Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 4 of 135
Found at i:1358268 original size:22 final size:20
Alignment explanation
Indices: 1358243--1358284 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1358233 AATTGAGTTA
*
1358243 TATTTTTTATTTAATTTATAAT
1 TATTTTTAATTT--TTTATAAT
1358265 TATTTTTAATTTTTTATAAT
1 TATTTTTAATTTTTTATAAT
1358285 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTTAATTTTTTATAAT
Found at i:1359673 original size:13 final size:13
Alignment explanation
Indices: 1359624--1359681 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1359614 GGTCGGATAA
1359624 AATATTTAA-TTT
1 AATATTTAATTTT
* * *
1359636 AATATTGAAATTA
1 AATATTTAATTTT
1359649 AATATTTTAATTTT
1 AATA-TTTAATTTT
*
1359663 AATATTCAATTTT
1 AATATTTAATTTT
*
1359676 ATTATT
1 AATATT
1359682 ATTCTAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 8 0.22
13 19 0.51
14 10 0.27
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
AATATTTAATTTT
Found at i:1359840 original size:21 final size:21
Alignment explanation
Indices: 1359816--1359857 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1359806 AGTAAATTAC
1359816 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
1359837 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
1359858 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:1362003 original size:20 final size:21
Alignment explanation
Indices: 1361952--1362029 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
1361942 TTAATTCAAT
* *
1361952 TATTTTTTATTTA-ATATTTAA
1 TATTTTTTATATATTTA-TTAA
**
1361973 TATTTAATATATATTTATTAA
1 TATTTTTTATATATTTATTAA
* *
1361994 -ATTTTTTATATAGTCATTAA
1 TATTTTTTATATATTTATTAA
1362014 TATTTTTTA-ATATTTA
1 TATTTTTTATATATTTA
1362030 CATTATAGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 21 0.47
21 22 0.49
22 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTTTTTATATATTTATTAA
Found at i:1362913 original size:12 final size:12
Alignment explanation
Indices: 1362898--1362923 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1362888 ATGATGTTGA
1362898 TGATGGTGGTGG
1 TGATGGTGGTGG
1362910 TGATGGTGGTGG
1 TGATGGTGGTGG
1362922 TG
1 TG
1362924 GTCTCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.58, T:0.35
Consensus pattern (12 bp):
TGATGGTGGTGG
Found at i:1364783 original size:23 final size:22
Alignment explanation
Indices: 1364751--1364798 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1364741 AAATTCTTTC
*
1364751 TAAATTTTAATTA-ATTAATTTA
1 TAAATTTTAAATATATT-ATTTA
1364773 TAAATATTTAAATATATTATTTA
1 TAAAT-TTTAAATATATTATTTA
1364796 TAA
1 TAA
1364799 TTACAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTTTAAATATATTATTTA
Found at i:1368863 original size:30 final size:30
Alignment explanation
Indices: 1368825--1368912 Score: 101
Period size: 30 Copynumber: 2.9 Consensus size: 30
1368815 GGTGATAAAA
1368825 GAATTTTAATTTTATAT-AATTATATATGT
1 GAATTTTAATTTTATATCAATTATATATGT
*
1368854 GAATATTTAATTTTGAT-TCAATTAAATATGT
1 GAAT-TTTAATTTT-ATATCAATTATATATGT
* *
1368885 CAACTTTAATTTT-TATCCAATTATATAT
1 GAATTTTAATTTTATAT-CAATTATATAT
1368913 TTTTAAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
28 1 0.02
29 5 0.10
30 29 0.58
31 15 0.30
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (30 bp):
GAATTTTAATTTTATATCAATTATATATGT
Found at i:1377791 original size:12 final size:12
Alignment explanation
Indices: 1377770--1377802 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1377760 TCGACAAAAT
1377770 TTATAA-ATAAA
1 TTATAATATAAA
1377781 TTATAATATAAA
1 TTATAATATAAA
*
1377793 ATATAATATA
1 TTATAATATA
1377803 TAAACTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTATAATATAAA
Found at i:1389693 original size:129 final size:129
Alignment explanation
Indices: 1389552--1390137 Score: 1016
Period size: 129 Copynumber: 4.5 Consensus size: 129
1389542 AAAAGTGTTC
* *
1389552 TATCAATTATTTATATTTAATAAACTT-AATTATATTAGTTTTCTTTCATTTTATGATATAAAAA
1 TATCAATTATTTATATTTAATAAACTTGAA-TATATTAATTTTCTTTCCTTTTATGATATAAAAA
* *
1389616 TTTATAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGACATTCGGAGAAATCTTT
65 TTTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
*
1389681 TATCAATTATTTATATATTTAATAAACTTGAATATATTAATTTTCTTTTCTTTTATGATAT--AA
1 TATCAATTA-TT-TATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAA
* *
1389744 ATTTTTTAAATAAATTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTT
64 ATTTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTT
1389809 T
129 T
* *
1389810 TATTAATTATTTATATTTAATAAACTTAAATATATTAATTTTCTTTCCTTTTATGATATAAAAAT
1 TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAAAT
*
1389875 TTCTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
66 TTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
*
1389939 TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAATT
1 TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAAAT
1390004 TTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
66 TTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
*
1390068 TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAATT
1 TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAAAT
1390133 TTTTA
66 TTTTA
1390138 TTTTTCCTTT
Statistics
Matches: 435, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
127 46 0.11
128 2 0.00
129 341 0.78
130 2 0.00
131 42 0.10
132 2 0.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (129 bp):
TATCAATTATTTATATTTAATAAACTTGAATATATTAATTTTCTTTCCTTTTATGATATAAAAAT
TTTTAAAATAAACTTATAATATTTAATGAAATCAAATATTCATATGATATTCGGAGAAATCTTT
Found at i:1401289 original size:74 final size:74
Alignment explanation
Indices: 1401168--1401317 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
1401158 TTCAACTCAC
1401168 ATTTTAAACTGGCCTATGATTAAACTCTTTATCCATTTGTAAAAACCCTTACTTAGAAAAAGAAA
1 ATTTTAAACTGGCCTATGATTAAACTCTTTATCCATTTGTAAAAACCCTTACTTAGAAAAAGAAA
1401233 ATGGGCAAA
66 ATGGGCAAA
1401242 ATTTTAAACTGGCCTATGATTAAACTCTTTATCCATTTGTAAAAACCCTTACTTAGAAAAAGAAA
1 ATTTTAAACTGGCCTATGATTAAACTCTTTATCCATTTGTAAAAACCCTTACTTAGAAAAAGAAA
1401307 ATGGGCAAA
66 ATGGGCAAA
1401316 AT
1 AT
1401318 AGCACATGCG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (74 bp):
ATTTTAAACTGGCCTATGATTAAACTCTTTATCCATTTGTAAAAACCCTTACTTAGAAAAAGAAA
ATGGGCAAA
Found at i:1402977 original size:123 final size:123
Alignment explanation
Indices: 1402758--1402984 Score: 314
Period size: 123 Copynumber: 1.8 Consensus size: 123
1402748 TTAGCCACTT
* * * *
1402758 ACAATGCAAATTACTCTAGAACTACGCTGATTGATTACCGTTTTGACATTATAAAGCAAGTTTTA
1 ACAATGCAAATTACTCTAAAACTACGCTGATTGATTACCGTTTCGACATTATAAACCAAATTTTA
* *
1402823 ATAAACTACCAAACTAAGAAGCACAAAGAAGCTTAAAGAATATGAACAATTTTAAAAA
66 ATAAACTACCAAACTAAAAAACACAAAGAAGCTTAAAGAATATGAACAATTTTAAAAA
* * * * *
1402881 ACAATGCAATTTACTCTAAAACTATGCT-AGTTGATTGCC-TTTCGACGTTATACACCAAATTTT
1 ACAATGCAAATTACTCTAAAACTACGCTGA-TTGATTACCGTTTCGACATTATAAACCAAATTTT
*
1402944 AATAAACTATCAAACTCAAAAAACACAAAGAAGCTTAAAGA
65 AATAAACTACCAAACT-AAAAAACACAAAGAAGCTTAAAGA
1402985 GAAAAACTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 35 0.39
123 55 0.61
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (123 bp):
ACAATGCAAATTACTCTAAAACTACGCTGATTGATTACCGTTTCGACATTATAAACCAAATTTTA
ATAAACTACCAAACTAAAAAACACAAAGAAGCTTAAAGAATATGAACAATTTTAAAAA
Found at i:1425246 original size:4 final size:4
Alignment explanation
Indices: 1425239--1425272 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
1425229 GCAACAAAAC
1425239 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1425273 GAACTAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:1445047 original size:156 final size:153
Alignment explanation
Indices: 1444763--1445228 Score: 644
Period size: 156 Copynumber: 3.0 Consensus size: 153
1444753 GCTGCAATAA
* * *
1444763 TAGACCCGTGGATGCACATGCTTCAACTGAATGACCAGATGAAACATCGGGTAATTCAGCCCTTG
1 TAGACCAGTGGATGCACATGCTTCAACTGAATGACCAGATGAAACATTGGGTAATTCAG-CCTTT
* *
1444828 GGTTGAATGACATGGCCGCAGGTCCAGCATTATCTCTAGTACTACTTTTCTGGGGACTCAAGAAA
65 GGTTGAA-GACATGGCCGCAGGTCCAGCATT-TCTCTAGCACTACTTTTCTGGGGATTCAAGAAA
1444893 AAATCAAGATCATTGACTTGTGACGG
128 AAATCAAGATCATTGACTTGTGACGG
* * * *
1444919 TAGACCAGTGTATGCACATGCTTCAACTGAATGACCAGATGCACCATTGGGTGATTCAGCCTTTT
1 TAGACCAGTGGATGCACATGCTTCAACTGAATGACCAGATGAAACATTGGGTAATTCAGCC-TTT
* * * *
1444984 GGTTAAAGGACCTGGCCGCAGGTGCAGCATCTTCTCTAGCACTACTTTTCTGGGGATTTAAGAAA
65 GGTTGAA-GACATGGCCGCAGGTCCAGCAT-TTCTCTAGCACTACTTTTCTGGGGATTCAAGAAA
* * *
1445049 AAATCAGGACCATTGACTTGTGACTG
128 AAATCAAGATCATTGACTTGTGACGG
* * *
1445075 TAGACGAGTGGATTCACATGCTTCAACTGAACGACCAGATGAAACATTGGGTAATTCAGCCTTTG
1 TAGACCAGTGGATGCACATGCTTCAACTGAATGACCAGATGAAACATTGGGTAATTCAGCCTTTG
* *
1445140 GATTGGAAGACATGGCCTCAGGTCCAGCATTTTCTCTAACACTACTTTTCTGGGGATTCAAGAAA
66 G-TT-GAAGACATGGCCGCAGGTCCAGCA-TTTCTCTAGCACTACTTTTCTGGGGATTCAAGAAA
* *
1445205 AAAGCAAGATCATTGAATTGTGAC
128 AAATCAAGATCATTGACTTGTGAC
1445229 ATAGTCTTGA
Statistics
Matches: 271, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
155 7 0.03
156 260 0.96
157 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (153 bp):
TAGACCAGTGGATGCACATGCTTCAACTGAATGACCAGATGAAACATTGGGTAATTCAGCCTTTG
GTTGAAGACATGGCCGCAGGTCCAGCATTTCTCTAGCACTACTTTTCTGGGGATTCAAGAAAAAA
TCAAGATCATTGACTTGTGACGG
Found at i:1455034 original size:18 final size:18
Alignment explanation
Indices: 1455007--1455041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1454997 GATTGTGATG
*
1455007 GGAACGGGAACGGGAACT
1 GGAACGGGAACAGGAACT
*
1455025 GGAACTGGAACAGGAAC
1 GGAACGGGAACAGGAAC
1455042 AGCTCTGAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.40, T:0.06
Consensus pattern (18 bp):
GGAACGGGAACAGGAACT
Found at i:1457911 original size:19 final size:19
Alignment explanation
Indices: 1457887--1457924 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1457877 TCATCACCTG
*
1457887 ATTTTTTTTAAATGTTATA
1 ATTTTTTTAAAATGTTATA
*
1457906 ATTTTTTTAAAATTTTATA
1 ATTTTTTTAAAATGTTATA
1457925 TAAAGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTTTTTAAAATGTTATA
Found at i:1459516 original size:12 final size:12
Alignment explanation
Indices: 1459501--1459619 Score: 148
Period size: 12 Copynumber: 9.9 Consensus size: 12
1459491 TTAAATTTAT
1459501 TTCTTCTCTTCC
1 TTCTTCTCTTCC
1459513 TTCTTCTCTTCC
1 TTCTTCTCTTCC
* *
1459525 TTCTTCTCCTCT
1 TTCTTCTCTTCC
1459537 TTCTTCTCTTCC
1 TTCTTCTCTTCC
*
1459549 TTCTTCTCTTCT
1 TTCTTCTCTTCC
* *
1459561 TTCTTCTCCTCT
1 TTCTTCTCTTCC
* * *
1459573 TTCTTTTCCTCT
1 TTCTTCTCTTCC
*
1459585 TTCTTTTCTTCC
1 TTCTTCTCTTCC
*
1459597 TTCTTTTCTTCC
1 TTCTTCTCTTCC
1459609 TTCTTCTCTTC
1 TTCTTCTCTTC
1459620 TTTAGCAGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 97 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (12 bp):
TTCTTCTCTTCC
Found at i:1459622 original size:36 final size:36
Alignment explanation
Indices: 1459500--1459619 Score: 168
Period size: 36 Copynumber: 3.3 Consensus size: 36
1459490 TTTAAATTTA
1459500 TTTCTTCTCTTCCTTCTTCTCTTCCTTCTTCTCCTC
1 TTTCTTCTCTTCCTTCTTCTCTTCCTTCTTCTCCTC
*
1459536 TTTCTTCTCTTCCTTCTTCTCTTCTTTCTTCTCCTC
1 TTTCTTCTCTTCCTTCTTCTCTTCCTTCTTCTCCTC
* * * * * *
1459572 TTTCTTTTCCTCTTTCTTTTCTTCCTTCTTTTCTTC
1 TTTCTTCTCTTCCTTCTTCTCTTCCTTCTTCTCCTC
*
1459608 CTTCTTCTCTTC
1 TTTCTTCTCTTC
1459620 TTTAGCAGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (36 bp):
TTTCTTCTCTTCCTTCTTCTCTTCCTTCTTCTCCTC
Found at i:1464837 original size:25 final size:24
Alignment explanation
Indices: 1464784--1464838 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
1464774 TAATGCTAAT
*
1464784 TTTTAACATACAAATAAATAAAAA
1 TTTTAACATACAAATAAATAATAA
1464808 TTTTAACATA-AAA-AATATAATTAA
1 TTTTAACATACAAATAA-ATAA-TAA
1464832 TCTTTAA
1 T-TTTAA
1464839 TTTAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 13 0.48
25 5 0.19
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTTAACATACAAATAAATAATAA
Found at i:1465748 original size:19 final size:19
Alignment explanation
Indices: 1465726--1465775 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
1465716 GAATAATTTT
1465726 TATTATTTTAAATATAAAA
1 TATTATTTTAAATATAAAA
* *
1465745 TATTTATTTT-TACATAAAA
1 TA-TTATTTTAAATATAAAA
*
1465764 -ATTAATTTAAAT
1 TATTATTTTAAAT
1465776 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 9 0.38
20 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATTTTAAATATAAAA
Found at i:1468786 original size:13 final size:13
Alignment explanation
Indices: 1468768--1468794 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1468758 GTTGTATATG
1468768 AAATAAAAAATAA
1 AAATAAAAAATAA
1468781 AAATAAAAAATAA
1 AAATAAAAAATAA
1468794 A
1 A
1468795 CTTTCACATC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:1472398 original size:6 final size:6
Alignment explanation
Indices: 1472387--1472413 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1472377 AAGATTTTTT
1472387 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
1472414 AATGAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:1490900 original size:2 final size:2
Alignment explanation
Indices: 1490888--1490926 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1490878 AATAAATTAC
1490888 AT AT A- AT 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 AT AT AT AT
1490927 TTCATTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1491136 original size:14 final size:15
Alignment explanation
Indices: 1491104--1491140 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1491094 TTCTAATCTT
1491104 TATAATA-A-TTTAA
1 TATAATATATTTTAA
1491117 TATAATATATTTTAA
1 TATAATATATTTTAA
1491132 T-TAATATAT
1 TATAATATAT
1491141 ACAATCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 9 0.41
15 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATAATATATTTTAA
Found at i:1494908 original size:60 final size:60
Alignment explanation
Indices: 1494777--1494914 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 60
1494767 CTAACTAAGT
* * *
1494777 TTTTGTCTCTTTTGATCATCAAACCATGAAAAGTTATAAAATGATCACCCAATTATTAGTA
1 TTTTGTCTTTTTTGATCACCAAACCATAAAAAGTTATAAAATGATCACCCAATTATTAG-A
** * * * *
1494838 AATT-TATTTTTTGATCACCCAACTATAAAAAGTTA-AAATATGATCACTCAATTATTCA-A
1 TTTTGTCTTTTTTGATCACCAAACCATAAAAAGTTATAAA-ATGATCACCCAATTATT-AGA
1494897 TTTTGTCTTTTTT-ATCAC
1 TTTTGTCTTTTTTGATCAC
1494915 TTGACTACCT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
59 11 0.18
60 48 0.77
61 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (60 bp):
TTTTGTCTTTTTTGATCACCAAACCATAAAAAGTTATAAAATGATCACCCAATTATTAGA
Found at i:1495159 original size:5 final size:5
Alignment explanation
Indices: 1495149--1495176 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1495139 TTTTCACTCA
1495149 ATTTG ATTTG ATTTG ATTTG ATTTG ATT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATT
1495177 GAATGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (5 bp):
ATTTG
Found at i:1499535 original size:55 final size:55
Alignment explanation
Indices: 1499476--1499580 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
1499466 TAATTTCAAC
* * * * * * * *
1499476 GTTCAATTTAGTACTTGAGTTTTTTTTGTTCCAGTTAAGTATTTAAATTTGACTT
1 GTTCAATTTAATACTTAAATCTTTTTTGTCCCAATCAAGTACTTAAATTTGACTT
1499531 GTTCAATTTAATACTTAAATCTTTTTTGTCCCAATCAAGTACTTAAATTT
1 GTTCAATTTAATACTTAAATCTTTTTTGTCCCAATCAAGTACTTAAATTT
1499581 TTTTTATTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (55 bp):
GTTCAATTTAATACTTAAATCTTTTTTGTCCCAATCAAGTACTTAAATTTGACTT
Found at i:1499559 original size:27 final size:28
Alignment explanation
Indices: 1499476--1499585 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 28
1499466 TAATTTCAAC
* *
1499476 GTTCAATTT-AGTACTTGAGTTTTTTTT
1 GTTCAATTTAAGTACTTAAATTTTTTTT
* * * ***
1499503 GTTCCAGTTAAGTATTTAAATTTGACTT
1 GTTCAATTTAAGTACTTAAATTTTTTTT
*
1499531 GTTCAATTTAA-TACTTAAATCTTTTTT
1 GTTCAATTTAAGTACTTAAATTTTTTTT
* *
1499558 GTCCCAA-TCAAGTACTTAAATTTTTTTT
1 GT-TCAATTTAAGTACTTAAATTTTTTTT
1499586 ATTAGAACAC
Statistics
Matches: 62, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
27 23 0.37
28 39 0.63
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (28 bp):
GTTCAATTTAAGTACTTAAATTTTTTTT
Found at i:1506426 original size:3 final size:3
Alignment explanation
Indices: 1506418--1506456 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1506408 TTATTCAAAA
1506418 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1506457 GTTAAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1508481 original size:31 final size:29
Alignment explanation
Indices: 1508436--1508494 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
1508426 ATGGCATATA
*
1508436 TAAATTTAAAAAATT-ATATATAATAAATG
1 TAAATTTAAAAAATTGAGATATAA-AAATG
1508465 TAAATATTAAATAAATTGAGATATAAAAAT
1 TAAAT-TTAAA-AAATTGAGATATAAAAAT
1508495 ATTTAGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 5 0.19
31 9 0.35
32 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
TAAATTTAAAAAATTGAGATATAAAAATG
Found at i:1510807 original size:16 final size:15
Alignment explanation
Indices: 1510777--1510814 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1510767 AATAATTAAT
1510777 TAAAAATTTATAAAA
1 TAAAAATTTATAAAA
1510792 CTAAAATATTTA-AAAA
1 -TAAAA-ATTTATAAAA
1510808 TAAAAAT
1 TAAAAAT
1510815 AAAAAACAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 5 0.24
16 9 0.43
17 5 0.24
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATTTATAAAA
Found at i:1511392 original size:13 final size:13
Alignment explanation
Indices: 1511374--1511409 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1511364 AAATTATGAA
1511374 TATAATAAAAATT
1 TATAATAAAAATT
1511387 TATAAT-AAAATT
1 TATAATAAAAATT
*
1511399 AATAATAAAAA
1 TATAATAAAAA
1511410 ATCTCTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TATAATAAAAATT
Found at i:1521746 original size:6 final size:6
Alignment explanation
Indices: 1521735--1521771 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1521725 ATATATGTAT
1521735 GCGATG GCGATG GCGATG GCGATG GCGATG GCGATG G
1 GCGATG GCGATG GCGATG GCGATG GCGATG GCGATG G
1521772 GTATTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (6 bp):
GCGATG
Found at i:1524777 original size:18 final size:18
Alignment explanation
Indices: 1524754--1524798 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1524744 ATTTTAAATC
*
1524754 AAAAAATTGATTTGGACA
1 AAAAAATTGATTTGAACA
*
1524772 AAAAAAATGATTTGAACA
1 AAAAAATTGATTTGAACA
1524790 AAAAAATTG
1 AAAAAATTG
1524799 TGCTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.13, T:0.24
Consensus pattern (18 bp):
AAAAAATTGATTTGAACA
Found at i:1526943 original size:23 final size:23
Alignment explanation
Indices: 1526917--1527060 Score: 218
Period size: 23 Copynumber: 6.3 Consensus size: 23
1526907 ACTAGCGCGG
*
1526917 TCTCTGTTTAGCACTGTGTGTGC
1 TCTCTGATTAGCACTGTGTGTGC
* *
1526940 TCTCTGTTTAGCAC-GTCTCGTGC
1 TCTCTGATTAGCACTGTGT-GTGC
1526963 TCTCTGATTAGCACTGTGTGTGC
1 TCTCTGATTAGCACTGTGTGTGC
*
1526986 TCTCTGATTAGCACTGTGCGTGC
1 TCTCTGATTAGCACTGTGTGTGC
1527009 TCTCTGATTAGCACTGTGTGTGC
1 TCTCTGATTAGCACTGTGTGTGC
* *
1527032 TCTCTGATTAGTACTTTGTGTGC
1 TCTCTGATTAGCACTGTGTGTGC
1527055 TCTCTG
1 TCTCTG
1527061 TTGCCCAGTA
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
22 3 0.03
23 106 0.95
24 3 0.03
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (23 bp):
TCTCTGATTAGCACTGTGTGTGC
Found at i:1531438 original size:42 final size:42
Alignment explanation
Indices: 1531374--1531455 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
1531364 TTTCAATTCC
* * * *
1531374 GTCTTCACCGGAGTATTGACTAGTTCACAAGCTATTATTTCT
1 GTCTTCACCAGAGTACTCACTAGTTCACAAGCTATCATTTCT
1531416 GTCTTCACCAGAGTACTCACTAGTTCACAAGCTATCATTT
1 GTCTTCACCAGAGTACTCACTAGTTCACAAGCTATCATTT
1531456 AGCACCAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (42 bp):
GTCTTCACCAGAGTACTCACTAGTTCACAAGCTATCATTTCT
Found at i:1531949 original size:15 final size:16
Alignment explanation
Indices: 1531915--1531949 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1531905 TAAATAATAA
1531915 AATAATATTATTTATT
1 AATAATATTATTTATT
1531931 -ATAATATTA-TTATT
1 AATAATATTATTTATT
1531945 AATAA
1 AATAA
1531950 ATATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATAATATTATTTATT
Found at i:1567325 original size:15 final size:15
Alignment explanation
Indices: 1567288--1567325 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1567278 AATAAAATCT
1567288 AATTTAA-ATATTTA
1 AATTTAACATATTTA
*
1567302 AATTCAACATATTTA
1 AATTTAACATATTTA
*
1567317 ATTTTAACA
1 AATTTAACA
1567326 AAAAATTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAACATATTTA
Found at i:1567449 original size:20 final size:19
Alignment explanation
Indices: 1567413--1567451 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1567403 TCATGCTAAC
*
1567413 ATTTTTTATAATAATTAAT
1 ATTTTTTAAAATAATTAAT
*
1567432 ATTTTTTCAAAATTATTAAT
1 ATTTTTT-AAAATAATTAAT
1567452 TGAGTAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTTTAAAATAATTAAT
Found at i:1567678 original size:2 final size:2
Alignment explanation
Indices: 1567671--1567702 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1567661 CAAATTACAA
1567671 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
1567703 CTTCATTTAA
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:1575451 original size:31 final size:31
Alignment explanation
Indices: 1575416--1575476 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1575406 TATACACATA
*
1575416 AAATTTAAATTGTGATTCATATGTATATATG
1 AAATTTAAATTGTGATTCAAATGTATATATG
** *
1575447 AAATTTTGATTTTGATTCAAATGTATATAT
1 AAATTTAAATTGTGATTCAAATGTATATAT
1575477 TTAAAGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
AAATTTAAATTGTGATTCAAATGTATATATG
Found at i:1576284 original size:22 final size:24
Alignment explanation
Indices: 1576245--1576297 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1576235 ACAGATAAAG
*
1576245 TATAATTTTTAATCTATAAAAATA
1 TATAATTTTTAATATATAAAAATA
* * *
1576269 TATAATTTTAAATATATATATATA
1 TATAATTTTTAATATATAAAAATA
1576293 TATAA
1 TATAA
1576298 ATTAAAAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATTTTTAATATATAAAAATA
Found at i:1576674 original size:17 final size:16
Alignment explanation
Indices: 1576644--1576675 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
1576634 TTTCTATAAC
1576644 TATGTTTTCCTTTCTA
1 TATGTTTTCCTTTCTA
1576660 TATGTTTTACCTTTCT
1 TATGTTTT-CCTTTCT
1576676 TTTTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.19, G:0.06, T:0.62
Consensus pattern (16 bp):
TATGTTTTCCTTTCTA
Found at i:1582873 original size:30 final size:31
Alignment explanation
Indices: 1582816--1582873 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1582806 GTTTTTTAAA
*
1582816 ATAAATGATTAATTTATTTTTTATTTAACTT
1 ATAAATGATTAATTTATTTCTTATTTAACTT
1582847 ATAAAT-ATTAATTTATTTACTT-TTTAA
1 ATAAATGATTAATTTATTT-CTTATTTAA
1582874 TACTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
ATAAATGATTAATTTATTTCTTATTTAACTT
Found at i:1591093 original size:15 final size:16
Alignment explanation
Indices: 1591068--1591101 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1591058 GAAATCAACT
*
1591068 TTTTCTATTTTTAATA
1 TTTTCTATTTTTAAAA
1591084 TTTT-TATTTTTAAAA
1 TTTTCTATTTTTAAAA
1591099 TTT
1 TTT
1591102 ATGTGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTATTTTTAAAA
Found at i:1592907 original size:17 final size:17
Alignment explanation
Indices: 1592875--1592920 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
1592865 CCCTTTTTCC
*
1592875 TTTCTTCATT-TCTTTTT
1 TTTCTTCATTAT-TTTTA
*
1592892 TTTTTTCATTATTTTTA
1 TTTCTTCATTATTTTTA
1592909 TTTCTTCATTAT
1 TTTCTTCATTAT
1592921 CAAAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTCATTATTTTTA
Found at i:1596347 original size:32 final size:32
Alignment explanation
Indices: 1596311--1596386 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
1596301 CATCATAAAC
*
1596311 TTATAAATTGATTACTTGAATTT-AGTAATTCA
1 TTATAAATTGATTAATTGAATTTGA-TAATTCA
* * *
1596343 TTATAAAATAATTAATTTAATTTGATAATTCA
1 TTATAAATTGATTAATTGAATTTGATAATTCA
*
1596375 TTGATTAATTGA
1 TT-ATAAATTGA
1596387 ACTCGTTAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 28 0.80
33 7 0.20
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (32 bp):
TTATAAATTGATTAATTGAATTTGATAATTCA
Found at i:1605607 original size:34 final size:34
Alignment explanation
Indices: 1605569--1605641 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
1605559 ACCAAACCAT
* * *
1605569 TTTAAGTTTATTTTAAAATT-AAATTTATTTTAAA
1 TTTAAATTTAATTTAAAATTGAAA-TTATTATAAA
* *
1605603 TTTAAATTTAATTTGAATTTGAAATTATTATAAA
1 TTTAAATTTAATTTAAAATTGAAATTATTATAAA
1605637 TTTAA
1 TTTAA
1605642 TAAAATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 30 0.91
35 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTAAATTTAATTTAAAATTGAAATTATTATAAA
Found at i:1605621 original size:17 final size:17
Alignment explanation
Indices: 1605569--1605641 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
1605559 ACCAAACCAT
* *
1605569 TTTAAGTTTATTTTAAA
1 TTTAAATTTAATTTAAA
* *
1605586 ATTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
*
1605603 TTTAAATTTAATTTGAA
1 TTTAAATTTAATTTAAA
1605620 TTTGAAA-TT-ATTATAAA
1 TTT-AAATTTAATT-TAAA
1605637 TTTAA
1 TTTAA
1605642 TAAAATGCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 5 0.10
17 40 0.83
18 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:1606059 original size:26 final size:25
Alignment explanation
Indices: 1606002--1606071 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
1605992 TGTAAATGGG
1606002 GAACCCTTTTTGAAAATCAATATAC
1 GAACCCTTTTTGAAAATCAATATAC
*
1606027 GATCCCTTTGTCTGAAAAATC-A-ATAC
1 GAACCCTTT-T-TG-AAAATCAATATAC
1606053 GAACCCTTTTTG-AAATCAA
1 GAACCCTTTTTGAAAATCAA
1606072 AGCACGAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.13
23 1 0.03
24 2 0.05
25 9 0.23
26 13 0.33
27 3 0.08
28 6 0.15
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (25 bp):
GAACCCTTTTTGAAAATCAATATAC
Found at i:1606485 original size:26 final size:29
Alignment explanation
Indices: 1606456--1606508 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 29
1606446 GCATTAAACG
*
1606456 ATTTCATTAA-AA-AATA-TTTAATAATA
1 ATTTCAATAATAATAATATTTTAATAATA
*
1606482 ATTTTAATAATAATAATATTTTAATAA
1 ATTTCAATAATAATAATATTTTAATAA
1606509 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 2 0.09
28 4 0.18
29 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
ATTTCAATAATAATAATATTTTAATAATA
Found at i:1606492 original size:15 final size:17
Alignment explanation
Indices: 1606474--1606508 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
1606464 AAAAAATATT
1606474 TAATAATAATTTTAATAA
1 TAATAAT-ATTTTAATAA
1606492 TAATAATATTTTAATAA
1 TAATAATATTTTAATAA
1606509 AAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATTTTAATAA
Found at i:1607625 original size:30 final size:29
Alignment explanation
Indices: 1607591--1607762 Score: 157
Period size: 30 Copynumber: 5.8 Consensus size: 29
1607581 CCCTAAACTG
*
1607591 TTAAAAATAGTATTTTGACCCCAAAACTTT
1 TTAAAATTA-TATTTTGACCCCAAAACTTT
* * * **
1607621 TTAAAAATTACATTTTAACCTC-GTACTTCT
1 TT-AAAATTATATTTTGACCCCAAAACTT-T
* *
1607651 TCAAAATTATATTTTGAACCCAAAACTTT
1 TTAAAATTATATTTTGACCCCAAAACTTT
* * *
1607680 ATAAAATTACATTTTGACCCCTAAACTTT
1 TTAAAATTATATTTTGACCCCAAAACTTT
*
1607709 TCCAAAATTATATTTTGACCCCAAAACTTT
1 T-TAAAATTATATTTTGACCCCAAAACTTT
* *
1607739 CTGAAAATTACATTTTGATCCCCA
1 -TTAAAATTATATTTTGA-CCCCA
1607763 TGTTTTACAA
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
29 44 0.39
30 56 0.50
31 12 0.11
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (29 bp):
TTAAAATTATATTTTGACCCCAAAACTTT
Found at i:1607685 original size:29 final size:29
Alignment explanation
Indices: 1607602--1607846 Score: 171
Period size: 29 Copynumber: 8.3 Consensus size: 29
1607592 TAAAAATAGT
*
1607602 ATTTTGACCCCAAAACTTTTTAAAAATTAC
1 ATTTTGACCCCAAAAC-TTTTCAAAATTAC
* * ** *
1607632 ATTTTAACCTC-GTACTTCTTCAAAATTAT
1 ATTTTGACCCCAAAACTT-TTCAAAATTAC
*
1607661 ATTTTGAACCCAAAACTTTAT-AAAATTAC
1 ATTTTGACCCCAAAACTTT-TCAAAATTAC
* *
1607690 ATTTTGACCCCTAAACTTTTCCAAAATTAT
1 ATTTTGACCCCAAAACTTTT-CAAAATTAC
*
1607720 ATTTTGACCCCAAAACTTTCTGAAAATTAC
1 ATTTTGACCCCAAAACTTT-TCAAAATTAC
**
1607750 ATTTTGATCCCC--ATGTTTTACAAAATTAC
1 ATTTTGA-CCCCAAAACTTTT-CAAAATTAC
* **
1607779 ATTTTTG-CCCC-TAA-TTCCACCAAAATTAC
1 A-TTTTGACCCCAAAACTT--TTCAAAATTAC
* * * *
1607808 ATTTTGATCCCTAAACTTTCCAAAATTCC
1 ATTTTGACCCCAAAACTTTTCAAAATTAC
1607837 ATCTTTGACC
1 AT-TTTGACC
1607847 TCGATTTTAT
Statistics
Matches: 170, Mismatches: 29, Indels: 32
0.74 0.13 0.14
Matches are distributed among these distances:
28 15 0.09
29 82 0.48
30 66 0.39
31 7 0.04
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
ATTTTGACCCCAAAACTTTTCAAAATTAC
Found at i:1607774 original size:59 final size:56
Alignment explanation
Indices: 1607601--1607783 Score: 204
Period size: 59 Copynumber: 3.1 Consensus size: 56
1607591 TTAAAAATAG
* * * *
1607601 TATTTTGACCCCAAAACTTTTTAAAAATTACATTTTAACCTCGTACTTCTTCAAAATTA
1 TATTTTGACCCCAAAACTTTAT-AAAATTACATTTTGACCCCAT-CTT-TTCAAAATTA
* *
1607660 TATTTTGAACCCAAAACTTTATAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTA
1 TATTTTGACCCCAAAACTTTATAAAATTACATTTTGACCCC--ATCTTTT-CAAAATTA
* *
1607719 TATTTTGACCCCAAAACTTTCTGAAAATTACATTTTGATCCCCATGTTTTACAAAATTA
1 TATTTTGACCCCAAAACTTTAT-AAAATTACATTTTGA-CCCCATCTTTT-CAAAATTA
*
1607778 CATTTT
1 TATTTT
1607784 TGCCCCTAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
58 19 0.18
59 69 0.64
60 15 0.14
61 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (56 bp):
TATTTTGACCCCAAAACTTTATAAAATTACATTTTGACCCCATCTTTTCAAAATTA
Found at i:1607832 original size:58 final size:60
Alignment explanation
Indices: 1607652--1607846 Score: 168
Period size: 59 Copynumber: 3.3 Consensus size: 60
1607642 CGTACTTCTT
* * *** *
1607652 CAAAATTATA-TTTTGAACCCAAAACTT-TATAAAATTACATTTTGACCCCTAAACTTTTC
1 CAAAATTACATTTTTGACCCCAAAACTTCCCCAAAATTACATTTTGATCCCTAAAC-TTTC
* * ** * *** *
1607711 CAAAATTATA-TTTTGACCCCAAAACTTTCTGAAAATTACATTTTGATCCCCATGTTTTA
1 CAAAATTACATTTTTGACCCCAAAACTTCCCCAAAATTACATTTTGATCCCTAAACTTTC
*
1607770 CAAAATTACATTTTTG-CCCC-TAA-TTCCACCAAAATTACATTTTGATCCCTAAACTTTC
1 CAAAATTACATTTTTGACCCCAAAACTTCC-CCAAAATTACATTTTGATCCCTAAACTTTC
* *
1607828 CAAAATTCCATCTTTGACC
1 CAAAATTACATTTTTGACC
1607847 TCGATTTTAT
Statistics
Matches: 110, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
57 3 0.03
58 39 0.35
59 44 0.40
60 24 0.22
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.37
Consensus pattern (60 bp):
CAAAATTACATTTTTGACCCCAAAACTTCCCCAAAATTACATTTTGATCCCTAAACTTTC
Found at i:1607863 original size:30 final size:30
Alignment explanation
Indices: 1607829--1607923 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
1607819 TAAACTTTCC
*
1607829 AAAATTCCATCTTTGACCTCGATTTTATCA
1 AAAATTCCATATTTGACCTCGATTTTATCA
* * * ** *
1607859 AAAATTAC-TAATTT-ACCCCTAAACTT-TCT
1 AAAATTCCAT-ATTTGACCTC-GATTTTATCA
*
1607888 AAAATTCCATTTTTGACCTCGATTTTATCA
1 AAAATTCCATATTTGACCTCGATTTTATCA
1607918 AAAATT
1 AAAATT
1607924 ATCTTTTTGC
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
29 20 0.43
30 26 0.57
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
AAAATTCCATATTTGACCTCGATTTTATCA
Found at i:1607920 original size:29 final size:29
Alignment explanation
Indices: 1607828--1607920 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 29
1607818 CTAAACTTTC
*
1607828 CAAAATTCCATCTTTGACCTCGATTTTAT
1 CAAAATTCCATTTTTGACCTCGATTTTAT
* * *** ** * *
1607857 CAAAAATTACTAATTTACCCCTAAACTTTCT
1 C-AAAATT-CCATTTTTGACCTCGATTTTAT
1607888 -AAAATTCCATTTTTGACCTCGATTTTAT
1 CAAAATTCCATTTTTGACCTCGATTTTAT
1607916 CAAAA
1 CAAAA
1607921 ATTATCTTTT
Statistics
Matches: 42, Mismatches: 19, Indels: 6
0.63 0.28 0.09
Matches are distributed among these distances:
28 13 0.31
29 11 0.26
30 6 0.14
31 12 0.29
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (29 bp):
CAAAATTCCATTTTTGACCTCGATTTTAT
Found at i:1607959 original size:59 final size:58
Alignment explanation
Indices: 1607826--1607951 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 58
1607816 CCCTAAACTT
* * *
1607826 TCCAAAATTCCATCTTTGACCTCGATTTTATCAAAAATTACTAATTTACCCCTAAACTT
1 TCCAAAATTCCATTTTTGACCTCGATTTTATCAAAAATTACTAATTTACCCCGAAAC-G
* * *
1607885 TCTAAAATTCCATTTTTGACCTCGATTTTATCAAAAATTATCT-TTTTGCCCTCGAAA-G
1 TCCAAAATTCCATTTTTGACCTCGATTTTATCAAAAATTA-CTAATTTACCC-CGAAACG
1607943 TCCAAAATT
1 TCCAAAATT
1607952 ACTATTTTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
58 8 0.14
59 44 0.76
60 6 0.10
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (58 bp):
TCCAAAATTCCATTTTTGACCTCGATTTTATCAAAAATTACTAATTTACCCCGAAACG
Found at i:1611209 original size:24 final size:26
Alignment explanation
Indices: 1611159--1611209 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
1611149 AGATTAAGGT
* * *
1611159 TTTATGATAACATATTTGAGTTTCAC
1 TTTATGATAACATATGTGAATTCCAC
1611185 TTTAT-ATAA-ATATGTGAATTCCAC
1 TTTATGATAACATATGTGAATTCCAC
1611209 T
1 T
1611210 CTAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 4 0.18
26 5 0.23
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (26 bp):
TTTATGATAACATATGTGAATTCCAC
Found at i:1612667 original size:15 final size:16
Alignment explanation
Indices: 1612647--1612679 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1612637 AAGGTCAAAA
*
1612647 TTTTTTCGGACA-TGT
1 TTTTTTCAGACATTGT
1612662 TTTTTTCAGACATTGT
1 TTTTTTCAGACATTGT
1612678 TT
1 TT
1612680 ATTGGCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTTTTCAGACATTGT
Found at i:1614125 original size:16 final size:15
Alignment explanation
Indices: 1614104--1614133 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1614094 CGTTTGGATT
1614104 TTGGTGGGTCTCGTTG
1 TTGGTGGGT-TCGTTG
1614120 TTGGTGGGTTCGTT
1 TTGGTGGGTTCGTT
1614134 ATTGTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.43, T:0.47
Consensus pattern (15 bp):
TTGGTGGGTTCGTTG
Found at i:1619215 original size:17 final size:17
Alignment explanation
Indices: 1619173--1619215 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
1619163 ACAATCTGTG
*
1619173 TATTTTTTTTTTATTTT
1 TATTTTTTTTTAATTTT
*
1619190 TATGATTTTTTTAATTTT
1 TAT-TTTTTTTTAATTTT
1619208 TATTTTTT
1 TATTTTTT
1619216 AAAATCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TATTTTTTTTTAATTTT
Found at i:1627663 original size:22 final size:25
Alignment explanation
Indices: 1627610--1627665 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
1627600 TAATTTATGA
1627610 AATTT-AATTTAATGTAATATATAT
1 AATTTAAATTTAATGTAATATATAT
1627634 ACATTTTAAATTTAAT-TAAT-TATAT
1 A-A-TTTAAATTTAATGTAATATATAT
1627659 -ATTTAAA
1 AATTTAAA
1627666 AAATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 6 0.21
23 1 0.03
24 1 0.03
25 6 0.21
26 7 0.24
27 8 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTAAATTTAATGTAATATATAT
Found at i:1627664 original size:16 final size:14
Alignment explanation
Indices: 1627639--1627681 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
1627629 TATATACATT
1627639 TTAAATTTAATTAA
1 TTAAATTTAATTAA
**
1627653 TTATATATTTAAAAAA
1 TTA-A-ATTTAATTAA
1627669 TTAAATTTAATTA
1 TTAAATTTAATTA
1627682 TGCATCATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATTTAATTAA
Found at i:1630746 original size:2 final size:2
Alignment explanation
Indices: 1630741--1630781 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1630731 AAATTAAGCA
1630741 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
1630782 CGTACTTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1647471 original size:18 final size:18
Alignment explanation
Indices: 1647450--1647484 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1647440 GACGAGACGG
*
1647450 AGGAGGAGAAAAAGAAAA
1 AGGAGGAAAAAAAGAAAA
1647468 AGGAGGAAAAAAAGAAA
1 AGGAGGAAAAAAAGAAA
1647485 TCTTTTGAAG
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGGAGGAAAAAAAGAAAA
Found at i:1653249 original size:79 final size:79
Alignment explanation
Indices: 1653117--1653270 Score: 272
Period size: 79 Copynumber: 1.9 Consensus size: 79
1653107 TAACTACAAT
* *
1653117 TGAAAGGAATAAAAGATATCCTTCATTCCTCAGCCACCCTCCCGCCTCTTTCCTTTCAAACTGCA
1 TGAAAGGAATAAAAGATATCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTTCAAACTGCA
1653182 AAACGAAACTCGAC
66 AAACGAAACTCGAC
* *
1653196 TGAAAGGAATGAAAGATATCCTTCATTCCTCAACCACCCTCCTGCCTCATTCCTTTCAAACTGCA
1 TGAAAGGAATAAAAGATATCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTTCAAACTGCA
1653261 AAACGAAACT
66 AAACGAAACT
1653271 TGTCTAAGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (79 bp):
TGAAAGGAATAAAAGATATCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTTCAAACTGCA
AAACGAAACTCGAC
Found at i:1660200 original size:16 final size:16
Alignment explanation
Indices: 1660179--1660210 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1660169 ATTTGAAAAA
*
1660179 TAAATATATTAAATTT
1 TAAATATATAAAATTT
1660195 TAAATATATAAAATTT
1 TAAATATATAAAATTT
1660211 CTAACGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATATAAAATTT
Found at i:1661127 original size:15 final size:14
Alignment explanation
Indices: 1661107--1661150 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1661097 GAGCCGGAGA
1661107 CGAAGAAAGAAGAG
1 CGAAGAAAGAAGAG
*
1661121 CCGAAGAAAGAGGAAG
1 -CGAAGAAAGAAG-AG
*
1661137 CAAAGAAAGAAGAG
1 CGAAGAAAGAAGAG
1661151 ACAGTAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.57, C:0.09, G:0.34, T:0.00
Consensus pattern (14 bp):
CGAAGAAAGAAGAG
Found at i:1683594 original size:18 final size:18
Alignment explanation
Indices: 1683571--1683605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1683561 AAGTTAAACG
1683571 AATCGAGTTATTAGAGTT
1 AATCGAGTTATTAGAGTT
*
1683589 AATCGAGTTATTCGAGT
1 AATCGAGTTATTAGAGT
1683606 CAACTCGAAT
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:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTAGAGTT
Found at i:1692324 original size:25 final size:24
Alignment explanation
Indices: 1692296--1692342 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1692286 TAATTTTCTA
*
1692296 GAGTTCATAGCGACTCGATTTTTTC
1 GAGTTCAAAGCGACTC-ATTTTTTC
*
1692321 GAGTTCAAATCGACTCATTTTT
1 GAGTTCAAAGCGACTCATTTTT
1692343 GTCTACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
GAGTTCAAAGCGACTCATTTTTTC
Found at i:1692666 original size:16 final size:18
Alignment explanation
Indices: 1692645--1692685 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1692635 TTAACAGCAT
1692645 TTCATATT-TTA-ATATG
1 TTCATATTATTACATATG
1692661 TTCATATTATTACATATG
1 TTCATATTATTACATATG
*
1692679 ATCATAT
1 TTCATAT
1692686 GATGATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 3 0.14
18 11 0.50
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCATATTATTACATATG
Found at i:1702021 original size:30 final size:32
Alignment explanation
Indices: 1701977--1702041 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
1701967 AAGTAAAGTT
*
1701977 AAAATTACATTTTAACCTTTTTAAAATGATAA
1 AAAATTACATTTTAACCTTTTAAAAATGATAA
* *
1702009 AAAATTA-A-TTTAATCTTTTAAAAATTATAA
1 AAAATTACATTTTAACCTTTTAAAAATGATAA
1702039 AAA
1 AAA
1702042 TATAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 22 0.73
31 1 0.03
32 7 0.23
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (32 bp):
AAAATTACATTTTAACCTTTTAAAAATGATAA
Found at i:1702390 original size:29 final size:29
Alignment explanation
Indices: 1702358--1702434 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
1702348 AATTAAACCT
*
1702358 AATTTTAAAATTTAAAAATAAAAAAATTG
1 AATTTTAAAATTTAAAAATAAAAAAATTA
* * *
1702387 AATTCTTAAAA-ATAAAAATATAAAATTTA
1 AATT-TTAAAATTTAAAAATAAAAAAATTA
* *
1702416 AATTTCAAATTTATAAAAA
1 AATTTTAAAATT-TAAAAA
1702435 ATATAGAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 4 0.11
29 22 0.58
30 12 0.32
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (29 bp):
AATTTTAAAATTTAAAAATAAAAAAATTA
Found at i:1702413 original size:23 final size:23
Alignment explanation
Indices: 1702369--1702413 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1702359 ATTTTAAAAT
**
1702369 TTAAAAATAAAAAAATTGAATTC
1 TTAAAAATAAAAAAATAAAATTC
*
1702392 TTAAAAATAAAAATATAAAATT
1 TTAAAAATAAAAAAATAAAATT
1702414 TAAATTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAAAATAAAAAAATAAAATTC
Found at i:1702686 original size:29 final size:29
Alignment explanation
Indices: 1702645--1702721 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
1702635 AGTATACATT
* * *
1702645 AATA-ATTGATTATAATTGTAATTTTATG
1 AATATATTAATTATAATTATAATTATATG
*
1702673 TATATATTAATTATAATTATAATTATATG
1 AATATATTAATTATAATTATAATTATATG
*
1702702 AATATATTAATCATAATTAT
1 AATATATTAATTATAATTAT
1702722 GATTTAATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (29 bp):
AATATATTAATTATAATTATAATTATATG
Found at i:1711580 original size:17 final size:17
Alignment explanation
Indices: 1711560--1711593 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1711550 AATGGAGAAT
1711560 AGATT-ATTGGATTTTTG
1 AGATTGATTGG-TTTTTG
1711577 AGATTGATTGGTTTTTG
1 AGATTGATTGGTTTTTG
1711594 TTCGTCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (17 bp):
AGATTGATTGGTTTTTG
Found at i:1712123 original size:17 final size:18
Alignment explanation
Indices: 1712103--1712149 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1712093 CTCTAAAATG
1712103 TATAATTTA-TAAAAAAA
1 TATAATTTATTAAAAAAA
* *
1712120 TATAAATTATTAAAATAA
1 TATAATTTATTAAAAAAA
*
1712138 TAAAATTATATT
1 TATAATT-TATT
1712150 TTAACTCTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAATTTATTAAAAAAA
Found at i:1712642 original size:15 final size:15
Alignment explanation
Indices: 1712599--1712635 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1712589 TATGAATTAT
1712599 ATAATAT-ATA-AAA
1 ATAATATAATATAAA
1712612 ATAATATAATATAAA
1 ATAATATAATATAAA
*
1712627 ATATTATAA
1 ATAATATAA
1712636 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATAATATAAA
Found at i:1713580 original size:15 final size:15
Alignment explanation
Indices: 1713560--1713588 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1713550 ATTTTGTTTA
1713560 AAATTTTATTTTATC
1 AAATTTTATTTTATC
1713575 AAATTTTATTTTAT
1 AAATTTTATTTTAT
1713589 ATTTATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTTATTTTATC
Found at i:1715889 original size:23 final size:24
Alignment explanation
Indices: 1715845--1715889 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
1715835 AATTTTAAAT
**
1715845 ATATATTTATTTTATTTTAATTGA
1 ATATATTTATTTTATTAAAATTGA
*
1715869 ATATTTTTA-TTTATTAAAATT
1 ATATATTTATTTTATTAAAATT
1715890 TTATATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATATATTTATTTTATTAAAATTGA
Found at i:1718807 original size:30 final size:30
Alignment explanation
Indices: 1718771--1718922 Score: 259
Period size: 30 Copynumber: 5.1 Consensus size: 30
1718761 AAAAAAATGG
* *
1718771 CAGAGAAGATCAGTGATGAAGCCCCAAATC
1 CAGAGAAGATCAATGATGAATCCCCAAATC
* *
1718801 CAGAGAAGATCAGTGATGAAACCCCAAATC
1 CAGAGAAGATCAATGATGAATCCCCAAATC
*
1718831 CAGAGAAGATCAATGATGAATCCCCAATTC
1 CAGAGAAGATCAATGATGAATCCCCAAATC
1718861 CAGAGAAGATCAATGATGAATCCCCAAATC
1 CAGAGAAGATCAATGATGAATCCCCAAATC
1718891 CAGAGAAGATCAATGATGAATCCCCAAATC
1 CAGAGAAGATCAATGATGAATCCCCAAATC
1718921 CA
1 CA
1718923 TTGACACCAA
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 117 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (30 bp):
CAGAGAAGATCAATGATGAATCCCCAAATC
Found at i:1728743 original size:19 final size:19
Alignment explanation
Indices: 1728716--1728753 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1728706 TCTTGATTCG
* *
1728716 GATTTAAAGTTTAGGGTTT
1 GATTCAAAGTTTAGAGTTT
1728735 GATTCAAAGTTTAGAGTTT
1 GATTCAAAGTTTAGAGTTT
1728754 TAGGTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (19 bp):
GATTCAAAGTTTAGAGTTT
Found at i:1734926 original size:18 final size:18
Alignment explanation
Indices: 1734903--1734937 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1734893 GGAAGAAATG
1734903 TAAGTTTGATTAATTTTT
1 TAAGTTTGATTAATTTTT
*
1734921 TAAGTTTGGTTAATTTT
1 TAAGTTTGATTAATTTT
1734938 AAATTAAATT
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:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (18 bp):
TAAGTTTGATTAATTTTT
Found at i:1737881 original size:18 final size:18
Alignment explanation
Indices: 1737858--1737896 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1737848 AAAAATCAAA
*
1737858 TTTCACTTCAATTCT-ATT
1 TTTCACATC-ATTCTCATT
1737876 TTTCACATCATTCTCATT
1 TTTCACATCATTCTCATT
1737894 TTT
1 TTT
1737897 GGTCTCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCACATCATTCTCATT
Found at i:1738953 original size:18 final size:18
Alignment explanation
Indices: 1738932--1738966 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1738922 TAAATAATAA
* *
1738932 AATATTATTATTTATTAT
1 AATAATATTATTAATTAT
1738950 AATAATATTATTAATTA
1 AATAATATTATTAATTA
1738967 ATATATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATATTATTAATTAT
Found at i:1738956 original size:21 final size:20
Alignment explanation
Indices: 1738913--1738971 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
1738903 CTCTTATATT
1738913 TTATTATATTAAATAATAAAATA
1 TTATTA-ATT-AAT-ATAAAATA
* *
1738936 TTATTATTTATTATAATAATA
1 TTATTAATTAATATAA-AATA
1738957 TTATTAATTAATATA
1 TTATTAATTAATATA
1738972 TCTTTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 19 0.61
22 2 0.06
23 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTAATTAATATAAAATA
Found at i:1740620 original size:18 final size:19
Alignment explanation
Indices: 1740584--1740621 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1740574 TTTACAATCA
*
1740584 AAATAAAATAAATACACAC
1 AAATAAAATAAACACACAC
1740603 AAATAAAA-AAACACACAC
1 AAATAAAATAAACACACAC
1740621 A
1 A
1740622 CATGGCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.11
Consensus pattern (19 bp):
AAATAAAATAAACACACAC
Found at i:1742816 original size:94 final size:95
Alignment explanation
Indices: 1742703--1742876 Score: 289
Period size: 94 Copynumber: 1.8 Consensus size: 95
1742693 GCGTTGATGA
*
1742703 ACGAATGCATTTTCAAATCTGCAATTTGAATAATATTACGAGTTCATGAAATCTTGTTT-AATTC
1 ACGAATGCATTTTCAAATCTGCAATTTGAATAATAGTACGAGTTCATGAAATCTTGTTTAAATTC
*
1742767 CTCAAGTGATATTTCAATGAAATTGCGTCG
66 CTCAAGTGAGATTTCAATGAAATTGCGTCG
*
1742797 ACGAATGCATCTTT-AAATCTGTAATTTGAATAATAGTACGAGTTCATGAAATCTTGTTTAAATT
1 ACGAATGCAT-TTTCAAATCTGCAATTTGAATAATAGTACGAGTTCATGAAATCTTGTTTAAATT
*
1742861 CCTCAATTGAGATTTC
65 CCTCAAGTGAGATTTC
1742877 TTAACAAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
94 53 0.72
95 21 0.28
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (95 bp):
ACGAATGCATTTTCAAATCTGCAATTTGAATAATAGTACGAGTTCATGAAATCTTGTTTAAATTC
CTCAAGTGAGATTTCAATGAAATTGCGTCG
Found at i:1756708 original size:18 final size:18
Alignment explanation
Indices: 1756687--1756721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1756677 CTTCTTTTTT
* *
1756687 TTTTTTTTTTTGGCTTTG
1 TTTTTCTTTTTGACTTTG
1756705 TTTTTCTTTTTGACTTT
1 TTTTTCTTTTTGACTTT
1756722 ACCGGTGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.11, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTTTGACTTTG
Found at i:1766994 original size:60 final size:61
Alignment explanation
Indices: 1766871--1766992 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 61
1766861 AAAAAAAAAA
* * *
1766871 TTAGTGTTGGCCATTACCATGGTCGGCACCCCCTTTTTGTCAGATAAAAAATTTAAATCTT
1 TTAGTGTTGGCCATTACCATGGTCGACACCCCCTTTTTATCAGATAAAAAATTCAAATCTT
* * * * * *
1766932 TTAGTGTTGGTCA-TGCCATGGTCGACACTCTCTTTTTATCTGATAAAAAA-TCAAATTTT
1 TTAGTGTTGGCCATTACCATGGTCGACACCCCCTTTTTATCAGATAAAAAATTCAAATCTT
1766991 TT
1 TT
1766993 TATTTTTATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 9 0.17
60 31 0.60
61 12 0.23
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (61 bp):
TTAGTGTTGGCCATTACCATGGTCGACACCCCCTTTTTATCAGATAAAAAATTCAAATCTT
Found at i:1767000 original size:31 final size:32
Alignment explanation
Indices: 1766964--1767024 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1766954 CGACACTCTC
1766964 TTTTTATCTG-ATAAAAAATCAAATTTTTTTA
1 TTTTTATCTGAATAAAAAATCAAATTTTTTTA
1766995 TTTTTATCTGAATAAAAAATCAAATTTTTT
1 TTTTTATCTGAATAAAAAATCAAATTTTTT
1767025 GGTGTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (32 bp):
TTTTTATCTGAATAAAAAATCAAATTTTTTTA
Found at i:1767058 original size:91 final size:93
Alignment explanation
Indices: 1766914--1767085 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 93
1766904 TTTTTGTCAG
* ** * * * *
1766914 ATAAAAAATTTAAATCTTTTAGTGTTGGTCATGCCATGGTCGACACTCTCTTTTTATCTGATAAA
1 ATAAAAAATTCAAATCTTTTAGTGTTGACCATGCCATAGTCGACACCCCCTTTTTATCAGATAAA
1766979 AAA-TCAAATTTTTTTATTTTTATCTGA
66 AAATTCAAATTTTTTTATTTTTATCTGA
* * * *
1767006 ATAAAAAA-TCAAATTTTTTGGTGTTGACCATGTCATAGTCGACACCCCCTTTTTGTCAGATAAA
1 ATAAAAAATTCAAATCTTTTAGTGTTGACCATGCCATAGTCGACACCCCCTTTTTATCAGATAAA
1767070 AAATTCAAATTTTTTT
66 AAATTCAAATTTTTTT
1767086 TGTGTTGGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 48 0.71
92 20 0.29
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (93 bp):
ATAAAAAATTCAAATCTTTTAGTGTTGACCATGCCATAGTCGACACCCCCTTTTTATCAGATAAA
AAATTCAAATTTTTTTATTTTTATCTGA
Found at i:1767119 original size:61 final size:58
Alignment explanation
Indices: 1767007--1767224 Score: 206
Period size: 61 Copynumber: 3.6 Consensus size: 58
1766997 TTTATCTGAA
* * * * * *
1767007 TAAAAAATCAAATTTTTTGGTGTTGACCATGTC-AT-AGTCGACACCCCCTTTTTGTCAGA
1 TAAAAAATCAATTTTTTTTGTGTTGGCCATG-CAATGA-CCGACATCCCCTTTTT-TCAGG
* * * *
1767066 TAAAAAATTCAAATTTTTTTTGTGTTGGTCAAGCAATGACGGACATCCCCTTTTTTATACGG
1 TAAAAAA-TC-AATTTTTTTTGTGTTGGCCATGCAATGACCGACATCCCCTTTTTT-CA-GG
* * * *
1767128 TAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGCCGACACTTCCTTTTTTATCTGG
1 TAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGACCGACA-TCCCCTTTTT-TCAGG
1767188 TAAAAAATCAATTTTTTTGTGTGTTGGCCATGCAATG
1 TAAAAAATCAATTTTTTT-TGTGTTGGCCATGCAATG
1767225 GACGACACCA
Statistics
Matches: 132, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
59 7 0.05
60 54 0.41
61 61 0.46
62 10 0.08
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (58 bp):
TAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGACCGACATCCCCTTTTTTCAGG
Found at i:1767135 original size:121 final size:121
Alignment explanation
Indices: 1767007--1767224 Score: 280
Period size: 121 Copynumber: 1.8 Consensus size: 121
1766997 TTTATCTGAA
* *
1767007 TAAAAAATCAAATTTTTTGGTGTTGACCATGTC-ATAGTCGACAC-CCCCTTTTTGTCAGATAAA
1 TAAAAAATCAAATTTTTTGGTGTTGACCATG-CAATAGCCGACACTCCCCTTTTTATCAGATAAA
*
1767070 AAATTCAAATTTTTTT-TGTGTTGGTCAAGCAATGACGGACATCCCCTTTTTTATACGG
65 AAA-TC-AATTTTTTTGTGTGTTGGCCAAGCAATGACGGACATCCCCTTTTTTATACGG
* * * * * * * *
1767128 TAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGCCGACACTTCCTTTTTTATCTGGTAAAA
1 TAAAAAATCAAATTTTTTGGTGTTGACCATGCAATAGCCGACACTCCCCTTTTTATCAGATAAAA
*
1767193 AATCAATTTTTTTGTGTGTTGGCCATGCAATG
66 AATCAATTTTTTTGTGTGTTGGCCAAGCAATG
1767225 GACGACACCA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
120 10 0.12
121 55 0.67
122 17 0.21
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (121 bp):
TAAAAAATCAAATTTTTTGGTGTTGACCATGCAATAGCCGACACTCCCCTTTTTATCAGATAAAA
AATCAATTTTTTTGTGTGTTGGCCAAGCAATGACGGACATCCCCTTTTTTATACGG
Found at i:1767241 original size:61 final size:59
Alignment explanation
Indices: 1766995--1767233 Score: 250
Period size: 60 Copynumber: 3.9 Consensus size: 59
1766985 AATTTTTTTA
* * * * * *
1766995 TTTTTATCTGAATAAAAAATCAAATTTTTTGGTGTTGACCATGTC-ATAGTCGACACCCCC
1 TTTTTATCTG-ATAAAAAATCAATTTTTTTTGTGTTGGCCATG-CAATGGACGACACCCCT
* * * *
1767055 TTTTTGTCAGATAAAAAATTCAAATTTTTTTTGTGTTGGTCAAGCAAT-GACGGACATCCCCT
1 TTTTTATCTGATAAAAAA-TC-AATTTTTTTTGTGTTGGCCATGCAATGGAC-GACA-CCCCT
* * *
1767117 TTTTTATAC-GGTAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGCCGACACTTCCT
1 TTTTTAT-CTGATAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGACGACAC-CCCT
*
1767177 TTTTTATCTGGTAAAAAATCAATTTTTTTGTGTGTTGGCCATGCAATGGACGACACC
1 TTTTTATCTGATAAAAAATCAATTTTTTT-TGTGTTGGCCATGCAATGGACGACACC
1767234 AACTTTTTCT
Statistics
Matches: 152, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
59 10 0.07
60 71 0.47
61 52 0.34
62 18 0.12
63 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (59 bp):
TTTTTATCTGATAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGACGACACCCCT
Found at i:1767989 original size:25 final size:26
Alignment explanation
Indices: 1767961--1768010 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1767951 ATTATCGACA
1767961 AATTAAAAAT-ATATTAAAAAATAAT
1 AATTAAAAATAATATTAAAAAATAAT
* *
1767986 AATTAAAATTAATTTTAAAAAATAA
1 AATTAAAAATAATATTAAAAAATAA
1768011 ATGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTAAAAATAATATTAAAAAATAAT
Found at i:1771415 original size:86 final size:85
Alignment explanation
Indices: 1771088--1771562 Score: 706
Period size: 85 Copynumber: 5.6 Consensus size: 85
1771078 TTAAAATTAA
* * * * * * * *
1771088 TTTAATA-TTATATAAATAATTTTTTATTATATTTCAATTTATATCAAATAATATGTTGATTTGA
1 TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGA
*
1771152 CAATACATTATTTATCAAAT
66 CAATACATTATTTACCAAAT
*
1771172 TTTAATATTTAAATAAAAAAGATTATTATTATTATATTACAATTGTTATCAAATAATGTGTTAAT
1 TTTAATATTTAAAT-AAAAA-A--ATTATTATTATATTACAATTTTTATCAAATAATGTGTTAAT
*
1771237 GTGACAATACATTATTTACCAAAT
62 TTGACAATACATTATTTACCAAAT
1771261 TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGA
1 TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGA
*
1771326 TAATACATTATTTACCAAAT
66 CAATACATTATTTACCAAAT
* * *
1771346 TCTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTCATTTA
1 TTTAATATTTAAATAAAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTG
*
1771411 ATAATACATTATTTACCAAAT
65 ACAATACATTATTTACCAAAT
* *
1771432 TTTAATATTTAAAT-AAAAAA-TATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGA
1 TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGA
*
1771495 CAATATATTATTTACCAAAT
66 CAATACATTATTTACCAAAT
1771515 TTTAATATTTAAAT-AAAAAATTATTATTATATTACAATTTTTATCAAA
1 TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAA
1771563 ATTTAAATTT
Statistics
Matches: 360, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
83 78 0.22
84 34 0.09
85 91 0.25
86 80 0.22
87 2 0.01
88 5 0.01
89 70 0.19
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (85 bp):
TTTAATATTTAAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGA
CAATACATTATTTACCAAAT
Found at i:1771704 original size:22 final size:22
Alignment explanation
Indices: 1771651--1771706 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1771641 AGCATTGGAC
*
1771651 CACCCAAATTTCAGCTCACCAA
1 CACCCAAATTCCAGCTCACCAA
* * *
1771673 AATCGAAATTCCAGCTCACCAA
1 CACCCAAATTCCAGCTCACCAA
*
1771695 CACCCCAATTCC
1 CACCCAAATTCC
1771707 GCTGTTGACG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (22 bp):
CACCCAAATTCCAGCTCACCAA
Found at i:1771772 original size:30 final size:30
Alignment explanation
Indices: 1771710--1771775 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
1771700 CAATTCCGCT
* * *
1771710 GTTGACGATCGTTGACCGCCATTTACTATC
1 GTTGACGACCGTTGACCGACATTTACCATC
*
1771740 GTTGACGACCGTTGACCGAC-TTTATCCGTC
1 GTTGACGACCGTTGACCGACATTTA-CCATC
1771770 GTTGAC
1 GTTGAC
1771776 CGAGTACCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (30 bp):
GTTGACGACCGTTGACCGACATTTACCATC
Found at i:1772785 original size:26 final size:28
Alignment explanation
Indices: 1772755--1772808 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1772745 ATGTAAGATA
1772755 TATTTTCG-AAT-TTTTATAATATTTTT
1 TATTTTCGAAATGTTTTATAATATTTTT
* *
1772781 TATTTTCGAAATGTTTTTTTATATTTTT
1 TATTTTCGAAATGTTTTATAATATTTTT
1772809 GAATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 3 0.12
28 13 0.54
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (28 bp):
TATTTTCGAAATGTTTTATAATATTTTT
Found at i:1774036 original size:31 final size:30
Alignment explanation
Indices: 1774001--1774067 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
1773991 TCTGTTTACT
* * *
1774001 TTTTAAATTTAATTTGTAATTTCGTTTTTTA
1 TTTTAAATTTAATTTCTAATTTC-TTGTATA
1774032 TTTTAAATTTAATTTCTAATTTCTTGTATA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
1774062 TTTTAA
1 TTTTAA
1774068 TTATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCTTGTATA
Found at i:1774969 original size:60 final size:58
Alignment explanation
Indices: 1774881--1775151 Score: 257
Period size: 61 Copynumber: 4.5 Consensus size: 58
1774871 CCAACACAAA
*
1774881 AAAAAATTTAATTTTTTACCAGATAAAAAAGAGGGTGTCGACCA-TGCAATGGCCAACAC
1 AAAAAATTGAATTTTTTACCAGATAAAAAAGAGGGTGTCG-CCATTGC-ATGGCCAACAC
* * * * * *
1774940 CAAAAATTCGAATTTTTTATCTGACAAAAAGGA-GGTGTCTGCCATTGCATGGGCAACAC
1 AAAAAATT-GAATTTTTTACCAGATAAAAAAGAGGGTGTC-GCCATTGCATGGCCAACAC
*
1774999 AAAAAAAATTG-ATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATTGCATGGCCAACAC
1 --AAAAAATTGAATTTTTTACCAGATAAAAAAGAGGGTGTC-GCCATTGCATGGCCAACAC
* * *
1775059 AAAAAAAATTTG-ATTTTTTACCAGATAAAAAAG-GAGGTATCGGCCATGGCATGGCTAACACCC
1 --AAAAAA-TTGAATTTTTTACCAGATAAAAAAGAG-GGTGTC-GCCATTGCATGGCCAACA--C
*
1775122 AAAAAATT-AATTTTTTATTCAGATAAAAAA
1 AAAAAATTGAATTTTTTA-CCAGATAAAAAA
1775152 AATTTGATTT
Statistics
Matches: 180, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
59 43 0.24
60 67 0.37
61 69 0.38
63 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (58 bp):
AAAAAATTGAATTTTTTACCAGATAAAAAAGAGGGTGTCGCCATTGCATGGCCAACAC
Found at i:1775075 original size:61 final size:61
Alignment explanation
Indices: 1774865--1775153 Score: 295
Period size: 60 Copynumber: 4.8 Consensus size: 61
1774855 GAGAAATGAG
* * * *
1774865 GCATGACCAACACAAAAAAAAATTTAATTTTTTACCAGATAAAAAAGAGGGTGTCGACCA-T
1 GCATGGCCAACAC-AAAAAAAATTTGATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATT
* * * * * ** *
1774926 GCAATGGCCAACAC--CAAAAATTCGAATTTTTTATCTGACAAAAAGGA-GGTGTCTGCCATT
1 GC-ATGGCCAACACAAAAAAAATTTG-ATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATT
*
1774986 GCATGGGCAACACAAAAAAAA-TTGATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATT
1 GCATGGCCAACACAAAAAAAATTTGATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATT
* * *
1775046 GCATGGCCAACACAAAAAAAATTTGATTTTTTACCAGAT-AAAAAAGGAGGTATCGGCCATG
1 GCATGGCCAACACAAAAAAAATTTGATTTTTTACCAGATAAAAAAAAG-GGTGTCGGCCATT
* ** * *
1775107 GCATGGCTAACACCCAAAAAA-TTAATTTTTTATTCAGATAAAAAAAA
1 GCATGGCCAACACAAAAAAAATTTGATTTTTTA-CCAGATAAAAAAAA
1775154 TTTGATTTTT
Statistics
Matches: 189, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
59 43 0.23
60 72 0.38
61 58 0.31
62 16 0.08
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (61 bp):
GCATGGCCAACACAAAAAAAATTTGATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATT
Found at i:1775096 original size:121 final size:118
Alignment explanation
Indices: 1774872--1775153 Score: 343
Period size: 121 Copynumber: 2.3 Consensus size: 118
1774862 GAGGCATGAC
*
1774872 CAACACAAAAAAAAATTTAATTTTTTACCAGATAAAAAAGAGGGTGTCGACCATGCAATGGCCAA
1 CAACAC-AAAAAAAA-TTAATTTTTTACCAGATAAAAAAAAGGGTGTCGACCATGCAATGGCCAA
* * * * * * *
1774937 CACCAAAAATTCGAATTTTTTATCTGACAAAAAGGAGGTGTCTGCCATTGCATGGG
64 CACAAAAAATTCGAATTTTTTACCAGAAAAAAAGGAGGTATCGGCCATGGCAT-GG
* *
1774993 CAACACAAAAAAAATTGATTTTTTACCAGATAAAAAAAAGGGTGTCGGCCATTGC-ATGGCCAAC
1 CAACACAAAAAAAATTAATTTTTTACCAGATAAAAAAAAGGGTGTCGACCA-TGCAATGGCCAAC
*
1775057 ACAAAAAAAATTTG-ATTTTTTACCAGATAAAAAAGGAGGTATCGGCCATGGCATGG
65 AC--AAAAAATTCGAATTTTTTACCAGA-AAAAAAGGAGGTATCGGCCATGGCATGG
** *
1775113 CTAACACCCAAAAAATTAATTTTTTATTCAGATAAAAAAAA
1 C-AACACAAAAAAAATTAATTTTTTA-CCAGATAAAAAAAA
1775154 TTTGATTTTT
Statistics
Matches: 140, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
119 45 0.32
120 25 0.18
121 57 0.41
122 13 0.09
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (118 bp):
CAACACAAAAAAAATTAATTTTTTACCAGATAAAAAAAAGGGTGTCGACCATGCAATGGCCAACA
CAAAAAATTCGAATTTTTTACCAGAAAAAAAGGAGGTATCGGCCATGGCATGG
Found at i:1775153 original size:87 final size:88
Alignment explanation
Indices: 1775059--1775228 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 88
1775049 TGGCCAACAC
* * *
1775059 AAAAAAAATTTGA-TTTTTTACCAGATAAAAAAGGAGGTATCGGCCATGGCATGGCTAACACCCA
1 AAAAAAAATTTGATTTTTTTACCAGAT-AAAAAGGAGGTATCGACCATGGCATGACCAACA-CCA
1775123 AAA-AATT-AATTTTTTATTCAGAT
64 AAAGAATTGAATTTTTTATTCAGAT
* * * *
1775146 AAAAAAAATTTGATTTTTTTATCAGATAAAATGGAGGTGTCGATCATGGCATGACCAACACCAAA
1 AAAAAAAATTTGATTTTTTTACCAGATAAAAAGGAGGTATCGACCATGGCATGACCAACACCAAA
*
1775211 AGATTTGAATTTTTTATT
66 AGAATTGAATTTTTTATT
1775229 TGACAAAAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 6 0.08
87 43 0.60
88 23 0.32
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (88 bp):
AAAAAAAATTTGATTTTTTTACCAGATAAAAAGGAGGTATCGACCATGGCATGACCAACACCAAA
AGAATTGAATTTTTTATTCAGAT
Found at i:1775161 original size:27 final size:26
Alignment explanation
Indices: 1775122--1775176 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
1775112 GCTAACACCC
1775122 AAAAAATTAA-TTTTTTATTCAGATAA
1 AAAAAATTAATTTTTTTA-TCAGATAA
*
1775148 AAAAAATTTGATTTTTTTATCAGATAA
1 AAAAAA-TTAATTTTTTTATCAGATAA
1775175 AA
1 AA
1775177 TGGAGGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 13 0.50
28 7 0.27
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (26 bp):
AAAAAATTAATTTTTTTATCAGATAA
Found at i:1797780 original size:40 final size:40
Alignment explanation
Indices: 1797725--1797805 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
1797715 AGAATTACAA
1797725 AATACGAGTATTTGCTTTCTTTTTATTCCATATCTATTGC
1 AATACGAGTATTTGCTTTCTTTTTATTCCATATCTATTGC
1797765 AATACGAGTATTTGCTTTCTTTTTATTCCATATCTATTGC
1 AATACGAGTATTTGCTTTCTTTTTATTCCATATCTATTGC
1797805 A
1 A
1797806 TTTTTCTGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.49
Consensus pattern (40 bp):
AATACGAGTATTTGCTTTCTTTTTATTCCATATCTATTGC
Found at i:1809685 original size:14 final size:15
Alignment explanation
Indices: 1809666--1809694 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1809656 TCTTTACAGT
1809666 TAAATAAAAA-TAAA
1 TAAATAAAAACTAAA
1809680 TAAATAAAAACTAAA
1 TAAATAAAAACTAAA
1809695 CCAACCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATAAAAACTAAA
Found at i:1815525 original size:14 final size:14
Alignment explanation
Indices: 1815506--1815532 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1815496 GCATTTTTAG
1815506 ATGCAAAATCATTA
1 ATGCAAAATCATTA
1815520 ATGCAAAATCATT
1 ATGCAAAATCATT
1815533 CTCGATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
ATGCAAAATCATTA
Found at i:1816164 original size:15 final size:16
Alignment explanation
Indices: 1816144--1816189 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
1816134 TATATAAAAG
1816144 AATAAAGAAAAGAA-A
1 AATAAAGAAAAGAAGA
*
1816159 AATAAACAAAAGAAGA
1 AATAAAGAAAAGAAGA
*
1816175 AATAGAAGAACAGAA
1 AATA-AAGAAAAGAA
1816190 CAGAAGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 5 0.19
17 8 0.31
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (16 bp):
AATAAAGAAAAGAAGA
Found at i:1821333 original size:22 final size:24
Alignment explanation
Indices: 1821295--1821338 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1821285 TAATAAAATA
1821295 TACATGTGTAAAAATT-ATATTTG
1 TACATGTGTAAAAATTAATATTTG
*
1821318 TACATTTGT-AAAATTAATATT
1 TACATGTGTAAAAATTAATATT
1821339 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (24 bp):
TACATGTGTAAAAATTAATATTTG
Found at i:1821405 original size:2 final size:2
Alignment explanation
Indices: 1821398--1821422 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1821388 TTACTAACTG
1821398 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
1821423 AGAATAAAGA
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:1822982 original size:119 final size:119
Alignment explanation
Indices: 1822771--1823003 Score: 421
Period size: 119 Copynumber: 2.0 Consensus size: 119
1822761 TCGATCCCGA
* *
1822771 CCTCAGTATAAATTTAGTGATGTAATCTTCTCCTTTTGGTAAAAATGGCATGTATTAATTGTTGT
1 CCTCAGTATAAATTTAGTGATGTAATCTTCCCCTTTTGGTAAAAATGGCATGTATTAAGTGTTGT
* *
1822836 ATAAGTTACATGTATATGCTTGTAATGTTGGTTGTAAATATGTATATATATATT
66 ATAAGTTACATGTATATGCTTGTAATGTTGGTTATAAATATATATATATATATT
1822890 CCTCAGTATAAATTTAGTGATGTAATCTTCCCCTTTTGGTAAAAATGGCATGTATTAAGTGTTGT
1 CCTCAGTATAAATTTAGTGATGTAATCTTCCCCTTTTGGTAAAAATGGCATGTATTAAGTGTTGT
*
1822955 ATAAGTTACATGTATATGCTTGTAATGTTGGTTATATATATATATATAT
66 ATAAGTTACATGTATATGCTTGTAATGTTGGTTATAAATATATATATAT
1823004 TGATATTAGT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (119 bp):
CCTCAGTATAAATTTAGTGATGTAATCTTCCCCTTTTGGTAAAAATGGCATGTATTAAGTGTTGT
ATAAGTTACATGTATATGCTTGTAATGTTGGTTATAAATATATATATATATATT
Found at i:1823671 original size:11 final size:11
Alignment explanation
Indices: 1823655--1823679 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1823645 ATTATATATA
1823655 TATATAGTATC
1 TATATAGTATC
1823666 TATATAGTATC
1 TATATAGTATC
1823677 TAT
1 TAT
1823680 TCTAGTTACC
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:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TATATAGTATC
Found at i:1831508 original size:17 final size:17
Alignment explanation
Indices: 1831486--1831518 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1831476 TTATCAAAAA
*
1831486 ATTTAATTATATATAAT
1 ATTTAATTATAAATAAT
1831503 ATTTAATTATAAATAA
1 ATTTAATTATAAATAA
1831519 AATACTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAATTATAAATAAT
Found at i:1831576 original size:15 final size:15
Alignment explanation
Indices: 1831546--1831592 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1831536 ATAACTTAAA
* *
1831546 TTCAACACATAATTT
1 TTCAACACTTATTTT
*
1831561 TTCAATACTTATTTT
1 TTCAACACTTATTTT
*
1831576 TTCAACATTTATTTT
1 TTCAACACTTATTTT
1831591 TT
1 TT
1831593 TAGCATTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCAACACTTATTTT
Found at i:1831859 original size:14 final size:16
Alignment explanation
Indices: 1831828--1831864 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1831818 AAAAAAAAAT
1831828 ATATATATATATATATA
1 ATAT-TATATATATATA
1831845 ATATTATAT-TA-ATA
1 ATATTATATATATATA
1831859 ATATTA
1 ATATTA
1831865 AACTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 5 0.25
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTATATATATATA
Found at i:1834304 original size:46 final size:46
Alignment explanation
Indices: 1834237--1834330 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
1834227 GAAATTGCAA
* *
1834237 ACTTCAATGCGATTCTACAGAATGATAATGGGACCACTATTCCTGC
1 ACTTCAATGCGACTCTACAGAATGATAATGGGACCAATATTCCTGC
* *
1834283 ACTTCAATGTGACTCTGCAGAATGATAATGGGACCAATATTCCTGC
1 ACTTCAATGCGACTCTACAGAATGATAATGGGACCAATATTCCTGC
1834329 AC
1 AC
1834331 GAGTTGCCCG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (46 bp):
ACTTCAATGCGACTCTACAGAATGATAATGGGACCAATATTCCTGC
Found at i:1840425 original size:3 final size:3
Alignment explanation
Indices: 1840417--1840445 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1840407 CCTAGAAAAG
1840417 GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1840446 AGATTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Done.