Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 32 of 117
Found at i:8164430 original size:119 final size:114
Alignment explanation
Indices: 8164112--8164453 Score: 409
Period size: 119 Copynumber: 2.9 Consensus size: 114
8164102 AATAAAATTC
*
8164112 AAAAGAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTGTTCTAAAA
1 AAAA-AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT-TTCTAAAA
* * *
8164177 AATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
64 AATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT
** *
8164229 CTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTTTCTAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG---TTTCTAAA
* *
8164294 AATTATTTCCTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAG-TTT
63 AAATATTT--TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT
* * * *
8164347 AAAAAAAAAGGTTTTTTTATTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 -AAAAAAAA---TATTTT-TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTCT
*
8164412 AAAAAATATTTT-AGGGAAAAGTTGAAAGTATGAATTTTCCTT
60 AAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
8164454 GTACAAAAGC
Statistics
Matches: 194, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
116 48 0.25
117 5 0.03
118 15 0.08
119 70 0.36
121 15 0.08
122 5 0.03
123 33 0.17
124 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (114 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCTAAAAAA
TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTT
Found at i:8170637 original size:16 final size:16
Alignment explanation
Indices: 8170616--8170647 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8170606 TATTAACTGA
8170616 AAGTACTCTAAAGAGT
1 AAGTACTCTAAAGAGT
8170632 AAGTACTCTAAAGAGT
1 AAGTACTCTAAAGAGT
8170648 TTAGGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
AAGTACTCTAAAGAGT
Found at i:8171990 original size:49 final size:49
Alignment explanation
Indices: 8171906--8171999 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
8171896 TTATTTTTCT
*
8171906 TTTCTAAATTTTTCACCATTTTGGCCAATTCAAAAAGTT-TCTTTTCTGA
1 TTTCTAAATTTTTCACCATTTAGGCCAATTCAAAAA-TTCTCTTTTCTGA
* * *
8171955 TTTCTAAATTTTTCACCATTTAGGTCTATTTAAAAATTCTCTTTT
1 TTTCTAAATTTTTCACCATTTAGGCCAATTCAAAAATTCTCTTTT
8172000 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.05
49 38 0.95
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (49 bp):
TTTCTAAATTTTTCACCATTTAGGCCAATTCAAAAATTCTCTTTTCTGA
Found at i:8174022 original size:18 final size:19
Alignment explanation
Indices: 8173999--8174043 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
8173989 TTCATATTCT
*
8173999 CAAGAATTTTT-AGGTTCA
1 CAAGAATTTTTCAGCTTCA
8174017 CAAGAATTTTTCAGCTTCA
1 CAAGAATTTTTCAGCTTCA
8174036 CAAGAATT
1 CAAGAATT
8174044 CATAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
CAAGAATTTTTCAGCTTCA
Found at i:8174771 original size:21 final size:21
Alignment explanation
Indices: 8174746--8174799 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
8174736 GGTTTTATAT
*
8174746 CTCAAATATTTTCATTTGAAA
1 CTCAAATATTTTCATTTAAAA
* *
8174767 CTCAAAGATTCTCATTTAAAA
1 CTCAAATATTTTCATTTAAAA
8174788 CTCAAATATTTT
1 CTCAAATATTTT
8174800 ATCTTAAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.41
Consensus pattern (21 bp):
CTCAAATATTTTCATTTAAAA
Found at i:8174806 original size:21 final size:20
Alignment explanation
Indices: 8174746--8174806 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
8174736 GGTTTTATAT
*
8174746 CTCAAATATTTTCATTTGAAA
1 CTCAAATATTTT-ATTTAAAA
* *
8174767 CTCAAAGATTCTCATTTAAAA
1 CTCAAATATT-TTATTTAAAA
8174788 CTCAAATATTTTATCTTAA
1 CTCAAATATTTTAT-TTAA
8174807 GAGACTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.41
Consensus pattern (20 bp):
CTCAAATATTTTATTTAAAA
Found at i:8175822 original size:9 final size:8
Alignment explanation
Indices: 8175808--8175920 Score: 68
Period size: 8 Copynumber: 13.4 Consensus size: 8
8175798 TTTAAGTCTT
8175808 TTTTTTCTC
1 TTTTTT-TC
8175817 TTTTTTTAC
1 TTTTTTT-C
*
8175826 ATTTTTTCC
1 -TTTTTTTC
*
8175835 ATTTTTTC
1 TTTTTTTC
*
8175843 -ATTTTTC
1 TTTTTTTC
*
8175850 ATTTTTCTC
1 -TTTTTTTC
8175859 TTTTTTTC
1 TTTTTTTC
**
8175867 TTTTTCAC
1 TTTTTTTC
8175875 TTTTTTAT-
1 TTTTTT-TC
8175883 TTTTTTTC
1 TTTTTTTC
8175891 ATTTTTTTTC
1 --TTTTTTTC
*
8175901 ATTTTTTTA
1 -TTTTTTTC
*
8175910 TTTTTTCC
1 TTTTTTTC
8175918 TTT
1 TTT
8175921 CGTTTTTTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.09
8 40 0.49
9 20 0.25
10 14 0.17
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTTC
Found at i:8175852 original size:24 final size:24
Alignment explanation
Indices: 8175819--8175896 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
8175809 TTTTTCTCTT
*
8175819 TTTTTACATTTTTTCCATTTTTTCA
1 TTTTT-CATTTTTTCCTTTTTTTCA
8175844 TTTTTCA-TTTTTCTCTTTTTTTC-
1 TTTTTCATTTTTTC-CTTTTTTTCA
**
8175867 TTTTTCACTTTTTTATTTTTTTTCA
1 TTTTTCA-TTTTTTCCTTTTTTTCA
8175892 TTTTT
1 TTTTT
8175897 TTTCATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.28
24 18 0.39
25 15 0.33
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTCATTTTTTCCTTTTTTTCA
Found at i:8175905 original size:16 final size:16
Alignment explanation
Indices: 8175844--8175905 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
8175834 CATTTTTTCA
8175844 TTTTTCATTTTTC-TCTT
1 TTTTTCA-TTTTCAT-TT
*
8175861 TTTTTCTTTTTCACTTT
1 TTTTTCATTTTCA-TTT
**
8175878 TTTATTTTTTTTCATTT
1 TTT-TTCATTTTCATTT
8175895 TTTTTCATTTT
1 TTTTTCATTTT
8175906 TTTATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 11 0.29
17 17 0.45
18 10 0.26
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCATTTTCATTT
Found at i:8175913 original size:16 final size:16
Alignment explanation
Indices: 8175818--8175916 Score: 68
Period size: 15 Copynumber: 6.4 Consensus size: 16
8175808 TTTTTTCTCT
*
8175818 TTTTTTACATTTTTTCCA
1 TTTTTT-CATTTTTT-TA
*
8175836 TTTTTTCA-TTTTTCA
1 TTTTTTCATTTTTTTA
8175851 TTTTTCTC-TTTTTTT-
1 TTTTT-TCATTTTTTTA
* *
8175866 CTTTTTCACTTTTTTA
1 TTTTTTCATTTTTTTA
**
8175882 -TTTTT--TTTCATT-
1 TTTTTTCATTTTTTTA
8175894 TTTTTTCATTTTTTTA
1 TTTTTTCATTTTTTTA
8175910 TTTTTTC
1 TTTTTTC
8175917 CTTTCGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.14
14 2 0.03
15 27 0.42
16 19 0.29
17 2 0.03
18 6 0.09
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTCATTTTTTTA
Found at i:8175915 original size:10 final size:10
Alignment explanation
Indices: 8175844--8175908 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
8175834 CATTTTTTCA
8175844 TTTTTCATTT
1 TTTTTCATTT
**
8175854 TTCTCTTTTTTT
1 TT-T-TTCATTT
*
8175866 CTTTTTCA-CT
1 -TTTTTCATTT
8175876 TTTTT-ATTT
1 TTTTTCATTT
8175885 TTTTTCATTT
1 TTTTTCATTT
8175895 TTTTTCATTT
1 TTTTTCATTT
8175905 TTTT
1 TTTT
8175909 ATTTTTTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 1 0.02
9 11 0.25
10 21 0.48
11 3 0.07
12 6 0.14
13 2 0.05
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:8175926 original size:28 final size:29
Alignment explanation
Indices: 8175863--8175927 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
8175853 TTTCTCTTTT
*
8175863 TTTCTTTTTCACTTTTTTATTTTTTTTCA
1 TTTCTTTTTCACTTTTTTATATTTTTTCA
*
8175892 TTT-TTTTTCA-TTTTTT-TATTTTTTCC
1 TTTCTTTTTCACTTTTTTATATTTTTTCA
8175918 TTTCGTTTTT
1 TTTC-TTTTT
8175928 TTCATTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 11 0.34
27 6 0.19
28 12 0.38
29 3 0.09
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTCTTTTTCACTTTTTTATATTTTTTCA
Found at i:8179270 original size:15 final size:15
Alignment explanation
Indices: 8179250--8179294 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8179240 AGACAAAAAA
8179250 CAAACAAAACATTAG
1 CAAACAAAACATTAG
8179265 CAAACAAATA-ATTA-
1 CAAACAAA-ACATTAG
8179279 CAAA-AAAACCATTAG
1 CAAACAAAA-CATTAG
8179294 C
1 C
8179295 TCAAGGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 1 0.04
13 3 0.12
14 8 0.31
15 13 0.50
16 1 0.04
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (15 bp):
CAAACAAAACATTAG
Found at i:8181408 original size:4 final size:4
Alignment explanation
Indices: 8181386--8181498 Score: 65
Period size: 4 Copynumber: 29.0 Consensus size: 4
8181376 AAATTGAAAG
* * * * *
8181386 ATAA ACAA A-AA ACAA ATAA ATAA ATAA A-AA GATAA A-AC CTCA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA
* * * * *
8181432 ATAA ATAA AT-G ATAA ACAA ATAG ATAA ATAG ATAA CT-A ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* *
8181478 ATAA CTAA AAAA ATGAA ATAA
1 ATAA ATAA ATAA AT-AA ATAA
8181499 TGGGTAATTA
Statistics
Matches: 80, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
3 10 0.12
4 64 0.80
5 6 0.08
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.19
Consensus pattern (4 bp):
ATAA
Found at i:8181422 original size:27 final size:27
Alignment explanation
Indices: 8181392--8181466 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
8181382 AAAGATAAAC
8181392 AAAAAACAAATAAATAAATAAAAAGAT
1 AAAAAACAAATAAATAAATAAAAAGAT
* * *
8181419 -AAAACCTCAATAAATAAAT-AAATGAT
1 AAAAAAC-AAATAAATAAATAAAAAGAT
* * *
8181445 AAACAAATAGATAAATAGATAA
1 AAA-AAACAAATAAATAAATAA
8181467 CTAATAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
26 11 0.31
27 22 0.61
28 3 0.08
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (27 bp):
AAAAAACAAATAAATAAATAAAAAGAT
Found at i:8181452 original size:19 final size:19
Alignment explanation
Indices: 8181430--8181498 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
8181420 AAACCTCAAT
8181430 AAATAAATAAATGATAAAC
1 AAATAAATAAATGATAAAC
*
8181449 AAATAGATAAATAGAT-AAC
1 AAATAAATAAAT-GATAAAC
* * *
8181468 TAATAAATAAATAACTAAAA
1 AAATAAATAAATGA-TAAAC
8181488 AAATGAAATAA
1 AAAT-AAATAA
8181499 TGGGTAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 25 0.62
20 8 0.20
21 6 0.15
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.22
Consensus pattern (19 bp):
AAATAAATAAATGATAAAC
Found at i:8190857 original size:21 final size:21
Alignment explanation
Indices: 8190808--8190858 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
8190798 TGTAAAGAAA
* *
8190808 AATAAAAAAAAAGGAAAAGAC
1 AATATAAAAAAAGCAAAAGAC
8190829 AA-AGTAAAAAAAGCAACAA-AC
1 AATA-TAAAAAAAGCAA-AAGAC
8190850 AATATAAAA
1 AATATAAAA
8190859 TAATAGAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.08
Consensus pattern (21 bp):
AATATAAAAAAAGCAAAAGAC
Found at i:8197418 original size:19 final size:19
Alignment explanation
Indices: 8197378--8197429 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
8197368 GATCACAAAG
*
8197378 TTTTCTTTTT-TTTTTCTT
1 TTTTCTTTTTATTTTTCTA
8197396 TTTTCTTTTTATTTTT-TAA
1 TTTTCTTTTTATTTTTCT-A
**
8197415 TTTTAATTTTATTTT
1 TTTTCTTTTTATTTT
8197430 ATTTTGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTTTATTTTTCTA
Found at i:8197457 original size:11 final size:11
Alignment explanation
Indices: 8197443--8197480 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8197433 TTGATTTTTT
8197443 TATTTTATATA
1 TATTTTATATA
8197454 TATTTTATATA
1 TATTTTATATA
*
8197465 TTTTTTAT-TA
1 TATTTTATATA
8197475 T-TTTTA
1 TATTTTA
8197481 ATTGTGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 18 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTTTATATA
Found at i:8197458 original size:19 final size:18
Alignment explanation
Indices: 8197421--8197479 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
8197411 TTAATTTTAA
*
8197421 TTTTATTTTATTTTGATTT
1 TTTTATTTTATATT-ATTT
8197440 TTTTATTTTATATATATTT
1 TTTTATTTTATAT-TATTT
* *
8197459 TATATATTTTTTATTATTT
1 T-TTTATTTTATATTATTT
8197478 TT
1 TT
8197480 AATTGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 23 0.66
20 11 0.31
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTTATATTATTT
Found at i:8197458 original size:30 final size:30
Alignment explanation
Indices: 8197396--8197461 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
8197386 TTTTTTTCTT
* * *
8197396 TTTTCTTTTTATTTTTTAATTTTAATTTTA
1 TTTTATTTTGATTTTTTAATTTTAATTATA
*
8197426 TTTTATTTTGATTTTTTTATTTT-ATATATA
1 TTTTATTTTGATTTTTTAATTTTAAT-TATA
8197456 TTTTAT
1 TTTTAT
8197462 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (30 bp):
TTTTATTTTGATTTTTTAATTTTAATTATA
Found at i:8197652 original size:31 final size:31
Alignment explanation
Indices: 8197604--8197682 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
8197594 TTATGATTTT
*
8197604 TTGCATGAATTTTATTTA-TT--ATGATA-A
1 TTGCATGGATTTTATTTATTTACATGATATA
* *
8197631 TTGCATGGGTTTTATTTATTTACATGATATT
1 TTGCATGGATTTTATTTATTTACATGATATA
8197662 TTGCATGGATTTTATTTATTT
1 TTGCATGGATTTTATTTATTT
8197683 TTGCATGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.36
28 2 0.05
30 6 0.14
31 20 0.45
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (31 bp):
TTGCATGGATTTTATTTATTTACATGATATA
Found at i:8202144 original size:22 final size:22
Alignment explanation
Indices: 8202119--8202177 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
8202109 CATTTAGACC
*
8202119 TAATCTTTAAGACCTACAGGCA
1 TAATCTATAAGACCTACAGGCA
** **
8202141 TAATCTCCAAGACCCCCAGGCA
1 TAATCTATAAGACCTACAGGCA
*
8202163 TGATCTATAAGACCT
1 TAATCTATAAGACCT
8202178 CAAGCCATGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.24
Consensus pattern (22 bp):
TAATCTATAAGACCTACAGGCA
Found at i:8202541 original size:42 final size:42
Alignment explanation
Indices: 8202415--8202563 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 42
8202405 ATATTTAAAA
* * *
8202415 TTTCAAAGCTTCTGTTAAAGGGGAGCATTTTAAATTTTTCAAAG
1 TTTCAAAGCTTCTATT-AAGGGGAGCATTTTAAA-ATTCCAAAG
* *
8202459 TTTCAAAGCCTCTATTAAGGGATAGCATTTTAAAATTCCAAAG
1 TTTCAAAGCTTCTATTAAGGG-GAGCATTTTAAAATTCCAAAG
*
8202502 TTTCAAAACTTCTATTAAGGGGAGCATTTTAAAATTCCAAAG
1 TTTCAAAGCTTCTATTAAGGGGAGCATTTTAAAATTCCAAAG
* * *
8202544 TGTCAAAGCCTCCATTAAGG
1 TTTCAAAGCTTCTATTAAGG
8202564 ATAAGCCTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 36 0.39
43 31 0.34
44 25 0.27
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (42 bp):
TTTCAAAGCTTCTATTAAGGGGAGCATTTTAAAATTCCAAAG
Found at i:8202857 original size:15 final size:15
Alignment explanation
Indices: 8202818--8202858 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
8202808 CAAAAGTATA
8202818 TTTTTATTATTTTTTAG
1 TTTTTATTA--TTTTAG
8202835 -TTTT-TTATTTTAG
1 TTTTTATTATTTTAG
8202848 TTTTTATTATT
1 TTTTTATTATT
8202859 ATTGTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.27
14 4 0.18
15 8 0.36
16 4 0.18
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (15 bp):
TTTTTATTATTTTAG
Found at i:8203844 original size:19 final size:19
Alignment explanation
Indices: 8203822--8203873 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
8203812 TATATTTTGA
*
8203822 TTTTGATTTTTTT-TTGTAT
1 TTTTAATTTTTTTCTTGT-T
8203841 TTTTATATTTTTTTCTTGTT
1 TTTTA-ATTTTTTTCTTGTT
*
8203861 TTTAAATTTTTTT
1 TTTTAATTTTTTT
8203874 GGTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.41
20 13 0.45
21 4 0.14
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTAATTTTTTTCTTGTT
Found at i:8203881 original size:19 final size:18
Alignment explanation
Indices: 8203830--8203882 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
8203820 GATTTTGATT
* *
8203830 TTTTTTTGTATTTTTATA
1 TTTTTTTGTTTTTTTAAA
*
8203848 TTTTTTTCTTGTTTTTAAA
1 TTTTTTTGTT-TTTTTAAA
*
8203867 TTTTTTTGGTTTTTTA
1 TTTTTTTGTTTTTTTA
8203883 TTTATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTAAA
Found at i:8204053 original size:24 final size:23
Alignment explanation
Indices: 8203976--8204054 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
8203966 TTATTTTGCA
*
8203976 TGCATGATTTTATTATGGGATTTATTT
1 TGCATGAATTTATTAT--GA-TT-TTT
*
8204003 TGCATG-ATTTTTTATGATTTTT
1 TGCATGAATTTATTATGATTTTT
8204025 TGCATGAATTTATTATGATATTTT
1 TGCATGAATTTATTATGAT-TTTT
8204049 TGCATG
1 TGCATG
8204055 GGTTTTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 9 0.19
23 13 0.28
24 12 0.26
26 7 0.15
27 6 0.13
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (23 bp):
TGCATGAATTTATTATGATTTTT
Found at i:8204071 original size:19 final size:20
Alignment explanation
Indices: 8204047--8204086 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8204037 TTATGATATT
*
8204047 TTTGCATGGGTTTTA-TTTA
1 TTTGCATGGATTTTAGTTTA
8204066 TTTGCATGGATTTTAGTTTA
1 TTTGCATGGATTTTAGTTTA
8204086 T
1 T
8204087 ATACTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTGCATGGATTTTAGTTTA
Found at i:8204127 original size:21 final size:21
Alignment explanation
Indices: 8204095--8204154 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 21
8204085 ATATACTTGC
8204095 ATGATA-TTTTGCATGGATTTT
1 ATGATATTTTTGCAT-GATTTT
*
8204116 AT-TTATTTTTGCATGA--TT
1 ATGATATTTTTGCATGATTTT
8204134 ATGATATTTTTGCATGATTTT
1 ATGATATTTTTGCATGATTTT
8204155 TGACATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 13 0.39
20 4 0.12
21 12 0.36
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (21 bp):
ATGATATTTTTGCATGATTTT
Found at i:8204155 original size:11 final size:11
Alignment explanation
Indices: 8204091--8204189 Score: 50
Period size: 11 Copynumber: 9.0 Consensus size: 11
8204081 GTTTATATAC
8204091 TTGCATGATATT
1 TTGCATGAT-TT
8204103 TTGCATGGA-TT
1 TTGCAT-GATTT
*
8204114 TT--ATTTATTT
1 TTGCA-TGATTT
8204124 TTGCATGA-TT
1 TTGCATGATTT
*
8204134 ATG-AT-ATTT
1 TTGCATGATTT
8204143 TTGCATGATTT
1 TTGCATGATTT
*
8204154 TTGACATAATTT
1 TTG-CATGATTT
*
8204166 TAT-TATGATATTT
1 T-TGCATG--ATTT
8204179 TTGCATGATTT
1 TTGCATGATTT
8204190 CATTTATTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 27
0.65 0.08 0.27
Matches are distributed among these distances:
8 1 0.02
9 8 0.12
10 11 0.17
11 19 0.29
12 16 0.24
13 11 0.17
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (11 bp):
TTGCATGATTT
Found at i:8204251 original size:55 final size:53
Alignment explanation
Indices: 8204123--8204240 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 53
8204113 TTTATTTATT
* *
8204123 TTTGCATGATTATGATATT-TTTGCATGATTTTTGACATAATTTTATTATGATATT
1 TTTGCATGATT-T-AT-TTATTTGCATGATTTTTGACATAATTTTATTATGACATG
*
8204178 TTTGCATGATTTCATTTATTTGCATGATGTTTTTG-CATAATTTTTATTTTG-CATG
1 TTTGCATGATTT-ATTTATTTGCATGA--TTTTTGACATAA-TTTTATTATGACATG
8204233 TTTGCATG
1 TTTGCATG
8204241 GTATTTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
53 2 0.04
54 12 0.22
55 26 0.47
56 15 0.27
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.55
Consensus pattern (53 bp):
TTTGCATGATTTATTTATTTGCATGATTTTTGACATAATTTTATTATGACATG
Found at i:8205924 original size:27 final size:27
Alignment explanation
Indices: 8205862--8205915 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
8205852 CATTTTATTA
* **
8205862 AAATTATATTTTATATTTTAATAGGTAG
1 AAATAATA-TTTATATTTTAATAAATAG
8205890 AAATAATATTTATATTTTAATAAATA
1 AAATAATATTTATATTTTAATAAATA
8205916 TAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:8206216 original size:28 final size:28
Alignment explanation
Indices: 8206180--8206246 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
8206170 GTCAAATAAT
* *
8206180 TAATCATTTTTATTAAAATTTTAGTTTT-
1 TAATTATTTTTA-TAAAATATTAGTTTTA
* *
8206208 T-ATTAATTTTATATAATATTAGTTTTA
1 TAATTATTTTTATAAAATATTAGTTTTA
8206235 TAATTATTTTTA
1 TAATTATTTTTA
8206247 ATTATGATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 13 0.41
27 9 0.28
28 10 0.31
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (28 bp):
TAATTATTTTTATAAAATATTAGTTTTA
Found at i:8206217 original size:16 final size:17
Alignment explanation
Indices: 8206186--8206218 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8206176 TAATTAATCA
8206186 TTTTTATTAAAATTTTAG
1 TTTTTATT-AAATTTTAG
8206204 TTTTTATT-AATTTTA
1 TTTTTATTAAATTTTA
8206219 TATAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTATTAAATTTTAG
Found at i:8210077 original size:33 final size:33
Alignment explanation
Indices: 8210023--8210093 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
8210013 TTGATATGTA
8210023 CAAAAATTAAAATACGGTAATTTATTTATTAGT
1 CAAAAATTAAAATACGGTAATTTATTTATTAGT
**
8210056 CAAAAATTAGGATA-GGATAATTTATTTATTAGT
1 CAAAAATTAAAATACGG-TAATTTATTTATTAGT
8210089 CAAAA
1 CAAAA
8210094 TTATCTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (33 bp):
CAAAAATTAAAATACGGTAATTTATTTATTAGT
Found at i:8211088 original size:65 final size:65
Alignment explanation
Indices: 8210978--8211109 Score: 180
Period size: 65 Copynumber: 2.0 Consensus size: 65
8210968 TTTTAATTTT
*
8210978 ATTAAGTTAAGCATAAATTAAACCTTGAATTTTTTAAATTCAAGAAATGATGTTAAAAAATTATC
1 ATTAAGTTAAGCATAAATTAAACCTTGAATTTTTTAAATTCAAGAAATGACGTTAAAAAATTATC
* * *
8211043 ATTAAGTTGAA-CATAAATTAAACC-T-ACTATTTTTAGAATTTAAGAAGTGACGTTAAAAAATT
1 ATTAAGTT-AAGCATAAATTAAACCTTGAAT-TTTTTA-AATTCAAGAAATGACGTTAAAAAATT
8211105 ATC
63 ATC
8211108 AT
1 AT
8211110 GGATATTTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
63 2 0.03
64 7 0.12
65 49 0.82
66 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (65 bp):
ATTAAGTTAAGCATAAATTAAACCTTGAATTTTTTAAATTCAAGAAATGACGTTAAAAAATTATC
Found at i:8212409 original size:11 final size:12
Alignment explanation
Indices: 8212381--8212410 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8212371 TTTTTCTATT
8212381 TATTTTATTTAG
1 TATTTTATTTAG
8212393 TATTTTATTTA-
1 TATTTTATTTAG
8212404 TATTTTA
1 TATTTTA
8212411 GTATTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TATTTTATTTAG
Found at i:8212412 original size:19 final size:17
Alignment explanation
Indices: 8212379--8212417 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
8212369 GTTTTTTCTA
8212379 TTTATTTTATTTAGTAT
1 TTTATTTTATTTAGTAT
8212396 TTTATTTATATTTTAGTAT
1 TTTATTT-TA-TTTAGTAT
8212415 TTT
1 TTT
8212418 TGCATGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTAGTAT
Found at i:8223244 original size:80 final size:80
Alignment explanation
Indices: 8223152--8223311 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 80
8223142 TAGAAACACC
* * *
8223152 ATTCAGCAAACCATCCATCATACAATTCAAGCCTCT-AATATCATACGAA-ACCATTCAGCAAAA
1 ATTCAGCAAACCATCCAACATACAATTC-AGCCCCTCAATATCATAC-AATACCATTCAACAAAA
* *
8223215 CAATATTAGACAACAAG
64 AAATATCAGACAACAAG
* **
8223232 ATTCAGCAAACCATTCAACATATGATTCAGCCCCTCAATATCATACAATACCATTCAACAAAAAA
1 ATTCAGCAAACCATCCAACATACAATTCAGCCCCTCAATATCATACAATACCATTCAACAAAAAA
8223297 ATATCAGACAACAAG
66 ATATCAGACAACAAG
8223312 GTTTAACAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 8 0.11
80 62 0.89
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (80 bp):
ATTCAGCAAACCATCCAACATACAATTCAGCCCCTCAATATCATACAATACCATTCAACAAAAAA
ATATCAGACAACAAG
Found at i:8225971 original size:10 final size:10
Alignment explanation
Indices: 8225952--8225983 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
8225942 CTTCAAAATC
8225952 CACCTTATTT
1 CACCTTATTT
*
8225962 CACTTTATTT
1 CACCTTATTT
8225972 CACCTTATTT
1 CACCTTATTT
8225982 CA
1 CA
8225984 ACCCTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (10 bp):
CACCTTATTT
Found at i:8231295 original size:18 final size:18
Alignment explanation
Indices: 8231267--8231319 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
8231257 ATTCCAAAAA
8231267 TTTTA-TATTTTTATGTT
1 TTTTATTATTTTTATGTT
8231284 TTTTATTATTTTTAAT-TT
1 TTTTATTATTTTT-ATGTT
* *
8231302 TTTAATT-TTTTTTTGTT
1 TTTTATTATTTTTATGTT
8231319 T
1 T
8231320 GAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 13 0.42
18 15 0.48
19 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTATTATTTTTATGTT
Found at i:8232090 original size:8 final size:8
Alignment explanation
Indices: 8232072--8232113 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
8232062 ACTCAAACAC
8232072 TTTTTTCTA
1 TTTTTT-TA
8232081 TTTTTTTA
1 TTTTTTTA
8232089 TTTTTTTTA
1 -TTTTTTTA
8232098 TTTTTTTA
1 TTTTTTTA
*
8232106 ATTTTTTA
1 TTTTTTTA
8232114 ATTGTCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8232094 original size:17 final size:18
Alignment explanation
Indices: 8232072--8232112 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
8232062 ACTCAAACAC
8232072 TTTTTTCTATTTTTTT-A
1 TTTTTTCTATTTTTTTAA
*
8232089 TTTTTTTTATTTTTTTAA
1 TTTTTTCTATTTTTTTAA
8232107 TTTTTT
1 TTTTTT
8232113 AATTGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTATTTTTTTAA
Found at i:8232338 original size:42 final size:43
Alignment explanation
Indices: 8232254--8232369 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
8232244 TTGAAAAGAA
* * * *
8232254 AAAAT-AACAAAGCTTCTCTAAATAAAAGCTCAATGACTTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTG
8232296 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGAC-TTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTG
* **
8232338 AAAATAAATAAAGCTCCTCTAACCAGAGGCTC
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTC
8232370 TAAAAATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 38 0.58
43 28 0.42
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (43 bp):
AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTG
Found at i:8232493 original size:41 final size:41
Alignment explanation
Indices: 8232393--8232870 Score: 529
Period size: 41 Copynumber: 11.6 Consensus size: 41
8232383 AAGCTCAACG
* * *
8232393 ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACAACA
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* * **
8232434 AC-TTTGAAAGTAAATTGCTCCTCCAAACAAAGGCACCGTA
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* ***
8232474 ACTTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACTGTA
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* *
8232515 ACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCTCA
1 ACTTTTG-AAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
*
8232557 ACTTTTGGAAAGTAAATTGCTCCTTTAAATAAAGGCAACCACA
1 ACTTTT-GAAAGTAAATTGCTCCTCTAAATAAAGGC-ACCACA
* * *
8232600 AC-TTTGAAAGTAAATTGCTCCT-TCAAACAGAGGCACCATA
1 ACTTTTGAAAGTAAATTGCTCCTCT-AAATAAAGGCACCACA
* * * *
8232640 A-TATTTGAAAGTAAATTGCTCTTCTAAATAGAGGCATCGCA
1 ACT-TTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
8232681 ACTTTTGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
1 ACTTTTG-AAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* * * *
8232723 AC-TTTGAAAAGTAAATTACTCCTCTAAATAGAGGTACCTCA
1 ACTTTTG-AAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
*
8232764 ATTTTTGGAAAGTAAATTGCTCCTCTAAATAGAA-GCACCACA
1 ACTTTT-GAAAGTAAATTGCTCCTCTAAATA-AAGGCACCACA
* * * *
8232806 ACTTTTGAAAGTTAATTGTTCCTCTAAATAGAGGCACCCACG
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCA-CCACA
*
8232848 AC-TTTGAAAAATAAATTGCTCCT
1 ACTTTTG-AAAGTAAATTGCTCCT
8232871 TAACAATCAT
Statistics
Matches: 375, Mismatches: 46, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
40 41 0.11
41 171 0.46
42 153 0.41
43 10 0.03
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (41 bp):
ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
Found at i:8232610 original size:83 final size:82
Alignment explanation
Indices: 8232393--8232870 Score: 529
Period size: 83 Copynumber: 5.8 Consensus size: 82
8232383 AAGCTCAACG
* * *
8232393 ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACAACAACTTTG-AAAGTAAATTGCTCCTC
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAAGTAAATTGCTCCTC
* * *
8232457 CAAACAAAGGCACCGT-A
66 TAAATAGAGGCACC-TCA
* ***
8232474 ACTTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACTGTAACTTTTGAAAAGTAAATTGCTCCT
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAAC-TTTGAAAAGTAAATTGCTCCT
8232539 CTAAATAGAGGCACCTCA
65 CTAAATAGAGGCACCTCA
*
8232557 ACTTTTGGAAAGTAAATTGCTCCTTTAAATAAAGGCAACCACAACTTTG-AAAGTAAATTGCTCC
1 ACTTTT-GAAAGTAAATTGCTCCTCTAAATAAAGGC-ACCACAACTTTGAAAAGTAAATTGCTCC
*
8232621 T-TCAAACAGAGGCACCAT-A
64 TCT-AAATAGAGGCACC-TCA
* * * *
8232640 A-TATTTGAAAGTAAATTGCTCTTCTAAATAGAGGCATCGCAACTTTTGAAAAGTAAATTGCTCC
1 ACT-TTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAAC-TTTGAAAAGTAAATTGCTCC
* *
8232704 TCTAAATAAAGGCACCACA
64 TCTAAATAGAGGCACCTCA
* * * * * *
8232723 AC-TTTGAAAAGTAAATTACTCCTCTAAATAGAGGTACCTCAATTTTTGGAAAGTAAATTGCTCC
1 ACTTTTG-AAAGTAAATTGCTCCTCTAAATAAAGGCACCACAA-CTTTGAAAAGTAAATTGCTCC
* *
8232787 TCTAAATAGAAGCACCACA
64 TCTAAATAGAGGCACCTCA
* * * * *
8232806 ACTTTTGAAAGTTAATTGTTCCTCTAAATAGAGGCACCCACGACTTTGAAAAATAAATTGCTCCT
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCA-CCACAACTTTGAAAAGTAAATTGCTCCT
8232871 TAACAATCAT
Statistics
Matches: 339, Mismatches: 41, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
81 43 0.13
82 41 0.12
83 209 0.62
84 41 0.12
85 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (82 bp):
ACTTTTGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAAGTAAATTGCTCCTC
TAAATAGAGGCACCTCA
Found at i:8232686 original size:166 final size:163
Alignment explanation
Indices: 8232393--8232870 Score: 629
Period size: 166 Copynumber: 2.9 Consensus size: 163
8232383 AAGCTCAACG
* *
8232393 ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACAACAACTTTGAAAGTAAATTGCTCCTCC
1 ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTTC
* * * * *
8232458 AAACAAAGGCACCGTAACTTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACTGTAACTTTTGA
66 AAACAGAGGCACCATAACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAC-GCAACTTTTGA
* *
8232523 AAAGTAAATTGCTCCTCTAAATAGAGGCACCTCA
130 AAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* *
8232557 ACTTTTGGAAAGTAAATTGCTCCTTTAAATAAAGGCAACCACAACTTTGAAAGTAAATTGCTCCT
1 AC-TTTGGAAAGTAAATTACTCCTCTAAATAAAGGC-ACCACAACTTTGAAAGTAAATTGCTCCT
*
8232622 TCAAACAGAGGCACCATAA-TATTTGAAAGTAAATTGCTCTTCTAAATAGAGGCATCGCAACTTT
64 TCAAACAGAGGCACCATAACT-TTTGAAAGTAAATTGCTCCTCTAAATAGAGGCA-CGCAACTTT
8232686 TGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
127 TGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACA
* * * * *
8232723 ACTTTGAAAAGTAAATTACTCCTCTAAATAGAGGTACCTCAATTTTTGGAAAGTAAATTGCTCC-
1 ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACCACAA-CTTT-GAAAGTAAATTGCTCCT
* * * * * *
8232787 TCTAAATAGAAGCACCACAACTTTTGAAAGTTAATTGTTCCTCTAAATAGAGGCACCCACGAC-T
64 TC-AAACAGAGGCACCATAACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCACGCA--ACTT
*
8232851 TTGAAAAATAAATTGCTCCT
126 TTGAAAAGTAAATTGCTCCT
8232871 TAACAATCAT
Statistics
Matches: 277, Mismatches: 27, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
164 8 0.03
165 68 0.25
166 197 0.71
167 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (163 bp):
ACTTTGGAAAGTAAATTACTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTTC
AAACAGAGGCACCATAACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCACGCAACTTTTGAA
AAGTAAATTGCTCCTCTAAATAAAGGCACCACA
Found at i:8234579 original size:12 final size:11
Alignment explanation
Indices: 8234564--8234617 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
8234554 TCAAATATTT
8234564 TTTTATTTTTTC
1 TTTT-TTTTTTC
8234576 TTTTTTTCTTTC
1 TTTTTTT-TTTC
*
8234588 TTTTTTTTTAC
1 TTTTTTTTTTC
* *
8234599 TTTTTTCTCTC
1 TTTTTTTTTTC
8234610 TTTTTTTT
1 TTTTTTTT
8234618 CATCCATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:8234602 original size:22 final size:22
Alignment explanation
Indices: 8234569--8234617 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
8234559 TATTTTTTTA
*
8234569 TTTTTTCTTTTTTTCTTTCTTT
1 TTTTTTCTTTTTTTCTCTCTTT
8234591 TTTTTTAC-TTTTTTCTCTCTTT
1 TTTTTT-CTTTTTTTCTCTCTTT
8234613 TTTTT
1 TTTTT
8234618 CATCCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTCTTTTTTTCTCTCTTT
Found at i:8241096 original size:18 final size:18
Alignment explanation
Indices: 8241068--8241119 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
8241058 ATTCCAAAAA
8241068 TTTTA-TATTTTTATGTT
1 TTTTATTATTTTTATGTT
8241085 TTTTATTATTTTTAAT-TT
1 TTTTATTATTTTT-ATGTT
*
8241103 TTTAATT-TTTTT-TGTT
1 TTTTATTATTTTTATGTT
8241119 T
1 T
8241120 GAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 10 0.32
18 15 0.48
19 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTATTATTTTTATGTT
Found at i:8244759 original size:101 final size:101
Alignment explanation
Indices: 8244583--8244782 Score: 251
Period size: 101 Copynumber: 2.0 Consensus size: 101
8244573 TATATAGATG
* * * *
8244583 CCACCAAAGCAACGGCATTTTTCTCATAAAAACGTCACTAAATTAACGGCGTCTCAAATATACAA
1 CCACCAAAGCAACGGCATTTTTCTCATAAAAACGTCACTAAATTAACGGCATCTCAAAGAAAAAA
* *
8244648 ACGCTGCTAATATAGAGGCATTTTCAGTTACAAATA
66 ACGCTACTAATATAGAGGCATTTTCAGATACAAATA
* ** *
8244684 CCACCAAAGCAATGGCATTTTTCTCATAAAAAC-TCCACTAAATTAGTGGCATCTTAAAGAAAAA
1 CCACCAAAGCAACGGCATTTTTCTCATAAAAACGT-CACTAAATTAACGGCATCTCAAAGAAAAA
* * *
8244748 AATG-TCACTAATATAGAGGTATTTTTAGATACAAA
65 AACGCT-ACTAATATAGAGGCATTTTCAGATACAAA
8244783 CGCCTCTAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
100 2 0.02
101 82 0.98
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (101 bp):
CCACCAAAGCAACGGCATTTTTCTCATAAAAACGTCACTAAATTAACGGCATCTCAAAGAAAAAA
ACGCTACTAATATAGAGGCATTTTCAGATACAAATA
Found at i:8244814 original size:33 final size:33
Alignment explanation
Indices: 8244766--8244838 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
8244756 TAATATAGAG
* * *
8244766 GTATTTTTAGATACAAACGCC-TCTAAAGTAGCA
1 GTATTTTCAGATACAAACGCCATC-AAAGCAACA
*
8244799 GTATTTTCAGTTACAAACGCCATCAAAGCAACA
1 GTATTTTCAGATACAAACGCCATCAAAGCAACA
8244832 GTATTTT
1 GTATTTT
8244839 TCTCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (33 bp):
GTATTTTCAGATACAAACGCCATCAAAGCAACA
Found at i:8246909 original size:205 final size:205
Alignment explanation
Indices: 8246542--8247151 Score: 866
Period size: 205 Copynumber: 3.0 Consensus size: 205
8246532 GATCTAGATA
* * * **
8246542 AAATATAAGCCATTTAAAATTTATCACCTCTAAGTATACCGAAAGAAGTTTGAGGTTTTCTGGGT
1 AAATACAAGCCATTCAAAATTTATCACCTCTAAGTATATCGAAAGAAGTTCAAGGTTTTCTGGGT
*
8246607 AGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTAATCCTATTTTTAAGCT
66 AGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTGATCCTATTTTTAAGCT
* * * *
8246672 TTTCCACAAAAATAACCCTAAATAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTAAAC
131 TTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTAAAC
8246737 AGTACTTATC
196 AGTACTTATC
*
8246747 AAATACAA-CCTATTCAAAATTTATCACCTCCAAGTATATCGAAAGAAGTTCAAGGTTTTCTGGG
1 AAATACAAGCC-ATTCAAAATTTATCACCTCTAAGTATATCGAAAGAAGTTCAAGGTTTTCTGGG
* * *
8246811 TAGATTTAACTATATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTGATCCCATTTTTAAGC
65 TAGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTGATCCTATTTTTAAGC
** * *
8246876 TTTTCCACAAGAGTAACCCTAGAGAATGAAATGAAAAATGCTAAATAG-----ATTAAAG-TAGA
130 TTTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTA-A
*
8246935 TCCAG-A--TA--
194 -ACAGTACTTATC
* * * *
8246943 AAATACAAGCCATTTAAAATTTATCACCTTTAAGTATATCGAAAGAAGTTCAAAGTTTTATGGGT
1 AAATACAAGCCATTCAAAATTTATCACCTCTAAGTATATCGAAAGAAGTTCAAGGTTTTCTGGGT
* *
8247008 AGATTGAACTACATTTTTTAGTTCATATATTAGCTTAACTATAAGTGTGATCTTATTTTTAAGCT
66 AGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTGATCCTATTTTTAAGCT
*
8247073 TTTCCATAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTAAAC
131 TTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTAAAC
*
8247138 ACTACTTATC
196 AGTACTTATC
8247148 AAAT
1 AAAT
8247152 CATTCGATAC
Statistics
Matches: 354, Mismatches: 36, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
196 160 0.45
197 2 0.01
198 2 0.01
199 2 0.01
200 10 0.03
201 11 0.03
202 2 0.01
203 2 0.01
204 2 0.01
205 161 0.45
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (205 bp):
AAATACAAGCCATTCAAAATTTATCACCTCTAAGTATATCGAAAGAAGTTCAAGGTTTTCTGGGT
AGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAGTGTGATCCTATTTTTAAGCT
TTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAATAGCTTTTAATAAAGTTAAAC
AGTACTTATC
Found at i:8247044 original size:196 final size:196
Alignment explanation
Indices: 8246522--8247119 Score: 824
Period size: 196 Copynumber: 3.0 Consensus size: 196
8246512 GTGAAAAAAG
* * * *
8246522 GATTAAAGTTGATCTAGATAAAATATAAGCCATTTAAAATTTATCACCTCTAAGTATACCGAAAG
1 GATTAAAGTAGATCCAGATAAAATACAAGCCATTTAAAATTTATCACCTCTAAGTATATCGAAAG
**
8246587 AAGTTTGAGGTTTTCTGGGTAGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAG
66 AAGTTCAAGGTTTTCTGGGTAGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAG
* * * * *
8246652 TGTAATCCTATTTTTAAGCTTTTCCACAAAAATAACCCTAAATAATGAAATGAGGAATGCCAAAT
131 TGTGATCCTATTTTTAAGCTTTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAAT
8246717 A
196 A
* * * *
8246718 GCTTTTAATAAAGTTA-A-ACAGTACTTATCAAATACAA-CCTATTCAAAATTTATCACCTCCAA
1 G-----ATTAAAG-TAGATCCAG-A--TA--AAATACAAGCC-ATTTAAAATTTATCACCTCTAA
* *
8246780 GTATATCGAAAGAAGTTCAAGGTTTTCTGGGTAGATTTAACTATATTTCTTAGTTCATATATTAG
54 GTATATCGAAAGAAGTTCAAGGTTTTCTGGGTAGATTGAACTACATTTCTTAGTTCATATATTAG
*
8246845 CTTAACTATAAGTGTGATCCCATTTTTAAGCTTTTCCACAAGAGTAACCCTAGAGAATGAAATGA
119 CTTAACTATAAGTGTGATCCTATTTTTAAGCTTTTCCACAAGAGTAACCCTAGAGAATGAAATGA
** *
8246910 AAAATGCTAAATA
184 GGAATGCCAAATA
*
8246923 GATTAAAGTAGATCCAGATAAAATACAAGCCATTTAAAATTTATCACCTTTAAGTATATCGAAAG
1 GATTAAAGTAGATCCAGATAAAATACAAGCCATTTAAAATTTATCACCTCTAAGTATATCGAAAG
* * *
8246988 AAGTTCAAAGTTTTATGGGTAGATTGAACTACATTTTTTAGTTCATATATTAGCTTAACTATAAG
66 AAGTTCAAGGTTTTCTGGGTAGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAG
* *
8247053 TGTGATCTTATTTTTAAGCTTTTCCATAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAAT
131 TGTGATCCTATTTTTAAGCTTTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAAT
8247118 A
196 A
8247119 G
1 G
8247120 CTTTTAATAA
Statistics
Matches: 350, Mismatches: 37, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
196 161 0.46
197 2 0.01
198 2 0.01
199 2 0.01
200 10 0.03
201 11 0.03
202 1 0.00
203 2 0.01
204 2 0.01
205 157 0.45
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (196 bp):
GATTAAAGTAGATCCAGATAAAATACAAGCCATTTAAAATTTATCACCTCTAAGTATATCGAAAG
AAGTTCAAGGTTTTCTGGGTAGATTGAACTACATTTCTTAGTTCATATATTAGCTTAACTATAAG
TGTGATCCTATTTTTAAGCTTTTCCACAAGAGTAACCCTAGAGAATGAAATGAGGAATGCCAAAT
A
Found at i:8250524 original size:40 final size:40
Alignment explanation
Indices: 8250416--8250762 Score: 293
Period size: 40 Copynumber: 8.3 Consensus size: 40
8250406 ATTGTCAGGA
* * *
8250416 AGCCATTATTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAAG
1 AGCCTTTA-TTTTTC-AAAGTTGTTGAGCCTCTGCTTAGAGG
*
8250458 AGCCTTTATTTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
1 AGCCTTTA--TTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
* * *
8250500 AGCCTTTACTTTTCAAAGTTGTTGAACCTCTGATTAGAGG
1 AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
** *
8250540 AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAGG
1 AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
* * *
8250580 AGCTTTATTTATTTTTTTCAAAAGTTG-TGAGCCTTTGCTTAGAGA
1 AGC---CTTTA--TTTTTC-AAAGTTGTTGAGCCTCTGCTTAGAGG
* * * * *
8250625 AGCCTTGTTTATTTTTTAAAGTTGTTAAGCCTCTACCTAAAGG
1 AGCC---TTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
* *
8250668 AGCCTGATCTATCTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGA
1 AGCCT--T-TA--TTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
* * ** *
8250713 ATCCTTTATTTTTCAAAGTTATTGAATCTCTGTTTAGAGG
1 AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
8250753 AG-CTTTATTT
1 AGCCTTTATTT
8250763 ATTTTTAAAA
Statistics
Matches: 249, Mismatches: 40, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
39 8 0.03
40 96 0.39
42 48 0.19
43 35 0.14
45 55 0.22
46 7 0.03
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (40 bp):
AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGG
Found at i:8250611 original size:45 final size:44
Alignment explanation
Indices: 8250421--8250866 Score: 272
Period size: 40 Copynumber: 10.4 Consensus size: 44
8250411 CAGGAAGCCA
**
8250421 TTATTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAA-GAGCCTTTA-
1 TTATTTTTTC-AAAGTTGTTGAGCCTCTATTTA-AAGGAG-CTTTAT
* * *
8250466 -T-TTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC---CT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
* * * *
8250505 TTA-CTTTTCAAAGTTGTTGAACCTCTGA-TTAGAGGAGC---CT
1 TTATTTTTTCAAAGTTGTTGAGCCTCT-ATTTAAAGGAGCTTTAT
8250545 TTA-TTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
* ** * * * *
8250588 TTATTTTTTTCAAAAGTTG-TGAGCCTTTGCTTAGAGAAGCCTTGT
1 TTA-TTTTTTC-AAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
* ** * *
8250633 TTATTTTTT-AAAGTTGTTAAGCCTCTACCTAAAGGAGCCTGAT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
* ** **
8250676 CTATCTTTTTCAAAGTTGTTGAGCCTCTGA-TT--A-GAGAATCCT
1 TTAT-TTTTTCAAAGTTGTTGAGCCTCT-ATTTAAAGGAGCTTTAT
* ** * *
8250718 TTA-TTTTTCAAAGTTATTGAATCTCTGTTTAGAGGAGCTTTAT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
* * * * *
8250761 TTA-TTTTTAAAAGTCGTTAAGCCTCT-TATTATAGGAGCTTGAT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTAT-TTAAAGGAGCTTTAT
** * *
8250804 TTATCTTTTTCAAAGTCATTGAGCCTCTATTTAAAAGAGCTTTGT
1 TTAT-TTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
8250849 TTACTTTTTTC-AAGTTGT
1 TTA-TTTTTTCAAAGTTGT
8250867 AGAGTCTTTG
Statistics
Matches: 317, Mismatches: 59, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.00
40 89 0.28
41 2 0.01
42 39 0.12
43 74 0.23
44 17 0.05
45 85 0.27
46 10 0.03
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (44 bp):
TTATTTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTAT
Found at i:8250656 original size:88 final size:86
Alignment explanation
Indices: 8250421--8250866 Score: 389
Period size: 88 Copynumber: 5.2 Consensus size: 86
8250411 CAGGAAGCCA
**
8250421 TTATTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGA-AGAGCCTTTATT-TTTTTCAAAGTTGTTG
1 TTATTTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGA-AGCCTTT-TTATTTTTCAAAGTTGTTG
* * *
8250484 AGCCTCTGTTTAGAGGAGC---CT
63 AGCCTCTATTTAAAGGAGCTTTAT
* * *
8250505 TTA-CTTTTCAAAGTTGTTGAACCTCTGATTAGAGGAGCC--TTTATTTTTCAAAGTTGTTGAGC
1 TTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTTTTATTTTTCAAAGTTGTTGAGC
8250567 CTCTATTTAAAGGAGCTTTAT
66 CTCTATTTAAAGGAGCTTTAT
* * * *
8250588 TTATTTTTTTCAAAAGTTG-TGAGCCTTTGCTTAGAGAAGCCTTGTTTATTTTTTAAAGTTGTTA
1 TTA-TTTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGAAGCCTT-TTTATTTTTCAAAGTTGTTG
** * *
8250652 AGCCTCTACCTAAAGGAGCCTGAT
63 AGCCTCTATTTAAAGGAGCTTTAT
* * * *
8250676 CTATCTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAATCC--TTTATTTTTCAAAGTTATTGAA
1 TTAT-TTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTTTTATTTTTCAAAGTTGTTGAG
* * *
8250739 TCTCTGTTTAGAGGAGCTTTAT
65 CCTCTATTTAAAGGAGCTTTAT
* * * * * * **
8250761 TTA-TTTTTAAAAGTCGTTAAGCCTCTTATTATAGGAG-CTTGATTTATCTTTTTCAAAGTCATT
1 TTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTT--TTTA--TTTTTCAAAGTTGTT
* *
8250824 GAGCCTCTATTTAAAAGAGCTTTGT
62 GAGCCTCTATTTAAAGGAGCTTTAT
8250849 TTACTTTTTTC-AAGTTGT
1 TTA-TTTTTTCAAAGTTGT
8250867 AGAGTCTTTG
Statistics
Matches: 290, Mismatches: 51, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
79 2 0.01
80 34 0.12
82 26 0.09
83 36 0.12
84 3 0.01
85 58 0.20
86 11 0.04
87 8 0.03
88 101 0.35
89 6 0.02
90 5 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (86 bp):
TTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTTTTATTTTTCAAAGTTGTTGAGC
CTCTATTTAAAGGAGCTTTAT
Found at i:8250725 original size:173 final size:168
Alignment explanation
Indices: 8250424--8250768 Score: 453
Period size: 173 Copynumber: 2.0 Consensus size: 168
8250414 GAAGCCATTA
*
8250424 TTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAAGAGCCTTTATTTTTTTCAAAGTTGTTGAGCCT
1 TTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAAGAGCCTTTATTTTTTTCAAAGTTGTTAAGCCT
*** * *
8250489 CTGTTTAGAGGAGCCTTTACTTTTCAAAGTTGTTGAACCTCTGATTAGAGGAGCCTTTATTTTTC
66 CTACCTAAAGGAGCCTTTACTTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTTTATTTTTC
* *
8250554 AAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTATTTAT
131 AAAGTTATTGAACCTCTATTTAAAGGAGCTTTATTTAT
* * *
8250592 TTTTTTCAAAAGTTG-TGAGCCTTTGCTTAG-AGAAGCCTTGT-TTATTTTTTAAAGTTGTTAAG
1 TTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAAG-AGCCTT-TATT-TTTTTCAAAGTTGTTAAG
* *
8250654 CCTCTACCTAAAGGAGCCTGATCTATCTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAATCCTT
63 CCTCTACCTAAAGGAGCCT--T-TA-C-TTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTT
* * *
8250719 TATTTTTCAAAGTTATTGAATCTCTGTTTAGAGGAGCTTTATTTAT
123 TATTTTTCAAAGTTATTGAACCTCTATTTAAAGGAGCTTTATTTAT
8250765 TTTT
1 TTTT
8250769 AAAAGTCGTT
Statistics
Matches: 153, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
166 2 0.01
167 21 0.14
168 47 0.31
170 1 0.01
171 2 0.01
172 1 0.01
173 79 0.52
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (168 bp):
TTTTTTCAAAAGTTGTTGAGCCTCTCCTTAGAAGAGCCTTTATTTTTTTCAAAGTTGTTAAGCCT
CTACCTAAAGGAGCCTTTACTTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTTTATTTTTC
AAAGTTATTGAACCTCTATTTAAAGGAGCTTTATTTAT
Found at i:8250726 original size:128 final size:124
Alignment explanation
Indices: 8250420--8250834 Score: 364
Period size: 128 Copynumber: 3.3 Consensus size: 124
8250410 TCAGGAAGCC
* *
8250420 ATTAT-TTTTTCAAAAGTTGTTGAGCCTCTCCTTAGA-AGAGCCTTTATTTTTTTCAAAGTTGTT
1 ATTATCTTTTTC-AAAGTTGTTGAGCCTCT-ATTAGAGA-ATCCTTTA-TTTTTTCAAAGTTG-T
* * *
8250483 GAGCCTCTGTTTAGAGGAGCC--TTTACTTTTCAAAGTTGTTGAA-CCTCTGATTAGAGGAGCCT
61 GAGCCTCTGTTTAGAGGAGCCTTTTTATTTTTAAAAGTTGTT-AAGCCTCT-ATTAAAGGAGCCT
8250545 -
124 G
** **
8250545 -TTA--TTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAGCTTTATTTATTTTTTTCAAAAGTTG
1 ATTATCTTTTTCAAAGTTGTTGAGCCTCTA-TT--A-GAGAATCCTTTA-TTTTTTC-AAAGTTG
* * * * *
8250607 TGAGCCTTTGCTTAGAGAAGCCTTGTTTATTTTTTAAAGTTGTTAAGCCTCTACCTAAAGGAGCC
60 TGAGCCTCTGTTTAGAGGAGCCTT-TTTATTTTTAAAAGTTGTTAAGCCTCTA-TTAAAGGAGCC
8250672 TG
123 TG
*
8250674 ATCTATCTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAATCCTTTA-TTTTTCAAAGTTATTGA
1 AT-TATCTTTTTCAAAGTTGTTGAGCCTCT-ATTAGAGAATCCTTTATTTTTTCAAAGTT-GTGA
** * * * *
8250738 ATCTCTGTTTAGAGGAGCTTTATTTATTTTTAAAAGTCGTTAAGCCTCTTATTATAGGAGCTTG
63 GCCTCTGTTTAGAGGAGCCTT-TTTATTTTTAAAAGTTGTTAAGCCTC-TATTAAAGGAGCCTG
**
8250802 ATTTATCTTTTTCAAAGTCATTGAGCCTCTATT
1 A-TTATCTTTTTCAAAGTTGTTGAGCCTCTATT
8250835 TAAAAGAGCT
Statistics
Matches: 238, Mismatches: 32, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
122 19 0.08
123 6 0.03
124 4 0.02
125 33 0.14
126 7 0.03
127 12 0.05
128 116 0.49
129 3 0.01
130 9 0.04
131 3 0.01
133 25 0.11
134 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (124 bp):
ATTATCTTTTTCAAAGTTGTTGAGCCTCTATTAGAGAATCCTTTATTTTTTCAAAGTTGTGAGCC
TCTGTTTAGAGGAGCCTTTTTATTTTTAAAAGTTGTTAAGCCTCTATTAAAGGAGCCTG
Found at i:8250797 original size:43 final size:44
Alignment explanation
Indices: 8250740--8250857 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 44
8250730 GTTATTGAAT
* * *
8250740 CTCTGTTTAGAGGAGCTTTATTTA-TTTTTAAAAGTCGTTAAGC
1 CTCTATTTAAAGGAGCTTTATTTACTTTTTAAAAGTCATTAAGC
* * * *
8250783 CTCT-TATTATAGGAGCTTGATTTATCTTTTTCAAAGTCATTGAGC
1 CTCTAT-TTAAAGGAGCTTTATTTA-CTTTTTAAAAGTCATTAAGC
* *
8250828 CTCTATTTAAAAGAGCTTTGTTTACTTTTT
1 CTCTATTTAAAGGAGCTTTATTTACTTTTT
8250858 TCAAGTTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 20 0.32
44 6 0.10
45 34 0.55
46 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.47
Consensus pattern (44 bp):
CTCTATTTAAAGGAGCTTTATTTACTTTTTAAAAGTCATTAAGC
Found at i:8250831 original size:173 final size:172
Alignment explanation
Indices: 8250509--8250832 Score: 422
Period size: 173 Copynumber: 1.9 Consensus size: 172
8250499 GAGCCTTTAC
* * *
8250509 TTTTCAAAGTTGTTGAACCTCTGATTAGAGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTATT
1 TTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTTTATTTTTCAAAGTTATTGAACCTCTATT
* * *
8250574 TAAAGGAGCTTTATTTATTTTTTTCAAAAGTTGTGAGCCTTTGCTTAGAGAAGCCTTGTTTATTT
66 TAAAGGAGCTTTATTTA-TTTTTTCAAAAGTCGTAAGCCTTTGATTAGAGAAGCCTTGTTTATTT
**
8250639 TTTAAAGTTGTTAAGCCTCTACCTAAAGGAGCCTGATCTATCT
130 TTTAAAGTCATTAAGCCTCTACCTAAAGGAGCCTGATCTATCT
* * * *
8250682 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGAATCCTTTATTTTTCAAAGTTATTGAATCTCTGTT
1 TTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTTTATTTTTCAAAGTTATTGAACCTCTATT
* * *
8250747 TAGAGGAGCTTTATTTA-TTTTT-AAAAGTCGTTAAGCCTCTT-ATTATAGGAG-CTTGATTTAT
66 TAAAGGAGCTTTATTTATTTTTTCAAAAGTCG-TAAGCCT-TTGATTAGAGAAGCCTTG-TTTAT
*
8250808 CTTTTTCAAAGTCATTGAGCCTCTA
128 -TTTTT-AAAGTCATTAAGCCTCTA
8250833 TTTAAAAGAG
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
170 11 0.08
171 23 0.18
172 7 0.05
173 89 0.68
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (172 bp):
TTTTCAAAGTTGTTGAACCTCTGATTAGAGAAGCCTTTATTTTTCAAAGTTATTGAACCTCTATT
TAAAGGAGCTTTATTTATTTTTTCAAAAGTCGTAAGCCTTTGATTAGAGAAGCCTTGTTTATTTT
TTAAAGTCATTAAGCCTCTACCTAAAGGAGCCTGATCTATCT
Found at i:8251106 original size:7 final size:7
Alignment explanation
Indices: 8251096--8251127 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8251086 TAATTAATCA
8251096 TTATATT
1 TTATATT
8251103 TTATATT
1 TTATATT
8251110 TTATATT
1 TTATATT
8251117 TTATATT
1 TTATATT
8251124 TTAT
1 TTAT
8251128 TTATTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATATT
Found at i:8252120 original size:21 final size:19
Alignment explanation
Indices: 8252101--8252139 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8252091 GTTTTTTTTA
8252101 TTTATTT-TA-TTTAGTAT
1 TTTATTTATATTTTAGTAT
8252118 TTTATTTATATTTTAGTAT
1 TTTATTTATATTTTAGTAT
8252137 TTT
1 TTT
8252140 TGCATGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTATTTATATTTTAGTAT
Found at i:8252362 original size:9 final size:9
Alignment explanation
Indices: 8252348--8252379 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
8252338 TATTTTCAAA
8252348 AAAAAAATT
1 AAAAAAATT
8252357 AAAAAAATT
1 AAAAAAATT
8252366 AAAAAAAATT
1 -AAAAAAATT
8252376 AAAA
1 AAAA
8252380 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:8252362 original size:10 final size:10
Alignment explanation
Indices: 8252347--8252379 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8252337 TTATTTTCAA
8252347 AAAAAAAATT
1 AAAAAAAATT
8252357 -AAAAAAATT
1 AAAAAAAATT
8252366 AAAAAAAATT
1 AAAAAAAATT
8252376 AAAA
1 AAAA
8252380 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:8252725 original size:163 final size:162
Alignment explanation
Indices: 8252405--8252725 Score: 344
Period size: 163 Copynumber: 2.0 Consensus size: 162
8252395 GAAAAATATA
* ** ** *
8252405 AATTACCCAAGGATTAGATTCTTAGAAATTTCAAATGGTAAATTTTTTAAGAAATCTCTAGGTGA
1 AATTACCCAAGGATAAGATTCTTAGAAATTTCAAATAATAAATTTCCTAAGAAATCTCTAGGTAA
* * * * * * *
8252470 GAAATTTCTCTAAATTTGTCCCAAATTGTGGAATAATTTAGATGAAATTTTAATAAAAGTAATTA
66 GAAATTTCTCTAAATTTGTCCCAAATGGTCGAAAAATTTAAATGAAATTTCAAGAAAAATAATTA
* ****
8252535 TATTCTTTTCCAAATTTGGTTAAAAATATTTGAT
131 TATTATTTTCC--ATTTCAAAAAAAATATTTGAT
* *
8252569 AATTATCCAATGATAAGATTCTTA-AAAGTTTCAAATAATAAA-TTCCTAAGAAATCTCTAGGTA
1 AATTACCCAAGGATAAGATTCTTAGAAA-TTTCAAATAATAAATTTCCTAAGAAATCTCTAGGTA
* **
8252632 AGAAATTTCTTTAAATTTGTTTCAAATGGTCGAAAAATTTAAATGAAATTTCAAGAAAAATAATT
65 AGAAATTTCTCTAAATTTGTCCCAAATGGTCGAAAAATTTAAATGAAATTTCAAGAAAAATAA-T
8252697 GTCATATTATTTT-C-TTTCCAAAAAAAATA
129 -T-ATATTATTTTCCATTT-CAAAAAAAATA
8252726 ATAATAAAAA
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
162 3 0.02
163 81 0.63
164 34 0.26
165 2 0.02
166 9 0.07
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (162 bp):
AATTACCCAAGGATAAGATTCTTAGAAATTTCAAATAATAAATTTCCTAAGAAATCTCTAGGTAA
GAAATTTCTCTAAATTTGTCCCAAATGGTCGAAAAATTTAAATGAAATTTCAAGAAAAATAATTA
TATTATTTTCCATTTCAAAAAAAATATTTGAT
Found at i:8256768 original size:21 final size:21
Alignment explanation
Indices: 8256742--8256783 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8256732 GGTACAAGAG
8256742 CCAAGCTAATTGAGAAGGACA
1 CCAAGCTAATTGAGAAGGACA
8256763 CCAAGCTAATTGAGAAGGACA
1 CCAAGCTAATTGAGAAGGACA
8256784 ATAAACCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (21 bp):
CCAAGCTAATTGAGAAGGACA
Found at i:8256885 original size:3 final size:3
Alignment explanation
Indices: 8256877--8256904 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8256867 GACTATTGTA
8256877 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8256905 GAAATGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8257259 original size:13 final size:13
Alignment explanation
Indices: 8257241--8257265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8257231 GCTTTGATGT
8257241 ATTGAAATCCAAC
1 ATTGAAATCCAAC
8257254 ATTGAAATCCAA
1 ATTGAAATCCAA
8257266 GATTTGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
ATTGAAATCCAAC
Found at i:8261880 original size:28 final size:27
Alignment explanation
Indices: 8261842--8261911 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
8261832 ATTATAATAA
* **
8261842 AATAAAGAAAATAAGGAAAGG-TAAAT
1 AATAAATAAAATAAACAAAGGATAAAT
8261868 AATAACTATAAAATAAACAAAGGATAAAT
1 AATAA--ATAAAATAAACAAAGGATAAAT
*
8261897 CATAAATAAAATAAA
1 AATAAATAAAATAAA
8261912 ATAAAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.14
27 10 0.27
28 13 0.35
29 9 0.24
ACGTcount: A:0.67, C:0.04, G:0.10, T:0.19
Consensus pattern (27 bp):
AATAAATAAAATAAACAAAGGATAAAT
Found at i:8262561 original size:27 final size:26
Alignment explanation
Indices: 8262525--8262588 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
8262515 TTAACATATA
*
8262525 TATATATTTTATTTAATTTTATATTTT
1 TATATATTTTATAT-ATTTTATATTTT
* *
8262552 TATATGTTTTATATGTTTTATATTTAT
1 TATATATTTTATATATTTTATATTT-T
8262579 T-TA-ATTTTAT
1 TATATATTTTAT
8262589 CTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 6 0.19
26 12 0.38
27 14 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
TATATATTTTATATATTTTATATTTT
Found at i:8262563 original size:9 final size:9
Alignment explanation
Indices: 8262541--8262574 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
8262531 TTTTATTTAA
8262541 TTTTATAT-
1 TTTTATATG
8262549 TTTTATATG
1 TTTTATATG
8262558 TTTTATATG
1 TTTTATATG
8262567 TTTTATAT
1 TTTTATAT
8262575 TTATTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (9 bp):
TTTTATATG
Found at i:8262573 original size:18 final size:17
Alignment explanation
Indices: 8262541--8262574 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
8262531 TTTTATTTAA
8262541 TTTTATATTTTTATATG
1 TTTTATATTTTTATATG
8262558 TTTTATATGTTTTATAT
1 TTTTATAT-TTTTATAT
8262575 TTATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTTATATG
Found at i:8262642 original size:23 final size:20
Alignment explanation
Indices: 8262591--8262634 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8262581 AATTTTATCT
8262591 TTATATTTAAAAATAATATA
1 TTATATTTAAAAATAATATA
* *
8262611 TTATATTTAAATATAATATT
1 TTATATTTAAAAATAATATA
8262631 TTAT
1 TTAT
8262635 TAATTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATATTTAAAAATAATATA
Found at i:8268067 original size:21 final size:21
Alignment explanation
Indices: 8268043--8268083 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8268033 CATAAGTCTA
*
8268043 ATCAAACTTTTATATGTTAAT
1 ATCAAACTTTTATATCTTAAT
8268064 ATCAAACTTTTATATCTTAA
1 ATCAAACTTTTATATCTTAA
8268084 CATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (21 bp):
ATCAAACTTTTATATCTTAAT
Found at i:8270883 original size:22 final size:22
Alignment explanation
Indices: 8270857--8270899 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8270847 ATTTGATCTG
8270857 ATTTAATATT-ATATAAAATTAT
1 ATTTAAT-TTAATATAAAATTAT
*
8270879 ATTTAATTTAATTTAAAATTA
1 ATTTAATTTAATATAAAATTA
8270900 ATAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAATTTAATATAAAATTAT
Found at i:8276102 original size:13 final size:13
Alignment explanation
Indices: 8276070--8276101 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
8276060 AAAAAGTAAG
8276070 TATAAAATAATTA
1 TATAAAATAATTA
8276083 TATAAAAT-ATTA
1 TATAAAATAATTA
8276095 TATAAAA
1 TATAAAA
8276102 AATACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAAAATAATTA
Found at i:8276664 original size:2 final size:2
Alignment explanation
Indices: 8276657--8276684 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8276647 AGTTACTTTC
8276657 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
8276685 CAAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8277363 original size:3 final size:3
Alignment explanation
Indices: 8277355--8277386 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8277345 CACTCTAATC
8277355 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8277387 GCTACAACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8280487 original size:23 final size:24
Alignment explanation
Indices: 8280415--8280487 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
8280405 TTTATTTGTA
*
8280415 AATCAAAATAAATTCATGGTTAATTTG
1 AATCAAAATAAAATC-T--TTAATTTG
* *
8280442 AATCAAAATAATATTTTTAATTTG
1 AATCAAAATAAAATCTTTAATTTG
8280466 -ATCTAAAA-AAAATCTTTAATTT
1 AATC-AAAATAAAATCTTTAATTT
8280488 TATACTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 15 0.38
24 12 0.30
26 1 0.03
27 12 0.30
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (24 bp):
AATCAAAATAAAATCTTTAATTTG
Found at i:8284524 original size:2 final size:2
Alignment explanation
Indices: 8284506--8284548 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
8284496 CATTGGCACG
* * *
8284506 AT AT CT AT AT CT AT AT AT AT CT 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 AT
8284548 A
1 A
8284549 ATCTTATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8287057 original size:4 final size:4
Alignment explanation
Indices: 8287048--8287078 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
8287038 TTCTATTATC
8287048 CCTG CCTG CCTG CCTG CCTG CCTG CCTG CCT
1 CCTG CCTG CCTG CCTG CCTG CCTG CCTG CCT
8287079 TCCTTCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.23, T:0.26
Consensus pattern (4 bp):
CCTG
Found at i:8287440 original size:7 final size:7
Alignment explanation
Indices: 8287428--8287459 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8287418 AAGATAATAG
8287428 AATTAAA
1 AATTAAA
8287435 AATTAAA
1 AATTAAA
8287442 AATTAAA
1 AATTAAA
8287449 AATTAAA
1 AATTAAA
8287456 AATT
1 AATT
8287460 TAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAA
Found at i:8288539 original size:2 final size:2
Alignment explanation
Indices: 8288532--8288564 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8288522 GCAGGCAGGT
8288532 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8288565 AAACAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8292732 original size:27 final size:30
Alignment explanation
Indices: 8292655--8292732 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 30
8292645 AATATGTATC
* *
8292655 TGTA-TTTATTTATTTATTTTTAAAACTATT
1 TGTATTTTATTTATTTA-TATTAAAACTATA
*
8292685 TGTATTTAATTTATATT-TATTAAAA-TA-A
1 TGTATTTTATTTAT-TTATATTAAAACTATA
8292713 T-TATTTTATTTATTTATATT
1 TGTATTTTATTTATTTATATT
8292733 TATTTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.05
27 15 0.37
28 1 0.02
29 2 0.05
30 11 0.27
31 8 0.20
32 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (30 bp):
TGTATTTTATTTATTTATATTAAAACTATA
Found at i:8292785 original size:41 final size:38
Alignment explanation
Indices: 8292687--8292786 Score: 116
Period size: 41 Copynumber: 2.6 Consensus size: 38
8292677 AAACTATTTG
*
8292687 TATTTA-ATTTATATTTATT-AA-AATAATTATTTTATT
1 TATTTATATTTAT-TTAATTAAATAATAATTATTTTATT
**
8292723 TATTTATATTTATTTGTTTAAATAATAAATTATTTATATT
1 TATTTATATTTATTTAATTAAATAAT-AATTATTT-TATT
8292763 TAATTTATATTTATTTAATTAAAT
1 T-ATTTATATTTATTTAATTAAAT
8292787 TAAATAAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
36 10 0.19
37 8 0.15
38 3 0.06
39 8 0.15
40 5 0.09
41 20 0.37
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (38 bp):
TATTTATATTTATTTAATTAAATAATAATTATTTTATT
Found at i:8292947 original size:20 final size:20
Alignment explanation
Indices: 8292887--8292948 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
8292877 AATTATAATC
8292887 AAATAAATTTT-AAATGAATAT
1 AAATAAATTTTAAAAT--ATAT
*
8292908 AAACAAATTTTAACAA-ATAT
1 AAATAAATTTTAA-AATATAT
8292928 AAATAAATTTTAAAATATAT
1 AAATAAATTTTAAAATATAT
8292948 A
1 A
8292949 TTAAAGATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.06
20 21 0.58
21 10 0.28
22 1 0.03
23 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAAATTTTAAAATATAT
Found at i:8294274 original size:15 final size:16
Alignment explanation
Indices: 8294254--8294294 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
8294244 AACATTTACT
8294254 AAATATAAAAAAGA-A
1 AAATATAAAAAAGAGA
*
8294269 AAATAT-AAATAGAGA
1 AAATATAAAAAAGAGA
8294284 AAATA-AAAAAA
1 AAATATAAAAAA
8294295 AAAGATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AAATATAAAAAAGAGA
Found at i:8294286 original size:21 final size:21
Alignment explanation
Indices: 8294253--8294292 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8294243 AAACATTTAC
*
8294253 TAAATATAAAAAAGAAAAATA
1 TAAATAGAAAAAAGAAAAATA
* *
8294274 TAAATAGAGAAAATAAAAA
1 TAAATAGAAAAAAGAAAAA
8294293 AAAAAGATAA
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:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (21 bp):
TAAATAGAAAAAAGAAAAATA
Found at i:8296997 original size:14 final size:15
Alignment explanation
Indices: 8296980--8297008 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8296970 AACCTTCTTT
8296980 TTCAA-TTTTAAATA
1 TTCAACTTTTAAATA
8296994 TTCAACTTTTAAATA
1 TTCAACTTTTAAATA
8297009 AAAATTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCAACTTTTAAATA
Found at i:8297267 original size:23 final size:22
Alignment explanation
Indices: 8297240--8297283 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
8297230 CAATATGTTT
8297240 AATTATTCT-AATTACTAAATATA
1 AATTATTCTCAATT--TAAATATA
8297263 AATTATTCTCAATTTAAATAT
1 AATTATTCTCAATTTAAATAT
8297284 TATTATGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 9 0.45
24 4 0.20
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTATTCTCAATTTAAATATA
Found at i:8298568 original size:22 final size:21
Alignment explanation
Indices: 8298538--8298578 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8298528 TTAAAGTTTT
*
8298538 TTTTTTATTACTTTATGTTTGG
1 TTTTGTATTACTTTA-GTTTGG
*
8298560 TTTTGTATTATTTTAGTTT
1 TTTTGTATTACTTTAGTTT
8298579 TTGCTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (21 bp):
TTTTGTATTACTTTAGTTTGG
Found at i:8304287 original size:63 final size:61
Alignment explanation
Indices: 8304220--8304464 Score: 189
Period size: 63 Copynumber: 4.0 Consensus size: 61
8304210 ATATAAAAGG
* * * *
8304220 ATTATTTAAAGCGTTTTCTATACAAAAATACATTAAATAATCCTTGTAAATTTTTACAAATAT
1 ATTATTTAAAGCGTTTTCTGTACAAAAATGCATTAAATAATCCTTGTATATTTTTA-AAA-AA
* * * * * *
8304283 ATTATTTAAAGCATTTT-TGTATGAAAAATGCTTTAAATAATCCTTATATATTTAAATAAAAGA
1 ATTATTTAAAGCGTTTTCTGTA-CAAAAATGCATTAAATAATCCTTGTATATTT--TTAAAAAA
* * *
8304346 ATTATTTAATA-CG-TTTCTTGTATAAAAATGCCTTAAATAATCATTGTATATTTTTATAAAAA
1 ATTATTTAA-AGCGTTTTC-TGTACAAAAATGCATTAAATAATCCTTGTATATTTTTA-AAAAA
* * * *
8304408 GATTATTTAAAGTGTTTT-TGTATGAAAAATG-ACTTAAATGAT-CTT-TATATATTTAAA
1 -ATTATTTAAAGCGTTTTCTGTA-CAAAAATGCA-TTAAATAATCCTTGTATATTTTTAAA
8304465 TAAAGGGATT
Statistics
Matches: 147, Mismatches: 23, Indels: 27
0.75 0.12 0.14
Matches are distributed among these distances:
60 2 0.01
61 11 0.07
62 17 0.12
63 104 0.71
64 11 0.07
65 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (61 bp):
ATTATTTAAAGCGTTTTCTGTACAAAAATGCATTAAATAATCCTTGTATATTTTTAAAAAA
Found at i:8304342 original size:126 final size:126
Alignment explanation
Indices: 8304212--8304478 Score: 351
Period size: 126 Copynumber: 2.1 Consensus size: 126
8304202 TTATAAAAAT
*
8304212 ATAAAAGGATTATTTAA-AGCGTTT-TCTATACAAAAATACATTAAATAATCCTTGTAAATTTTT
1 ATAAAAGGATTATTTAATA-CGTTTCT-TATACAAAAATACATTAAATAATCATTGTAAATTTTT
* *
8304275 ACAAATATATTATTTAAAGCATTTTTGTATGAAAAATG-CTTTAAATAATCCTTATATATTTAA
64 ACAAAAAGATTATTTAAAGCATTTTTGTATGAAAAATGAC-TTAAATAATCCTTATATATTTAA
* * * * * * *
8304338 ATAAAAGAATTATTTAATACGTTTCTTGTATAAAAATGCCTTAAATAATCATTGTATATTTTTAT
1 ATAAAAGGATTATTTAATACGTTTCTTATACAAAAATACATTAAATAATCATTGTAAATTTTTAC
** * *
8304403 AAAAAGATTATTTAAAGTGTTTTTGTATGAAAAATGACTTAAATGATCTTTATATATTTAA
66 AAAAAGATTATTTAAAGCATTTTTGTATGAAAAATGACTTAAATAATCCTTATATATTTAA
*
8304464 ATAAAGGGATTATTT
1 ATAAAAGGATTATTT
8304479 TGGGCGCTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
126 119 0.98
127 3 0.02
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (126 bp):
ATAAAAGGATTATTTAATACGTTTCTTATACAAAAATACATTAAATAATCATTGTAAATTTTTAC
AAAAAGATTATTTAAAGCATTTTTGTATGAAAAATGACTTAAATAATCCTTATATATTTAA
Found at i:8304468 original size:63 final size:61
Alignment explanation
Indices: 8304283--8304478 Score: 216
Period size: 63 Copynumber: 3.1 Consensus size: 61
8304273 TTACAAATAT
* *
8304283 ATTATTTAAAGCATTTTTGTATGAAAAATGCTTTAAATAATCCTTATATATTTAAAT-AAAAG
1 ATTATTTAAAG-TTTTTTGTATGAAAAATGC-TTAAATAATCATTATATATTTAAATAAAAAG
* * **
8304345 AATTATTTAATACGTTTCTTGTAT-AAAAATGCCTTAAATAATCATTGTATATTTTTATAAAAAG
1 -ATTATTTAA-A-GTTTTTTGTATGAAAAATG-CTTAAATAATCATTATATATTTAAATAAAAAG
* * **
8304409 ATTATTTAAAGTGTTTTTGTATGAAAAATGACTTAAATGATCTTTATATATTTAAATAAAGGG
1 ATTATTTAAAGT-TTTTTGTATGAAAAATG-CTTAAATAATCATTATATATTTAAATAAAAAG
8304472 ATTATTT
1 ATTATTT
8304479 TGGGCGCTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
61 2 0.02
62 9 0.08
63 85 0.76
64 15 0.13
65 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.44
Consensus pattern (61 bp):
ATTATTTAAAGTTTTTTGTATGAAAAATGCTTAAATAATCATTATATATTTAAATAAAAAG
Found at i:8304581 original size:64 final size:63
Alignment explanation
Indices: 8304495--8304657 Score: 195
Period size: 64 Copynumber: 2.6 Consensus size: 63
8304485 CTTTCTCTAT
* * * *
8304495 ATAAAAAGATTATTTAAGGTATTTTTGTATGAAAAATACCTTAAATAATTATTTTTATATTTAA
1 ATAAGAAGATTATTTAAAGTATTTTTGTATGAAAAATACCTTAAATAATCA-ATTTATATTTAA
* * *
8304559 ATAAGAAGATTATTTAAAGTATTTCTATATAAAAAATACCTTAAATAATCAATTTATATTTAA
1 ATAAGAAGATTATTTAAAGTATTTTTGTATGAAAAATACCTTAAATAATCAATTTATATTTAA
* *
8304622 ATAAG-GGAATTATTT-AAGATTTTTTTGTATAGAAAA
1 ATAAGAAG-ATTATTTAAAG-TATTTTTGTAT-GAAAA
8304658 GCTTTAAATA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
62 4 0.05
63 31 0.37
64 49 0.58
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (63 bp):
ATAAGAAGATTATTTAAAGTATTTTTGTATGAAAAATACCTTAAATAATCAATTTATATTTAA
Found at i:8304584 original size:94 final size:94
Alignment explanation
Indices: 8304400--8304594 Score: 227
Period size: 94 Copynumber: 2.1 Consensus size: 94
8304390 TGTATATTTT
* * *
8304400 TATAAAAAGATTATTTAAAGTGTTTTTGTATGAAAAATGACTTAAATGATCTTTATATATTTAAA
1 TATAAAAAGATTATTTAAAGTATTTTTGTATGAAAAATGACTTAAATAATATTTATATATTTAAA
* *** * *
8304465 TAAAGGGATTATTTTGGGCGCTTTCTCTA
66 TAAAGAGATTATTTAAAGCGATTTCTATA
* *
8304494 TATAAAAAGATTATTTAAGGTATTTTTGTATGAAAAAT-ACCTTAAATAATTATTTTTATATTTA
1 TATAAAAAGATTATTTAAAGTATTTTTGTATGAAAAATGA-CTTAAATAA-TATTTATATATTTA
*
8304558 AAT-AAGAAGATTATTTAAAG-TATTTCTATA
64 AATAAAG-AGATTATTTAAAGCGATTTCTATA
8304588 TA-AAAAA
1 TATAAAAA
8304595 TACCTTAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
93 6 0.07
94 56 0.65
95 24 0.28
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (94 bp):
TATAAAAAGATTATTTAAAGTATTTTTGTATGAAAAATGACTTAAATAATATTTATATATTTAAA
TAAAGAGATTATTTAAAGCGATTTCTATA
Found at i:8304678 original size:221 final size:219
Alignment explanation
Indices: 8304283--8304680 Score: 492
Period size: 221 Copynumber: 1.8 Consensus size: 219
8304273 TTACAAATAT
* * *
8304283 ATTATTTAAAGCATTTTTGTATGAAAAATGCTTTAAATAATCCTTATATATTTAAATAAAAGAAT
1 ATTATTTAAAGCATTTTTGTATGAAAAATACCTTAAATAATACTTATATATTTAAATAAAAGAAT
* * **
8304348 TATTTAATACGTTTCTTGTATAAAAATGCCTTAAATAATCATTGTATATTTTTATAAAAAGATTA
66 TATTTAATAC-TTTCTTATATAAAAATACCTTAAATAATCATTGTATATTTAAATAAAAAGATTA
*
8304413 TTTAAAGTGTTTTTGTATGAAAAATGACTTAAATGATCTTTATATATTTAAATAAAGGGATTATT
130 TTTAAAGTGTTTTTGTATGAAAAATGACTTAAATAATCTTTATATATTTAAATAAAGGGATTATT
8304478 TTGGGCGCTTTCTCTATATAAAAAG
195 TTGGGCGCTTTCTCTATATAAAAAG
* * * *
8304503 ATTATTTAAGGTATTTTTGTATGAAAAATACCTTAAATAATTATTTTTATATTTAAATAAGAAG-
1 ATTATTTAAAGCATTTTTGTATGAAAAATACCTTAAATAA-TACTTATATATTTAAATAA-AAGA
**
8304567 ATTATTTAAAGTA-TTTC-TATATAAAAAATACCTTAAATAATCAATT-TATATTTAAAT-AAGG
64 ATTATTT-AA-TACTTTCTTATAT-AAAAATACCTTAAATAATC-ATTGTATATTTAAATAAAAA
*
8304628 GAATTATTT-AAGATTTTTTTGTAT-AGAAAA-G-CTTTAAATAATCTTT-TATATTT
125 G-ATTATTTAAAG-TGTTTTTGTATGA-AAAATGAC-TTAAATAATCTTTATATATTT
8304681 TTATAAATAG
Statistics
Matches: 153, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
219 8 0.05
220 60 0.39
221 75 0.49
222 8 0.05
223 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.44
Consensus pattern (219 bp):
ATTATTTAAAGCATTTTTGTATGAAAAATACCTTAAATAATACTTATATATTTAAATAAAAGAAT
TATTTAATACTTTCTTATATAAAAATACCTTAAATAATCATTGTATATTTAAATAAAAAGATTAT
TTAAAGTGTTTTTGTATGAAAAATGACTTAAATAATCTTTATATATTTAAATAAAGGGATTATTT
TGGGCGCTTTCTCTATATAAAAAG
Found at i:8304919 original size:89 final size:90
Alignment explanation
Indices: 8304767--8304935 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 90
8304757 TCTAAACGTC
* * **
8304767 TTAAATAGTCTTTTTATATTGTTAGAATATAAGAGTATTTTTATATTTTAATAAAGTGATTATTT
1 TTAAATAATCCTTTTATATTGTTAGAATATAAGAGTATTTTTATATTTTAATAAAAAGATTATTT
*
8304832 AAGGTATTTTCTATACAAAAATATT
66 AAAGTATTTTCTATACAAAAATATT
* * ** * *
8304857 TTAAATAATCCTTTTATATTTTTATAAT-TTGGAGTATTTTTATTTTTTTATAAAAAGATTATTT
1 TTAAATAATCCTTTTATATTGTTAGAATATAAGAGTATTTTTATATTTTAATAAAAAGATTATTT
*
8304921 AAAGTATTTTTTATA
66 AAAGTATTTTCTATA
8304936 AGTATTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 43 0.64
90 24 0.36
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (90 bp):
TTAAATAATCCTTTTATATTGTTAGAATATAAGAGTATTTTTATATTTTAATAAAAAGATTATTT
AAAGTATTTTCTATACAAAAATATT
Found at i:8304938 original size:13 final size:13
Alignment explanation
Indices: 8304918--8304947 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8304908 AAAAAGATTA
8304918 TTTA-AAGTATTT
1 TTTATAAGTATTT
8304930 TTTATAAGTATTT
1 TTTATAAGTATTT
8304943 TTTAT
1 TTTAT
8304948 TAAAAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTATAAGTATTT
Found at i:8308271 original size:32 final size:30
Alignment explanation
Indices: 8308213--8308276 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
8308203 ATTTTTATAT
* *
8308213 ATTTTTTAAAATTTAAAATTTTATATTTAA
1 ATTTTTTAAAATTTAAAATATTATATTAAA
8308243 ATTTGTTTAAATATATTAAAA-ATTATATTAAA
1 ATTT-TTTAAA-AT-TTAAAATATTATATTAAA
8308275 AT
1 AT
8308277 AATATCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.14
31 6 0.21
32 13 0.45
33 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTTTTAAAATTTAAAATATTATATTAAA
Found at i:8316632 original size:59 final size:58
Alignment explanation
Indices: 8316555--8316891 Score: 279
Period size: 60 Copynumber: 5.9 Consensus size: 58
8316545 TGCTTTTATA
* *
8316555 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTGAAATTTATATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTT-TATTTT
* * * **
8316614 TAAGGAAAGTTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTTTATTTTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATA--TTTTTTTGA-AATTTTATTTT
* **
8316675 CAAGAAAAATTGATACTTTCAAC-TTTTCTTTAAAATA-TTTTTTGAATAATTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTG-A-AATTTTATTTT
* *
8316733 CAAGGAAAATTGATACTATCAACTTTTTTCTTAAAAATA---TTTT----TTTTA----
1 CAAGGAAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTTTTTTGAAATTTTATTTT
* * * * * * * **
8316781 -AAGAAAAATTGGTACTTTCAACTCTTCCTTAGAAATTTTTTTTAAAAAGGTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAA--TTTTATTTT
* **
8316840 AAAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTT
8316892 AAAATAATTT
Statistics
Matches: 223, Mismatches: 35, Indels: 41
0.75 0.12 0.14
Matches are distributed among these distances:
46 11 0.05
47 19 0.09
49 3 0.01
52 5 0.02
55 5 0.02
57 6 0.03
58 39 0.17
59 35 0.16
60 64 0.29
61 33 0.15
62 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTTTATTTT
Found at i:8316747 original size:119 final size:120
Alignment explanation
Indices: 8316555--8316779 Score: 341
Period size: 119 Copynumber: 1.9 Consensus size: 120
8316545 TGCTTTTATA
*
8316555 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTGAAATTTATATTTTTAAGGA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTGAAATTTATATTTTCAAGGA
* *
8316620 AAGTTGATACTTTCAAC-TTTTTCTCAAAAATACTTTTTTTTTATTTTTTTATTTT
66 AAATTGATACTATCAACTTTTTTCTCAAAAATA-TTTTTTTTTATTTTTTTATTTT
**
8316675 CAAGAAAAATTGATACTTTCAAC-TTTTCTTTAAAATAT-TTTTTGAATAATTT-TATTTTCAAG
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTG-A-AATTTATATTTTCAAG
*
8316737 GAAAATTGATACTATCAACTTTTTTCTTAAAAATATTTTTTTT
64 GAAAATTGATACTATCAACTTTTTTCTCAAAAATATTTTTTTT
8316780 AAAGAAAAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
118 6 0.06
119 48 0.50
120 42 0.44
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (120 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTGAAATTTATATTTTCAAGGA
AAATTGATACTATCAACTTTTTTCTCAAAAATATTTTTTTTTATTTTTTTATTTT
Found at i:8316896 original size:107 final size:105
Alignment explanation
Indices: 8316676--8316888 Score: 286
Period size: 105 Copynumber: 2.0 Consensus size: 105
8316666 TTTTATTTTC
* * * * **
8316676 AAGAAAAATTGATACTTTCAACTTTTCTTTAAAATATTTTTTGAATAATTTTATTTTCAAGGAAA
1 AAGAAAAATTGATACTTTCAACTCTTCCTTAAAATATTTTTTGAAAAATTTTATTTTAAAAAAAA
* *
8316741 ATTGATACTATCAACTTTTTTCTTAAAAATATTTTTTTTA
66 ATTGATACTATCAACTTTTTTCTCAAAAATATTTTTTTGA
* *
8316781 AAGAAAAATTGGTACTTTCAACTCTTCCTTAGAAAT-TTTTTTTAAAAAGGTTTTATTTTAAAAA
1 AAGAAAAATTGATACTTTCAACTCTTCCTTA-AAATATTTTTTGAAAAA--TTTTATTTTAAAAA
*
8316845 AAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTTTTTTGA
63 AAAATTGATACTATCAACTTTTTTCTCAAAAATATTTTTTTGA
8316887 AA
1 AA
8316889 TTTAAAATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
105 38 0.40
106 28 0.30
107 28 0.30
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (105 bp):
AAGAAAAATTGATACTTTCAACTCTTCCTTAAAATATTTTTTGAAAAATTTTATTTTAAAAAAAA
ATTGATACTATCAACTTTTTTCTCAAAAATATTTTTTTGA
Found at i:8316918 original size:81 final size:81
Alignment explanation
Indices: 8316814--8316969 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
8316804 CTTCCTTAGA
*
8316814 AATTTTTTTTAAAAAGGTTTTATTTTAAAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
1 AATTTTTTTTAAAAA-G-TTTATTTTAAAAAAAAATTAATACTTTCAACTTTTTCTCAAAAATAT
8316879 TTTTTTGAAATTTAAAAT
64 TTTTTTGAAATTTAAAAT
* * * *
8316897 AATTTTTTTTGAAAAA-TTTATTTTCAAAAAAAATTAATATTTTCAACTTTTTTTTAAAAATATT
1 AATTTTTTTT-AAAAAGTTTATTTTAAAAAAAAATTAATACTTTCAACTTTTTCTCAAAAATATT
8316961 TTTTTGAAA
65 TTTTTGAAA
8316970 AATTTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 52 0.78
83 10 0.15
84 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (81 bp):
AATTTTTTTTAAAAAGTTTATTTTAAAAAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTT
TTTTGAAATTTAAAAT
Found at i:8316928 original size:17 final size:18
Alignment explanation
Indices: 8316908--8316942 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8316898 ATTTTTTTTG
8316908 AAAAATT-TATTTTCAAA
1 AAAAATTATATTTTCAAA
8316925 AAAAATTAATATTTTCAA
1 AAAAATT-ATATTTTCAA
8316943 CTTTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTATATTTTCAAA
Found at i:8316964 original size:15 final size:14
Alignment explanation
Indices: 8316944--8316979 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8316934 TATTTTCAAC
8316944 TTTTTTTT-AAAAA
1 TTTTTTTTGAAAAA
8316957 TATTTTTTTGAAAAA
1 T-TTTTTTTGAAAAA
8316972 TTTTTTTT
1 TTTTTTTT
8316980 ATTCATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 14 0.67
15 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTTTTTTGAAAAA
Found at i:8318736 original size:13 final size:13
Alignment explanation
Indices: 8318714--8318744 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8318704 AAAAAATTAT
8318714 AAATACGAAATAA
1 AAATACGAAATAA
*
8318727 AAATATGAAATAA
1 AAATACGAAATAA
8318740 AAATA
1 AAATA
8318745 AATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (13 bp):
AAATACGAAATAA
Found at i:8320037 original size:40 final size:42
Alignment explanation
Indices: 8319966--8320055 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 42
8319956 CAAATGATAA
* *
8319966 TGCATAAATTCAATTCTATGTCTTCTTAAAAACTTCTTATCTTAT
1 TGCATAAATTCAATTCTA--TCATC-TAAAAACTTCTTAGCTTAT
8320011 TGCATAAATTCAATTCTA-CATC-AAAAACTTCTTAGCTTAT
1 TGCATAAATTCAATTCTATCATCTAAAAACTTCTTAGCTTAT
8320051 TGCAT
1 TGCAT
8320056 GTTAGCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 22 0.51
42 3 0.07
45 18 0.42
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (42 bp):
TGCATAAATTCAATTCTATCATCTAAAAACTTCTTAGCTTAT
Found at i:8323132 original size:41 final size:41
Alignment explanation
Indices: 8323075--8323152 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
8323065 TCTCCAAATG
8323075 GTATTATAGCCAGGTTGTGATCATGTTATATATGTGTAGTA
1 GTATTATAGCCAGGTTGTGATCATGTTATATATGTGTAGTA
* *
8323116 GTATTATAGTCAGGTTGTGATCATGTTATTTATGTGT
1 GTATTATAGCCAGGTTGTGATCATGTTATATATGTGT
8323153 GCTTTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (41 bp):
GTATTATAGCCAGGTTGTGATCATGTTATATATGTGTAGTA
Found at i:8323144 original size:22 final size:22
Alignment explanation
Indices: 8323078--8323144 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
8323068 CCAAATGGTA
*
8323078 TTATAGCCAGGTTGTGATCATG
1 TTATAGTCAGGTTGTGATCATG
* *
8323100 TTATA-T-ATG-TGT-AGT-AGTA
1 TTATAGTCAGGTTGTGA-TCA-TG
8323119 TTATAGTCAGGTTGTGATCATG
1 TTATAGTCAGGTTGTGATCATG
8323141 TTAT
1 TTAT
8323145 TTATGTGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
18 2 0.06
19 10 0.30
20 3 0.09
21 2 0.06
22 14 0.42
23 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.43
Consensus pattern (22 bp):
TTATAGTCAGGTTGTGATCATG
Found at i:8333249 original size:35 final size:35
Alignment explanation
Indices: 8333210--8333281 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
8333200 CCCCCTCTGG
8333210 CCTCACGGCGTCACGAGGTTGGCCATTCTCCCGCA
1 CCTCACGGCGTCACGAGGTTGGCCATTCTCCCGCA
8333245 CCTCACGGCGTCACGAGGTTGGCCATTCTCCCGCA
1 CCTCACGGCGTCACGAGGTTGGCCATTCTCCCGCA
8333280 CC
1 CC
8333282 CAACCTCGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.14, C:0.42, G:0.25, T:0.19
Consensus pattern (35 bp):
CCTCACGGCGTCACGAGGTTGGCCATTCTCCCGCA
Found at i:8334533 original size:33 final size:33
Alignment explanation
Indices: 8334470--8334533 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
8334460 CAGGTAAAAT
* * * *
8334470 TTTAAAATTTTTTTATTATTTTTGGTTTATTAC
1 TTTAAAATTTATTAATTATTTTGGGATTATTAC
8334503 TTTAAAATTTATTAATT-TTTGTGGGATTATT
1 TTTAAAATTTATTAATTATTT-TGGGATTATT
8334534 TGTAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (33 bp):
TTTAAAATTTATTAATTATTTTGGGATTATTAC
Found at i:8335122 original size:2 final size:2
Alignment explanation
Indices: 8335115--8335140 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8335105 TCAACCCATA
8335115 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8335141 AATCTCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8336650 original size:2 final size:2
Alignment explanation
Indices: 8336643--8336687 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
8336633 GAACATGATT
8336643 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8336685 TC T
1 TC T
8336688 TTAAGCAGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8337814 original size:9 final size:9
Alignment explanation
Indices: 8337791--8337820 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8337781 AATTTTAAAT
8337791 TTATTCAAA
1 TTATTCAAA
8337800 -TATTCAAA
1 TTATTCAAA
8337808 TTATTCAAA
1 TTATTCAAA
8337817 TTAT
1 TTAT
8337821 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:8343012 original size:2 final size:2
Alignment explanation
Indices: 8343005--8343034 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8342995 TCCTGTGACA
8343005 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
8343035 GTAGCAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8360797 original size:13 final size:13
Alignment explanation
Indices: 8360779--8360805 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8360769 TAAAACTCTT
8360779 ATACCTTTATTAA
1 ATACCTTTATTAA
8360792 ATACCTTTATTAA
1 ATACCTTTATTAA
8360805 A
1 A
8360806 CTCACTCCTA
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:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATACCTTTATTAA
Found at i:8366167 original size:31 final size:30
Alignment explanation
Indices: 8366128--8366186 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
8366118 TTTTTGATGT
8366128 ACTTAAATAAGTTATTAATTTTTAATTTAC
1 ACTTAAATAAGTTATTAATTTTTAATTTAC
* *
8366158 ACTTCAAATAATTTTTTAATTTTTAATTT
1 ACTT-AAATAAGTTATTAATTTTTAATTT
8366187 TTATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (30 bp):
ACTTAAATAAGTTATTAATTTTTAATTTAC
Done.