Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 433 of 444
Found at i:125452962 original size:2 final size:2
Alignment explanation
Indices: 125452955--125452985 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
125452945 GACATGTTTT
125452955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125452986 TTGATGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125455160 original size:16 final size:15
Alignment explanation
Indices: 125455125--125455157 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
125455115 ATCTTTAAAC
125455125 TTTAATTTAATTATT
1 TTTAATTTAATTATT
125455140 TTTAATTTGAA-TATT
1 TTTAATTT-AATTATT
125455155 TTT
1 TTT
125455158 TAAATCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTAATTTAATTATT
Found at i:125455402 original size:6 final size:6
Alignment explanation
Indices: 125455393--125455421 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
125455383 TAATGAGAAT
125455393 GATAAA GATAAA GATAAA GATAAA GATAA
1 GATAAA GATAAA GATAAA GATAAA GATAA
125455422 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GATAAA
Found at i:125455562 original size:15 final size:15
Alignment explanation
Indices: 125455538--125455571 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
125455528 AGTCTTTGAA
*
125455538 TTTTAATTTAATTAT
1 TTTTAATTTAAATAT
*
125455553 TTTTAGTTTAAATAT
1 TTTTAATTTAAATAT
125455568 TTTT
1 TTTT
125455572 TTAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTAATTTAAATAT
Found at i:125458461 original size:34 final size:34
Alignment explanation
Indices: 125458421--125458488 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
125458411 TTTATGCATT
*
125458421 ATTTTATAGTGTCTTATTTATCATTATTGTACTA
1 ATTTTATAGTATCTTATTTATCATTATTGTACTA
125458455 ATTTTATAGTATCTTATTTATCATTATTGTACTA
1 ATTTTATAGTATCTTATTTATCATTATTGTACTA
125458489 TGCGTTATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (34 bp):
ATTTTATAGTATCTTATTTATCATTATTGTACTA
Found at i:125462729 original size:21 final size:22
Alignment explanation
Indices: 125462703--125462744 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
125462693 TTTTACATAT
125462703 TACCATTAAAT-TTA-ATTTTAA
1 TACCA-TAAATATTACATTTTAA
125462724 TACCATAAATATTACATTTTA
1 TACCATAAATATTACATTTTA
125462745 TCGTATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (22 bp):
TACCATAAATATTACATTTTAA
Found at i:125466358 original size:16 final size:15
Alignment explanation
Indices: 125466337--125466369 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
125466327 ACATACACCA
125466337 TTTATTCTTGTGATGG
1 TTTATTCTTGTGA-GG
125466353 TTTATTCTTGTGAGG
1 TTTATTCTTGTGAGG
125466368 TT
1 TT
125466370 GGAGAGCGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.58
Consensus pattern (15 bp):
TTTATTCTTGTGAGG
Found at i:125472347 original size:16 final size:17
Alignment explanation
Indices: 125472308--125472348 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
125472298 TATAATCTAT
125472308 ATTTAAAT-ATTATTAA
1 ATTTAAATAATTATTAA
*
125472324 ATAT-AATAATTA-TAA
1 ATTTAAATAATTATTAA
125472339 ATTTAAATAA
1 ATTTAAATAA
125472349 ATTCCAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTAAATAATTATTAA
Found at i:125477879 original size:27 final size:27
Alignment explanation
Indices: 125477839--125477893 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
125477829 GCACACGGAA
*
125477839 GTTGCTGGTTGCCATTGCGGCGCCTAG
1 GTTGCTGGTGGCCATTGCGGCGCCTAG
125477866 GTTGCTGGTGGCCATTGCGGCGCCTAG
1 GTTGCTGGTGGCCATTGCGGCGCCTAG
125477893 G
1 G
125477894 GTTTCTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.25, G:0.40, T:0.27
Consensus pattern (27 bp):
GTTGCTGGTGGCCATTGCGGCGCCTAG
Found at i:125478776 original size:143 final size:142
Alignment explanation
Indices: 125478548--125479116 Score: 678
Period size: 143 Copynumber: 4.0 Consensus size: 142
125478538 GGTTTGCGAC
* * * * * *
125478548 TTGTAG-TTTCAATCTGTTCCTCTGCGACTTCAGGGAAATAAAATTCG-TGGTCTTTAGTCTGCT
1 TTGTAGCTTT-AATCTATTCCACTACAACTT-AGGGAAATAAGATTCGCT-GTCTTCAGTCTGCT
* * * *
125478611 CCGCTGCAACTTTAGGGGGATAAGGCTGGTGGCTTCAATCTACTGCACTACAACTTC-GGAAAGA
63 CCGCTGCAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGG-AAGA
*
125478675 TAAGATTCACCATAAT
127 TAAGATTCGCCATAAT
* *
125478691 TTGTAGCTTTAATCTATTCCACTACAACGTTAGGAAAATAAGATTCGCTGTCTTCAGTCTACTCC
1 TTGTAGCTTTAATCTATTCCACTACAAC-TTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * *
125478756 GCTGCAACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGGAACTTCAGGAAGATGA
65 GCTGCAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAA
*
125478821 GATCCGCCATAAT
130 GATTCGCCATAAT
* * * * * *
125478834 TCGTAGCTTCAATCTATTCCACTGA-AACTTCAGGGAAATAAGATCCTCTTTCTTCAGCCTGCTC
1 TTGTAGCTTTAATCTATTCCACT-ACAACTT-AGGGAAATAAGATTCGCTGTCTTCAGTCTGCTC
* * ** *
125478898 TGCTGCAACTTTATAGAGATAAGGCCAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAATATA
64 CGCTGCAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATA
125478963 AGATTCGCCATAAT
129 AGATTCGCCATAAT
* * *
125478977 TTGTAGCTTTAATCTATTCTACTGCAATTTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTATTCCACTACAA-CTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * * * *
125479042 ACTGCAACTTTAGGGAGATAAGGCTGATGACTTCAATTTGCTCCACTGCAACTTCAGGAAAATAA
65 GCTGCAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAA
125479107 GATTCGCCAT
130 GATTCGCCAT
125479117 CTTTGATCTA
Statistics
Matches: 360, Mismatches: 58, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
142 2 0.01
143 347 0.96
144 11 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (142 bp):
TTGTAGCTTTAATCTATTCCACTACAACTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCG
CTGCAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAG
ATTCGCCATAAT
Found at i:125479063 original size:45 final size:44
Alignment explanation
Indices: 125478987--125479191 Score: 162
Period size: 44 Copynumber: 4.6 Consensus size: 44
125478977 TTGTAGCTTT
* * * * * *
125478987 AATCTATTCTACTGCAATTTTAGGGAAATAAGATTCGCTGTCTTC
1 AATCTACTCCACTGCAACTTTAGGGAGATAAGATT-GATGACTTC
* * **
125479032 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGATGACTTC
1 AATCTACTCCACTGCAACTTTAGGGAGATAAGATTGATGACTTC
* * * * * *
125479076 AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTCGCCAT--CTTT
1 AATCTACTCCACTGCAACTTTAGGGAGATAAGATT-G--ATGACTTC
* * * * *
125479121 GATCTACTCCACTGTAATTTTAAGGAGATAAGATTTATGACTTC
1 AATCTACTCCACTGCAACTTTAGGGAGATAAGATTGATGACTTC
*
125479165 AATCTACTCCACTGCTACTTTAGGGAG
1 AATCTACTCCACTGCAACTTTAGGGAG
125479192 TTGAGATTTG
Statistics
Matches: 121, Mismatches: 34, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
42 2 0.02
44 60 0.50
45 57 0.47
47 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTTAGGGAGATAAGATTGATGACTTC
Found at i:125479148 original size:89 final size:89
Alignment explanation
Indices: 125478987--125479184 Score: 218
Period size: 89 Copynumber: 2.2 Consensus size: 89
125478977 TTGTAGCTTT
* * * * * ** *
125478987 AATCTATTCTACTGCAATTTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTT
1 AATCTACTCCACTGCAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCACTGCAACTT
* *
125479052 TAGGGAGATAAGGCTGATGACTTC
66 TAAGGAGATAAGACTGATGACTTC
* * * * *
125479076 AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTCGCCATCTT-TGATCTACTCCACTGTAATT
1 AATCTACTCCACTGCAACTTCAGGAAAATAAGATTCGCCATCTTCAG-TCTACTCCACTGCAACT
* *
125479140 TTAAGGAGATAAGATTTATGACTTC
65 TTAAGGAGATAAGACTGATGACTTC
*
125479165 AATCTACTCCACTGCTACTT
1 AATCTACTCCACTGCAACTT
125479185 TAGGGAGTTG
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 1 0.01
89 87 0.99
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (89 bp):
AATCTACTCCACTGCAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCACTGCAACTT
TAAGGAGATAAGACTGATGACTTC
Found at i:125479605 original size:46 final size:46
Alignment explanation
Indices: 125479547--125479740 Score: 244
Period size: 46 Copynumber: 4.2 Consensus size: 46
125479537 AAATTTGTGG
* * *
125479547 CTTCTTCCATCTATCCCACTGCAACTCAAGGGTATAGGATTTATAC
1 CTTCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTATAT
* * * *
125479593 CATCTTCAATCTATCCCACTGCAGCTTAGGGGTATAGGATATATAT
1 CTTCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTATAT
* * **
125479639 CTTCTTCAATCCATCCCACTGCAATTCAGGGGTATAGGATTCGTAT
1 CTTCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTATAT
* * * **
125479685 CTTCTTCAATCTATCCCACTGCAACTTAGGGGTATATGATTTGTGG
1 CTTCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTATAT
125479731 CTTCTTCAAT
1 CTTCTTCAAT
125479741 TAATTTGATC
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (46 bp):
CTTCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTATAT
Found at i:125479735 original size:92 final size:92
Alignment explanation
Indices: 125479539--125479740 Score: 278
Period size: 92 Copynumber: 2.2 Consensus size: 92
125479529 GGGAGATAAA
* * *
125479539 ATTTGTGGCTTCTTCCATCTATCCCACTGCAACTCAAGGGTATAGGATTTATACCATCTTCAATC
1 ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTCATACCATCTTCAATC
*
125479604 TATCCCACTGCAGCTTAGGGGTATAGG
66 TATCCCACTGCAACTTAGGGGTATAGG
* * ** * * * * *
125479631 ATATATATCTTCTTCAATCCATCCCACTGCAATTCAGGGGTATAGGATTCGTATCTTCTTCAATC
1 ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTCATACCATCTTCAATC
*
125479696 TATCCCACTGCAACTTAGGGGTATATG
66 TATCCCACTGCAACTTAGGGGTATAGG
125479723 ATTTGTGGCTTCTTCAAT
1 ATTTGTGGCTTCTTCAAT
125479741 TAATTTGATC
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (92 bp):
ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTCATACCATCTTCAATC
TATCCCACTGCAACTTAGGGGTATAGG
Found at i:125480239 original size:65 final size:65
Alignment explanation
Indices: 125480131--125480252 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
125480121 AATGGACAAA
* * ** *
125480131 AAGGAAATTGATTGGGAGCATAACTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAG
1 AAGGAAACTGATTGGGAGCATAACTCAAAACAAATAAGTTAATCAAAGATAACAAATGTAATAAG
* *
125480196 AAGGAAACTGATTGGGAGCATAGCTCAAAACAAATACAG-TAATCAAGGATAACAAAT
1 AAGGAAACTGATTGGGAGCATAACTCAAAACAAATA-AGTTAATCAAAGATAACAAAT
125480253 TCAATATGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
65 47 0.96
66 2 0.04
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (65 bp):
AAGGAAACTGATTGGGAGCATAACTCAAAACAAATAAGTTAATCAAAGATAACAAATGTAATAAG
Found at i:125487817 original size:7 final size:7
Alignment explanation
Indices: 125487805--125487853 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
125487795 GAAAGAATGG
125487805 AAAAGAA
1 AAAAGAA
125487812 AAAAGAA
1 AAAAGAA
125487819 AAAAGAA
1 AAAAGAA
125487826 AGAAAGTTAA
1 A-AAAG--AA
* *
125487836 AAAACAT
1 AAAAGAA
125487843 AAAAGAA
1 AAAAGAA
125487850 AAAA
1 AAAA
125487854 AATTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 25 0.71
8 4 0.11
9 3 0.09
10 3 0.09
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (7 bp):
AAAAGAA
Found at i:125487837 original size:24 final size:24
Alignment explanation
Indices: 125487810--125487860 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
125487800 AATGGAAAAG
* * *
125487810 AAAAAAGAAAAAAGAAAGAAAGTT
1 AAAAAACAAAAAAGAAAAAAAATT
*
125487834 AAAAAACATAAAAGAAAAAAAATT
1 AAAAAACAAAAAAGAAAAAAAATT
125487858 AAA
1 AAA
125487861 TTTCTCAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (24 bp):
AAAAAACAAAAAAGAAAAAAAATT
Found at i:125490656 original size:6 final size:6
Alignment explanation
Indices: 125490645--125490690 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
125490635 TGTTTAAGTA
125490645 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATA
125490691 CTATAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:125496343 original size:20 final size:18
Alignment explanation
Indices: 125496318--125496354 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
125496308 AAGTAATTTT
125496318 AAATTTCAGAATATTTATAA
1 AAATTTCA-AA-ATTTATAA
125496338 AAATTTCAAAATTTATA
1 AAATTTCAAAATTTATA
125496355 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTTCAAAATTTATAA
Found at i:125496385 original size:18 final size:18
Alignment explanation
Indices: 125496332--125496385 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
125496322 TTCAGAATAT
* *
125496332 TTATAAAAATTTCAAAAT
1 TTATAAATATTTCAAAAA
* * **
125496350 TTATATATTTTTTTAAAA
1 TTATAAATATTTCAAAAA
125496368 TTATAAATATTTCAAAAA
1 TTATAAATATTTCAAAAA
125496386 ACTTCTAAAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAAATATTTCAAAAA
Found at i:125496436 original size:7 final size:8
Alignment explanation
Indices: 125496391--125496440 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
125496381 AAAAAACTTC
125496391 TAAAAAAT
1 TAAAAAAT
125496399 ATAAAAAA-
1 -TAAAAAAT
125496407 -AAAGAAAGT
1 TAAA-AAA-T
125496416 TAAAAAAT
1 TAAAAAAT
125496424 TAAAAAAT
1 TAAAAAAT
125496432 TAAAAAAT
1 TAAAAAAT
125496440 T
1 T
125496441 TCTAGAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 18 0.49
9 10 0.27
10 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:125497913 original size:2 final size:2
Alignment explanation
Indices: 125497908--125497939 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
125497898 AAAATATGTT
125497908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125497940 ATCTTCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125498810 original size:16 final size:18
Alignment explanation
Indices: 125498787--125498823 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
125498777 GCCGGAGCCC
*
125498787 TCCC-CTCTCTCCTTTCT
1 TCCCTCTCTCTCTTTTCT
125498804 TCCCTCTCTCTCTTTTCT
1 TCCCTCTCTCTCTTTTCT
125498822 TC
1 TC
125498824 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (18 bp):
TCCCTCTCTCTCTTTTCT
Found at i:125499322 original size:3 final size:3
Alignment explanation
Indices: 125499296--125499363 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
125499286 ATTTTTATAC
* * * *
125499296 TAT TAA TAT TAC TAT TAT TGT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125499344 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
125499364 GCAGTAGTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:125499714 original size:11 final size:11
Alignment explanation
Indices: 125499698--125499722 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
125499688 TTTTCTTATG
125499698 TATGTATATAT
1 TATGTATATAT
125499709 TATGTATATAT
1 TATGTATATAT
125499720 TAT
1 TAT
125499723 TTTTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:125499910 original size:24 final size:25
Alignment explanation
Indices: 125499883--125499942 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
125499873 ATGTGTGTAC
*
125499883 ATATTATGTAAATGTTTTA-ATATT
1 ATATCATGTAAATGTTTTATATATT
* **
125499907 ATATCGTGTGTATGTTTTATATATT
1 ATATCATGTAAATGTTTTATATATT
*
125499932 ATGAACATGTA
1 AT-ATCATGTA
125499943 TTTTCAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (25 bp):
ATATCATGTAAATGTTTTATATATT
Found at i:125502370 original size:14 final size:15
Alignment explanation
Indices: 125502351--125502380 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
125502341 TAAAATAGCA
125502351 ATTACCATA-ATATT
1 ATTACCATATATATT
125502365 ATTACCATATATATT
1 ATTACCATATATATT
125502380 A
1 A
125502381 AAGTCAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTACCATATATATT
Found at i:125502404 original size:47 final size:47
Alignment explanation
Indices: 125502351--125502508 Score: 212
Period size: 47 Copynumber: 3.3 Consensus size: 47
125502341 TAAAATAGCA
*
125502351 ATTACCATAATATTATTACCATATATATTAAAGTCAATGAAAAGAAC
1 ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
* * *
125502398 ATTACCACAATATTATTGCCATATATATTACAGGCAATGAAAAGAAC
1 ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
* *
125502445 ATTACCATAATATTATTGCCATATATATTGAAGGT-AATAAAAAGAGTA-
1 ATTACCATAATATTATTGCCATATATATT-AAAGTCAATGAAAAGA--AC
125502493 ATTACCATATATATTA
1 ATTACCATA-ATATTA
125502509 AAATTAATAA
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 80 0.82
48 11 0.11
49 7 0.07
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (47 bp):
ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
Found at i:125502540 original size:34 final size:34
Alignment explanation
Indices: 125502463--125502538 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 34
125502453 AATATTATTG
* * *
125502463 CCATATATATTGAAGGTAATAAAAAGAGTAATTA
1 CCATATATATTAAAAGTAATAAAAAGAGCAATTA
*
125502497 CCATATATATTAAAATTAAT-AAAA-AGCAATTA
1 CCATATATATTAAAAGTAATAAAAAGAGCAATTA
125502529 CCATATATAT
1 CCATATATAT
125502539 ATATTTAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 17 0.45
33 4 0.11
34 17 0.45
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (34 bp):
CCATATATATTAAAAGTAATAAAAAGAGCAATTA
Found at i:125508839 original size:2 final size:2
Alignment explanation
Indices: 125508832--125508863 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
125508822 AGTAAAATTC
125508832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125508864 GAAAATTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125514495 original size:78 final size:78
Alignment explanation
Indices: 125514366--125514520 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
125514356 TATTGGACTT
*
125514366 AGTTCTGAATGTAGATGAAAGTAAACATTGTTTAGGGTGAACTTTCGTATTTAGCATTATCACCT
1 AGTTCTGAATGTAGATGAAAGTAAACATTGTTTAGGGTGAACTTTAGTATTTAGCATTATCACCT
125514431 ACAAGCTACAGTA
66 ACAAGCTACAGTA
125514444 AGTTCTGAATGTAGATGAAAGTAAACATTGTTTAGGGTGAACTTTAGTATTTAGCATTATCACCT
1 AGTTCTGAATGTAGATGAAAGTAAACATTGTTTAGGGTGAACTTTAGTATTTAGCATTATCACCT
125514509 ACAAGCTACAGT
66 ACAAGCTACAGT
125514521 TATTGTCAAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (78 bp):
AGTTCTGAATGTAGATGAAAGTAAACATTGTTTAGGGTGAACTTTAGTATTTAGCATTATCACCT
ACAAGCTACAGTA
Found at i:125516311 original size:18 final size:18
Alignment explanation
Indices: 125516276--125516314 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
125516266 AACTGACTGA
**
125516276 TTAACCGAATTCGGTCGG
1 TTAACCGAATTAAGTCGG
*
125516294 TTAACCGAATTAATTCGG
1 TTAACCGAATTAAGTCGG
125516312 TTA
1 TTA
125516315 GGGGTCGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (18 bp):
TTAACCGAATTAAGTCGG
Found at i:125516396 original size:18 final size:18
Alignment explanation
Indices: 125516375--125516410 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
125516365 GAAACAGGTT
125516375 GGTTAACCGAAAAAATTA
1 GGTTAACCGAAAAAATTA
125516393 GGTTAACCGAAAAAATTA
1 GGTTAACCGAAAAAATTA
125516411 ATAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
GGTTAACCGAAAAAATTA
Found at i:125516518 original size:18 final size:18
Alignment explanation
Indices: 125516495--125516529 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
125516485 AATATATATT
125516495 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
125516513 AACCCAATTACCCAACC
1 AACCCAAGTACCCAACC
125516530 TGATCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.03, T:0.09
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:125516658 original size:27 final size:27
Alignment explanation
Indices: 125516592--125516659 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
125516582 TTTATACAAA
* *
125516592 TAATTCGATTAATTCGGTTAATTTGAG
1 TAATTCGGTTAATTCGGTTAATTCGAG
* * *
125516619 TAGTTCGGGTAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGGTTAATTCGAG
*
125516646 TAATTTGGTTAATT
1 TAATTCGGTTAATT
125516660 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTCGAG
Found at i:125516660 original size:9 final size:9
Alignment explanation
Indices: 125516592--125516659 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
125516582 TTTATACAAA
*
125516592 TAATTCGAT
1 TAATTCGGT
125516601 TAATTCGGT
1 TAATTCGGT
*
125516610 TAATTTGAG-
1 TAATTCG-GT
* *
125516619 TAGTTCGGG
1 TAATTCGGT
125516628 TAATTCGGT
1 TAATTCGGT
*
125516637 TAATTCGAT
1 TAATTCGGT
*
125516646 TAATTTGGT
1 TAATTCGGT
125516655 TAATT
1 TAATT
125516660 TTATACTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:125519012 original size:21 final size:20
Alignment explanation
Indices: 125518987--125519034 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
125518977 TTTGAAATGC
*
125518987 AATTTTTTTCATTTTTTAGAA
1 AATTTTTTTAATTTTTTA-AA
*
125519008 AATTTAATTTAATTTTTTAAA
1 AATTT-TTTTAATTTTTTAAA
125519029 AATTTT
1 AATTTT
125519035 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTTTAATTTTTTAAA
Found at i:125530648 original size:3 final size:3
Alignment explanation
Indices: 125530640--125530686 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
125530630 GTTGAAAGTG
*
125530640 AGA AGA AGA GGA AGA AGA AGA AGA AGA AGA AGA AGA CA-A AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA
125530685 AG
1 AG
125530687 CAACAGCGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:125531319 original size:25 final size:23
Alignment explanation
Indices: 125531265--125531339 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 23
125531255 TTAATTTTTA
*
125531265 AAATTTTTAAAAATTTAAAAAATT
1 AAATTTTTAAAAA-TTAAAAAAAT
125531289 ATAATTTTTAAAAATTAAAAATCAAT
1 A-AATTTTTAAAAATTAAAAA--AAT
*
125531315 AAATTTATTTAAAAATTATAAAAAT
1 AAA-TT-TTTAAAAATTAAAAAAAT
125531340 TACTTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.18
25 17 0.39
26 5 0.11
27 14 0.32
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTTTAAAAATTAAAAAAAT
Found at i:125531361 original size:22 final size:21
Alignment explanation
Indices: 125531303--125531369 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
125531293 TTTTTAAAAA
* *
125531303 TTAAAAATCA-ATAAATTTAT
1 TTAAAAATTATATAAAATTAT
125531323 TTAAAAATTATA-AAAATTACT
1 TTAAAAATTATATAAAATTA-T
* * *
125531344 TTTAAAATTTTATAAAATTAA
1 TTAAAAATTATATAAAATTAT
125531365 TTAAA
1 TTAAA
125531370 TGTTAATGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.39
21 16 0.42
22 7 0.18
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTATATAAAATTAT
Found at i:125532381 original size:2 final size:2
Alignment explanation
Indices: 125532370--125532401 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
125532360 TACCTATTTC
125532370 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125532402 CATACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125536084 original size:2 final size:2
Alignment explanation
Indices: 125536071--125536111 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
125536061 TTATCCATCT
*
125536071 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125536112 TATTTAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:125539671 original size:3 final size:3
Alignment explanation
Indices: 125539663--125539696 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
125539653 ATGAAAGTTA
125539663 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
125539697 AGTTTGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:125540275 original size:40 final size:39
Alignment explanation
Indices: 125540186--125540275 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
125540176 TTTTTCATTC
*
125540186 AAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTAA
1 AAACGCCGCTAAAGAACGAGCATTAGCAGCGCTTTTTAA
** * *
125540225 AAACATCGCTAAAGATCGAGTATTAGCAGCGCTTTTTTAA
1 AAACGCCGCTAAAGAACGAGCATTAGCAGCGC-TTTTTAA
125540265 AAACGCCGCTA
1 AAACGCCGCTA
125540276 TATGTACACC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 27 0.63
40 16 0.37
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (39 bp):
AAACGCCGCTAAAGAACGAGCATTAGCAGCGCTTTTTAA
Found at i:125541081 original size:14 final size:14
Alignment explanation
Indices: 125541064--125541102 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
125541054 ATCATTATAA
125541064 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
125541078 TTTAGGATATATGG
1 TTTAGGGTTTATGG
*
125541092 TTTATGGTTTA
1 TTTAGGGTTTA
125541103 AGGGTTGAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:125541128 original size:21 final size:21
Alignment explanation
Indices: 125541090--125541129 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
125541080 TAGGATATAT
* *
125541090 GGTTTATGGTTTAAGGGTTGA
1 GGTTTAAGGCTTAAGGGTTGA
*
125541111 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
125541130 AGGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGA
Found at i:125541499 original size:23 final size:23
Alignment explanation
Indices: 125541472--125541523 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
125541462 TATAACTGAT
* *
125541472 TTTTTAAT-TTATATTATTTTTAA
1 TTTTTAATATTA-AATAATTTTAA
125541495 TTTTT-ATATTAAATAATTTTAA
1 TTTTTAATATTAAATAATTTTAA
125541517 TTTTTAA
1 TTTTTAA
125541524 AGATATTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTAATATTAAATAATTTTAA
Found at i:125541844 original size:25 final size:25
Alignment explanation
Indices: 125541808--125541889 Score: 130
Period size: 25 Copynumber: 3.2 Consensus size: 25
125541798 AAATCCCAAC
125541808 CCATCT-CTGCATCGCCGGACCCGA
1 CCATCTGCTGCATCGCCGGACCCGA
125541832 CCATCTGCTGCATCGCCGGACCCGA
1 CCATCTGCTGCATCGCCGGACCCGA
*
125541857 CCATCTGCTGCATCGCCGTCGACTCGA
1 CCATCTGCTGCATCGCCG--GACCCGA
125541884 CCATCT
1 CCATCT
125541890 ACTGTGTCGC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
24 6 0.11
25 36 0.67
27 12 0.22
ACGTcount: A:0.16, C:0.44, G:0.21, T:0.20
Consensus pattern (25 bp):
CCATCTGCTGCATCGCCGGACCCGA
Found at i:125541899 original size:27 final size:27
Alignment explanation
Indices: 125541808--125541903 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 27
125541798 AAATCCCAAC
125541808 CCATCT-CTGCATCGCCG--GACCCGA
1 CCATCTGCTGCATCGCCGTCGACCCGA
125541832 CCATCTGCTGCATCGCCG--GACCCGA
1 CCATCTGCTGCATCGCCGTCGACCCGA
*
125541857 CCATCTGCTGCATCGCCGTCGACTCGA
1 CCATCTGCTGCATCGCCGTCGACCCGA
* **
125541884 CCATCTACTGTGTCGCCGTC
1 CCATCTGCTGCATCGCCGTC
125541904 ACATTGCTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
24 6 0.09
25 36 0.55
27 23 0.35
ACGTcount: A:0.15, C:0.43, G:0.22, T:0.21
Consensus pattern (27 bp):
CCATCTGCTGCATCGCCGTCGACCCGA
Found at i:125544327 original size:15 final size:15
Alignment explanation
Indices: 125544302--125544359 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
125544292 TCATATATAT
125544302 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
125544318 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
125544333 AATAATTTCAATCAA
1 TATAAATTCAATCAA
125544348 TATAAATTCAAT
1 TATAAATTCAAT
125544360 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:125545648 original size:5 final size:5
Alignment explanation
Indices: 125545629--125545661 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
125545619 TCTTTTGTTT
125545629 ATATA ATATA TATATA ATATA ATATA ATATA AT
1 ATATA ATATA -ATATA ATATA ATATA ATATA AT
125545662 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:125545671 original size:21 final size:21
Alignment explanation
Indices: 125545629--125545671 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
125545619 TCTTTTGTTT
* *
125545629 ATATAATATATATATAATATA
1 ATATAATATATATAAAACATA
125545650 ATATAATATA-ATTAAAACATA
1 ATATAATATATA-TAAAACATA
125545671 A
1 A
125545672 AGTACCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAATATATATAAAACATA
Found at i:125545697 original size:8 final size:8
Alignment explanation
Indices: 125545684--125545712 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
125545674 TACCTTTATT
125545684 ATATAATA
1 ATATAATA
125545692 ATATAATA
1 ATATAATA
125545700 ATATAATA
1 ATATAATA
125545708 ATATA
1 ATATA
125545713 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:125547771 original size:26 final size:28
Alignment explanation
Indices: 125547742--125547794 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
125547732 TAATTTGATA
125547742 ATGAATTTTA-AAT-TTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
125547768 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
125547795 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 3 0.13
28 11 0.48
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:125547885 original size:43 final size:43
Alignment explanation
Indices: 125547828--125548017 Score: 290
Period size: 43 Copynumber: 4.4 Consensus size: 43
125547818 GTTTGTGGGG
* * *
125547828 AAAGTGCCGCTAAAAGTCCTGGTCTTTAACGGCGTTTTTTAAA
1 AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
* * *
125547871 AAAGCGCCGTTAAAAGTCATAGTCTTTAGCGGCGTTTTTCAAA
1 AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
125547914 AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
1 AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
* * * *
125547957 AAAGCGTCGCTAAAAGTCCTGGTCTTTAGTGGCATTTTTCAAT
1 AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
125548000 AAAGCGCCGCTAAAAGTC
1 AAAGCGCCGCTAAAAGTC
125548018 TGTTTTCCTG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 133 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCAAA
Found at i:125550387 original size:43 final size:43
Alignment explanation
Indices: 125550326--125550475 Score: 255
Period size: 43 Copynumber: 3.5 Consensus size: 43
125550316 TTATTTAAAA
*
125550326 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
125550369 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
* * *
125550412 AAACGCCGCTAAAGGTCAAGACCTATAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
*
125550455 AAACGCCGCTAAAGGTAATGA
1 AAACGCCGCTAAAGGTCATGA
125550476 AATTTTAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
Found at i:125553625 original size:27 final size:27
Alignment explanation
Indices: 125553585--125553659 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
125553575 AAGAGCAGCG
*
125553585 CGACGGCGACGCAGCAGATGGTCAAGT
1 CGACGGCGATGCAGCAGATGGTCAAGT
*
125553612 CGACGGCGATGCAGCAGATGGTCAGGT
1 CGACGGCGATGCAGCAGATGGTCAAGT
* *
125553639 C--CGACGATGCAGCATATGGTC
1 CGACGGCGATGCAGCAGATGGTC
125553660 GGGTCTGGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.41
27 26 0.59
ACGTcount: A:0.24, C:0.25, G:0.36, T:0.15
Consensus pattern (27 bp):
CGACGGCGATGCAGCAGATGGTCAAGT
Found at i:125553652 original size:25 final size:25
Alignment explanation
Indices: 125553588--125553681 Score: 109
Period size: 25 Copynumber: 3.7 Consensus size: 25
125553578 AGCAGCGCGA
* *
125553588 CGGCGACGCAGCAGATGGTCAAGTC
1 CGGCGATGCAGCAGATGGTCAGGTC
125553613 GACGGCGATGCAGCAGATGGTCAGGTC
1 --CGGCGATGCAGCAGATGGTCAGGTC
* * *
125553640 CGACGATGCAGCATATGGTCGGGTC
1 CGGCGATGCAGCAGATGGTCAGGTC
*
125553665 TGGCGATGCAG-AGATGG
1 CGGCGATGCAGCAGATGG
125553682 GTTGGGATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
24 5 0.08
25 31 0.53
27 23 0.39
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.16
Consensus pattern (25 bp):
CGGCGATGCAGCAGATGGTCAGGTC
Found at i:125554379 original size:21 final size:21
Alignment explanation
Indices: 125554355--125554397 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
125554345 AAACCTAACA
125554355 CTTA-ACCCCTAACCCCTAAGC
1 CTTAGACCCC-AACCCCTAAGC
* *
125554376 CTTAGACCTCAACCCTTAAGC
1 CTTAGACCCCAACCCCTAAGC
125554397 C
1 C
125554398 ATAAACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.28, C:0.44, G:0.07, T:0.21
Consensus pattern (21 bp):
CTTAGACCCCAACCCCTAAGC
Found at i:125554478 original size:14 final size:14
Alignment explanation
Indices: 125554442--125554480 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
125554432 TCATACACTT
125554442 TAAACCCTAAAACA
1 TAAACCCTAAAACA
* * *
125554456 TATATCCTAAATCA
1 TAAACCCTAAAACA
125554470 TAAACCCTAAA
1 TAAACCCTAAA
125554481 CTATAATGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAAACA
Found at i:125554591 original size:7 final size:7
Alignment explanation
Indices: 125554579--125554708 Score: 61
Period size: 7 Copynumber: 18.0 Consensus size: 7
125554569 ACTAATTAAT
125554579 CTAAACC
1 CTAAACC
125554586 CTAAACTC
1 CTAAAC-C
* **
125554594 TTAGTCC
1 CTAAACC
125554601 CTAAACC
1 CTAAACC
125554608 CTAAACC
1 CTAAACC
* *
125554615 AT-AACTA
1 CTAAAC-C
*
125554622 CTAAAAC
1 CTAAACC
*
125554629 ATAAACC
1 CTAAACC
*
125554636 ATAAACCC
1 CTAAA-CC
125554644 CT-AACAC
1 CTAAAC-C
125554651 CTAAACC
1 CTAAACC
125554658 CTTAAACCC
1 C-TAAA-CC
*
125554667 CTAACCC
1 CTAAACC
125554674 CT-AACAC
1 CTAAAC-C
125554681 CTAAACC
1 CTAAACC
*
125554688 TTAAACC
1 CTAAACC
*
125554695 C-CAACC
1 CTAAACC
125554701 CTTAAACC
1 C-TAAACC
125554709 ACCCTTAAAC
Statistics
Matches: 91, Mismatches: 20, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
6 11 0.12
7 51 0.56
8 26 0.29
9 3 0.03
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:125554647 original size:22 final size:22
Alignment explanation
Indices: 125554599--125554687 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
125554589 AACTCTTAGT
*
125554599 CCCTAAACCCTAAACCAT-AAC
1 CCCTAAAACCTAAACCATAAAC
** *
125554620 TACTAAAACATAAACCATAAAC
1 CCCTAAAACCTAAACCATAAAC
* *
125554642 CCCTAACACCTAAACCCTTAAAC
1 CCCTAAAACCTAAA-CCATAAAC
**
125554665 CCCTAACCCCTAACACC-TAAAC
1 CCCTAAAACCTAA-ACCATAAAC
125554687 C
1 C
125554688 TTAAACCCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.25
22 19 0.35
23 21 0.38
24 1 0.02
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (22 bp):
CCCTAAAACCTAAACCATAAAC
Found at i:125554673 original size:30 final size:28
Alignment explanation
Indices: 125554639--125554701 Score: 108
Period size: 30 Copynumber: 2.2 Consensus size: 28
125554629 ATAAACCATA
125554639 AACCCCTAACACCTAAACCCTTAAACCCC
1 AACCCCTAACACCTAAA-CCTTAAACCCC
125554668 TAACCCCTAACACCTAAACCTTAAACCCC
1 -AACCCCTAACACCTAAACCTTAAACCCC
125554697 AACCC
1 AACCC
125554702 TTAAACCACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 5 0.15
29 11 0.33
30 17 0.52
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (28 bp):
AACCCCTAACACCTAAACCTTAAACCCC
Found at i:125554703 original size:14 final size:14
Alignment explanation
Indices: 125554654--125554719 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
125554644 CTAACACCTA
125554654 AACCCTTAAACCCC
1 AACCCTTAAACCCC
* *
125554668 TAACCCCT-AACACCT
1 -AACCCTTAAAC-CCC
*
125554683 AAACCTTAAACCCC
1 AACCCTTAAACCCC
125554697 AACCCTTAAA--CC
1 AACCCTTAAACCCC
125554709 -ACCCTTAAACC
1 AACCCTTAAACC
125554720 ATAATCCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
11 9 0.22
12 2 0.05
14 19 0.46
15 11 0.27
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:125554787 original size:21 final size:22
Alignment explanation
Indices: 125554758--125554805 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
125554748 CTTAAAATAG
125554758 TAACTCATA-AACATTAAACCCT
1 TAACTCATATAACA-TAAACCCT
*
125554780 TAAC-CATATACCATAAACCCT
1 TAACTCATATAACATAAACCCT
*
125554801 AAACT
1 TAACT
125554806 ATAGTGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
TAACTCATATAACATAAACCCT
Found at i:125555089 original size:42 final size:41
Alignment explanation
Indices: 125555038--125555154 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
125555028 TGTGTACTTA
**
125555038 TAGCGGCGTTTCTTATAAAAGCGCCGCTAATGCTCTGGTCTT
1 TAGCGGCGTTT-TGCTAAAAGCGCCGCTAATGCTCTGGTCTT
* *
125555080 TAGTGGCGTTTTGCCAAAAGCG-CGCTAATGCTCTGGTCTT
1 TAGCGGCGTTTTGCTAAAAGCGCCGCTAATGCTCTGGTCTT
*
125555120 TAGCGGCGTTTTGCTAAAA-CGCCGCTATTGCTCTG
1 TAGCGGCGTTTTGCTAAAAGCGCCGCTAATGCTCTG
125555155 TGTTTTACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 47 0.70
41 8 0.12
42 10 0.15
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (41 bp):
TAGCGGCGTTTTGCTAAAAGCGCCGCTAATGCTCTGGTCTT
Found at i:125555849 original size:2 final size:2
Alignment explanation
Indices: 125555842--125555873 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
125555832 ACACCATAAC
125555842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125555874 GTCTTTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125559544 original size:2 final size:2
Alignment explanation
Indices: 125559537--125559561 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
125559527 CATAAGTTTC
125559537 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
125559562 ATCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125560896 original size:10 final size:10
Alignment explanation
Indices: 125560883--125560907 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
125560873 TAAATAATTT
125560883 AAAATTTTAA
1 AAAATTTTAA
125560893 AAAATTTTAA
1 AAAATTTTAA
125560903 AAAAT
1 AAAAT
125560908 AACATGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:125565045 original size:27 final size:29
Alignment explanation
Indices: 125564999--125565059 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
125564989 AAAAAAATTT
*
125564999 AAAATATTTTTATA-CATTTTAATTTTTA
1 AAAATATTTTTATATCATTTTAATTTTAA
**
125565027 AAAATATTTTTA-ATTTTTTTAATTTTAA
1 AAAATATTTTTATATCATTTTAATTTTAA
125565055 AAAAT
1 AAAAT
125565060 TAATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
AAAATATTTTTATATCATTTTAATTTTAA
Found at i:125565066 original size:27 final size:28
Alignment explanation
Indices: 125565015--125565068 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
125565005 TTTTTATACA
*
125565015 TTTTAATTTTTAAAAATATTTTTAATTT
1 TTTTAATTTTTAAAAATATTATTAATTT
125565043 TTTTAA-TTTTAAAAA-ATTAATTAATT
1 TTTTAATTTTTAAAAATATT-ATTAATT
125565069 ACTAACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTAATTTTTAAAAATATTATTAATTT
Found at i:125565672 original size:31 final size:31
Alignment explanation
Indices: 125565626--125565686 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
125565616 AATTTTACTT
* * *
125565626 TGGTACAATTATATACGTGAAACTTTAATTA
1 TGGTACAAATATATACGTAAAACTCTAATTA
* *
125565657 TGGTTCAAATATATACTTAAAACTCTAATT
1 TGGTACAAATATATACGTAAAACTCTAATT
125565687 TTGATTTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (31 bp):
TGGTACAAATATATACGTAAAACTCTAATTA
Found at i:125566162 original size:23 final size:23
Alignment explanation
Indices: 125566136--125566195 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
125566126 AAGAGATAAT
125566136 AATAATTATTATTAATTTTCAAG
1 AATAATTATTATTAATTTTCAAG
125566159 AATAATTATTATTAATTTTCAAG
1 AATAATTATTATTAATTTTCAAG
*
125566182 AATAATCATTATTA
1 AATAATTATTATTA
125566196 TATATGTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (23 bp):
AATAATTATTATTAATTTTCAAG
Found at i:125566981 original size:13 final size:13
Alignment explanation
Indices: 125566963--125566989 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
125566953 AAAGTTTTTA
125566963 ATTTTTAATTAAT
1 ATTTTTAATTAAT
125566976 ATTTTTAATTAAT
1 ATTTTTAATTAAT
125566989 A
1 A
125566990 ACTATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTAATTAAT
Found at i:125567131 original size:12 final size:12
Alignment explanation
Indices: 125567110--125567145 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
125567100 AACATATTTA
125567110 TTAATAAAAAAT
1 TTAATAAAAAAT
*
125567122 TTAATTAAAAAT
1 TTAATAAAAAAT
*
125567134 TTAAAAAAAAAT
1 TTAATAAAAAAT
125567146 CAAAAACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAATAAAAAAT
Found at i:125567209 original size:47 final size:47
Alignment explanation
Indices: 125567156--125567246 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
125567146 CAAAAACATG
* * *
125567156 AAATAAAAATACAAATGTGAATGGGAGAAGAATCAAATCTGAGACTC
1 AAATAAAAATACAAATATGAATAGGAGAAGAACCAAATCTGAGACTC
125567203 AAATAAAAATACAAATATGAATAGGAGAAGAACCAAATCTGAGA
1 AAATAAAAATACAAATATGAATAGGAGAAGAACCAAATCTGAGA
125567247 TTTAAGAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.55, C:0.10, G:0.18, T:0.18
Consensus pattern (47 bp):
AAATAAAAATACAAATATGAATAGGAGAAGAACCAAATCTGAGACTC
Found at i:125570326 original size:29 final size:29
Alignment explanation
Indices: 125570284--125570345 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
125570274 CCTTCTCCAG
125570284 CAAGAATACTCCAAACTTGCTACAAAATA
1 CAAGAATACTCCAAACTTGCTACAAAATA
125570313 CAAGAATACTCCAAACTTGCTACAAAATA
1 CAAGAATACTCCAAACTTGCTACAAAATA
125570342 CAAG
1 CAAG
125570346 CCCTATTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.24, G:0.08, T:0.19
Consensus pattern (29 bp):
CAAGAATACTCCAAACTTGCTACAAAATA
Found at i:125587644 original size:68 final size:68
Alignment explanation
Indices: 125587535--125587671 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
125587525 ACTTAAAGTT
125587535 ATTGGGTTGTGTTCAGACAGGTCCTTTGCTTCATATTGATATCATGATCTTCAATAGCTTATCAA
1 ATTGGGTTGTGTTCAGACAGGTCCTTTGCTTCATATTGATATCATGATCTTCAATAGCTTATCAA
125587600 AGA
66 AGA
125587603 ATTGGGTTGTGTTCAGACAGGTCCTTTGCTTCATATTGATATCATGATCTTCAATAGCTTATCAA
1 ATTGGGTTGTGTTCAGACAGGTCCTTTGCTTCATATTGATATCATGATCTTCAATAGCTTATCAA
125587668 AGA
66 AGA
125587671 A
1 A
125587672 CTTAAAACAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (68 bp):
ATTGGGTTGTGTTCAGACAGGTCCTTTGCTTCATATTGATATCATGATCTTCAATAGCTTATCAA
AGA
Found at i:125590181 original size:3 final size:3
Alignment explanation
Indices: 125590173--125590197 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
125590163 GGATAATAGC
125590173 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
125590198 ACGAGTACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:125590619 original size:63 final size:63
Alignment explanation
Indices: 125590520--125590646 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
125590510 TAGTTGGTAT
125590520 AATAATAATTTTAGTCCTCAATTTTTATATTTTTTTGTCAATTTTTGTCAAGTTGTGGATTTA
1 AATAATAATTTTAGTCCTCAATTTTTATATTTTTTTGTCAATTTTTGTCAAGTTGTGGATTTA
*
125590583 AATAATATTTTTAGTCCTCAATTTTTATATTTTTTTGTCAATTTTTGTCAAGTTGTGGATTTA
1 AATAATAATTTTAGTCCTCAATTTTTATATTTTTTTGTCAATTTTTGTCAAGTTGTGGATTTA
125590646 A
1 A
125590647 TCCCTATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (63 bp):
AATAATAATTTTAGTCCTCAATTTTTATATTTTTTTGTCAATTTTTGTCAAGTTGTGGATTTA
Found at i:125591092 original size:29 final size:31
Alignment explanation
Indices: 125591028--125591095 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 31
125591018 AAAAGTATTG
*
125591028 GGACTAAAAGTGACCAACTTGAAAAGTACAA
1 GGACTAAAAGTGACCAACTTGAAAACTACAA
* *
125591059 AGACTAAAAGTGATCAAC-T-AAAACTACAA
1 GGACTAAAAGTGACCAACTTGAAAACTACAA
125591088 GGACTAAA
1 GGACTAAA
125591096 TCTATAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 1 0.03
31 16 0.48
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (31 bp):
GGACTAAAAGTGACCAACTTGAAAACTACAA
Found at i:125593865 original size:16 final size:15
Alignment explanation
Indices: 125593829--125593865 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
125593819 AATATTCATG
125593829 TATTTTTATATATTT
1 TATTTTTATATATTT
125593844 TAATTTTTATATATTAT
1 T-ATTTTTATATATT-T
125593861 TATTT
1 TATTT
125593866 CTTGTCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 17 0.85
17 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATATATTT
Found at i:125594762 original size:3 final size:3
Alignment explanation
Indices: 125594754--125594789 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
125594744 ACAATATCCT
125594754 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
125594790 ATGAGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:125596309 original size:29 final size:30
Alignment explanation
Indices: 125596267--125596325 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
125596257 GGACTGAATC
*
125596267 AAATCAAAATTTCATATATGAAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
* * *
125596297 AAATCAACA-TTCATGTATAAAATTGCACA
1 AAATCAAAATTTCATATATAAAATTACACA
125596326 TTAAACTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTACACA
Found at i:125596978 original size:15 final size:15
Alignment explanation
Indices: 125596953--125596987 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
125596943 TAACAATTCA
*
125596953 AATAA-ATTAAACAT
1 AATAATATTAAAAAT
125596967 AATAATATTAAAAAT
1 AATAATATTAAAAAT
125596982 AATAAT
1 AATAAT
125596988 TCCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATATTAAAAAT
Found at i:125601326 original size:21 final size:21
Alignment explanation
Indices: 125601302--125601341 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
125601292 AATTTAGCCA
* *
125601302 TTTTTATTTTTATTTTAATAT
1 TTTTTATCTTTAATTTAATAT
*
125601323 TTTTTGTCTTTAATTTAAT
1 TTTTTATCTTTAATTTAAT
125601342 TTATACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTATCTTTAATTTAATAT
Found at i:125616149 original size:51 final size:50
Alignment explanation
Indices: 125616078--125616237 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
125616068 CTGATCACAT
*
125616078 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
125616129 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
125616179 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
125616230 TTGTCACT
1 TTATCACT
125616238 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:125619426 original size:574 final size:574
Alignment explanation
Indices: 125618329--125619474 Score: 2202
Period size: 574 Copynumber: 2.0 Consensus size: 574
125618319 CCTTCCCTTC
125618329 CTGCATAAGTACACAACCAAGTTCATTCATGGACGCATCACTGTAAATCATAAACTCCTTACCTG
1 CTGCATAAGTACACAACCAAGTTCATTCATGGACGCATCACTGTAAATCATAAACTCCTTACCTG
*
125618394 GTTCTGGTTGTACTAAAACAAGAGCTGTAGTCAACAATGCTTTTAACTTGTCAAAACTTTGTTGA
66 GTTCTGGTTGTACTAAAACAAGAGCTGTAGTCAACAATGCTTTTAACTTGTCAAAACTCTGTTGA
*
125618459 CACTTATTGGTCCATTCAAACTTGACATCCTTTCGCAGCAATCTTTTCAGCGGGGTAGCTATCAT
131 CACTTATTGGTCCATTCAAACTTGACATCCTTTCGCAGCAATCTTGTCAGCGGGGTAGCTATCAT
125618524 GGAAAATCCGTCTACAAATCGCCTATAATATCCGGCAAGACCAAGAAAACTTCTAACTTCTGATA
196 GGAAAATCCGTCTACAAATCGCCTATAATATCCGGCAAGACCAAGAAAACTTCTAACTTCTGATA
125618589 CATTTCTAGGAGGCTTCCAATCAATAATGGCTGAAATCTTGCTCGGATCGACCTTAATACCTTCA
261 CATTTCTAGGAGGCTTCCAATCAATAATGGCTGAAATCTTGCTCGGATCGACCTTAATACCTTCA
125618654 CCTGAGACAATATGTCCAAGAAAACCAACTTCTCGTAACCAGAACTCACTTTTGCTGAACTCGGC
326 CCTGAGACAATATGTCCAAGAAAACCAACTTCTCGTAACCAGAACTCACTTTTGCTGAACTCGGC
*
125618719 ATATAACTAATTATCTTTTAGAATCTGTAAAACTGTTCTTAAATGCTCTGCATGCTCAGTCTCAT
391 ATATAACTAATTATCTTTTAGAATCTGTAAAACTGTTCTCAAATGCTCTGCATGCTCAGTCTCAT
*
125618784 CATGAGAATAAATCAAGATATCATCAATGAACACAACTACAAACTTATCCAAGTACAGTCTGAAA
456 CATGAGAATAAATCAAGATATCATCAATGAACACAACTACAAACTTATCCAAGTACAGTCTAAAA
*
125618849 ATTCGGTTCATTAAGTCCATGAAAATGGCAGGAGCATTAGTCAAGCCAAATGCT
521 ATTCGGTTCATTAAGTCCATGAAAATGGCAGGAGCACTAGTCAAGCCAAATGCT
125618903 CTGCATAAGTACACAACCAAGTTCATTCATGGACGCATCACTGTAAATCATAAACTCCTTACCTG
1 CTGCATAAGTACACAACCAAGTTCATTCATGGACGCATCACTGTAAATCATAAACTCCTTACCTG
125618968 GTTCTGGTTGTACTAAAACAAGAGCTGTAGTCAACAATGCTTTTAACTTGTCAAAACTCTGTTGA
66 GTTCTGGTTGTACTAAAACAAGAGCTGTAGTCAACAATGCTTTTAACTTGTCAAAACTCTGTTGA
*
125619033 CACTTCTTGGTCCATTCAAACTTGACATCCTTTCGCAGCAATCTTGTCAGCGGGGTAGCTATCAT
131 CACTTATTGGTCCATTCAAACTTGACATCCTTTCGCAGCAATCTTGTCAGCGGGGTAGCTATCAT
*
125619098 GGAAAATCTGTCTACAAATCGCCTATAATATCCGGCAAGACCAAGAAAACTTCTAACTTCTGATA
196 GGAAAATCCGTCTACAAATCGCCTATAATATCCGGCAAGACCAAGAAAACTTCTAACTTCTGATA
125619163 CATTTCTAGGAGGCTTCCAATCAATAATGGCTGAAATCTTGCTCGGATCGACCTTAATACCTTCA
261 CATTTCTAGGAGGCTTCCAATCAATAATGGCTGAAATCTTGCTCGGATCGACCTTAATACCTTCA
*
125619228 CCTGAGACAATATGTCCAAGAAAACCAACTTCTCGTAACCAGAACTCACTTTTGCTGAACTTGGC
326 CCTGAGACAATATGTCCAAGAAAACCAACTTCTCGTAACCAGAACTCACTTTTGCTGAACTCGGC
125619293 ATATAACTAATTATCTTTTAGAATCTGTAAAACTGTTCTCAAATGCTCTGCATGCTCAGTCTCAT
391 ATATAACTAATTATCTTTTAGAATCTGTAAAACTGTTCTCAAATGCTCTGCATGCTCAGTCTCAT
* *
125619358 CATGAGAATAAATCAAGATATCATCAATGAACACAACTACAAACTTATCCAATTACGGTCTAAAA
456 CATGAGAATAAATCAAGATATCATCAATGAACACAACTACAAACTTATCCAAGTACAGTCTAAAA
125619423 ATTCGGTTCATTAAGTCCATGAAAATGGCAGGAGCACTAGTCAAGCCAAATG
521 ATTCGGTTCATTAAGTCCATGAAAATGGCAGGAGCACTAGTCAAGCCAAATG
125619475 GCATCACAAG
Statistics
Matches: 562, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
574 562 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (574 bp):
CTGCATAAGTACACAACCAAGTTCATTCATGGACGCATCACTGTAAATCATAAACTCCTTACCTG
GTTCTGGTTGTACTAAAACAAGAGCTGTAGTCAACAATGCTTTTAACTTGTCAAAACTCTGTTGA
CACTTATTGGTCCATTCAAACTTGACATCCTTTCGCAGCAATCTTGTCAGCGGGGTAGCTATCAT
GGAAAATCCGTCTACAAATCGCCTATAATATCCGGCAAGACCAAGAAAACTTCTAACTTCTGATA
CATTTCTAGGAGGCTTCCAATCAATAATGGCTGAAATCTTGCTCGGATCGACCTTAATACCTTCA
CCTGAGACAATATGTCCAAGAAAACCAACTTCTCGTAACCAGAACTCACTTTTGCTGAACTCGGC
ATATAACTAATTATCTTTTAGAATCTGTAAAACTGTTCTCAAATGCTCTGCATGCTCAGTCTCAT
CATGAGAATAAATCAAGATATCATCAATGAACACAACTACAAACTTATCCAAGTACAGTCTAAAA
ATTCGGTTCATTAAGTCCATGAAAATGGCAGGAGCACTAGTCAAGCCAAATGCT
Found at i:125623042 original size:75 final size:73
Alignment explanation
Indices: 125622954--125623125 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
125622944 GGTTTTCCTC
*** * * **
125622954 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
125623018 TCAGTATGG
65 TCAGTATGG
*
125623027 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
125623092 CTCAGTATGG
64 CTCAGTATGG
125623102 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
125623126 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:125623123 original size:35 final size:35
Alignment explanation
Indices: 125622959--125623125 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
125622949 TCCTCATTGA
*** *
125622959 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
125622994 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
125623034 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
125623069 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
125623104 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
125623126 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:125628213 original size:10 final size:12
Alignment explanation
Indices: 125628190--125628241 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
125628180 AAATTATTGC
125628190 AATATATTTAAA
1 AATATATTTAAA
125628202 AATA-ATTTAAA
1 AATATATTTAAA
* **
125628213 ATATAAATTTATT
1 A-ATATATTTAAA
*
125628226 AATATATGTAAA
1 AATATATTTAAA
125628238 AATA
1 AATA
125628242 GCTTTTTCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
11 8 0.25
12 18 0.56
13 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AATATATTTAAA
Found at i:125628352 original size:20 final size:19
Alignment explanation
Indices: 125628313--125628350 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
125628303 CATCCAAACA
125628313 CTAGAAAAATAAATCATTT
1 CTAGAAAAATAAATCATTT
125628332 CTAGAAAAATAAATCATTT
1 CTAGAAAAATAAATCATTT
125628351 TCCAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
CTAGAAAAATAAATCATTT
Found at i:125628357 original size:20 final size:19
Alignment explanation
Indices: 125628315--125628358 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
125628305 TCCAAACACT
*
125628315 AGAAAAATAAATCATTTCT
1 AGAAAAATAAATCATTTCC
125628334 AGAAAAATAAATCATTTTCC
1 AGAAAAATAAATCA-TTTCC
125628354 AGAAA
1 AGAAA
125628359 TTATTTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (19 bp):
AGAAAAATAAATCATTTCC
Found at i:125639287 original size:14 final size:15
Alignment explanation
Indices: 125639268--125639300 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
125639258 TCGAAACAGG
125639268 GAAAGAAAAAG-AAA
1 GAAAGAAAAAGCAAA
*
125639282 GAAAGAAAAGGCAAA
1 GAAAGAAAAAGCAAA
125639297 GAAA
1 GAAA
125639301 AAACTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAGCAAA
Found at i:125641898 original size:92 final size:90
Alignment explanation
Indices: 125641719--125641898 Score: 247
Period size: 92 Copynumber: 2.0 Consensus size: 90
125641709 GTTTTTGGGT
* * * **
125641719 TGACCTACTTTTAAATTAAAGGATTTGTGATATGTTAGACATTTAAATATCGAATATGTGATGCC
1 TGACCTACTTTTAAATTAAAGGATTTGTGATATGTTAGAAAATTAAATATCAAATATAAGATGCC
*
125641784 CAACCAGGATAACAAAACAATAAGC
66 CAACCAGGACAACAAAACAATAAGC
*
125641809 TGACCTACTTTTAAATTAAGGAAGGATTTGTGATATGTT-GAAAATT-AATATCAAATCTAAGAT
1 TGACCTACTTTTAAATT-A--AAGGATTTGTGATATGTTAGAAAATTAAATATCAAATATAAGAT
125641872 GCCCAACCCAGGACAACAAAACAATAA
63 GCCCAA-CCAGGACAACAAAACAATAA
125641899 TTGCCTAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
90 17 0.22
91 20 0.25
92 24 0.30
93 18 0.23
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (90 bp):
TGACCTACTTTTAAATTAAAGGATTTGTGATATGTTAGAAAATTAAATATCAAATATAAGATGCC
CAACCAGGACAACAAAACAATAAGC
Found at i:125643160 original size:21 final size:21
Alignment explanation
Indices: 125643134--125643176 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
125643124 TATCATACAA
125643134 TAGGGTTTTGTTTCTAATTGG
1 TAGGGTTTTGTTTCTAATTGG
125643155 TAGGGTTTTGTTTCTAATTGG
1 TAGGGTTTTGTTTCTAATTGG
125643176 T
1 T
125643177 GCTTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.28, T:0.53
Consensus pattern (21 bp):
TAGGGTTTTGTTTCTAATTGG
Found at i:125644233 original size:22 final size:22
Alignment explanation
Indices: 125644205--125644252 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
125644195 CATCCCTTCC
125644205 ATCTCCATTTTCATATGGCAGG
1 ATCTCCATTTTCATATGGCAGG
125644227 ATCTCCATTTTCATATGGCAGG
1 ATCTCCATTTTCATATGGCAGG
125644249 ATCT
1 ATCT
125644253 TAGGGTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (22 bp):
ATCTCCATTTTCATATGGCAGG
Found at i:125648368 original size:30 final size:30
Alignment explanation
Indices: 125648332--125648401 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
125648322 TATTTAAAAA
**
125648332 TTATTTTAAATTGAAGATAAATGTATTAA-T
1 TTATTTTAAATTGAA-ATAAATAAATTAATT
* * *
125648362 TTATTTTTACTTGAAATAAGTAAATTAATT
1 TTATTTTAAATTGAAATAAATAAATTAATT
125648392 TTATTTTAAA
1 TTATTTTAAA
125648402 ATTAATAGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (30 bp):
TTATTTTAAATTGAAATAAATAAATTAATT
Found at i:125649051 original size:7 final size:8
Alignment explanation
Indices: 125649019--125649048 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
125649009 TTTAATAATT
125649019 TTTTTATA
1 TTTTTATA
125649027 TTTTTATA
1 TTTTTATA
*
125649035 TTTTTAAA
1 TTTTTATA
125649043 TTTTTA
1 TTTTTA
125649049 ATTATTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTATA
Found at i:125649427 original size:17 final size:17
Alignment explanation
Indices: 125649407--125649443 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
125649397 AACCTAACCC
*
125649407 AAAAAAAAA-ACAAAGA
1 AAAAAAAAAGAAAAAGA
125649423 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
125649440 AAAA
1 AAAA
125649444 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:125649442 original size:11 final size:11
Alignment explanation
Indices: 125649410--125649443 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
125649400 CTAACCCAAA
125649410 AAAAAAACAAAG
1 AAAAAAA-AAAG
125649422 AAAAAAAAAAG
1 AAAAAAAAAAG
125649433 AAAAAGAAAAA
1 AAAAA-AAAAA
125649444 CTTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:125649458 original size:16 final size:16
Alignment explanation
Indices: 125649439--125649475 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
125649429 AAAGAAAAAG
*
125649439 AAAAACTTACCCCAAA
1 AAAAACTAACCCCAAA
*
125649455 AAAACCTAACCCCAAA
1 AAAAACTAACCCCAAA
125649471 AAAAA
1 AAAAA
125649476 GAAGAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.30, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACTAACCCCAAA
Found at i:125650304 original size:11 final size:11
Alignment explanation
Indices: 125650286--125650315 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
125650276 GTGTATATTG
125650286 TATATATTATA
1 TATATATTATA
*
125650297 TTTATATTATA
1 TATATATTATA
125650308 TATATATT
1 TATATATT
125650316 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:125652561 original size:12 final size:12
Alignment explanation
Indices: 125652544--125652579 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
125652534 ATTCATTTGA
125652544 CATTCATGCATT
1 CATTCATGCATT
125652556 CATTCATGCATT
1 CATTCATGCATT
*
125652568 CATTCATACATT
1 CATTCATGCATT
125652580 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:125657805 original size:67 final size:67
Alignment explanation
Indices: 125657579--125657888 Score: 326
Period size: 67 Copynumber: 4.5 Consensus size: 67
125657569 CTTTTCAAGG
* *
125657579 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAATTGTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AGACACGCTGAGGTA--TTTAATTTTT
125657643 GTTTTT
63 G-TTTT
* * * *
125657649 CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTT
1 -AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGACACGCTGAGGTA-TTT-AATTTTT
125657714 GTGTTT
63 GT-TTT
* *
125657720 -TAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTA-TT-ATTTTTGT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AGACACGCTGAGGTATTTAATTTTTGT
125657782 TTT
65 TTT
* * * *
125657785 CAAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTAGTTTAT
1 -AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAGACACGCTGAGGTA-TTTAATTTTT
125657849 GTTTT
63 GTTTT
** * *
125657854 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
125657889 TTTAATTTTT
Statistics
Matches: 206, Mismatches: 22, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
65 3 0.01
66 21 0.10
67 63 0.31
68 4 0.02
69 42 0.20
70 25 0.12
71 48 0.23
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (67 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGACACGCTGAGGTATTTAATTTTTGTT
TT
Found at i:125658009 original size:72 final size:71
Alignment explanation
Indices: 125657888--125658053 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
125657878 GAGTTAAGCC
** * *
125657888 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
125657952 TGAGGTA
65 TGAGGTA
*
125657959 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
125658024 TGAGGTA
65 TGAGGTA
* *
125658031 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
125658054 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:125658162 original size:70 final size:68
Alignment explanation
Indices: 125658066--125658742 Score: 339
Period size: 70 Copynumber: 9.9 Consensus size: 68
125658056 GTTGTTCAAG
*
125658066 AATCAACTCATATTGCTAGA-AGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
1 AATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTG
*
125658130 TGTTTT
64 T-TTTA
* * *
125658136 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-AA-TTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGT
125658199 TTTCAA
65 TTT--A
* * * *
125658205 AATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTTAGTTTATGT
1 AATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGT
125658269 TTTA
65 TTTA
** * * * * ** **
125658273 AATTGACTCATATTGCGAGAGGTGAGTTAAGCCT--------TTTA---ATTTT-TGTTTTTCA-
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTT
125658325 --A
66 TTA
* *
125658326 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAA-TTTT-T
125658391 GTTTTA
63 GTTTTA
* * * *
125658397 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT-
1 A-ATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTG
*
125658461 TTTTC
64 TTTTA
** * * * ** * *** * * * ***
125658466 AATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGAGGTTGA-ACCTTTT-AATTTC
1 AATCAAC-TCATATTGCGAGAGATGAGTTGAGCCT-CG-G-GCACGCTGAGGTATTTTCAATTT-
125658525 TACT-TTTTCAA
61 T--TGTTTT--A
* * * *
125658536 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGT
*
125658601 TGTCAAAAA
65 T-T----TA
* * * *
125658610 AATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTTTAT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGT
125658674 GTTTA
65 -TTTA
* * ** * *
125658679 ATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 A-ATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GG--GCACGCTGAGGTATTTTCAATTT
125658743 CCGTTTTTCA
Statistics
Matches: 457, Mismatches: 97, Indels: 103
0.70 0.15 0.16
Matches are distributed among these distances:
53 31 0.07
56 5 0.01
57 5 0.01
60 2 0.00
62 2 0.00
65 16 0.04
66 10 0.02
67 15 0.03
68 61 0.13
69 45 0.10
70 94 0.21
71 16 0.04
72 74 0.16
73 32 0.07
74 49 0.11
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (68 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTT
TTA
Found at i:125658342 original size:418 final size:413
Alignment explanation
Indices: 125657647--125658498 Score: 1625
Period size: 418 Copynumber: 2.1 Consensus size: 413
125657637 ATTGTTGTTT
*
125657647 TTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATT
1 TTCAAGAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATT
*
125657711 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTAT
66 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTAA
*
125657776 TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTT
131 TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTATTT
125657841 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
196 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
125657906 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
261 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
125657971 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
326 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
125658036 AATTTCTGTTTTCAATTTACGTTG
391 AATTTCT-TTTTCAATTTACGTTG
125658060 TTCAAGAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAT
1 TTCAAGAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAAT
125658125 TTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
65 TTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTA--T
125658190 TAATTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTA
128 TAATTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTA
125658255 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTT
193 -TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTT
125658320 TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAT
257 TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAT
125658385 TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
322 TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
125658450 TTTCAATTTCTTTTTCAATTTACGTTG
387 TTTCAATTTCTTTTTCAATTTACGTTG
125658477 TTCAAGAATCAACTCATATTGC
1 TTCAAGAATCAACTCATATTGC
125658499 GAGAGGAGGT
Statistics
Matches: 431, Mismatches: 3, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
413 5 0.01
414 34 0.08
415 85 0.20
417 102 0.24
418 205 0.48
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (413 bp):
TTCAAGAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATT
TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTAA
TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTATTT
TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
AATTTCTTTTTCAATTTACGTTG
Found at i:125658427 original size:72 final size:71
Alignment explanation
Indices: 125658306--125658742 Score: 286
Period size: 72 Copynumber: 6.1 Consensus size: 71
125658296 GAGTTAAGCC
*
125658306 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
125658370 TGAGGTA
65 TGAGGTA
** * *
125658377 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
125658442 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * ***
125658449 TTTTCAA--TTTCTTTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGG-A
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
125658506 GGTTGA-ACC
62 CGCTGAGGTA
** * *
125658515 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
125658579 CTGAGGTA
64 CTGAGGTA
* * ** * *
125658587 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
125658652 GCTGAGGTA
63 GCTGAGGTA
* * ** * * **
125658661 -TTTCAATTTTTATGTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
1 TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCACG
*
125658725 CCGAGGTA
64 CTGAGGTA
125658733 TTTTCAATTT
1 TTTTCAATTT
125658743 CCGTTTTTCA
Statistics
Matches: 269, Mismatches: 73, Indels: 46
0.69 0.19 0.12
Matches are distributed among these distances:
65 7 0.03
66 9 0.03
67 10 0.04
68 11 0.04
69 6 0.02
70 41 0.15
71 15 0.06
72 86 0.32
73 35 0.13
74 49 0.18
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:125658752 original size:14 final size:14
Alignment explanation
Indices: 125658733--125658767 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
125658723 CGCCGAGGTA
125658733 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
125658747 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
125658761 CTTTCAA
1 TTTTCAA
125658768 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:125658873 original size:73 final size:77
Alignment explanation
Indices: 125658748--125659432 Score: 394
Period size: 79 Copynumber: 8.8 Consensus size: 77
125658738 AATTTCCGTT
* *
125658748 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
125658812 CACGCTGA-GTAA
65 CACGCCGAGGTAA
* *
125658824 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
125658887 CACGCCGAGGTAT
65 CACGCCGAGGTAA
* ** *
125658900 TTTCAATTTCCGTTTTTCAATTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTCAATTT-C---TGTC-----TG---TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
*
125658965 AGCCTCAGG-ACACGCTGAGGTAA
54 AGCCTCAGGCACACGCCGAGGTAA
* * * *
125658988 TTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
*
125659051 CACGTCGAGGTATTTTCAA
65 CACGCCGAGG-----T-AA
* * ** *
125659070 TTTCCATTTTTCAATTTCTGCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTT-CA-ATTTC--TGTCTG--TCAAAAAAAA---TCAACTCATATTGCGAGAGGCGAGTTGAGC
* *
125659135 CTC-GGGACACGCTGAGGTAA
57 CTCAGGCACACGCCGAGGTAA
* *** *
125659155 TTTCAATTTCT-T-T-TC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
** *
125659213 ACG-TTAGGTAT
66 ACGCCGAGGTAA
* * * * *
125659224 TTTCAATTTCT-T-T-TC---AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* * *
125659282 ATGCGCTGAGCTAT
66 A--CGCCGAGGTAA
* * * * *
125659296 TTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
* * *
125659360 CACACTGAGGTATTT
65 CACGCCGAGGTA--A
* * * * * * *
125659375 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
125659433 GGGTTACATG
Statistics
Matches: 499, Mismatches: 60, Indels: 97
0.76 0.09 0.15
Matches are distributed among these distances:
68 1 0.00
69 55 0.11
70 36 0.07
71 3 0.01
72 17 0.03
73 45 0.09
74 41 0.08
75 14 0.03
76 35 0.07
77 43 0.09
78 3 0.01
79 58 0.12
80 3 0.01
81 2 0.00
82 5 0.01
83 6 0.01
84 8 0.02
85 5 0.01
86 5 0.01
87 3 0.01
88 21 0.04
89 2 0.00
90 46 0.09
91 9 0.02
92 1 0.00
93 32 0.06
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:125658907 original size:76 final size:75
Alignment explanation
Indices: 125658747--125659432 Score: 361
Period size: 69 Copynumber: 8.8 Consensus size: 75
125658737 CAATTTCCGT
* *
125658747 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA
*
125658812 CACGCTGAGTA
65 CACGCCGAGTA
* * *
125658823 ATTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--
125658886 ACACGCCGAGGTA
64 ACACGCCGA-GTA
* ** *
125658899 TTTTCAATTTCCGTTTTTCAATTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTT-C---TGTC-----TG---TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
*
125658964 GAGCCTCAGGACACGCTGAGGTA
54 GAGCCTCAGGACACGCCGA-GTA
* * * * *
125658987 ATTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG--G
*
125659050 ACACGTCGAGGTA
64 ACACGCCGA-GTA
* ** *
125659063 TTTTCAATTTCCATTTTTCAATTTCTGCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
1 TTTTC-A-----A--TTTC--TGTCTG--TCAAAAAAAA---TCAACTCATATTGCGAGAGGCGA
* *
125659128 GTTGAGCCTCGGGACACGCTGAGGTA
51 GTTGAGCCTCAGGACACGCCGA-GTA
* * *** *
125659154 ATTTCAATTTCT-T-T-TC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
**
125659213 ACG-TTAGGTA
66 ACGCCGA-GTA
* * * * *
125659223 TTTTCAATTTCT-T-T-TC---AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCT
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-A
*
125659281 CATGCGCTGAGCTA
65 CA--CGCCGAG-TA
* * * *
125659295 TTTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GAT
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA-
*
125659358 CACACACTGAGGTA
65 CACGC-C-GA-GTA
* * * * * * *
125659372 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 --TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
125659433 GGGTTACATG
Statistics
Matches: 497, Mismatches: 60, Indels: 103
0.75 0.09 0.16
Matches are distributed among these distances:
68 1 0.00
69 55 0.11
70 37 0.07
71 3 0.01
72 16 0.03
73 45 0.09
74 41 0.08
75 16 0.03
76 41 0.08
77 43 0.09
78 3 0.01
79 55 0.11
80 3 0.01
81 1 0.00
82 1 0.00
83 4 0.01
84 6 0.01
85 1 0.00
86 4 0.01
87 3 0.01
88 21 0.04
89 2 0.00
90 47 0.09
91 15 0.03
93 33 0.07
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
ACGCCGAGTA
Found at i:125659039 original size:164 final size:163
Alignment explanation
Indices: 125658588--125659233 Score: 904
Period size: 163 Copynumber: 4.0 Consensus size: 163
125658578 GCTGAGGTAA
* * * *
125658588 TTTCAATTTCTG-TTGTC-AAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** *
125658651 CGCTGAGGT-ATTTCAATTT-TTATGT-TTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
65 CGCTGAGGTAATTTCAATTTCTT-TGTCAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
125658713 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
125658748 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTCTG-CTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
125658813 ACGCTGA-GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAG
64 ACGCTGAGGTAATTTCAATTTCT-TTGTC-AAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
125658877 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
127 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
125658914 TTTCAATTT-TGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
125658977 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCT-TTGTC-AAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
125659042 CTCAGATCACACGTCGAGGTATTTTCAATTTCCATT
128 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
125659078 TTTCAATTTCTGCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
1 TTTCAATTTCTGCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* ***
125659143 ACGCTGAGGTAATTTCAATTTCTTT-TC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
64 ACGCTGAGGTAATTTCAATTTCTTTGTCAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* **
125659206 TCAAG--ACACG-TTAGGTATTTTCAATTTC
129 TCAGGTCACACGCCGAGGTATTTTCAATTTC
125659234 TTTTCAAAAA
Statistics
Matches: 447, Mismatches: 25, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
160 28 0.06
161 7 0.02
162 4 0.01
163 145 0.32
164 106 0.24
165 12 0.03
166 78 0.17
167 67 0.15
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (163 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTTTGTCAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
AGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:125659416 original size:79 final size:74
Alignment explanation
Indices: 125659098--125659596 Score: 354
Period size: 79 Copynumber: 6.5 Consensus size: 74
125659088 TGCTTTCAAA
** *
125659098 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
125659161 TTTCTTTTC
66 TTTCTTTTC
* ** * *
125659170 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACG-TTAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
125659230 TTTCTTTTC
66 TTTCTTTTC
* * ** * ** *
125659239 --AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
125659302 TTTCTATCTTTC
66 TTTC--T-TTTC
* *
125659314 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
*
125659379 AATTTATATTTTTC
64 AA-TT-T-CTTTTC
* * * * * *
125659393 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTA-TTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
125659456 AAATCTTTTTC
65 ATTTC-TTTTC
* ** * **
125659467 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
125659532 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTC-------TTTTC
125659559 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
125659597 TTTTTAATTT
Statistics
Matches: 340, Mismatches: 50, Indels: 64
0.75 0.11 0.14
Matches are distributed among these distances:
69 53 0.16
70 41 0.12
71 3 0.01
72 16 0.05
74 7 0.02
75 6 0.02
76 6 0.02
77 46 0.14
78 1 0.00
79 59 0.17
80 3 0.01
81 6 0.02
82 29 0.09
85 47 0.14
86 9 0.03
91 2 0.01
92 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTTTTC
Found at i:125659468 original size:12 final size:13
Alignment explanation
Indices: 125659451--125659483 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
125659441 TGTCGAGGTA
125659451 TTTCAAAATCT-T
1 TTTCAAAATCTGT
*
125659463 TTTCAAATTCTGT
1 TTTCAAAATCTGT
125659476 TTTCAAAA
1 TTTCAAAA
125659484 ATCAACTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTCAAAATCTGT
Found at i:125659500 original size:85 final size:83
Alignment explanation
Indices: 125659388--125659770 Score: 261
Period size: 85 Copynumber: 4.5 Consensus size: 83
125659378 CAATTTATAT
* * * *
125659388 TTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTA-T
1 TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATG-CGAGGTATT
125659452 TTCAAAATCTTTTTCAAATTCTG
64 TTCAAAATC-TTTT--AATTCTG
* * * *
125659475 TTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG-GCTCACGTGCTGAGCTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-TCACATGC-GAGGTATT
** *
125659538 TTCAATTTCTGTT--TT-T-
64 TTCAAAATCTTTTAATTCTG
* ** * **
125659554 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTC-TGCGAGAGT-
1 TTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-CTCGAGTCACATGCGAG-GTA
* * *
125659617 TGAGTT--GAGTCTTTTAATTTCTG
62 T--TTTCAAAATCTTTTAA-TTCTG
* * *
125659640 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATT
1 -TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACAT-GCGAGGTATT
**
125659704 TTCAAAATCTGCTTTTCAAGTTAAG
64 TTCAAAA--T-CTTTT-AA-TTCTG
125659729 -TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
125659771 TGGCTCACGC
Statistics
Matches: 233, Mismatches: 36, Indels: 53
0.72 0.11 0.16
Matches are distributed among these distances:
79 5 0.02
80 1 0.00
81 16 0.07
82 33 0.14
83 12 0.05
84 36 0.15
85 61 0.26
86 8 0.03
87 15 0.06
88 41 0.18
89 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (83 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGCGAGGTATTTT
CAAAATCTTTTAATTCTG
Found at i:125659614 original size:30 final size:30
Alignment explanation
Indices: 125659578--125659639 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
125659568 CAACTCATAT
125659578 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
125659608 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
125659638 TG
1 TG
125659640 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:125659722 original size:241 final size:233
Alignment explanation
Indices: 125659098--125659807 Score: 659
Period size: 254 Copynumber: 3.0 Consensus size: 233
125659088 TGCTTTCAAA
* ** * *
125659098 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--ATTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCTTTTC
* * * * *
125659159 AA-TT-T-CTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT--A
66 AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACATTCGA
* *
125659219 GGTATTTTC--AAT-TTC-TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGC
131 GGTATTTTCAAAATCTTCATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
125659280 TCATGCGCTGAGCTATTTTCAATTTC----TATCTTTC
196 TCACGCGCTGAGCTATTTTCAATTTCTGTTTTTCTTTC
*
125659314 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCTTTTC
* * ** *
125659379 AATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGT
66 AATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACAT-T
*
125659444 CGAGGTA-TTTCAAAATCTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGA
128 CGAGGTATTTTCAAAATC---TTC--A-----TTTTCAAAAATCAACTCATATTGCGAGAGGTGA
* *
125659508 GTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTC
183 GTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTCTTTC
* * * * *
125659559 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT
* * * * *
125659623 GAGTCTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG
58 -A-TCTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG
125659687 TCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTG
121 TCACAT-TCGAGGTATTTTCAAAA--T-C--TTC-A--T---TTTC-AAAAATCAACTCATATTG
125659752 CGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTT
173 CGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTT
125659808 AATGTCTGTT
Statistics
Matches: 405, Mismatches: 41, Indels: 58
0.80 0.08 0.12
Matches are distributed among these distances:
216 39 0.10
217 1 0.00
218 12 0.03
220 6 0.01
221 2 0.00
222 1 0.00
223 5 0.01
225 38 0.09
226 1 0.00
227 4 0.01
228 5 0.01
229 3 0.01
233 3 0.01
241 67 0.17
245 13 0.03
246 30 0.07
247 1 0.00
248 3 0.01
249 2 0.00
250 2 0.00
251 51 0.13
252 13 0.03
253 19 0.05
254 83 0.20
255 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (233 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCTTTTC
AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGTCACATTCGA
GGTATTTTCAAAATCTTCATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
TCACGCGCTGAGCTATTTTCAATTTCTGTTTTTCTTTC
Found at i:125659769 original size:254 final size:244
Alignment explanation
Indices: 125659234--125659807 Score: 732
Period size: 254 Copynumber: 2.3 Consensus size: 244
125659224 TTTCAATTTC
* * *
125659234 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
*
125659299 CAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
66 CAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
* *
125659360 CACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGT
131 CACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGT
* ** * * **
125659425 TGAGCCTCGGGTTACATGTCGAGGTATTTCAAAATCTTTTTCAAATTCTG
195 TGAACCTCCAGTCACATATCGAGGTATTTCAAAATCTTTTTCAAATTAAG
* *
125659475 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
* *
125659540 CAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-A
66 CAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA
* * * * * * *
125659604 TTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGA
128 --TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGA
*
125659667 GAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG
186 GAGGTGAGTTGAACCTCCAGTCACATATCGAGGTA-TTTCAAAATCT--TTTTCAAATTAAG
125659729 -TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
125659793 TCAATTTCTGTTTTT
65 TCAATTTCTGTTTTT
125659808 AATGTCTGTT
Statistics
Matches: 288, Mismatches: 27, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
241 67 0.23
245 13 0.05
246 30 0.10
247 1 0.00
248 3 0.01
249 2 0.01
250 1 0.00
251 51 0.18
252 16 0.06
253 17 0.06
254 87 0.30
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (244 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
CAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
CACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTT
GAACCTCCAGTCACATATCGAGGTATTTCAAAATCTTTTTCAAATTAAG
Found at i:125660468 original size:16 final size:16
Alignment explanation
Indices: 125660449--125660484 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
125660439 AACCTAACCC
*
125660449 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
125660464 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
125660480 AAAAA
1 AAAAA
125660485 CCTACCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Done.