCT -AT
1 TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
** * *
101161524 TAT TAT TGC TAT TAT TAT TGT TAT TACT T-T TAT TCT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * *
101161568 TAT TGT TGT TGT TAT T-T CTCT TGT TGT TTT TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
** * * * *
101161613 TAT CGT TAT TGT TAT TAT TAT TCCT TAG T-T TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
101161658 T-T TAT CGT TAT TTT CTAT CAT TGT TAT TAT TAA TA- TAC TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
101161702 TAT TTT TAT TAAT GTAT TAT TAT TAT TAT TTT CTAC T-T TAT TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
*
101161749 TAT TAT TAC TAT T
1 TAT TAT TAT TAT T
101161762 GCTATCATCA
Statistics
Matches: 206, Mismatches: 52, Indels: 44
0.68 0.17 0.15
Matches are distributed among these distances:
2 16 0.08
3 170 0.83
4 17 0.08
5 3 0.01
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:101164661 original size:48 final size:48
Alignment explanation
Indices: 101164585--101164686 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
101164575 ATGAACATTG
*
101164585 CAAGGATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
101164633 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
101164681 CAAGTA
1 CAAGTA
101164687 AAAGCATTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
Found at i:101168066 original size:44 final size:45
Alignment explanation
Indices: 101168017--101168143 Score: 150
Period size: 44 Copynumber: 2.8 Consensus size: 45
101168007 TTCACCCAGC
*
101168017 CTTATCTCCCTGAAGTAGCAAGGGAGCAGACCGAAGATTGTAG-T
1 CTTATCTCCCTGAAGTAGCAAGGGAGCAGACCGAAGATTGAAGAT
* * * * *
101168061 CTTATCTTCTTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAAGTAGCAAGGGAGCAGACCGAAGATTGAAGAT
* * *
101168106 CTTATCTCCCTG-AGATAGCAATGGAGTAGATCGAAGAT
1 CTTATCTCCCTGAAG-TAGCAAGGGAGCAGACCGAAGAT
101168144 GGCGAATCTT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
44 38 0.57
45 29 0.43
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTAGCAAGGGAGCAGACCGAAGATTGAAGAT
Found at i:101168332 original size:187 final size:188
Alignment explanation
Indices: 101168049--101168422 Score: 543
Period size: 187 Copynumber: 2.0 Consensus size: 188
101168039 GGAGCAGACC
* * *
101168049 GAAGATTGTAGTCTTATCTTCTTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTC
1 GAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAAACTAAAGATTGAAGATCTTATCTC
* * * * ** *
101168114 CCTGAGATAGCAATGGAGTAGATCGAAGATGGCGAATCTTATCTTCTCAAGGTAGTAGGGAAACT
66 CCTGAGATAACAATGGAGCAAATCAAAGATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACA
*
101168179 GATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTGGGCCGAAGATTGTT
131 GATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGCCGAAGATTGTT
* *
101168237 GAAGATTGTTGTCTTATCTTCTTGAGGTATC-AGGAAGCAAACTAAAGATTGAAGATCTTATCTC
1 GAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAAACTAAAGATTGAAGATCTTATCTC
* * * * * *
101168301 CTTGAGATAATAGTGGAGCAAATCAAAGATGGTGAATCTTATCTTCTCGAGGTAACAGGGAAGCA
66 CCTGAGATAACAATGGAGCAAATCAAAGATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACA
* **
101168366 GATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGT
131 GATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGCCGAAGATTGT
101168423 AGTCTTATCT
Statistics
Matches: 164, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
187 136 0.83
188 28 0.17
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (188 bp):
GAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAAACTAAAGATTGAAGATCTTATCTC
CCTGAGATAACAATGGAGCAAATCAAAGATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACA
GATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGCCGAAGATTGTT
Found at i:101168612 original size:44 final size:44
Alignment explanation
Indices: 101168559--101168723 Score: 183
Period size: 44 Copynumber: 3.8 Consensus size: 44
101168549 GCCACTATCC
*
101168559 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCT
* * * * * *
101168603 TATCTCCCTAAACAATAGTGGAGTAGGCTGAAGATTATAGATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCT
* * *
101168647 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACAGT-GA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCT-GAA-A-ATTACAGATCT
*
101168691 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAA
101168724 TCAACAATTC
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.03
44 95 0.92
45 3 0.03
46 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCT
Found at i:101168778 original size:88 final size:87
Alignment explanation
Indices: 101168727--101169772 Score: 1215
Period size: 88 Copynumber: 11.9 Consensus size: 87
101168717 GTTGAAATCA
* * *
101168727 ACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AA
*
101168792 TGGCATTGGAGCGGCTCGAAGCC
65 TAGCATTGGAGCGGCTCGAAGCC
* * * * * *
101168815 ACAATTCTTATGTCCTTGAAGTTTCAGCAGAATAGATTGAAACTACAAATCTCTTCTCCCTGAAT
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-
* * *
101168880 TGGTATTGGAGCAGCTCGAAGCC
65 TAGCATTGGAGCGGCTCGAAGCC
* ** * * * **
101168903 ACAATTCTTATCTCCTTGAAGTTTCAAAGGAATAGATCGAAACTACAAATCTCTCCTCTTTGAAT
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-
*
101168968 TGGCATTGGAGCGGCTCGAAGCC
65 TAGCATTGGAGCGGCTCGAAGCC
* *
101168991 ACAATTCGTATCTCCTAGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAT
* *
101169055 ATGACACTGGAGCAGCTCGAAGCC
66 A-G-CATTGGAGCGGCTCGAAGCC
* * * * *
101169079 ACAATCCGTATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCCT-AAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAT
*
101169143 ATGACACT-GACGCGGCTCGAAGCC
66 A-G-CATTGGA-GCGGCTCGAAGCC
* * * * * *
101169167 ACAATTCGTA-CATTCTTAAAGTTTCAGTGGAGTAGATCGAAACTACAAATCTATTTTCCCTGAA
1 ACAATTCGTATC-TCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
*
101169231 -ATGACACTGGAGCGGCTCGAAGCC
65 TA-G-CATTGGAGCGGCTCGAAGCC
* * *
101169255 ACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAT
*
101169319 ACGACACTGGAGCGGCTCGAAGCC
66 A-G-CATTGGAGCGGCTCGAAGCC
* * * * *
101169343 ACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCT-GAA
* *
101169408 TGGCATTGGAGCGGCTCGAAGTC
65 TAGCATTGGAGCGGCTCGAAGCC
* * *
101169431 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAAT
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAT
* * *
101169496 TGTCATTGAAGCAGCTCGAAGCC
66 AG-CATTGGAGCGGCTCGAAGCC
* * * *
101169519 ACAATTCTTATCTCCTTGAAGTTTCAACGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AA
* * *
101169584 TGGCGTTGGAGCGGCTCAAAGCC
65 TAGCATTGGAGCGGCTCGAAGCC
* *
101169607 ACAATTCGTATCTCCTTGAAG-TTCTAGTGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-A
* * * * *
101169671 ATGGCACTGGCGTGGCTCGAAGCT
64 ATAGCATTGGAGCGGCTCGAAGCC
* *
101169695 ATAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AA
*
101169760 TAACATTGGAGCG
65 TAGCATTGGAGCG
101169773 ATTAAAACCA
Statistics
Matches: 842, Mismatches: 101, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
87 15 0.02
88 812 0.96
89 15 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (87 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAT
AGCATTGGAGCGGCTCGAAGCC
Found at i:101168987 original size:176 final size:176
Alignment explanation
Indices: 101168727--101169772 Score: 1360
Period size: 176 Copynumber: 5.9 Consensus size: 176
101168717 GTTGAAATCA
* * *
101168727 ACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * * * *
101168792 TGGCATTGGAGCGGCTCGAAGCCACAATTCTTATGTCCTTGAAGTTTCAGCAGAATAGATTGAAA
66 TGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAA
* * *
101168857 CTACAAATCTCTTCTCCCTGAATTGGTATTGGAGCAGCTCGAAGCC
131 CTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
* ** * * * ** *
101168903 ACAATTCTTATCTCCTTGAAGTTTCAAAGGAATAGATCGAAACTACAAATCTCTCCTCTTTGAAT
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
101168968 TGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTAGAAGTTCCAGCGGAGTAGATCGAAG
66 TGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAA
* * *
101169033 CTACAAATCTCTTCTCCCTGAAATGACACTGGAGCAGCTCGAAGCC
131 CTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
* * * * *
101169079 ACAATCCGTATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
101169144 TGACACT-GACGCGGCTCGAAGCCACAATTCGTA-CATTCTTAAAGTTTCAGTGGAGTAGATCGA
66 TGGCACTGGA-GCGGCTCGAAGCCACAATTCGTATC-TCCTTGAAGTTTCAGCGGAGTAGATCGA
* * * *
101169207 AACTACAAATCTATTTTCCCTGAAATGACACTGGAGCGGCTCGAAGCC
129 AACTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
* * *
101169255 ACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * * * *
101169320 CGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAG
66 TGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAA
* * *
101169385 CTACAAATATCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGTC
131 CTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
* * * *
101169431 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAAT
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * * * * *
101169496 TGTCATTGAAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAACGGAATAGATCGAAA
66 TGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAA
* *
101169561 CTACAAATCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTCAAAGCC
131 CTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
* *
101169607 ACAATTCGTATCTCCTTGAAG-TTCTAGTGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* * * * *
101169671 ATGGCACTGGCGTGGCTCGAAGCTATAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAA
65 ATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAA
* **
101169736 GCTACAAATCTCTTCTCCCTGAAATAACATTGGAGCG
130 ACTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCG
101169773 ATTAAAACCA
Statistics
Matches: 755, Mismatches: 110, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
175 6 0.01
176 746 0.99
177 3 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (176 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAA
CTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCC
Found at i:101169075 original size:264 final size:264
Alignment explanation
Indices: 101168727--101169772 Score: 1396
Period size: 264 Copynumber: 4.0 Consensus size: 264
101168717 GTTGAAATCA
* * *
101168727 ACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * * * * * *
101168792 TGGCATTGGAGCGGCTCGAAGCCACAATTCTTATGTCCTTGAAGTTTCAGCAGAATAGATTGAAA
66 TGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAG
* * * * * *
101168857 CTACAAATCTCTTCTCCCTGAATTGGTATTGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGA
131 CTACAAATCTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGA
** * ** *
101168922 AGTTTCAAAGGAATAGATCGAAACTACAAATCTCTCCTCTTTGAATTGGCATTGGAGCGGCTCGA
196 AGTTTCAGTGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAATTGACATTGGAGCGGCTCGA
101168987 AGCC
261 AGCC
* *
101168991 ACAATTCGTATCTCCTAGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * * *
101169056 TGACACTGGAGCAGCTCGAAGCCACAATCCGTATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAG
66 TGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAG
* *
101169121 CTACAAATCTCTTCTCCCTAAAATGACACT-GACGCGGCTCGAAGCCACAATTCGTA-CATTCTT
131 CTACAAATCTCTTCTCCCTAAAATGGCACTGGA-GCGGCTCGAAGCCACAATTCGTATC-TCCTT
* * * * * *
101169184 AAAGTTTCAGTGGAGTAGATCGAAACTACAAATCTATTTTCCCTGAAATGACACTGGAGCGGCTC
194 GAAGTTTCAGTGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAATTGACATTGGAGCGGCTC
101169249 GAAGCC
259 GAAGCC
* * *
101169255 ACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
101169320 CGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAG
66 TGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAG
* * *
101169385 CTACAAATATCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGTCACAATTCGTATCTCCTTGA
131 CTACAAATCTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGA
* * * * *
101169450 AGTTTCAGCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAATTGTCATTGAAGCAGCTCGA
196 AGTTTCAGTGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAATTGACATTGGAGCGGCTCGA
101169515 AGCC
261 AGCC
* * * *
101169519 ACAATTCTTATCTCCTTGAAGTTTCAACGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* ** * * **
101169584 TGGCGTTGGAGCGGCTCAAAGCCACAATTCGTATCTCCTTGAAG-TTCTAGTGGAGTAGATCGAA
66 TGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTC-AGCAGAGTAGATCGAA
* * * * * *
101169648 GCTACAAATCTCTTCTTCCTGAAATGGCACTGGCGTGGCTCGAAGCTATAATTCGTATCTCCTTG
130 GCTACAAATCTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTG
* * * *
101169713 AAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATAACATTGGAGCG
195 AAGTTTCAGTGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAATTGACATTGGAGCG
101169773 ATTAAAACCA
Statistics
Matches: 684, Mismatches: 93, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
263 6 0.01
264 675 0.99
265 3 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (264 bp):
ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGACACTGGAGCGGCTCGAAGCCACAATCCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAG
CTACAAATCTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGA
AGTTTCAGTGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAATTGACATTGGAGCGGCTCGA
AGCC
Found at i:101169800 original size:43 final size:44
Alignment explanation
Indices: 101169749--101169859 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
101169739 ACAAATCTCT
*
101169749 TCTCCCTGAAATAACATTGGAGC-GATTAAAACCACAAACCTTA
1 TCTCCCTGAAATAACAGTGGAGCAGATTAAAACCACAAACCTTA
* ** * ***
101169792 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAACCTTA
1 TCTCCCTGAAATAACAGTGGAGCAGATTAAAACCACAAACCTTA
**
101169836 TCTCCCTGAAATTGCAGTGGAGCA
1 TCTCCCTGAAATAACAGTGGAGCA
101169860 AGTTGAAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
43 19 0.33
44 39 0.67
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
TCTCCCTGAAATAACAGTGGAGCAGATTAAAACCACAAACCTTA
Found at i:101169836 original size:44 final size:44
Alignment explanation
Indices: 101169782--101170291 Score: 252
Period size: 44 Copynumber: 11.5 Consensus size: 44
101169772 GATTAAAACC
101169782 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * *
101169826 ACAAACCTTATCTCCCTGAAATTGCAGTGGAGCAAGTTGAAGTT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
** * ** *
101169870 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAA--T
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * * * * *
101169912 AGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCT
1 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * * * **
101169957 ATAAATCC-TATAC-CTCTGAAGTTGCAGTAGG-TC-GGATCAAACCT
1 ACAAA-CCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGG-TTAAAGTT
* * * * * **
101170001 ACCATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCC
1 A-CA-----AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * * * * * *
101170051 ATAAACCTTTTCCCCCTGAAGTTGTAGTGGGGCAAGTTGAAA-TCA
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGT-T
** * ** * *
101170096 ACAATTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGAT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* *
101170140 AGCAAACCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTGAAA-TG
1 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGTT
* * * * * * * *
101170185 ACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAG--
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * * ** *
101170227 -CAAACCTTATCTTCCTGAAGTAGCAGTAGAATAGGTTGAAGTT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
* * *
101170270 -CAAATCTTATTTCCCTTAAGTT
1 ACAAACCTTATCTCCCTGAAGTT
101170292 ACAATGGAAC
Statistics
Matches: 347, Mismatches: 94, Indels: 51
0.71 0.19 0.10
Matches are distributed among these distances:
41 29 0.08
42 2 0.01
43 53 0.15
44 163 0.47
45 69 0.20
46 2 0.01
49 5 0.01
50 23 0.07
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTT
Found at i:101169857 original size:87 final size:88
Alignment explanation
Indices: 101169703--101169905 Score: 212
Period size: 87 Copynumber: 2.3 Consensus size: 88
101169693 CTATAATTCG
* * * * * *
101169703 TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATAACATTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCTACAAACCTCTTCTCCCTGAAATAACAGTG
*
101169768 GAGCGA-TTAAAACCACAAACCT
66 GAGCAAGTTAAAACCACAAACCT
* * * **
101169790 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAACCT-TATCTCCCTGAAATTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCTACAAACCTCT-TCTCCCTGAAATAACAGT
* *** **
101169854 GGAGCAAGTTGAAGTTACAAGTCT
65 GGAGCAAGTTAAAACCACAAACCT
*
101169878 TATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
101169906 CTGAATAGCA
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
86 1 0.01
87 57 0.61
88 36 0.38
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (88 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCTACAAACCTCTTCTCCCTGAAATAACAGTG
GAGCAAGTTAAAACCACAAACCT
Found at i:101170125 original size:45 final size:43
Alignment explanation
Indices: 101170067--101170218 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 43
101170057 CTTTTCCCCC
* *
101170067 TGAAGTTGTAGTGGGGCAAGTTGAAATCAACAATTCTTATCTCCA
1 TGAAGTTGCAGTGGAGCAAGTTGAAAT-AACAA-TCTTATCTCCA
* * *
101170112 TGAAGTTGCAGTGGAGC-AGACTGAAGATAGCAAACCTTATCTCCA
1 TGAAGTTGCAGTGGAGCAAG-TTGAA-ATAAC-AATCTTATCTCCA
* *
101170157 TGAAGTTGCAGTGGAGCAGGTTGAAATGACAGATCTTATCTCTC-
1 TGAAGTTGCAGTGGAGCAAGTTGAAATAACA-ATCTTATCTC-CA
* *
101170201 TGAAGTTGTAGTAGAGCA
1 TGAAGTTGCAGTGGAGCA
101170219 GATCATAGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 30 0.34
45 53 0.60
46 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
TGAAGTTGCAGTGGAGCAAGTTGAAATAACAATCTTATCTCCA
Found at i:101170125 original size:89 final size:88
Alignment explanation
Indices: 101170011--101170220 Score: 226
Period size: 89 Copynumber: 2.4 Consensus size: 88
101170001 ACCATGGTGA
* * * * * * *
101170011 ATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA-TAAACCTTTTCCCCCTGAAGTTG
1 ATCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAACCTTATCCCCATGAAGTTG
* *
101170075 TAGTGGGGCAAGTTGAAATCAACA-
65 CAGTGGAGCAAGTTGAAAT-AACAG
* *
101170099 ATTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATCTCCATGAAGTT
1 A-TCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAACCTTATCCCCATGAAGTT
* *
101170164 GCAGTGGAGCAGGTTGAAATGACAG
64 GCAGTGGAGCAAGTTGAAATAACAG
* *
101170189 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA
1 ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGA
101170221 TCATAGCAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 3 0.03
89 62 0.61
90 37 0.36
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
ATCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAACCTTATCCCCATGAAGTTGC
AGTGGAGCAAGTTGAAATAACAG
Found at i:101170247 original size:41 final size:41
Alignment explanation
Indices: 101170102--101170256 Score: 123
Period size: 45 Copynumber: 3.6 Consensus size: 41
101170092 ATCAACAATT
* **
101170102 CTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
1 CTTATCTCC-TGAAGTTGCAGTAGAGCAG---GATCATAGCAAAC
* * * * * *
101170147 CTTATCTCCATGAAGTTGCAGTGGAGCAGGTTGAAATGACAGAT
1 CTTATCTCC-TGAAGTTGCAGTAGAGCAGGATCATA-G-CAAAC
*
101170191 CTTATCTCTCTGAAGTTGTAGTAGAGCA-GATCATAGCAAAC
1 CTTATCTC-CTGAAGTTGCAGTAGAGCAGGATCATAGCAAAC
*
101170232 CTTATCTTCCTGAAGTAGCAGTAGA
1 CTTATC-TCCTGAAGTTGCAGTAGA
101170257 ATAGGTTGAA
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.25
42 7 0.08
43 5 0.05
44 27 0.29
45 30 0.33
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (41 bp):
CTTATCTCCTGAAGTTGCAGTAGAGCAGGATCATAGCAAAC
Found at i:101171843 original size:12 final size:12
Alignment explanation
Indices: 101171828--101171857 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
101171818 ATTGTTAATT
101171828 CTATTATTATTG
1 CTATTATTATTG
101171840 CTATTATTATTG
1 CTATTATTATTG
*
101171852 TTATTA
1 CTATTA
101171858 CTTTTATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (12 bp):
CTATTATTATTG
Found at i:101173880 original size:46 final size:46
Alignment explanation
Indices: 101173813--101173987 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
101173803 TGTAACCCGC
101173813 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
101173859 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * ** *
101173909 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
101173952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
101173988 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 25 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:101173929 original size:93 final size:93
Alignment explanation
Indices: 101173821--101173991 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
101173811 GCCCATAAGT
* ** *
101173821 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101173886 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
101173914 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
101173979 CGAGTTCGGATGC
66 CGAGCTCGGATGC
101173992 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:101174568 original size:19 final size:19
Alignment explanation
Indices: 101174542--101174578 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
101174532 GCAACTCATA
101174542 ATTTCAACT-ATTTTACAT
1 ATTTCAACTCATTTTACAT
101174560 ATTTACAACTCATTTTACA
1 ATTT-CAACTCATTTTACA
101174579 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTCAACTCATTTTACAT
Found at i:101177424 original size:46 final size:44
Alignment explanation
Indices: 101177357--101177563 Score: 172
Period size: 46 Copynumber: 4.6 Consensus size: 44
101177347 ATCGATGCAG
* * *
101177357 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGACGCA
101177403 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
* * *
101177447 TGTCCCAGACATGT-TTGACATTGGCTAACATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTT-ACACTAGC--ACATCTCGTA-GCCGACGCA
* * * * *
101177493 TGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCACATC-T-C-GTAGCCGACGCA
*
101177539 TGTTCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
101177564 CCTCGTCTCA
Statistics
Matches: 138, Mismatches: 12, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
43 7 0.05
44 30 0.22
45 2 0.01
46 96 0.70
47 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
Found at i:101177583 original size:46 final size:46
Alignment explanation
Indices: 101177400--101177608 Score: 148
Period size: 46 Copynumber: 4.5 Consensus size: 46
101177390 CCGTGCTGAC
* *
101177400 GCATGTCCCAGACATGTCTTACACTAGCACATC-T-CGTA--GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CCTCATAC-TATGGCCGAT
* * ***
101177444 GCATGTCCCAGACATGT-TTGACATTGGCTAACAT-CTCGA-GGCCGAT
1 GCATGTCCCAGACATGTCTT-ACACTAGCCCTCATACT--ATGGCCGAT
* * * *
101177490 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCCTCATACTATGGCCGAT
* *
101177536 GCATGTTCCAGACATGTCTTACACTAGCCCTCGT-CTCAAT-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCCTCATACT--ATGGCCGAT
*
101177582 GCCATGTCCCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
101177609 GGCACACAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.04
44 25 0.19
45 3 0.02
46 75 0.56
47 17 0.13
48 10 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCCCTCATACTATGGCCGAT
Found at i:101180204 original size:46 final size:46
Alignment explanation
Indices: 101180137--101180311 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
101180127 TGTAACCCGC
101180137 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
101180183 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *** *
101180233 -C-TCA-CGAACTCAGACTTAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
101180276 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
101180312 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.58
47 23 0.22
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:101180903 original size:20 final size:18
Alignment explanation
Indices: 101180869--101180905 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
101180859 GCAACTCATA
101180869 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
101180887 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
101180906 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:101181623 original size:3 final size:3
Alignment explanation
Indices: 101181609--101181697 Score: 74
Period size: 3 Copynumber: 29.3 Consensus size: 3
101181599 ACTTATTTTC
* * *
101181609 TAT TAT TGT TAT TAT TAA TA- TAC TAT TAT TAT TAT TAT TAAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
* * * *
101181655 TGT TAT TAT TAT TTT CTAC T-T TAT TAT TAT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
101181698 GCCATCATCA
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 3 0.04
3 60 0.87
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:101181666 original size:20 final size:20
Alignment explanation
Indices: 101181612--101181698 Score: 79
Period size: 20 Copynumber: 4.2 Consensus size: 20
101181602 TATTTTCTAT
*
101181612 TATTGTTATTATTAATATAC
1 TATTGTTATTATTATTATAC
* *
101181632 TATTATTATTATTATTA-ATG
1 TATTGTTATTATTATTATA-C
*
101181652 TATTGTTATTATTATT-TTC
1 TATTGTTATTATTATTATAC
*
101181671 TACTTTATTATTATTATTATTAC
1 TA--TTGTTATTATTATTA-TAC
101181694 TATTG
1 TATTG
101181699 CCATCATCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
19 3 0.06
20 30 0.58
21 15 0.29
23 4 0.08
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TATTGTTATTATTATTATAC
Found at i:101182045 original size:22 final size:21
Alignment explanation
Indices: 101182003--101182045 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
101181993 GTATTAAATT
* *
101182003 CTTTTTATTATTTATTATAAA
1 CTTTTTACTATTAATTATAAA
*
101182024 CTTTTCTACTATTAATTTTAAA
1 CTTTT-TACTATTAATTATAAA
101182046 AATTCACACG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (21 bp):
CTTTTTACTATTAATTATAAA
Found at i:101183649 original size:46 final size:46
Alignment explanation
Indices: 101183548--101183637 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
101183538 ATGTTGTGGT
* * *
101183548 AGAGACAGGGTCGATCAAATCGTCTGTAGGTACATAAAATGCTTGA
1 AGAGATAGGGTCGATCAAATCGTCTGTAGGTACATAAAAAGCATGA
101183594 AGAGATAGGGTCGATCAAATCGTCTGTAGGTACATAAAAAGCAT
1 AGAGATAGGGTCGATCAAATCGTCTGTAGGTACATAAAAAGCAT
101183638 AATTCGATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (46 bp):
AGAGATAGGGTCGATCAAATCGTCTGTAGGTACATAAAAAGCATGA
Found at i:101184870 original size:138 final size:136
Alignment explanation
Indices: 101184627--101184889 Score: 307
Period size: 138 Copynumber: 1.9 Consensus size: 136
101184617 TCAATTGAGC
* * *
101184627 AGCAAGATCATCATAGTCAACAATAGATTGATCATCATCCATCCTTTAATGTTGAATAAAGTCAC
1 AGCAAGATCATCACAGTCAACAACAGA-TGATCATCATCCATCCCTTAATGTTGAATAAAGTCAC
* * ** * * *
101184692 TAATAAATCCTGGATTGAATCTGAAATAGTGATCTCGCACGAGTGCTTGCATATAGTGTTAGCCA
65 TAATAAATCCCGGACTGAATCTGAAATAGAAACCTCGCACGAATGCCTGCATATAGTGTTAGCCA
101184757 ACAGGGT
130 ACAGGGT
* *
101184764 AGCAAGATCATCACAGTCAACAACGGA-G-TGATCATCCATCCCTTAAT-TATGAATTAATAATG
1 AGCAAGATCATCACAGTCAACAACAGATGATCATCATCCATCCCTTAATGT-TGAA-T-A-AA-G
** * *
101184826 TCACTAATAGCTCCCGGACTGAATCTGAAATGGAAACCTTGCACGAATGCCTGCATATAGTGTT
61 TCACTAATAAATCCCGGACTGAATCTGAAATAGAAACCTCGCACGAATGCCTGCATATAGTGTT
101184890 GATGGCTTGA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
133 1 0.01
134 21 0.20
135 2 0.02
136 1 0.01
137 26 0.25
138 54 0.51
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (136 bp):
AGCAAGATCATCACAGTCAACAACAGATGATCATCATCCATCCCTTAATGTTGAATAAAGTCACT
AATAAATCCCGGACTGAATCTGAAATAGAAACCTCGCACGAATGCCTGCATATAGTGTTAGCCAA
CAGGGT
Found at i:101186974 original size:62 final size:62
Alignment explanation
Indices: 101186901--101187027 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
101186891 ATCTAATTTA
101186901 TAATATAATAATCTTTATAATAGTTTTACCCGATAATTGATATATATGCTTATAAAATAAAT
1 TAATATAATAATCTTTATAATAGTTTTACCCGATAATTGATATATATGCTTATAAAATAAAT
*
101186963 TAATATAATAATTTTTATAATAGTTTTACCCGATAATTGATATATATGCTTATAAAATAAAT
1 TAATATAATAATCTTTATAATAGTTTTACCCGATAATTGATATATATGCTTATAAAATAAAT
101187025 TAA
1 TAA
101187028 GAGCTTTTAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (62 bp):
TAATATAATAATCTTTATAATAGTTTTACCCGATAATTGATATATATGCTTATAAAATAAAT
Found at i:101189377 original size:42 final size:42
Alignment explanation
Indices: 101189313--101189396 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
101189303 ATAAATAGGA
*
101189313 ATGAGATTTCATTTAGAAATCACACCAACAAATTCTAATATT
1 ATGAGATTTCAGTTAGAAATCACACCAACAAATTCTAATATT
* * *
101189355 ATGATATTTCAGTTGGAAATCACACCAACAAATTTTAATATT
1 ATGAGATTTCAGTTAGAAATCACACCAACAAATTCTAATATT
101189397 CTTTCTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (42 bp):
ATGAGATTTCAGTTAGAAATCACACCAACAAATTCTAATATT
Found at i:101190410 original size:20 final size:20
Alignment explanation
Indices: 101190385--101190442 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
101190375 AGATAAGGGC
*
101190385 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGA
101190405 ACATGCTCC-TGTGGCCTGGA
1 ACATGC-CCGTGTGGCCTGGA
101190425 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
101190443 CCCATGGGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.12, C:0.31, G:0.34, T:0.22
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:101190945 original size:13 final size:13
Alignment explanation
Indices: 101190927--101190962 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
101190917 AGATAATTAG
101190927 CAAATCATACATA
1 CAAATCATACATA
101190940 CAAATCATACATA
1 CAAATCATACATA
*
101190953 TAAATTCATA
1 CAAA-TCATA
101190963 TCAAACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:101192193 original size:64 final size:64
Alignment explanation
Indices: 101192092--101192219 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
101192082 TACAAAAAAA
* *
101192092 AGGTGATTTTTTGGCTTGCGATTTCTATACTCCTTTTCTTTTTCTTCTTTCTTTTAATGATTTT
1 AGGTGATTTTTTGGCTTGCAATTTCTATACTCATTTTCTTTTTCTTCTTTCTTTTAATGATTTT
101192156 AGGTGATTTTTTGGCTTGCAATTTCTATACTCATTTTCTTTTTCTTCTTTCTTTTAATGATTTT
1 AGGTGATTTTTTGGCTTGCAATTTCTATACTCATTTTCTTTTTCTTCTTTCTTTTAATGATTTT
101192220 TACTCAAATC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.59
Consensus pattern (64 bp):
AGGTGATTTTTTGGCTTGCAATTTCTATACTCATTTTCTTTTTCTTCTTTCTTTTAATGATTTT
Found at i:101194685 original size:131 final size:132
Alignment explanation
Indices: 101194374--101194763 Score: 551
Period size: 131 Copynumber: 3.0 Consensus size: 132
101194364 TAACTATTCA
* * * * *
101194374 TTTAAAAATTCTTTAAAACGGAGGCAATACTT-GGTGTTTGGCAATTC-GGGAATCGTGCCCTAT
1 TTTAAAAATTCTTCAAAACGAAGGTAAT-GTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * * *
101194437 CGTGCTGGGTTACGATTT-CTCGTTTATTCAAAACAATCGAGTATTCCTTTAGG-A-TTCACTCA
65 CGTGCTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTTT-GGAATTTCACTCA
101194499 TG-CT
128 TGTCT
* *
101194503 TTTAAAAATTTTTCAAAATGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
101194568 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCATTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
101194633 C-
131 CT
101194634 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * *
101194699 GTGCTGGGTTGCAATCTCCTGTTTGTTCCAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
101194764 TCTCCAAATT
Statistics
Matches: 234, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
128 2 0.01
129 39 0.17
130 59 0.25
131 133 0.57
132 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (132 bp):
TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
CT
Found at i:101194849 original size:31 final size:31
Alignment explanation
Indices: 101194814--101194879 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
101194804 ATTCGAGGAG
*
101194814 TCGTGCCCTACTGTGCTGGGTTTCGATTTTC
1 TCGTGCCCTACTGTGCTGGATTTCGATTTTC
101194845 TCGTGCCCTACTGTGCTGGATTTCGATTTTC
1 TCGTGCCCTACTGTGCTGGATTTCGATTTTC
101194876 TCGT
1 TCGT
101194880 TGGACTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.08, C:0.26, G:0.24, T:0.42
Consensus pattern (31 bp):
TCGTGCCCTACTGTGCTGGATTTCGATTTTC
Found at i:101196373 original size:3 final size:3
Alignment explanation
Indices: 101196352--101196392 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
101196342 TTATCTCATT
101196352 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101196393 GTAAATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:101197996 original size:32 final size:32
Alignment explanation
Indices: 101197953--101198017 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
101197943 GAGGAGAATA
101197953 GCCTAAAAATGTACATAGAGCTGATCAAAATT
1 GCCTAAAAATGTACATAGAGCTGATCAAAATT
*
101197985 GCCTAAGAATGTACATAGAGCTGATCAAAATT
1 GCCTAAAAATGTACATAGAGCTGATCAAAATT
101198017 G
1 G
101198018 AAGGTTGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (32 bp):
GCCTAAAAATGTACATAGAGCTGATCAAAATT
Found at i:101198585 original size:138 final size:138
Alignment explanation
Indices: 101198332--101198599 Score: 441
Period size: 138 Copynumber: 1.9 Consensus size: 138
101198322 ATAGATACCA
*
101198332 TTTCAACGGTTGAAACTCACCCCCTCCATCCGTCTAAAGCACTTTTAATTTGACCCCAAGTATAT
1 TTTCAACGCTTGAAACTCACCCCCTCCATCCGTCTAAAGCACTTTTAATTTGACCCCAAGTATAT
101198397 TTTCAACTTCTTGGTGAAATTGAGGAAAAACTGTAACAACATCTATCTTTTTCTTCAAAAAATAA
66 TTTCAACTTCTTGGTGAAATTGAGGAAAAACTGTAACAACATCTATCTTTTTCTTCAAAAAATAA
101198462 TGCCACAT
131 TGCCACAT
* * *
101198470 TTTCAATGCTTGAAACTCACCCCCTCCATCTGTCTAAAGCACTTTTAATTTGACCCTAAGTAT-T
1 TTTCAACGCTTGAAACTCACCCCCTCCATCCGTCTAAAGCACTTTTAATTTGACCCCAAGTATAT
* * *
101198534 CTTTCAACTTGTTGGTGAAATTGAGGAAAGACTGTAGCAACATCTGA-CTTTTTCTTCAAAAAAT
66 -TTTCAACTTCTTGGTGAAATTGAGGAAAAACTGTAACAACATCT-ATCTTTTTCTTCAAAAAAT
101198598 AA
129 AA
101198600 AGTCATGTGT
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
137 1 0.01
138 119 0.98
139 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (138 bp):
TTTCAACGCTTGAAACTCACCCCCTCCATCCGTCTAAAGCACTTTTAATTTGACCCCAAGTATAT
TTTCAACTTCTTGGTGAAATTGAGGAAAAACTGTAACAACATCTATCTTTTTCTTCAAAAAATAA
TGCCACAT
Found at i:101204534 original size:30 final size:30
Alignment explanation
Indices: 101204493--101204655 Score: 197
Period size: 30 Copynumber: 5.4 Consensus size: 30
101204483 AATCTTAGCT
*
101204493 TTTTTCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
101204523 TTTTCCACCACCAACTCCACTAGCCA-ATCC
1 TTTTCCACCACCAACTCCACTAGCCACA-CC
101204553 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
* *
101204583 TCTTCCACCACCAAATCCACTAGCCACA-C
1 TTTTCCACCACCAACTCCACTAGCCACACC
* ** * *
101204612 TTGCTCCATTACCTACTCCACTAACCACA-C
1 TT-TTCCACCACCAACTCCACTAGCCACACC
*
101204642 TTGCTCCACCACCA
1 TT-TTCCACCACCA
101204656 CTTGTACCTA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
29 3 0.03
30 113 0.97
31 1 0.01
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:101205177 original size:23 final size:23
Alignment explanation
Indices: 101205140--101205269 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
101205130 CTTTTTTTAT
101205140 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
101205163 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
101205185 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
101205208 TATTACGTATATATAT-TTTATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
101205233 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
101205258 TATTATTTATAT
1 TATTATATATAT
101205270 ATATATATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 4 0.05
25 28 0.35
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:101205280 original size:16 final size:17
Alignment explanation
Indices: 101205226--101205281 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
101205216 ATATATATTT
*
101205226 TATACTATTT-TATGTA
1 TATACTATTTATATATA
*
101205242 TATA-TCTTTA-ATAT-
1 TATACTATTTATATATA
*
101205256 TATATTATTTATATATA
1 TATACTATTTATATATA
101205273 TATA-TATTT
1 TATACTATTT
101205282 TTTTTACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 13 0.39
17 4 0.12
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATACTATTTATATATA
Found at i:101205325 original size:22 final size:24
Alignment explanation
Indices: 101205297--101205355 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
101205287 ACATGTTATC
101205297 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
101205319 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
101205344 TTATGTACATAT
1 TTATGTATATAT
101205356 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:101205345 original size:25 final size:25
Alignment explanation
Indices: 101205313--101205361 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
101205303 ATATATCTTA
**
101205313 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
101205338 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
101205362 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:101205549 original size:7 final size:8
Alignment explanation
Indices: 101205514--101205553 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
101205504 TAATTATTAT
*
101205514 TATTATAA
1 TATTTTAA
*
101205522 TATTTTGA
1 TATTTTAA
101205530 TATTTTAA
1 TATTTTAA
101205538 TATTTT-A
1 TATTTTAA
101205545 TATTTTAA
1 TATTTTAA
101205553 T
1 T
101205554 TCACATCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TATTTTAA
Found at i:101205549 original size:15 final size:16
Alignment explanation
Indices: 101205514--101205553 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
101205504 TAATTATTAT
*
101205514 TATTATAATATTTTGA
1 TATTTTAATATTTTGA
101205530 TATTTTAATATTTT-A
1 TATTTTAATATTTTGA
101205545 TATTTTAAT
1 TATTTTAAT
101205554 TCACATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTTTAATATTTTGA
Found at i:101206953 original size:13 final size:14
Alignment explanation
Indices: 101206937--101206978 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
101206927 TTTCAATTTT
101206937 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
101206950 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
101206965 ATTTTAAATAATAT
1 ATTTT-AATAATAT
101206979 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:101206963 original size:16 final size:16
Alignment explanation
Indices: 101206941--101206977 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101206931 AATTTTATTT
101206941 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
101206958 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
101206973 TAATA
1 TAATA
101206978 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:101212503 original size:28 final size:27
Alignment explanation
Indices: 101212472--101212549 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 27
101212462 TTTTATAAAT
*
101212472 TATTTATTTTACGTTTTTATATATATA
1 TATTTATTTTAAGTTTTTATATATATA
* *
101212499 CTATTTATTTTAAGCTTTTACATAT-TA
1 -TATTTATTTTAAGTTTTTATATATATA
*
101212526 TA--TATTTTAAATTTTTATATATAT
1 TATTTATTTTAAGTTTTTATATATAT
101212550 TATGTAGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 17 0.40
25 1 0.02
26 2 0.05
27 2 0.05
28 21 0.49
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTATTTTAAGTTTTTATATATATA
Found at i:101212547 original size:24 final size:24
Alignment explanation
Indices: 101212462--101212547 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
101212452 TCTTAAATTA
* * *
101212462 TTTTATAAATTATTTATTTTACGT
1 TTTTATATATTATATATTTTAAGT
*
101212486 TTTTATATATATACTATTTATTTTAAGC
1 TTTTATATAT-TA-TA--TATTTTAAGT
* *
101212514 TTTTACATATTATATATTTTAAAT
1 TTTTATATATTATATATTTTAAGT
101212538 TTTTATATAT
1 TTTTATATAT
101212548 ATTATGTAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
24 26 0.52
25 2 0.04
26 3 0.06
27 2 0.04
28 17 0.34
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTATATATTATATATTTTAAGT
Found at i:101212563 original size:26 final size:26
Alignment explanation
Indices: 101212514--101212573 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
101212504 TATTTTAAGC
* * *
101212514 TTTTACATATTATATATTTTAAATT-
1 TTTTATATATTATATAGTTCAAATTA
*
101212539 TTTATATATATTATGTAGTTCAAATTA
1 TTT-TATATATTATATAGTTCAAATTA
101212566 TTTTATAT
1 TTTTATAT
101212574 GTCATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTATATATTATATAGTTCAAATTA
Found at i:101212627 original size:25 final size:26
Alignment explanation
Indices: 101212578--101212627 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
101212568 TTATATGTCA
101212578 TTTATTTTAAAAAATTTTATATATTG
1 TTTATTTTAAAAAATTTTATATATTG
*
101212604 TTTA-TTTAAAACCATTTTAT-TATT
1 TTTATTTTAAAA-AATTTTATATATT
101212628 ATTCACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTATTTTAAAAAATTTTATATATTG
Found at i:101212637 original size:26 final size:25
Alignment explanation
Indices: 101212565--101212638 Score: 60
Period size: 26 Copynumber: 2.9 Consensus size: 25
101212555 AGTTCAAATT
* * *
101212565 ATTTTATATGTCATTTATTTTAAAAA
1 ATTTTATATATTATTCA-TTTAAAAA
* * *
101212591 ATTTTATATATTGTTTATTTAAAACC
1 ATTTTATATATTATTCATTTAAAA-A
101212617 ATTTTAT-TATTATTCACTTTAA
1 ATTTTATATATTATTCA-TTTAA
101212639 GTTTTATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 14 0.35
26 26 0.65
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
ATTTTATATATTATTCATTTAAAAA
Found at i:101216453 original size:19 final size:19
Alignment explanation
Indices: 101216429--101216482 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
101216419 AACGTCTCTT
101216429 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
101216448 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
101216467 TATGCATTAAATTTCA
1 TTTGCATTACATTTCA
101216483 CGGAAAGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:101224326 original size:44 final size:44
Alignment explanation
Indices: 101224232--101224350 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
101224222 GTGAATTCAC
* * * * *
101224232 AAATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGC
1 AAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGATGGA
* * *
101224276 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCA-GATCGAATATGGA
1 AAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCT-GAAGATGGA
* *
101224320 AAATCTTGTCTCTCTAAGCAATAGTGGAGCA
1 AAATCTTGTCTCCCTAAGCAGTAGTGGAGCA
101224351 TATTTAAGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.03
44 61 0.97
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGATGGA
Found at i:101224647 original size:88 final size:88
Alignment explanation
Indices: 101224390--101224693 Score: 427
Period size: 88 Copynumber: 3.5 Consensus size: 88
101224380 GTGGAGCAGG
101224390 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCT
**
101224455 CCCTGAAATGGCATTAAAGCGAC
66 CCCTGAAATGGCATTGGAGCGAC
* * * *
101224478 TCAAAGCCATAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCT
* *
101224543 CCCTAAAATGGAATTGGAGCGAC
66 CCCTGAAATGGCATTGGAGCGAC
* *
101224566 TCGAAGCCACAATTCTTATCTCCTTAAAGTTTCAGCGGAGTAGATCGGAA-CTAAAAATCTCTTC
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATC-GAAGCTACAAATCTCTTC
101224630 TCCCTGAAATGGCATTGGAGCGA-
65 TCCCTGAAATGGCATTGGAGCGAC
* * *
101224653 TTGAAGCCACTAA-ACATTATCTACC-TGAAGTTGCAGCGGAG
1 TCGAAGCCAC-AATTC-TTATCT-CCTTGAAGTTTCAGCGGAG
101224694 CCTACTGAAG
Statistics
Matches: 192, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
87 10 0.05
88 177 0.92
89 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (88 bp):
TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCT
CCCTGAAATGGCATTGGAGCGAC
Found at i:101224761 original size:176 final size:176
Alignment explanation
Indices: 101224379--101224781 Score: 408
Period size: 176 Copynumber: 2.3 Consensus size: 176
101224369 ATTAAGCAGC
** * * * *
101224379 AGTGGAGCAGGTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTAC
1 AGTGGAGCAAATCGAAGACACAAGTCTTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAAGCTAA
*
101224444 AAATCTCTTCTCCCTGAAATGGCATTAAAGCGACTCAAAGCCATAATTCTTATCTCCTTGAAGTT
66 AAATCTCTTCTCCCTGAAATGGCATTAAAGCGACTCAAAGCCATAATACTTATCTCCTTGAAGTT
*
101224509 CCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGGA
131 CCAGCAGAGTAGATCGAAGCTACAAACCTCTTCTCCCTAAAATGGA
* * * * *
101224555 ATTGGAGCGACTCGAAGCCACAATTCTTATCTCCTTAAAGTTTCAGCGGAGTAGATCGGAA-CTA
1 AGTGGAGCAAATCGAAGACACAAGTCTTATCTCCTTAAAGTTTCAGCGGAGTAGATC-GAAGCTA
** **
101224619 AAAATCTCTTCTCCCTGAAATGGCATTGGAGCGA-TTGAAGCCACTAA-ACATTATCTACC-TGA
65 AAAATCTCTTCTCCCTGAAATGGCATTAAAGCGACTCAAAGCCA-TAATAC-TTATCT-CCTTGA
* * * * * * *
101224681 AGTTGCAGCGGAGCCTA-CT-GAAGTTACAAACCT-TATCTCCCTGAAGT-TA
127 AGTTCCAGCAGAG--TAGATCGAAGCTACAAACCTCT-TCTCCCTAAAATGGA
* * * * * *
101224730 CAGTGGAGCAAATTGAAGATACTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
1 -AGTGGAGCAAATCGAAGACACAAGTCTTATCTCCTTAAAGTTTCAGCGGAG
101224782 CAGACTGAAG
Statistics
Matches: 189, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
175 10 0.05
176 171 0.90
177 6 0.03
178 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (176 bp):
AGTGGAGCAAATCGAAGACACAAGTCTTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAAGCTAA
AAATCTCTTCTCCCTGAAATGGCATTAAAGCGACTCAAAGCCATAATACTTATCTCCTTGAAGTT
CCAGCAGAGTAGATCGAAGCTACAAACCTCTTCTCCCTAAAATGGA
Found at i:101224818 original size:132 final size:134
Alignment explanation
Indices: 101224669--101224919 Score: 353
Period size: 132 Copynumber: 1.9 Consensus size: 134
101224659 CCACTAAACA
* ** * *
101224669 TTATCTACCTGAAGTTGCAGCGGAGCCTACTGAAGTTACAAACCTTATCTCCCTGAAGTTACAGT
1 TTATCTACCTAAAGTTGCAGCGGAGCAGACTGAAGCTACAAACCTTATCTCCCTGAAATTACAGT
* *
101224734 GGAGCAAATTGAAGATACT-A-GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGACATC
66 GGAGCAAATTGAAGATACTAAGGTCTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAAGACATC
101224797 AATC
131 AATC
* * *
101224801 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCCCTGAAATTACAGT
1 TTATCTACCTAAAGTTGCAGCGGAGCAGACTGAAGCTACAAACCTTATCTCCCTGAAATTACAGT
** * * *
101224866 GGAGCAGGTTGAAGATAGTAAGGTCTTATTTCCCTGAAGTTACAGTAGAGCAGA
66 GGAGCAAATTGAAGATACTAAGGTCTTATCTCCCTAAAGTTACAGTAGAGCAGA
101224920 TTAAAGTTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
132 73 0.72
133 1 0.01
134 28 0.27
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (134 bp):
TTATCTACCTAAAGTTGCAGCGGAGCAGACTGAAGCTACAAACCTTATCTCCCTGAAATTACAGT
GGAGCAAATTGAAGATACTAAGGTCTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAAGACATC
AATC
Found at i:101224866 original size:44 final size:44
Alignment explanation
Indices: 101224377--101225126 Score: 310
Period size: 44 Copynumber: 16.9 Consensus size: 44
101224367 CTATTAAGCA
* * * * * *
101224377 GCAGTGGAGCAGGTCGAAGCCACAATTCTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAATT
* * * * *
101224421 TCAGCGGAGTAGATCGAAGCTACAAATCTCT-TCTCCCTGAAATG
1 GCAGTGGAGCAGATTGAAGCTACAAATCT-TATCTCCCTGAAATT
* ** ** * * * * *
101224465 GCATTAAAGC-GACTCAAAGCCATAATTCTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGA-TTGAAGCTACAAATCTTATCTCCCTGAAATT
* ** * * * *
101224509 CCAGCAGAGTAGATCGAAGCTACAAATCTCT-TCTCCCTAAAATG
1 GCAGTGGAGCAGATTGAAGCTACAAATCT-TATCTCCCTGAAATT
* * * * * *
101224553 GAATTGGAGC-GACTCGAAGCCACAATTCTTATCT-CCTTAAAGTT
1 GCAGTGGAGCAGA-TTGAAGCTACAAATCTTATCTCCCTGAAA-TT
* * * * * *
101224597 TCAGCGGAGTAGATCGGAA-CTAAAAATCTCT-TCTCCCTGAAATG
1 GCAGTGGAGCAGAT-TGAAGCTACAAATCT-TATCTCCCTGAAATT
* * * *
101224641 GCATTGGAGC-GATTGAAGCCACTAAA-CATTATCTACCTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTAC-AAATC-TTATCTCCCTGAAATT
* ** * * * *
101224685 GCAGCGGAGCCTACTGAAGTTACAAACCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAATT
* * * * *
101224729 ACAGTGGAGCAAATTGAAGATACTAGTCTTATCTCCCT-AAAGTT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAA-TT
*
101224773 GCAGTGGAGCAGACTGAAG--ACATCAATCTTATCTCCCT-AAAGTT
1 GCAGTGGAGCAGATTGAAGCTACA--AATCTTATCTCCCTGAAA-TT
*
101224817 GCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCCCTGAAATT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAATT
* * * * * * *
101224861 ACAGTGGAGCAGGTTGAAGATAGTAAGGTCTTATTTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTA-CAA-ATCTTATCTCCCTGAAATT
* * * * * * *
101224907 ACAGTAGAGCAGATTAAAGTTATAAATCTTATAC-CTCTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAATT
* ** * * *
101224951 GCAGTAGG-TC-GAATCAAATCTACCATGATGAATCTTATCTCCTTGAAGTT
1 GCAGT-GGAGCAG-ATTGAAGCTA-C---A--AATCTTATCTCCCTGAAATT
* *
101225001 GCAGTGGAGCAGATTGAAGCCACAAA-CTTTATCTCCCTAAAATT
1 GCAGTGGAGCAGATTGAAGCTACAAATC-TTATCTCCCTGAAATT
* * * * * *
101225045 GCAATGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAATT
* * * * * * * *
101225089 GTAGCGGAGCAAACTGAAACCACAAATCTCATATCCCT
1 GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCT
101225127 TGAAGATGCA
Statistics
Matches: 523, Mismatches: 143, Indels: 80
0.70 0.19 0.11
Matches are distributed among these distances:
42 5 0.01
43 23 0.04
44 389 0.74
45 35 0.07
46 37 0.07
48 1 0.00
49 4 0.01
50 28 0.05
51 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
GCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAATT
Found at i:101228423 original size:46 final size:48
Alignment explanation
Indices: 101228319--101228432 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 48
101228309 TGTCTTCGAC
* * * *
101228319 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGACTCATTCATGTCTCCAAAGCCATATATATATAAT
* * *
101228367 ATGGGCTTACATGACTCATTCATGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGACTCATTCATGTCTCCAAAGCCATATATATATAAT
*
101228413 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGACTCATT
101228433 TCTGTCCTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 21 0.37
47 1 0.02
48 35 0.61
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCATGTCTCCAAAGCCATATATATATAAT
Found at i:101229843 original size:130 final size:130
Alignment explanation
Indices: 101229687--101229957 Score: 343
Period size: 131 Copynumber: 2.1 Consensus size: 130
101229677 GCCTTATTTT
* * * * *
101229687 AGAA-TTTTAAAAATATGAGTGAAATTCTAAGGGA-TATTCAATTATTTTGAACAAA-CGGAAAA
1 AGAATTTTTAAAAACATGAGTGAAATTCCAAAGGAGTATTCAAGTATTTTGAACAAATAGG-AAA
* * *
101229749 TTGCAACCCAGCACGATAGGGCACTG-TTCCCCGAATTTCCAAACACCAAATATTGCCTTCGTTT
65 TTGCAACCCAGCACGATAGGGCA-TGATTCCCCGAATTGCCAAACACCAAACATCGCCTTCG-TT
*
101229813 TGA
128 TAA
* ** *
101229816 AGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAGTATTTGAGTATTTTGGACAAATAGGAAAT
1 AGAATTTTTAAAAACATGAGTGAAATTCCAAAGGAGTATTCAAGTATTTTGAACAAATAGGAAAT
* * *
101229881 TGCAACCTAGCACGATAGGGCATGATTCCTCGAATTGCCAAACATCAAACATCGCCTTCGTTTAA
66 TGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACACCAAACATCGCCTTCGTTTAA
101229946 AGAATTTTTAAA
1 AGAATTTTTAAA
101229958 TGGATAATTA
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
129 4 0.03
130 44 0.36
131 72 0.59
132 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (130 bp):
AGAATTTTTAAAAACATGAGTGAAATTCCAAAGGAGTATTCAAGTATTTTGAACAAATAGGAAAT
TGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACACCAAACATCGCCTTCGTTTAA
Found at i:101230303 original size:15 final size:16
Alignment explanation
Indices: 101230285--101230314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101230275 TATATGAAAT
101230285 AATATA-AAAACAATC
1 AATATACAAAACAATC
101230300 AATATACAAAACAAT
1 AATATACAAAACAAT
101230315 ATAGAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (16 bp):
AATATACAAAACAATC
Found at i:101230315 original size:27 final size:26
Alignment explanation
Indices: 101230267--101230317 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
101230257 AATAATATGC
** *
101230267 AACAATAATATATGAAATAATATAAA
1 AACAATAATATACAAAACAATATAAA
101230293 AACAATCAATATACAAAACAATATA
1 AACAAT-AATATACAAAACAATATA
101230318 GAAATTAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.24
Consensus pattern (26 bp):
AACAATAATATACAAAACAATATAAA
Found at i:101232018 original size:26 final size:25
Alignment explanation
Indices: 101231975--101232023 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
101231965 GCCTCTACAC
101231975 TTTATTTTAAATAGTTTTATACATTA
1 TTTATTTTAAATAGTTTT-TACATTA
* **
101232001 TTTATTTTAGATTTTTTTTACAT
1 TTTATTTTAAATAGTTTTTACAT
101232024 ATTAGTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTATTTTAAATAGTTTTTACATTA
Found at i:101232212 original size:24 final size:24
Alignment explanation
Indices: 101232182--101232264 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
101232172 TCTTAAATTA
*
101232182 TTTTATAAATTATTTATTTTATGT
1 TTTTATAAATTATTTATTTTAAGT
101232206 TTTTATATATATACTATTTATTTTAAGT
1 TTTTATA-A-AT--TATTTATTTTAAGT
* * * *
101232234 TTTTACATATTATATATTTTAAAT
1 TTTTATAAATTATTTATTTTAAGT
101232258 TTTTATA
1 TTTTATA
101232265 TATATTATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
24 25 0.51
25 1 0.02
26 4 0.08
28 19 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTATAAATTATTTATTTTAAGT
Found at i:101232223 original size:28 final size:27
Alignment explanation
Indices: 101232192--101232269 Score: 99
Period size: 28 Copynumber: 3.0 Consensus size: 27
101232182 TTTTATAAAT
*
101232192 TATTTATTTTATGTTTTTATATATATA
1 TATTTATTTTAAGTTTTTATATATATA
*
101232219 CTATTTATTTTAAGTTTTTACATAT-TA
1 -TATTTATTTTAAGTTTTTATATATATA
*
101232246 TA--TATTTTAAATTTTTATATATAT
1 TATTTATTTTAAGTTTTTATATATAT
101232270 TATGTAGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
24 18 0.40
25 1 0.02
26 2 0.04
27 2 0.04
28 22 0.49
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (27 bp):
TATTTATTTTAAGTTTTTATATATATA
Found at i:101232283 original size:26 final size:28
Alignment explanation
Indices: 101232240--101232293 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
101232230 AAGTTTTTAC
* *
101232240 ATATTATATATTTTAAATT-TTT-ATAT
1 ATATTATATAGTTCAAATTATTTGATAT
*
101232266 ATATTATGTAGTTCAAATTATTTGATAT
1 ATATTATATAGTTCAAATTATTTGATAT
101232294 GTCATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
27 3 0.13
28 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (28 bp):
ATATTATATAGTTCAAATTATTTGATAT
Found at i:101236580 original size:15 final size:16
Alignment explanation
Indices: 101236560--101236597 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
101236550 CAATTACATG
101236560 TTTTGTTC-AATTAAC
1 TTTTGTTCTAATTAAC
101236575 TTTTGTTCTAATTAAC
1 TTTTGTTCTAATTAAC
101236591 TTTTGTT
1 TTTTGTT
101236598 TTGTTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.61
Consensus pattern (16 bp):
TTTTGTTCTAATTAAC
Found at i:101237067 original size:23 final size:24
Alignment explanation
Indices: 101237037--101237099 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
101237027 GTGTGCTTTT
* *
101237037 TAATATTTATATTATTT-TTAATC
1 TAATATTTATATTATTTAATAATA
* *
101237060 TAATATTTA-ATAATTTAATATTA
1 TAATATTTATATTATTTAATAATA
101237083 TAATATTTTATATTATT
1 TAATA-TTTATATTATT
101237100 ATAGATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 6 0.19
23 17 0.53
24 4 0.12
25 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATATTTATATTATTTAATAATA
Found at i:101237078 original size:15 final size:16
Alignment explanation
Indices: 101237055--101237110 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
101237045 ATATTATTTT
*
101237055 TAATCTAATATT-TAA
1 TAATTTAATATTATAA
101237070 TAATTTAATATTATAA
1 TAATTTAATATTATAA
* *
101237086 T-ATTTTATATTATTA
1 TAATTTAATATTATAA
101237101 TAGATTTAAT
1 TA-ATTTAAT
101237111 TTGTGTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 24 0.71
16 4 0.12
17 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATTTAATATTATAA
Found at i:101237290 original size:34 final size:34
Alignment explanation
Indices: 101237247--101237314 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
101237237 ATAATCTTTC
101237247 TTACTTTTGAGATAAGTAAAGCTTGCTATCCATT
1 TTACTTTTGAGATAAGTAAAGCTTGCTATCCATT
101237281 TTACTTTTGAGATAAGTAAAGCTTGCTATCCATT
1 TTACTTTTGAGATAAGTAAAGCTTGCTATCCATT
101237315 AGGAGAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (34 bp):
TTACTTTTGAGATAAGTAAAGCTTGCTATCCATT
Found at i:101241374 original size:14 final size:15
Alignment explanation
Indices: 101241350--101241380 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
101241340 AATAAGTAAT
101241350 AATATTTTTTTTAAA
1 AATATTTTTTTTAAA
101241365 AATA-TTTTTTTAAA
1 AATATTTTTTTTAAA
101241379 AA
1 AA
101241381 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATTTTTTTTAAA
Found at i:101241381 original size:15 final size:15
Alignment explanation
Indices: 101241350--101241381 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
101241340 AATAAGTAAT
*
101241350 AATATTTTTTTTAAA
1 AATATTTTTTTAAAA
101241365 AATATTTTTTTAAAA
1 AATATTTTTTTAAAA
101241380 AA
1 AA
101241382 ATAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATATTTTTTTAAAA
Found at i:101241517 original size:25 final size:25
Alignment explanation
Indices: 101241485--101241546 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
101241475 TATATATGTA
* *
101241485 TAAT-AAATATATAAGATTAAATTT
1 TAATAAAATATATAAAATTAAACTT
* *
101241509 TATTAAAATCTATAAAATTAAACTT
1 TAATAAAATATATAAAATTAAACTT
101241534 TAATAATAATATA
1 TAATAA-AATATA
101241547 ATAATATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 3 0.10
25 22 0.73
26 5 0.17
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (25 bp):
TAATAAAATATATAAAATTAAACTT
Found at i:101242387 original size:19 final size:18
Alignment explanation
Indices: 101242360--101242395 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
101242350 TATATGAACT
*
101242360 ATTAATATATGATATAGC
1 ATTAATATATAATATAGC
101242378 ATTAATTATATAATATAG
1 ATTAA-TATATAATATAG
101242396 TAGGAGGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTAATATATAATATAGC
Found at i:101242799 original size:5 final size:5
Alignment explanation
Indices: 101242789--101242825 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
101242779 ATTATTAATT
101242789 TATGA TATGA TATGA TATGA TAT-A TATGA TATGA TAT
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TAT
101242826 AACATTACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (5 bp):
TATGA
Found at i:101243044 original size:18 final size:17
Alignment explanation
Indices: 101243012--101243045 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
101243002 ATCATTGATG
101243012 AATATATATAAACTATC
1 AATATATATAAACTATC
*
101243029 AATATATTATATACTAT
1 AATATA-TATAAACTAT
101243046 ATGATATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATATAAACTATC
Found at i:101243052 original size:5 final size:5
Alignment explanation
Indices: 101243044--101243072 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
101243034 ATTATATACT
101243044 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
101243073 AGCATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:101247912 original size:26 final size:26
Alignment explanation
Indices: 101247883--101247990 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
101247873 TGGTACAAAT
101247883 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
101247909 TGATAATGGATTAGGAAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101247935 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101247961 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101247987 TGAT
1 TGAT
101247991 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101249504 original size:26 final size:26
Alignment explanation
Indices: 101249475--101249527 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
101249465 TTTACAGTTT
101249475 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* * *
101249501 TACCCTTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
101249527 T
1 T
101249528 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:101254947 original size:26 final size:26
Alignment explanation
Indices: 101254918--101255025 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
101254908 TGGTACAAAT
101254918 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
101254944 TGATAATGGATTTGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101254970 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101254996 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101255022 TGAT
1 TGAT
101255026 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101259268 original size:38 final size:38
Alignment explanation
Indices: 101259212--101259295 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
101259202 AACTAGTCCT
* * *
101259212 GCTTAGTGCCTAGTAGGCTTAATGCTAGTGTTATTTAG
1 GCTTAGTGCCTAGCAGGCTTAATGCCAGTGTTATTCAG
* *
101259250 GCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAG
1 GCTTAGTGCCTAGCAGGCTTAATGCCAGTGTTATTCAG
*
101259288 GGTTAGTG
1 GCTTAGTG
101259296 TCGATGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (38 bp):
GCTTAGTGCCTAGCAGGCTTAATGCCAGTGTTATTCAG
Found at i:101259288 original size:22 final size:22
Alignment explanation
Indices: 101259263--101259314 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
101259253 TAGTGCCTAG
*
101259263 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGATGTTATT
* * *
101259285 CAGGGTTAGTGTCGATGTTTTT
1 CAGGCTTAGTGCCGATGTTATT
101259307 CAGGCTTA
1 CAGGCTTA
101259315 TTGCAATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (22 bp):
CAGGCTTAGTGCCGATGTTATT
Found at i:101264557 original size:9 final size:9
Alignment explanation
Indices: 101264545--101264628 Score: 57
Period size: 9 Copynumber: 9.4 Consensus size: 9
101264535 TTAAAACTAA
101264545 AAAAAATAT
1 AAAAAATAT
*
101264554 -AAAAATCTT
1 AAAAAAT-AT
101264563 AAAAAA-AT
1 AAAAAATAT
* *
101264571 ACAAAATTT
1 AAAAAATAT
* *
101264580 TAAAATTAT
1 AAAAAATAT
*
101264589 TAAAAATCAT
1 AAAAAAT-AT
*
101264599 AAAATATAT
1 AAAAAATAT
*
101264608 -AGAAATAT
1 AAAAAATAT
101264616 AAAAAATAT
1 AAAAAATAT
101264625 AAAA
1 AAAA
101264629 TTTTATAAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
8 18 0.32
9 26 0.46
10 12 0.21
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:101264577 original size:18 final size:19
Alignment explanation
Indices: 101264544--101264628 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 19
101264534 ATTAAAACTA
101264544 AAAAAAATATAAAAATCTT
1 AAAAAAATATAAAAATCTT
* *
101264563 AAAAAAATA-CAAAATTTT
1 AAAAAAATATAAAAATCTT
** *
101264581 AAAATTAT-TAAAAATCAT
1 AAAAAAATATAAAAATCTT
* * *
101264599 -AAAATATATAGAAAT-AT
1 AAAAAAATATAAAAATCTT
101264616 -AAAAAATATAAAA
1 AAAAAAATATAAAA
101264629 TTTTATAAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
17 19 0.36
18 25 0.47
19 9 0.17
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (19 bp):
AAAAAAATATAAAAATCTT
Found at i:101264635 original size:19 final size:19
Alignment explanation
Indices: 101264545--101264637 Score: 56
Period size: 17 Copynumber: 5.2 Consensus size: 19
101264535 TTAAAACTAA
*
101264545 AAAAAATATAAAAATCTTA-
1 AAAAAATAT-AAAATTTTAT
*
101264564 AAAAAATACAAAATTTTA-
1 AAAAAATATAAAATTTTAT
** * *
101264582 AAATTAT-TAAAA-ATCAT
1 AAAAAATATAAAATTTTAT
*
101264599 AAAATATATAGAAA---TAT
1 AAAAAATATA-AAATTTTAT
101264616 AAAAAATATAAAATTTTAT
1 AAAAAATATAAAATTTTAT
101264635 AAA
1 AAA
101264638 GCCATAAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 5 0.09
17 21 0.36
18 15 0.26
19 17 0.29
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAAATATAAAATTTTAT
Found at i:101265475 original size:2 final size:2
Alignment explanation
Indices: 101265468--101265502 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
101265458 TTTCTCGTAT
101265468 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
101265503 TTATACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:101270400 original size:169 final size:169
Alignment explanation
Indices: 101270121--101270461 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 169
101270111 CAGACAAATA
101270121 TAACTATATAAACACATAGAATTTTTTATTCATCTTAGAATGAGTATATGAAGAGGTTGTTTCAA
1 TAACTATATAAACACATAGAATTTTTTATTCATCTTAGAATGAGTATATGAAGAGGTTGTTTCAA
101270186 TGAATCTCCTCCTTTATAACCTTGATGTTAAGACCAATTCCCTTGAAAAACGGTTTTTAAGAAAA
66 TGAATCTCCTCCTTTATAACCTTGATGTTAAGACCAATTCCCTTGAAAAACGGTTTTTAAGAAAA
101270251 CAATTTCAGTTGGTTCACTTTCATACATAAGTCAGTTTC
131 CAATTTCAGTTGGTTCACTTTCATACATAAGTCAGTTTC
101270290 TAACTATATAAACACATAGAATTTTTTATTCATCTTAGAATGAGTATATGAAGAGGTTGTTTCAA
1 TAACTATATAAACACATAGAATTTTTTATTCATCTTAGAATGAGTATATGAAGAGGTTGTTTCAA
101270355 TGAATCTCCTCCTTTATAACCTTGATGTTAAGACCAATTCCCTTGAAAAACGGTTTTTAAGAAAA
66 TGAATCTCCTCCTTTATAACCTTGATGTTAAGACCAATTCCCTTGAAAAACGGTTTTTAAGAAAA
*
101270420 CAATTTCAGTTGGTTCACTTTCATATATAAGTCAGTTTC
131 CAATTTCAGTTGGTTCACTTTCATACATAAGTCAGTTTC
101270459 TAA
1 TAA
101270462 ATTACATTCT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (169 bp):
TAACTATATAAACACATAGAATTTTTTATTCATCTTAGAATGAGTATATGAAGAGGTTGTTTCAA
TGAATCTCCTCCTTTATAACCTTGATGTTAAGACCAATTCCCTTGAAAAACGGTTTTTAAGAAAA
CAATTTCAGTTGGTTCACTTTCATACATAAGTCAGTTTC
Found at i:101275428 original size:18 final size:18
Alignment explanation
Indices: 101275405--101275439 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101275395 AGCAGCAGCA
*
101275405 GAACCTGTTAAAGAATCT
1 GAACCTGATAAAGAATCT
*
101275423 GAACCTGATGAAGAATC
1 GAACCTGATAAAGAATC
101275440 AGAGCCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (18 bp):
GAACCTGATAAAGAATCT
Found at i:101287564 original size:50 final size:50
Alignment explanation
Indices: 101287489--101287589 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
101287479 ACAGGACAAT
101287489 ACTCAAACCGTAAAAGGGATGGGGATACATGTAGTTTATACAAAATAAAA
1 ACTCAAACCGTAAAAGGGATGGGGATACATGTAGTTTATACAAAATAAAA
* * * *
101287539 ACTCAGACCGTAAAATGGATTGGGATACATGTGGTTTATACAAAATAAAA
1 ACTCAAACCGTAAAAGGGATGGGGATACATGTAGTTTATACAAAATAAAA
101287589 A
1 A
101287590 GAAGCAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (50 bp):
ACTCAAACCGTAAAAGGGATGGGGATACATGTAGTTTATACAAAATAAAA
Found at i:101309848 original size:26 final size:26
Alignment explanation
Indices: 101309818--101309931 Score: 192
Period size: 26 Copynumber: 4.4 Consensus size: 26
101309808 AAAAGACATG
*
101309818 CCCATTATCATGGAATATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
*
101309844 TCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
*
101309870 CCCATTATCATGGAATATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
*
101309896 TCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
101309922 CCCATTATCA
1 CCCATTATCA
101309932 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (26 bp):
CCCATTATCATGGAACATTTACCTAA
Found at i:101309874 original size:52 final size:52
Alignment explanation
Indices: 101309818--101309931 Score: 228
Period size: 52 Copynumber: 2.2 Consensus size: 52
101309808 AAAAGACATG
101309818 CCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAA
101309870 CCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAA
101309922 CCCATTATCA
1 CCCATTATCA
101309932 ATTTGTACCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (52 bp):
CCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAA
Found at i:101311214 original size:6 final size:6
Alignment explanation
Indices: 101311203--101311235 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
101311193 AGTCCATTTG
101311203 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
101311236 GTCCTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:101311243 original size:18 final size:18
Alignment explanation
Indices: 101311204--101311243 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101311194 GTCCATTTGT
* *
101311204 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATTTGTAC
*
101311222 TTTTATTTTTATTTGTCC
1 TTTTATTTTTATTTGTAC
101311240 TTTT
1 TTTT
101311244 CTTCTTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTATTTGTAC
Found at i:101327550 original size:20 final size:20
Alignment explanation
Indices: 101327508--101327571 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
101327498 TTTGATTTTT
*
101327508 TTTTAACATATTTATTAAT-A
1 TTTTAATATATTT-TTAATAA
101327528 TTTTAATATATTTTTAATAA
1 TTTTAATATATTTTTAATAA
*
101327548 TTTGT-ATTTATTTTTAATAA
1 TTT-TAATATATTTTTAATAA
101327568 TTTT
1 TTTT
101327572 TAATTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.15
20 33 0.82
21 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAATATATTTTTAATAA
Found at i:101327572 original size:10 final size:10
Alignment explanation
Indices: 101327518--101327575 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
101327508 TTTTAACATA
*
101327518 TTTATTAATAT
1 TTTAATAAT-T
101327529 TTTAATATATT
1 TTTAATA-ATT
101327540 TTTAATAATT
1 TTTAATAATT
* * *
101327550 TGTATTTATT
1 TTTAATAATT
101327560 TTTAATAATT
1 TTTAATAATT
101327570 TTTAAT
1 TTTAAT
101327576 TTTTTAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 23 0.59
11 14 0.36
12 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTAATAATT
Found at i:101331752 original size:22 final size:20
Alignment explanation
Indices: 101331727--101331771 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
101331717 ATTTTTAATC
*
101331727 AATCTAATATATCTATTATATT
1 AATCTAAAATAT-TA-TATATT
101331749 AATCTAAAATATTATATATT
1 AATCTAAAATATTATATATT
101331769 AAT
1 AAT
101331772 AATTAGTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
22 11 0.50
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AATCTAAAATATTATATATT
Found at i:101332010 original size:10 final size:9
Alignment explanation
Indices: 101331997--101332029 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
101331987 GACATGTGAC
101331997 AAAAATAAT
1 AAAAATAAT
101332006 AAAAA-AAT
1 AAAAATAAT
101332014 AAAAATCAAT
1 AAAAAT-AAT
101332024 AAAAAT
1 AAAAAT
101332030 TATTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATAAT
Found at i:101332052 original size:18 final size:18
Alignment explanation
Indices: 101331997--101332066 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
101331987 GACATGTGAC
*
101331997 AAAAA-TAATAAAAAAAT
1 AAAAATTAATAAAAAATT
*
101332014 AAAAATCAATAAAAATTATT
1 AAAAATTAATAAAAA--ATT
**
101332034 AAATTTTAATAAAAAATT
1 AAAAATTAATAAAAAATT
* *
101332052 AAAAGTTATTAAAAA
1 AAAAATTAATAAAAA
101332067 TAGAAAAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.12
18 23 0.55
20 14 0.33
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAATTAATAAAAAATT
Found at i:101332098 original size:19 final size:19
Alignment explanation
Indices: 101332076--101332134 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
101332066 ATAGAAAAGG
101332076 AATTATAAAAATTGTAAAA
1 AATTATAAAAATTGTAAAA
*
101332095 AATTATAAAAAATGTAAAGA
1 AATTATAAAAATTGTAAA-A
101332115 AA-TAT-AAAATTCGTAAAA
1 AATTATAAAAATT-GTAAAA
101332133 AA
1 AA
101332135 AACTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 8 0.22
19 25 0.69
20 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AATTATAAAAATTGTAAAA
Done.