Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 51 of 56
Found at i:8752335 original size:22 final size:24
Alignment explanation
Indices: 8752302--8752345 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
8752292 TTGACTAGCA
8752302 AAATCAAATAATAAT-AATAAAAT
1 AAATCAAATAATAATAAATAAAAT
8752325 AAAT-AAATAATAATAAATAAA
1 AAATCAAATAATAATAAATAAA
8752346 TAAGGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAATCAAATAATAATAAATAAAAT
Found at i:8752339 original size:14 final size:14
Alignment explanation
Indices: 8752308--8752348 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8752298 AGCAAAATCA
8752308 AATAAT-AAT-AAT
1 AATAATAAATAAAT
8752320 AA-AATAAATAAAT
1 AATAATAAATAAAT
8752333 AATAATAAATAAAT
1 AATAATAAATAAAT
8752347 AA
1 AA
8752349 GGAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 5 0.19
13 5 0.19
14 13 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAAATAAAT
Found at i:8752354 original size:22 final size:22
Alignment explanation
Indices: 8752307--8752357 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8752297 TAGCAAAATC
*
8752307 AAATAATAATAATAAAATAAAT
1 AAATAATAATAATAAAATAAAG
*
8752329 AAATAATAATAA-ATAAATAAGG
1 AAATAATAATAATA-AAATAAAG
8752351 AAATAAT
1 AAATAAT
8752358 TCTTTCTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (22 bp):
AAATAATAATAATAAAATAAAG
Found at i:8753329 original size:23 final size:23
Alignment explanation
Indices: 8753300--8753346 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
8753290 AACAAATTCT
8753300 TAAA-TTTTAT-TATTTTATTTAAA
1 TAAATTTTTATAT-TTTTA-TTAAA
8753323 TAAATTTTTATATTTTTATTAAA
1 TAAATTTTTATATTTTTATTAAA
8753346 T
1 T
8753347 CTAAATAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.45
24 11 0.50
25 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TAAATTTTTATATTTTTATTAAA
Found at i:8753819 original size:30 final size:29
Alignment explanation
Indices: 8753760--8753835 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 29
8753750 TTAACATAAG
8753760 GGCTTATTTATATATAAATAAAAAGATAAAA
1 GGCTTATTTA-ATA-AAATAAAAAGATAAAA
*
8753791 GGCTTATTTGAATAAAAT-ACAAGTATAAAA
1 GGCTTATTT-AATAAAATAAAAAG-ATAAAA
*
8753821 -GCTTATCTAAATAAA
1 GGCTTAT-TTAATAAA
8753836 TTAGTAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 16 0.40
30 11 0.28
31 12 0.30
32 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (29 bp):
GGCTTATTTAATAAAATAAAAAGATAAAA
Found at i:8755684 original size:11 final size:10
Alignment explanation
Indices: 8755658--8755695 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
8755648 ATAAAACTAT
8755658 AATATTTT-A
1 AATATTTTAA
8755667 AATATTTTAA
1 AATATTTTAA
8755677 ATATATTTTAAA
1 A-ATATTTT-AA
8755689 AATATTT
1 AATATTT
8755696 AGATAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 2 0.08
11 13 0.50
12 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATATTTTAA
Found at i:8756090 original size:2 final size:2
Alignment explanation
Indices: 8756083--8756115 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8756073 CAAAATCAGA
8756083 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8756116 AAACTAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8756689 original size:2 final size:2
Alignment explanation
Indices: 8756684--8756723 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8756674 TTTTAATTTC
8756684 CT CT CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8756724 CCCCCCCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8757045 original size:13 final size:14
Alignment explanation
Indices: 8756981--8757095 Score: 65
Period size: 13 Copynumber: 8.6 Consensus size: 14
8756971 TTATTATTAG
*
8756981 ATATAATAATTTAT
1 ATATTATAATTTAT
8756995 ATATT-TACA-TTAT
1 ATATTATA-ATTTAT
8757008 AT-TCATATAATTTAAT
1 ATAT--TATAATTT-AT
8757024 ATATTATAATTT-T
1 ATATTATAATTTAT
*
8757037 ATTTTATAAAATTTGAT
1 ATATTAT--AATTT-AT
8757054 ATATT-T-ATTTAT
1 ATATTATAATTTAT
8757066 ATATTAT-ATTT-T
1 ATATTATAATTTAT
8757078 -TA-T-TAATTT-T
1 ATATTATAATTTAT
8757088 ATATTATA
1 ATATTATA
8757096 TTATATTTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 33
0.69 0.03 0.28
Matches are distributed among these distances:
9 1 0.01
10 6 0.07
11 4 0.05
12 10 0.12
13 26 0.32
14 7 0.09
15 17 0.21
16 5 0.06
17 6 0.07
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (14 bp):
ATATTATAATTTAT
Found at i:8757075 original size:5 final size:5
Alignment explanation
Indices: 8757053--8757136 Score: 51
Period size: 5 Copynumber: 18.2 Consensus size: 5
8757043 TAAAATTTGA
* *
8757053 TATAT T-TAT T-TA- TATAT TATATT TTTAT TAATTT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATA-T TATAT T-ATAT TATAT TATAT TATAT
* *
8757102 T-T-T TAAAT TA-AT T-TTT TATAT TATA- TA-AT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
8757137 TTAAAATGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
3 4 0.06
4 18 0.29
5 33 0.53
6 7 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TATAT
Found at i:8757081 original size:11 final size:12
Alignment explanation
Indices: 8757053--8757097 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
8757043 TAAAATTTGA
8757053 TATATT-TATTT
1 TATATTATATTT
8757064 ATATATTATATTT
1 -TATATTATATTT
8757077 T-TATTA-ATTT
1 TATATTATATTT
8757087 TATATTATATT
1 TATATTATATT
8757098 ATATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.17
11 10 0.33
12 10 0.33
13 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTATATTT
Found at i:8757084 original size:61 final size:59
Alignment explanation
Indices: 8757019--8757138 Score: 129
Period size: 61 Copynumber: 2.0 Consensus size: 59
8757009 TTCATATAAT
* *
8757019 TTAA-TATATTATAATTTTATTTTATAAAATTTGATATATTTAT-TTATAT-ATTATATTTTTA
1 TTAATTATATTAT-ATTATATTTT-T-AAA-TTAAT-TATTTATATTATATAATTATATTTTTA
*
8757080 TTAATTTTATATTATATTATATTTTTAAATTAATTTTTTATATTATATAATTATATTTT
1 TTAA--TTATATTATATTATATTTTTAAATTAATTATTTATATTATATAATTATATTTT
8757139 AAAATGATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
59 6 0.12
60 10 0.20
61 17 0.33
62 1 0.02
63 9 0.18
64 8 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (59 bp):
TTAATTATATTATATTATATTTTTAAATTAATTATTTATATTATATAATTATATTTTTA
Found at i:8757089 original size:17 final size:18
Alignment explanation
Indices: 8757046--8757092 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
8757036 TATTTTATAA
* *
8757046 AATTTGATATATTTATTT
1 AATTTTATATTTTTATTT
*
8757064 ATATATTATATTTTTA-TT
1 A-ATTTTATATTTTTATTT
8757082 AATTTTATATT
1 AATTTTATATT
8757093 ATATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
AATTTTATATTTTTATTT
Found at i:8757093 original size:22 final size:23
Alignment explanation
Indices: 8757055--8757097 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8757045 AAATTTGATA
*
8757055 TATTTATTTATATATTATATTTT
1 TATTAATTTATATATTATATTTT
8757078 TATTAATTT-TATATTATATT
1 TATTAATTTATATATTATATT
8757098 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTAATTTATATATTATATTTT
Found at i:8757094 original size:29 final size:31
Alignment explanation
Indices: 8757057--8757138 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 31
8757047 ATTTGATATA
8757057 TTTAT-TTATATATTATATTTTT-ATTAA-T
1 TTTATATTATATATTATATTTTTAATTAATT
8757085 TTTATA-T-TATATTATATTTTTAAATTAATTT
1 TTTATATTATATATTATATTTTT-AATTAA-TT
8757116 TTTATATTATATAATTATATTTT
1 TTTATATTATAT-ATTATATTTT
8757139 AAAATGATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
27 14 0.30
28 6 0.13
29 5 0.11
31 7 0.15
32 1 0.02
33 3 0.07
34 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTATATTATATATTATATTTTTAATTAATT
Found at i:8757473 original size:19 final size:20
Alignment explanation
Indices: 8757446--8757484 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8757436 AAAAAATAAA
*
8757446 TTAATTATTAAATATATATT
1 TTAATTATTAAATAAATATT
8757466 TTAA-TATTAAATAAATATT
1 TTAATTATTAAATAAATATT
8757485 AATTATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATTATTAAATAAATATT
Found at i:8762167 original size:1 final size:1
Alignment explanation
Indices: 8762161--8762190 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
8762151 GGCTAAAATT
8762161 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
8762191 TTTGTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:8764145 original size:16 final size:16
Alignment explanation
Indices: 8764092--8764157 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
8764082 TTTTAATAAT
*
8764092 TTTAAATTAATATTAAGCT
1 TTTAAATTAAT-TTAA--A
* *
8764111 TTTAAATT-GTTTCAA
1 TTTAAATTAATTTAAA
*
8764126 TTTAAATTATTTTAAA
1 TTTAAATTAATTTAAA
8764142 TTTAAATTAATTTAAA
1 TTTAAATTAATTTAAA
8764158 CCAAATCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 8 0.20
16 20 0.50
17 3 0.08
18 1 0.03
19 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAAATTAATTTAAA
Found at i:8771908 original size:8 final size:8
Alignment explanation
Indices: 8771897--8771983 Score: 63
Period size: 8 Copynumber: 10.5 Consensus size: 8
8771887 CTGAAAATTG
8771897 AAAAAATA
1 AAAAAATA
8771905 AAAATAATTTA
1 AAAA-AA--TA
*
8771916 AAAAATTCA
1 AAAAAAT-A
8771925 AAAAAATA
1 AAAAAATA
8771933 AAAAAAT-
1 AAAAAATA
* *
8771940 --CAAATC
1 AAAAAATA
8771946 AAAAAATCA
1 AAAAAAT-A
8771955 AAAAAATAA
1 AAAAAAT-A
8771964 AAAAAATA
1 AAAAAATA
*
8771972 ATAAAATA
1 AAAAAATA
8771980 AAAA
1 AAAA
8771984 TAAAAAGGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
8 28 0.44
9 24 0.38
10 1 0.02
11 6 0.10
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAATA
Found at i:8771949 original size:13 final size:13
Alignment explanation
Indices: 8771928--8771989 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
8771918 AAATTCAAAA
8771928 AAATAAAAAAATC
1 AAATAAAAAAATC
*
8771941 AAATCAAAAAATC
1 AAATAAAAAAATC
**
8771954 AAA-AAAATAAAAA
1 AAATAAAA-AAATC
* *
8771967 AAATAATAAAATAA
1 AAATAAAAAAAT-C
8771981 AAATAAAAA
1 AAATAAAAA
8771990 GGGGCTCGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.08
13 24 0.62
14 12 0.31
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAAATC
Found at i:8771949 original size:21 final size:19
Alignment explanation
Indices: 8771924--8771989 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 19
8771914 TAAAAAATTC
8771924 AAAAAAATAAAAAAATCAAA
1 AAAAAAATAAAAAAAT-AAA
*
8771944 TCAAAAAATCAAAAAAAT--A
1 -AAAAAAAT-AAAAAAATAAA
*
8771963 AAAAAAATAATAAAATAAA
1 AAAAAAATAAAAAAATAAA
8771982 AATAAAAA
1 AA-AAAAA
8771990 GGGGCTCGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.18
18 7 0.18
19 4 0.11
20 5 0.13
21 7 0.18
22 8 0.21
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAAAAAATAAA
Found at i:8771968 original size:17 final size:17
Alignment explanation
Indices: 8771914--8771983 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
8771904 AAAAATAATT
*
8771914 TAAAAAATTCAAAAAAA
1 TAAAAAAATCAAAAAAA
8771931 TAAAAAAATC----AAA
1 TAAAAAAATCAAAAAAA
*
8771944 TCAAAAAATCAAAAAAA
1 TAAAAAAATCAAAAAAA
*
8771961 TAAAAAAAAT-AATAAAA
1 T-AAAAAAATCAAAAAAA
8771978 TAAAAA
1 TAAAAA
8771984 TAAAAAGGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 12 0.27
16 5 0.11
17 20 0.45
18 7 0.16
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.16
Consensus pattern (17 bp):
TAAAAAAATCAAAAAAA
Found at i:8786878 original size:42 final size:42
Alignment explanation
Indices: 8786809--8787551 Score: 569
Period size: 42 Copynumber: 17.7 Consensus size: 42
8786799 TTCCCTTCAT
* * *
8786809 TCTGCCTGTCGACTTTGACTTTAGAGACTGCCTCATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * *
8786851 TGTGCCTGTTGGCTTTGACCTTGGAGACTTTCCTACCATC--AA-
1 TCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCT--CATCTAAAG
* * * *
8786893 TTTCCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * ** * *
8786935 TCTGCCTGTCGGCTTTGACCTTAGAAACTTTCTTACTCT-TAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTAAAG
* *
8786977 TCTGCCTGTCGGCTTTGACCCTGAAGACTGCCTCATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * ** * * *
8787019 TCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTCAA-
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTAAAG
* * *
8787061 TCTGCCTATCGGCTTTAACCTTGGAGACTGCCTTATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * *** * * *
8787103 TTTGCCTGTCAGCTTTGACCTTGGAGACTTTTTTACCCTCAA-
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTAAAG
* * * *
8787145 TCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTTATATAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * * * * * **
8787187 TCTGCTTATCAGCTTTGACCTTGCAGACTTTCCT-ACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTCATCTAAAG
* * * * * *
8787229 TTTGCTTGTCGACTTTAATCTTGGAGACTACCTCATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * ** *
8787271 TTTGCCTGTCGACTTTGACCTTGGAGACT-TTTCTATCCT-TAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTC-AT-CTAAAG
* *
8787313 TTTGCCTATCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * *
8787355 TCTACCTGTCGGCTTTGATCTTAGAGACTGCCTCATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * *
8787397 TCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCT-ACCCT-CAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTCA-TCTAAAG
* * *
8787439 TCTGCCTGCCGGCTTTGACTTTGGAGACTGCCTTATCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
* * ** * *
8787481 TCTGCTTGTCGGCTTTGA-CTCTGAAGACT-TTTCTACCCT-CAG
1 TCTGCCTGTCGGCTTTGACCT-TGGAGACTGCCTC-A-TCTAAAG
*
8787523 TCTGCCTGTCGGCTTTAACCTTGGAGACT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACT
8787552 TTCCTACCGC
Statistics
Matches: 554, Mismatches: 121, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
39 3 0.01
41 32 0.06
42 481 0.87
43 34 0.06
45 4 0.01
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (42 bp):
TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAG
Found at i:8786934 original size:84 final size:83
Alignment explanation
Indices: 8786809--8787559 Score: 688
Period size: 84 Copynumber: 9.0 Consensus size: 83
8786799 TTCCCTTCAT
* * * * *
8786809 TCTGCCTGTCGACTTTGACTTTAGAGACTGCCTCATCTAAAGTGTGCCTGTTGGCTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
8786874 GAGACTTTCCTACCATCAA
66 GAGACTTTCCTACC-TCAA
* * * * *
8786893 TTTCCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCTTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
* * * *
8786958 GAAACTTTCTTACTCTTAG
66 GAGACTTTCCTAC-CTCAA
* * * *
8786977 TCTGCCTGTCGGCTTTGACCCTGAAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
*
8787042 GAGACTTTCTTACCCTCAA
66 GAGACTTTCCTA-CCTCAA
* * * * *
8787061 TCTGCCTATCGGCTTTAACCTTGGAGACTGCCTTATCTAAAGTTTGCCTGTCAGCTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
**
8787126 GAGACTTTTTTACCCTCAA
66 GAGACTTTCCTA-CCTCAA
* * * * * * *
8787145 TCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTTATATAAAGTCTGCTTATCAGCTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
* * *
8787210 CAGACTTTCCTACCTTTAG
66 GAGACTTTCCTACC-TCAA
* * * * * * * *
8787229 TTTGCTTGTCGACTTTAATCTTGGAGACTACCTCATCTAAAGTTTGCCTGTCGACTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
* * *
8787294 GAGACTTTTCTATCCTTAG
66 GAGACTTTCCTA-CCTCAA
* * * * *
8787313 TTTGCCTATCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTACCTGTCGGCTTTGATCTTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
* * *
8787378 GAGAC-TGCCTCATCTAAA
66 GAGACTTTCCT-ACCTCAA
* * * * *
8787396 GTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCT-ACCCT-CAGTCTGCCTGCCGGCTTTGACT
1 -TCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTCA-TCTAAAGTCTGCCTGTCGGCTTTGACC
* * *
8787459 TTGGAGAC-TGCCTTATCTAAA
63 TTGGAGACTTTCC-TACCTCAA
* * ** * * *
8787480 GTCTGCTTGTCGGCTTTGA-CTCTGAAGACT-TTTCTACCCT-CAGTCTGCCTGTCGGCTTTAAC
1 -TCTGCCTGTCGGCTTTGACCT-TGGAGACTGCCTC-A-TCTAAAGTCTGCCTGTCGGCTTTGAC
8787542 CTTGGAGACTTTCCTACC
62 CTTGGAGACTTTCCTACC
8787560 GCCTGTCAGC
Statistics
Matches: 555, Mismatches: 99, Indels: 26
0.82 0.15 0.04
Matches are distributed among these distances:
82 1 0.00
83 11 0.02
84 529 0.95
85 14 0.03
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (83 bp):
TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTG
GAGACTTTCCTACCTCAA
Found at i:8787552 original size:126 final size:127
Alignment explanation
Indices: 8786809--8787559 Score: 629
Period size: 126 Copynumber: 6.0 Consensus size: 127
8786799 TTCCCTTCAT
* * * * * * *
8786809 TCTGCCTGTCGACTTTGACTTTAGAGACTGCCTCATCTAAAGTGTGCCTGTTGGCTTTGAC-CTT
1 TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCTT
* * * * * * *
8786873 GGAGACTTTCCT-ACCATCAA-TTTCCCTATCGGCTTTGACCTTGGAGAC-TGCCTTA-TCTAAA
66 GAAGAC-TTCCTCACC-TAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCC-TACCCT-AA
8786934 G
127 G
* * * ** * *
8786935 TCTGCCTGTCGGCTTTGACCTTAGAAACTTTCTTACTCT-TAGTCTGCCTGTCGGCTTTGAC-CC
1 TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTA-TCTAAAGTCTGCCTGTCGGCTTTGACTCT
* * * * *
8786998 TGAAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTCAA-
65 TGAAGACTTCCTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCT-AAG
* * *
8787061 TCTGCCTATCGGCTTTAACCTTGGAGACTGCCTTATCTAAAGTTTGCCTGTCAGCTTTGAC-CTT
1 TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCTT
* ** * * * * * **
8787125 GGAGACTTTTTTACCCTCAA-TCTGCCTGTCGGCTTTGACCCTGGAGACTGTCTTA-TATAAAG
66 GAAGACTTCCTCA-CCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCT-AAG
* * * * * ** * * * *
8787187 TCTGCTTATCAGCTTTGACCTTGCAGACTTTCC-TACCTTTAGTTTGCTTGTCGACTTT-AATCT
1 TCTGCCTATCGGCTTTGACCTTGGAGAC-TGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCT
* * * * * * * *
8787250 TGGAGACTACCTCATCTAAAGTTTGCCTGTCGACTTTGACCTTGGAGACTTTTCTATCCTTAG
65 TGAAGACTTCCTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTAAG
* * *
8787313 TTTGCCTATCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTACCTGTCGGCTTTGA-TCTT
1 TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCTT
* * *
8787377 -AGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTCAG
66 GA-AGACTTCCTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTAAG
** * *
8787439 TCTGCCTGCCGGCTTTGACTTTGGAGACTGCCTTATCTAAAGTCTGCTTGTCGGCTTTGACTC-T
1 TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCTT
* * *
8787503 GAAGACTT-TTCTACCCT-CAGTCTGCCTGTCGGCTTTAACCTTGGAGACTTTCCTACC
66 GAAGACTTCCTC-A-CCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACC
8787560 GCCTGTCAGC
Statistics
Matches: 502, Mismatches: 104, Indels: 38
0.78 0.16 0.06
Matches are distributed among these distances:
125 23 0.05
126 456 0.91
127 23 0.05
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (127 bp):
TCTGCCTATCGGCTTTGACCTTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACTCTT
GAAGACTTCCTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTAAG
Found at i:8788167 original size:29 final size:27
Alignment explanation
Indices: 8788119--8788207 Score: 96
Period size: 24 Copynumber: 3.4 Consensus size: 27
8788109 GAAAATTGAG
* *
8788119 AAAATAAAAATAATTAAAAAATTCAAA
1 AAAATAAAAATAATCAAAAAAATCAAA
8788146 AAAATTAAAAATCAATCAAAAAAATC-AA
1 AAAA-TAAAAAT-AATCAAAAAAATCAAA
* *
8788174 AAAATCAAAA-AATC-AAAAAAT-AAT
1 AAAATAAAAATAATCAAAAAAATCAAA
8788198 AAAATAAAAA
1 AAAATAAAAA
8788208 GGGGGATCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
24 17 0.31
25 4 0.07
27 9 0.17
28 13 0.24
29 11 0.20
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAATAAAAATAATCAAAAAAATCAAA
Found at i:8788176 original size:21 final size:20
Alignment explanation
Indices: 8788141--8788181 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8788131 ATTAAAAAAT
*
8788141 TCAAAAAAATTAAAAATCAA
1 TCAAAAAAATAAAAAATCAA
8788161 TCAAAAAAATCAAAAAATCAA
1 TCAAAAAAAT-AAAAAATCAA
8788182 AAAATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (20 bp):
TCAAAAAAATAAAAAATCAA
Found at i:8788184 original size:9 final size:9
Alignment explanation
Indices: 8788119--8788193 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
8788109 GAAAATTGAG
8788119 AAAAT-AAA
1 AAAATCAAA
*
8788127 AATAATTAAA
1 AA-AATCAAA
*
8788137 AAATTCAAA
1 AAAATCAAA
*
8788146 AAAATTAAA
1 AAAATCAAA
8788155 AATCAATCAAA
1 AA--AATCAAA
8788166 AAAATC-AA
1 AAAATCAAA
8788174 AAAATC-AA
1 AAAATCAAA
8788182 AAAATCAAA
1 AAAATCAAA
8788191 AAA
1 AAA
8788194 TAATAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
8 18 0.32
9 26 0.46
10 5 0.09
11 8 0.14
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATCAAA
Found at i:8788201 original size:9 final size:8
Alignment explanation
Indices: 8788119--8788207 Score: 70
Period size: 8 Copynumber: 10.2 Consensus size: 8
8788109 GAAAATTGAG
8788119 AAAATAAA
1 AAAATAAA
8788127 AATAATTAAA
1 AA-AA-TAAA
*
8788137 AAATTCAAA
1 AAAAT-AAA
8788146 AAAATTAAA
1 AAAA-TAAA
8788155 AATCAATCAAA
1 AA--AAT-AAA
*
8788166 AAAATCAA
1 AAAATAAA
*
8788174 AAAATCAA
1 AAAATAAA
*
8788182 AAAATCAA
1 AAAATAAA
*
8788190 AAAATAAT
1 AAAATAAA
8788198 AAAATAAA
1 AAAATAAA
8788206 AA
1 AA
8788208 GGGGGATCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
8 36 0.53
9 17 0.25
10 8 0.12
11 7 0.10
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAATAAA
Found at i:8788526 original size:14 final size:14
Alignment explanation
Indices: 8788507--8788540 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8788497 GCTAGAGCAA
8788507 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
* *
8788521 AAAGAAAAGAAAAG
1 AAAGAAAAAAAAAC
8788535 AAAGAA
1 AAAGAA
8788541 GACCATCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:8789795 original size:10 final size:10
Alignment explanation
Indices: 8789780--8789804 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8789770 TAAAGGAAAA
8789780 AAAAACAAAC
1 AAAAACAAAC
8789790 AAAAACAAAC
1 AAAAACAAAC
8789800 AAAAA
1 AAAAA
8789805 AATGCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAC
Found at i:8792741 original size:20 final size:20
Alignment explanation
Indices: 8792716--8792769 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
8792706 GTTTGAAGCA
8792716 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
8792736 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
8792756 ATGTATCGATACAA
1 ATGTATCGATACAA
8792770 ACAGTGATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:8793469 original size:30 final size:31
Alignment explanation
Indices: 8793433--8793491 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
8793423 TAAGGCTCTC
*
8793433 GTTAAAAA-AATTTCTCCCTCTTGATAAACG
1 GTTAAAAAGAATTTCTCCCCCTTGATAAACG
*
8793463 GTTAAAAAGATTTTCTCCCCCTTGATAAA
1 GTTAAAAAGAATTTCTCCCCCTTGATAAA
8793492 AATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (31 bp):
GTTAAAAAGAATTTCTCCCCCTTGATAAACG
Found at i:8793929 original size:3 final size:3
Alignment explanation
Indices: 8793923--8793947 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8793913 AGCTTCGAGT
8793923 GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA G
8793948 CATCTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:8795252 original size:22 final size:20
Alignment explanation
Indices: 8795207--8795253 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
8795197 TTTGTTTATG
*
8795207 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
8795227 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
*
8795248 AATTTG
1 ATTTTG
8795254 TAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:8795383 original size:13 final size:13
Alignment explanation
Indices: 8795365--8795403 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8795355 TAGTAACCCT
8795365 TGTATCGATACAA
1 TGTATCGATACAA
*
8795378 TGTATCGATATAA
1 TGTATCGATACAA
8795391 TGTATCGATACAA
1 TGTATCGATACAA
8795404 AGAATATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8799918 original size:3 final size:3
Alignment explanation
Indices: 8799910--8799943 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8799900 TCCGAGTTAC
* *
8799910 CAT CAT CAT CAT CAT CAT TAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
8799944 TTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:8801560 original size:20 final size:20
Alignment explanation
Indices: 8801535--8801588 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
8801525 GTTTGAAGCA
8801535 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
8801555 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
8801575 ATGTATCGATACAA
1 ATGTATCGATACAA
8801589 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:8801642 original size:20 final size:20
Alignment explanation
Indices: 8801617--8801671 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
8801607 CTGCCAGTTT
**
8801617 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
8801637 CATGTATCGATA-TAGTGAA
1 CATGTATCGATACAATTGAA
8801656 CATGTATCGATACAAT
1 CATGTATCGATACAAT
8801672 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:8801675 original size:13 final size:13
Alignment explanation
Indices: 8801657--8801683 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8801647 TATAGTGAAC
8801657 ATGTATCGATACA
1 ATGTATCGATACA
8801670 ATGTATCGATACA
1 ATGTATCGATACA
8801683 A
1 A
8801684 AGCATAATGT
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:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8802819 original size:19 final size:18
Alignment explanation
Indices: 8802795--8802833 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
8802785 AAATTTAATA
8802795 ATTTATATATTTATATTAT
1 ATTTATATATTT-TATTAT
8802814 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
8802832 AT
1 AT
8802834 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:8802842 original size:20 final size:19
Alignment explanation
Indices: 8802799--8802846 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
8802789 TTAATAATTT
*
8802799 ATATATTTATATTATATTT
1 ATATATTTATATTATATTA
8802818 ATATATTT-TATTATATATA
1 ATATATTTATATTATAT-TA
8802837 ATTATATTTA
1 A-TATATTTA
8802847 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTTATATTATATTA
Found at i:8802855 original size:28 final size:28
Alignment explanation
Indices: 8802769--8802876 Score: 82
Period size: 28 Copynumber: 4.0 Consensus size: 28
8802759 TAAATTAATG
* * *
8802769 ATTTATT-TAAATAGTTAAATTT-AATA
1 ATTTATTATATATAATTATATTTAAATA
* *
8802795 ATTTA-TATATTTATATTATATTTATATA
1 ATTTATTATATATA-ATTATATTTAAATA
* *
8802823 TTTTATTATATATAATTATATTTAAAAA
1 ATTTATTATATATAATTATATTTAAATA
* *
8802851 ATTTA-AATAT-TAATAATAATTTAAAT
1 ATTTATTATATATAATTAT-ATTTAAAT
8802877 TTAAAATACT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
25 1 0.02
26 15 0.23
27 18 0.28
28 23 0.36
29 7 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
ATTTATTATATATAATTATATTTAAATA
Found at i:8802880 original size:17 final size:16
Alignment explanation
Indices: 8802842--8802895 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
8802832 ATATAATTAT
8802842 ATTTAAAA-AATTTAA
1 ATTTAAAATAATTTAA
8802857 ATATTAATAATAATTTAA
1 AT-TTAA-AATAATTTAA
*
8802875 ATTTAAAATACTTTTAA
1 ATTTAAAATA-ATTTAA
8802892 ATTT
1 ATTT
8802896 GTATTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 15 0.44
18 9 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAAATAATTTAA
Found at i:8803119 original size:6 final size:6
Alignment explanation
Indices: 8803108--8803137 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8803098 CCAACTTCTG
8803108 AATCCA AATCC- AATCCA AATCCA AATCCA A
1 AATCCA AATCCA AATCCA AATCCA AATCCA A
8803138 GTTCCTCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
AATCCA
Found at i:8803124 original size:11 final size:12
Alignment explanation
Indices: 8803108--8803137 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
8803098 CCAACTTCTG
8803108 AATCCAAATCC-
1 AATCCAAATCCA
8803119 AATCCAAATCCA
1 AATCCAAATCCA
8803131 AATCCAA
1 AATCCAA
8803138 GTTCCTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (12 bp):
AATCCAAATCCA
Found at i:8806259 original size:8 final size:8
Alignment explanation
Indices: 8806229--8806271 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
8806219 TGTCTAACTC
*
8806229 TTTTAATT
1 TTTTATTT
*
8806237 TTTTATGT
1 TTTTATTT
8806245 TTTTATTT
1 TTTTATTT
8806253 TTTTATTAT
1 TTTTATT-T
8806262 TTTTAATTT
1 TTTT-ATTT
8806271 T
1 T
8806272 ACAAAAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 20 0.67
9 7 0.23
10 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:8806264 original size:16 final size:16
Alignment explanation
Indices: 8806229--8806271 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
8806219 TGTCTAACTC
8806229 TTTTAATTTTTTATGT
1 TTTTAATTTTTTATGT
* *
8806245 TTTTATTTTTTTATTAT
1 TTTTAATTTTTTA-TGT
8806262 TTTTAATTTT
1 TTTTAATTTT
8806272 ACAAAAAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTAATTTTTTATGT
Found at i:8806777 original size:2 final size:2
Alignment explanation
Indices: 8806758--8806803 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
8806748 TTGTGAAGAA
* *
8806758 AT AT AA AT AT AC 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 AT
8806800 AT AT
1 AT AT
8806804 TATGCACACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8806938 original size:23 final size:23
Alignment explanation
Indices: 8806886--8806929 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8806876 GATAAAAAAT
8806886 TAAATAAATAAAAATAATATATA
1 TAAATAAATAAAAATAATATATA
* *
8806909 TAAATAAATTAAAATATTATA
1 TAAATAAATAAAAATAATATA
8806930 AGTTAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAATAAATAAAAATAATATATA
Found at i:8809185 original size:80 final size:79
Alignment explanation
Indices: 8809061--8809319 Score: 310
Period size: 80 Copynumber: 3.3 Consensus size: 79
8809051 AATGGTGAGG
*
8809061 TTAG-AGTAAAAA-GAGGGTTAGAGTATCTCTTCAGAGATGGTGGGGTTGGAGTATTCCC-AGAG
1 TTAGAAGTAAAAACG-GGGTTAGAGTATCTCTTCGGAGATGGTGGGGTTGGAGTA-TCCCTAGAG
*
8809123 ATAAAAAATATGGTGCT
64 ATGAAAAATATGG-GCT
* * * * *
8809140 TTAGAAGTAAAAACGGGGTTGGAGTATCTTTTTGGAGATGGTGGGGTTAGAGTATCCCTAGAAAT
1 TTAGAAGTAAAAACGGGGTTAGAGTATCTCTTCGGAGATGGTGGGGTTGGAGTATCCCTAGAGAT
*
8809205 GAAAAATA-GGACATT
66 GAAAAATATGGGC--T
* * * * *
8809220 TTAGAAGTAAAAACGGGATTAGAGTATCCCTTCGAAGATGGTGGGGTTGTAGTATCCCTAGAGCT
1 TTAGAAGTAAAAACGGGGTTAGAGTATCTCTTCGGAGATGGTGGGGTTGGAGTATCCCTAGAGAT
*
8809285 GAAAAATATGGCGTT
66 GAAAAATATGG-GCT
8809300 TTAGAAGTAAAAACGGGGTT
1 TTAGAAGTAAAAACGGGGTT
8809320 GGAATACCCT
Statistics
Matches: 152, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 10 0.07
80 138 0.91
81 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (79 bp):
TTAGAAGTAAAAACGGGGTTAGAGTATCTCTTCGGAGATGGTGGGGTTGGAGTATCCCTAGAGAT
GAAAAATATGGGCT
Found at i:8811718 original size:20 final size:20
Alignment explanation
Indices: 8811675--8811725 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
8811665 AATAACCTGC
* *
8811675 ATGTATCGATACATTGTAGC
1 ATGTATCGATACATAGTAGA
8811695 ATGTATCGATACATAAGT-GA
1 ATGTATCGATACAT-AGTAGA
8811715 ATGTATCGATA
1 ATGTATCGATA
8811726 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATAGTAGA
Found at i:8812137 original size:2 final size:2
Alignment explanation
Indices: 8812130--8812171 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
8812120 TTCTTTGGTT
8812130 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8812171 T
1 T
8812172 CTTTGATCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8814345 original size:22 final size:22
Alignment explanation
Indices: 8814302--8814347 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8814292 ACTAAAAGAC
* **
8814302 GGGGTTGGAGTATCTTCATAGA
1 GGGGCTGGAGTATCCCCATAGA
*
8814324 GGGGCTGGAGTATCCCCTTAGA
1 GGGGCTGGAGTATCCCCATAGA
8814346 GG
1 GG
8814348 AATGGGGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.26
Consensus pattern (22 bp):
GGGGCTGGAGTATCCCCATAGA
Found at i:8816924 original size:20 final size:20
Alignment explanation
Indices: 8816878--8816950 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
8816868 CAAAAAGCCA
**
8816878 AAATGTATCGATACA-AAAC
1 AAATGTATCGATACATTTAC
**
8816897 AAATTGTATCGATACATTTGG
1 AAA-TGTATCGATACATTTAC
8816918 AAATGTATCGATACATTTAC
1 AAATGTATCGATACATTTAC
*
8816938 TAATGTATCGATA
1 AAATGTATCGATA
8816951 TAATTTTTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATTTAC
Found at i:8819979 original size:33 final size:33
Alignment explanation
Indices: 8819941--8820022 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
8819931 TTTAAATGTA
* * *
8819941 ATGACATATAATACCCTTATGTTATGCTTTATT
1 ATGACATATAATACCCTTATATTATGCTCTACT
* * * *
8819974 GTGACATATAACACTCTTGTATTATGCTCTACT
1 ATGACATATAATACCCTTATATTATGCTCTACT
*
8820007 ATGACACATAATACCC
1 ATGACATATAATACCC
8820023 CAATACTTTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (33 bp):
ATGACATATAATACCCTTATATTATGCTCTACT
Found at i:8821902 original size:29 final size:29
Alignment explanation
Indices: 8821869--8821928 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
8821859 TTATATCGAC
8821869 ATAACATTAATTCCAGCTTTCTCTCTCTT
1 ATAACATTAATTCCAGCTTTCTCTCTCTT
*
8821898 ATAACATTAATTCTAGCTTTCTCTCTCTT
1 ATAACATTAATTCCAGCTTTCTCTCTCTT
8821927 AT
1 AT
8821929 GTGCAATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (29 bp):
ATAACATTAATTCCAGCTTTCTCTCTCTT
Found at i:8823435 original size:13 final size:13
Alignment explanation
Indices: 8823417--8823441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8823407 ATATTGCTTA
8823417 GTATCGATACATT
1 GTATCGATACATT
8823430 GTATCGATACAT
1 GTATCGATACAT
8823442 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:8823465 original size:19 final size:19
Alignment explanation
Indices: 8823426--8823465 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8823416 AGTATCGATA
**
8823426 CATTGTATCGATACATGTT
1 CATTGTATCGATACACCTT
8823445 CATTGTATCGATACACCTT
1 CATTGTATCGATACACCTT
8823464 CA
1 CA
8823466 AATGTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACACCTT
Found at i:8824978 original size:3 final size:3
Alignment explanation
Indices: 8824970--8825000 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8824960 TCAACTATCA
*
8824970 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
8825001 AGTTGACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:8825042 original size:38 final size:40
Alignment explanation
Indices: 8824999--8825079 Score: 126
Period size: 44 Copynumber: 1.9 Consensus size: 40
8824989 TGATGATGAT
8824999 GAAGTTGACTTGGATGAAGAAATAGCTATGATGGCCAGAAA
1 GAAGTTGACTTGGATGAAGAAATAGCTATGATGGCCAG-AA
8825040 GTTGAAGTTGACTTGGATGAAGAAATAGCTATGATGGCCA
1 ---GAAGTTGACTTGGATGAAGAAATAGCTATGATGGCCA
8825080 AAAACTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.25
Consensus pattern (40 bp):
GAAGTTGACTTGGATGAAGAAATAGCTATGATGGCCAGAA
Found at i:8826185 original size:97 final size:97
Alignment explanation
Indices: 8826055--8826248 Score: 284
Period size: 97 Copynumber: 2.0 Consensus size: 97
8826045 TTATTTATCG
* * * * ** *
8826055 GGGATACTCCAACTCTATTCTTTCGAGGGGATACTCCAACC-CTTTTTTTAAATTCATCGAAATT
1 GGGATACTCCAACTCCATTCTTCCAAGGAGATACTCCAACCTC-GCTTTTAAACTCATCGAAATT
*
8826119 TAAATCTTATTTT-TGCTTGAATCATCATCATTA
65 TAAATCTTATTTTCT-CTTAAATCATCATCATTA
8826152 GGGATACTCCAACTCCATTCTTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTT
1 GGGATACTCCAACTCCATTCTTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTT
8826217 AAATCTTATTTTCTCTTAAATCATCATCATTA
66 AAATCTTATTTTCTCTTAAATCATCATCATTA
8826249 CGAACACCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
97 85 0.98
98 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (97 bp):
GGGATACTCCAACTCCATTCTTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTT
AAATCTTATTTTCTCTTAAATCATCATCATTA
Found at i:8826267 original size:97 final size:97
Alignment explanation
Indices: 8826060--8826284 Score: 260
Period size: 97 Copynumber: 2.3 Consensus size: 97
8826050 TATCGGGGAT
* * * * * ** *
8826060 ACTCCAACTCTATTCTTTCGAGGGGATACTCCAACC-CTTTTTTTAAATTCATCGAAATTTAAAT
1 ACTCCAACTCCATTCCTCCAAGGAGATACTCCAACCTC-GCTTTTAAACTCATCGAAATTTAAAT
* * * *
8826124 CTTATTTTTGCTTGAATCATCATCATTAGGGAT
65 CTTATTTTTGCTTAAATCATCATCATTACGAAC
*
8826157 ACTCCAACTCCATTCTTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTTAAATC
1 ACTCCAACTCCATTCCTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTTAAATC
8826222 TTATTTTCT-CTTAAATCATCATCATTACGAAC
66 TTATTTT-TGCTTAAATCATCATCATTACGAAC
*
8826254 AC-CCTAA-TCCCATTCCTCCAAGGGGATACTC
1 ACTCC-AACT-CCATTCCTCCAAGGAGATACTC
8826285 TAATCCCGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 3 0.03
97 106 0.95
98 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (97 bp):
ACTCCAACTCCATTCCTCCAAGGAGATACTCCAACCTCGCTTTTAAACTCATCGAAATTTAAATC
TTATTTTTGCTTAAATCATCATCATTACGAAC
Found at i:8830445 original size:21 final size:21
Alignment explanation
Indices: 8830394--8830445 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
8830384 ATATCATTTT
*
8830394 GGTCCAAATGTATCGATACAT
1 GGTCCAAATGTATCGATACAA
* *
8830415 TGT-TAGAATGTATCGATACAA
1 GGTCCA-AATGTATCGATACAA
*
8830436 GGTCCCAATG
1 GGTCCAAATG
8830446 GTCAAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (21 bp):
GGTCCAAATGTATCGATACAA
Found at i:8830509 original size:33 final size:33
Alignment explanation
Indices: 8830472--8830538 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8830462 TTCAGTGATT
8830472 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
8830505 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
8830538 T
1 T
8830539 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:8830510 original size:13 final size:13
Alignment explanation
Indices: 8830492--8830516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8830482 CATAAAATGT
8830492 TGTATCGATACAA
1 TGTATCGATACAA
8830505 TGTATCGATACA
1 TGTATCGATACA
8830517 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8830669 original size:52 final size:52
Alignment explanation
Indices: 8830613--8830737 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
8830603 CACTGATCTT
*
8830613 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
* *
8830665 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
*
8830717 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
8830738 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
Found at i:8835306 original size:52 final size:52
Alignment explanation
Indices: 8835165--8835293 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
8835155 CGAAATATGA
8835165 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
8835217 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
8835269 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
8835294 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:8835387 original size:13 final size:13
Alignment explanation
Indices: 8835365--8835422 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
8835355 GGCAGTAGCT
*
8835365 TTGTAGCGATACA
1 TTGTATCGATACA
8835378 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
8835394 CTTATGTATCGATACA
1 --T-TGTATCGATACA
8835410 TTGTATCGATACA
1 TTGTATCGATACA
8835423 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:8835403 original size:19 final size:19
Alignment explanation
Indices: 8835379--8835443 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
8835369 AGCGATACAT
8835379 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
8835398 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
8835411 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
8835430 TGTATCGATACAAA
1 TGTATCGATACAAA
8835444 TCGTTTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:8835412 original size:32 final size:32
Alignment explanation
Indices: 8835366--8835441 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
8835356 GCAGTAGCTT
*
8835366 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
8835398 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
8835430 TGTATCGATACA
1 TGTATCGATACA
8835442 AATCGTTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:8846450 original size:21 final size:21
Alignment explanation
Indices: 8846424--8846481 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
8846414 TTTTTATCCA
8846424 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
8846445 AATGTATTGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
8846466 AATGTATCGATACATT
1 AATGTATCGATACATT
8846482 CTACAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:8846490 original size:21 final size:20
Alignment explanation
Indices: 8846422--8846500 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
8846412 CATTTTTATC
*
8846422 CAAATGTATCGATACATTTG
1 CAAATGTATCGATACATTTA
* * *
8846442 TAGAATGTATTGATACATTTGT
1 CA-AATGTATCGATACATTT-A
**
8846464 GGAATGTATCGATACATTCTA
1 CAAATGTATCGATACATT-TA
*
8846485 CAAATGTACCGATACA
1 CAAATGTATCGATACA
8846501 GGGTCCCAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
CAAATGTATCGATACATTTA
Found at i:8846561 original size:19 final size:19
Alignment explanation
Indices: 8846537--8846587 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
8846527 TTTCAGCGAT
8846537 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
8846556 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
8846575 TTGTATCGATACA
1 TTGTATCGATACA
8846588 ATGTATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:8846657 original size:13 final size:13
Alignment explanation
Indices: 8846639--8846664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8846629 CATTATTCCA
8846639 TGTATCGATACAT
1 TGTATCGATACAT
8846652 TGTATCGATACAT
1 TGTATCGATACAT
8846665 GGATCTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8846680 original size:20 final size:20
Alignment explanation
Indices: 8846655--8846704 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
8846645 GATACATTGT
8846655 ATCGATACATGGATCTTTGA
1 ATCGATACATGGATCTTTGA
8846675 ATCGATACATGGATCTTTGA
1 ATCGATACATGGATCTTTGA
8846695 ATCGATACAT
1 ATCGATACAT
8846705 TTGGGAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
ATCGATACATGGATCTTTGA
Found at i:8849100 original size:51 final size:51
Alignment explanation
Indices: 8849038--8849475 Score: 297
Period size: 53 Copynumber: 8.4 Consensus size: 51
8849028 CAATTCTCTG
* *
8849038 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTC-A
* *
8849089 TAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTT-T-CAAAACACCAATTTTTCA
*
8849142 CAATCGCGGATACTCCAACTCCGATTTTA-TTTCAAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTC---AAAACACCAATTTTTCA
* * ** * * * *
8849195 CAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT-T
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTC---AAAACACCAA-----TT-TTTCA
* * * * * *** *
8849252 CGA--GGGGATACTCCAACCCCTACTTTATTCTT-AAAATATTGATTTCTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATT-TTCAAAACACCAATTTTTCA
* * * *
8849301 TAATCGGGGATACTCCAAC-CCTGGTTTTA-TTGCTAAAACACTAATTTTTCCA
1 CAATCGGGGATACTCCAACTCC-GATTTTATTTTC-AAAACACCAATTTTT-CA
* * * *
8849353 CAATCGGGGATACTCTAAC-CCTGGTTTTATTTTCAAAACACCAATTTTCCTT
1 CAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTTTC-A
*
8849405 TAATC-GGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAA-TTTTTCA
*
8849457 CAATCGAGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
8849476 CTCGTTATTT
Statistics
Matches: 302, Mismatches: 56, Indels: 56
0.73 0.14 0.14
Matches are distributed among these distances:
48 2 0.01
49 4 0.01
50 3 0.01
51 87 0.29
52 74 0.25
53 95 0.31
54 8 0.03
55 17 0.06
57 8 0.03
58 4 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCA
Found at i:8849267 original size:28 final size:27
Alignment explanation
Indices: 8849197--8849271 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
8849187 ATTTTTCACA
8849197 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
8849224 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
8849250 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
8849272 TACTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.52
28 17 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:8849380 original size:52 final size:51
Alignment explanation
Indices: 8849302--8849476 Score: 194
Period size: 52 Copynumber: 3.4 Consensus size: 51
8849292 GATTTCTCAT
*
8849302 AATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCTGGTTTTATT-CTAAAACACCAATTTTTCCAC
* * **
8849354 AATCGGGGATACTCTAACCCTGGTTTTATTTTCAAAACACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAACCCTGGTTTTATTCT-AAAACACCAATTTTTCC-AC
* * *
8849406 AATC-GGGATACTCCAACTCC-GATTTTATTTTCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAAC-CCTGGTTTTA--TTCTAAAACACCAATTTTTCCAC
*
8849458 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
8849477 TCGTTATTTC
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
51 25 0.24
52 59 0.57
53 19 0.18
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCTGGTTTTATTCTAAAACACCAATTTTTCCAC
Found at i:8849508 original size:263 final size:261
Alignment explanation
Indices: 8849039--8849584 Score: 762
Period size: 263 Copynumber: 2.1 Consensus size: 261
8849029 AATTCTCTGC
* * * *
8849039 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAAC-CCGATTTTATTCTCAAAACACTAATTTTCCACAATCGGGGATACTC
*
8849104 CAACTCCGATTTTATTTCTAAAAAACACCAATTTTTCACAATCGCGGATACTCCAACTCCGATTT
65 CAACTCCGATTTTATTTCTAAAAAACACCAATTTTCCACAATCGCGGATACTCCAACTCCGATTT
*
8849169 TATTTCAAAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATA
130 TATTTC-AAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATA
** * * **
8849234 CTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTACTTTATTCTTAAAATATTGATTTCT
194 CTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCT
8849299 CAT
259 CAT
*
8849302 AATCGGGGATACTCCAACCCTGGTTTTATTGCT-AAAACACTAATTTTTCCACAATCGGGGATAC
1 AATCGGGGATACTCCAACCC-GATTTTATT-CTCAAAACACTAA-TTTTCCACAATCGGGGATAC
* * * **
8849366 TCTAAC-CCTGGTTTTATTT-T-CAAAACACCAATTTTCCTTTAATCG-GGATACTCCAACTCCG
63 TCCAACTCC-GATTTTATTTCTAAAAAACACCAATTTTCC-ACAATCGCGGATACTCCAACTCCG
* *
8849427 ATTTTATTTTC-AAAAACACCAATTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCG
126 ATTTTA-TTTCAAAAAACACCAA-TTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCG
*
8849491 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
188 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTG
8849556 ATTTCTCAT
253 ATTTCTCAT
*
8849565 AATTGGGGATACTCCAACCC
1 AATCGGGGATACTCCAACCC
8849585 CGTTATTTCT
Statistics
Matches: 253, Mismatches: 22, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
261 11 0.04
262 70 0.28
263 139 0.55
264 33 0.13
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (261 bp):
AATCGGGGATACTCCAACCCGATTTTATTCTCAAAACACTAATTTTCCACAATCGGGGATACTCC
AACTCCGATTTTATTTCTAAAAAACACCAATTTTCCACAATCGCGGATACTCCAACTCCGATTTT
ATTTCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACT
CCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCA
T
Found at i:8851752 original size:20 final size:20
Alignment explanation
Indices: 8851727--8851803 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
8851717 TTTTACCCAG
*
8851727 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
8851747 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
8851767 ATGCATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
8851787 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
8851804 ATTTTTTACC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:8851758 original size:50 final size:50
Alignment explanation
Indices: 8851697--8851850 Score: 175
Period size: 50 Copynumber: 3.3 Consensus size: 50
8851687 TGAACAGTAC
*
8851697 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCAATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTTTTCA
* * * *
8851747 ATGTATTGATACA-TGTA-----T---GA-ATGCATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTTTTCA
*
8851787 ATGTATCGATACATTTTATTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTTTTCA
*
8851837 TTGTATCGATACAT
1 ATGTATCGATACAT
8851851 CTTGTTAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
40 30 0.36
41 4 0.05
44 1 0.01
46 1 0.01
49 4 0.05
50 44 0.52
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (50 bp):
ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:8854199 original size:97 final size:97
Alignment explanation
Indices: 8854029--8854260 Score: 306
Period size: 97 Copynumber: 2.4 Consensus size: 97
8854019 TATTTATTGA
* *
8854029 GGATACTCAAATCCCATTCTTCCGAGAGGATACTCCAATCCCGCTTTTAAACTCATCGAAATTTA
1 GGATACTCAAATCCCATTCTTCCGAGAGGATACGCCAACCCCGCTTTTAAACTCATCGAAATTTA
* *
8854094 AATTTTATTTTCGCTTGAATCATCATCATTAG
66 AATCTTATTTTCGCTTAAATCATCATCATTAG
** *
8854126 GGATACTCAAA-CTCCATTCTTTTGAGGGGATACGCCAACCCCGCTTTTAAACTCATCGAAATTT
1 GGATACTCAAATC-CCATTCTTCCGAGAGGATACGCCAACCCCGCTTTTAAACTCATCGAAATTT
*
8854190 AAATCTTATTTTCGCTTAAATCATTATCATTACG
65 AAATCTTATTTTCGCTTAAATCATCATCATTA-G
* * * * * *
8854224 GG-CACTCTAATCCCATTCCTCCAAGGGGATACTCCAA
1 GGATACTCAAATCCCATTCTTCCGAGAGGATACGCCAA
8854261 TCTCGTTTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
96 1 0.01
97 112 0.96
98 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (97 bp):
GGATACTCAAATCCCATTCTTCCGAGAGGATACGCCAACCCCGCTTTTAAACTCATCGAAATTTA
AATCTTATTTTCGCTTAAATCATCATCATTAG
Found at i:8856355 original size:20 final size:19
Alignment explanation
Indices: 8856332--8856404 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
8856322 CACCTTCAGA
*
8856332 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
8856352 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
** *
8856371 TGTATCGATACATGAACAAA
1 TGTATCGATACATGTTC-AT
8856391 TGTATCGATACATG
1 TGTATCGATACATG
8856405 AAATTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:8861886 original size:20 final size:20
Alignment explanation
Indices: 8861863--8861910 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8861853 TAATGAATTA
8861863 TATCGATACATTGTAAAATG
1 TATCGATACATTGTAAAATG
* **
8861883 TATCGATACATTTTACCATG
1 TATCGATACATTGTAAAATG
8861903 TATCGATA
1 TATCGATA
8861911 TAATGTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TATCGATACATTGTAAAATG
Found at i:8862010 original size:13 final size:13
Alignment explanation
Indices: 8861992--8862016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8861982 TACTAAGAAC
8861992 ATGTATCGATACA
1 ATGTATCGATACA
8862005 ATGTATCGATAC
1 ATGTATCGATAC
8862017 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8862016 original size:32 final size:33
Alignment explanation
Indices: 8861974--8862037 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
8861964 CTTTTCAAGG
*
8861974 TGTATTGATACTAAG-AACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
*
8862006 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
8862038 TTTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:8867950 original size:19 final size:19
Alignment explanation
Indices: 8867926--8867962 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8867916 CATGTATTGT
8867926 ACATGTATCGATACAATGA
1 ACATGTATCGATACAATGA
8867945 ACATGTATCGATACAATG
1 ACATGTATCGATACAATG
8867963 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
ACATGTATCGATACAATGA
Found at i:8867965 original size:13 final size:13
Alignment explanation
Indices: 8867947--8867973 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8867937 TACAATGAAC
8867947 ATGTATCGATACA
1 ATGTATCGATACA
8867960 ATGTATCGATACA
1 ATGTATCGATACA
8867973 A
1 A
8867974 AGCATAATGT
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:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8869660 original size:10 final size:10
Alignment explanation
Indices: 8869630--8869663 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8869620 TGAGGATCGA
*
8869630 TTTAAAAATA
1 TTTAAAAATC
8869640 TTTCAAAAATC
1 TTT-AAAAATC
8869651 TTTAAAAATC
1 TTTAAAAATC
8869661 TTT
1 TTT
8869664 TTCCTAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAAATC
Found at i:8871498 original size:20 final size:19
Alignment explanation
Indices: 8871473--8871546 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
8871463 TTTTAACTAG
8871473 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
8871493 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
8871513 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTG-AAA
8871533 ATGTATCGATACAT
1 ATGTATCGATACAT
8871547 CTAGGTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:8877739 original size:3 final size:3
Alignment explanation
Indices: 8877731--8877773 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
8877721 TCCGAGTCAA
*
8877731 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
8877774 TTTAATAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:8883124 original size:12 final size:12
Alignment explanation
Indices: 8883107--8883148 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8883097 TCAACAGGTG
8883107 GAGAAAAAAAGA
1 GAGAAAAAAAGA
*
8883119 GAGAAAAAAAAA
1 GAGAAAAAAAGA
* *
8883131 AAG-AAAATAGA
1 GAGAAAAAAAGA
8883142 GAGAAAA
1 GAGAAAA
8883149 TAGAAAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
GAGAAAAAAAGA
Found at i:8883142 original size:23 final size:25
Alignment explanation
Indices: 8883111--8883157 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
8883101 CAGGTGGAGA
8883111 AAAAAAGAGAGAAAA-A-AAAAAAG
1 AAAAAAGAGAGAAAATAGAAAAAAG
*
8883134 AAAATAGAGAGAAAATAGAAAAAA
1 AAAAAAGAGAGAAAATAGAAAAAA
8883158 CAAGCTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 1 0.05
25 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAAAGAGAGAAAATAGAAAAAAG
Found at i:8884298 original size:142 final size:142
Alignment explanation
Indices: 8884037--8884299 Score: 350
Period size: 142 Copynumber: 1.9 Consensus size: 142
8884027 CTTTTATCAC
8884037 TAAATAAAAATTATCATCTAAAATTTTCAAGACTTCTAATATTCCTATGGTTTTTCATAGGGGTA
1 TAAATAAAAATTATCATCTAAAATTTTCAAGACTTCTAATATTCCTATGGTTTTTCATAGGGGTA
** ***
8884102 TAAAAATCTTCAAAACTTTTCGTATCTTTTCAGTACTCTATTAAGATTGGAAATGAATTTTCTTA
66 TAAAAATCTTCAAAACTTTTCACATCTTTTCAGTACTCTATTAAGATACAAAATGAATTTTCTTA
8884167 AAAATTAAAAAT
131 AAAATTAAAAAT
* * * * * *
8884179 TAAATAAAAATTATTATCT-TAATTTCTCAAGATTTTTAATATTCTTATGGTTTTTCGTAGGGGT
1 TAAATAAAAATTATCATCTAAAATTT-TCAAGACTTCTAATATTCCTATGGTTTTTCATAGGGGT
* * * * *
8884243 ATAAAAATTTTTAAAACTTTTCACATCTTTTCGGTTCT-TCATTAAGGTACAAAATGA
65 ATAAAAATCTTCAAAACTTTTCACATCTTTTCAGTACTCT-ATTAAGATACAAAATGA
8884300 GACTTTTGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 6 0.06
142 97 0.94
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (142 bp):
TAAATAAAAATTATCATCTAAAATTTTCAAGACTTCTAATATTCCTATGGTTTTTCATAGGGGTA
TAAAAATCTTCAAAACTTTTCACATCTTTTCAGTACTCTATTAAGATACAAAATGAATTTTCTTA
AAAATTAAAAAT
Found at i:8890460 original size:15 final size:15
Alignment explanation
Indices: 8890440--8890470 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8890430 AATTCGTTTG
*
8890440 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
8890455 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
8890470 G
1 G
8890471 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:8892303 original size:21 final size:21
Alignment explanation
Indices: 8892274--8892318 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8892264 AAGTTTTCAT
*
8892274 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
8892294 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
8892316 TTT
1 TTT
8892319 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:8894562 original size:13 final size:13
Alignment explanation
Indices: 8894544--8894569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8894534 CAATTTTTTG
8894544 TGTATCGATACAT
1 TGTATCGATACAT
8894557 TGTATCGATACAT
1 TGTATCGATACAT
8894570 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8895991 original size:20 final size:21
Alignment explanation
Indices: 8895956--8896006 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
8895946 TTACAATTTG
*
8895956 TATCGATACAATAAGTTAATA
1 TATCGATACAATAAGTGAATA
* *
8895977 TATCGATGC-ATAAGTGAATG
1 TATCGATACAATAAGTGAATA
8895997 TATCGATACA
1 TATCGATACA
8896007 TGCTTGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (21 bp):
TATCGATACAATAAGTGAATA
Found at i:8896671 original size:13 final size:13
Alignment explanation
Indices: 8896653--8896677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8896643 CATAAAGTGT
8896653 TGTATCGATACAA
1 TGTATCGATACAA
8896666 TGTATCGATACA
1 TGTATCGATACA
8896678 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8896676 original size:33 final size:33
Alignment explanation
Indices: 8896633--8896699 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
8896623 TTCAACGATT
*
8896633 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
8896666 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
8896699 T
1 T
8896700 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:8898167 original size:14 final size:14
Alignment explanation
Indices: 8898143--8898170 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8898133 ACAAAAGTAA
8898143 AAAAAAAAAAGAGT
1 AAAAAAAAAAGAGT
8898157 AAAAAAAAAAGAGT
1 AAAAAAAAAAGAGT
8898171 GTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAAGAGT
Found at i:8898426 original size:1 final size:1
Alignment explanation
Indices: 8898406--8898507 Score: 60
Period size: 1 Copynumber: 102.0 Consensus size: 1
8898396 GTTCTTTTCC
* * * * * * * * * * *
8898406 AAAAAAGAAACAAAACAAAAAGAAACAAAACAAAAAGAAACAAAACAAAAAAGAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
8898471 AAAAAAGAAAAAAAAAGAGAAAAAGAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8898508 CAGAAAATCT
Statistics
Matches: 69, Mismatches: 32, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:8898427 original size:15 final size:15
Alignment explanation
Indices: 8898407--8898514 Score: 118
Period size: 15 Copynumber: 7.3 Consensus size: 15
8898397 TTCTTTTCCA
8898407 AAAAAGAAACAAAAC
1 AAAAAGAAACAAAAC
8898422 AAAAAGAAACAAAAC
1 AAAAAGAAACAAAAC
8898437 AAAAAGAAACAAAAC
1 AAAAAGAAACAAAAC
*
8898452 AAAAAAGAAAAAAAAAC
1 -AAAAAG-AAACAAAAC
*
8898469 AAAAA-AAAGAAAA-
1 AAAAAGAAACAAAAC
*
8898482 AAAAAGAGA-AAAA-
1 AAAAAGAAACAAAAC
*
8898495 GAAAA-AAACAAAAC
1 AAAAAGAAACAAAAC
8898509 AGAAAA
1 A-AAAA
8898515 TCTCAGTGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
12 2 0.02
13 17 0.21
14 9 0.11
15 34 0.42
16 11 0.14
17 8 0.10
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAGAAACAAAAC
Found at i:8898469 original size:37 final size:35
Alignment explanation
Indices: 8898406--8898514 Score: 107
Period size: 35 Copynumber: 3.0 Consensus size: 35
8898396 GTTCTTTTCC
* *
8898406 AAAAAAGAAACAAAACAAAAAGAAACAAAACAAAAAG
1 AAAAAA-AAAGAAAA-AAAAAAAAACAAAACAAAAAG
8898443 AAACAAAACAA-AAAAGAAAAAAAAAC-AAA-AAAAAG
1 AAA-AAAA-AAGAAAA-AAAAAAAAACAAAACAAAAAG
8898478 AAAAAAAAAGAGAAAAAGAAAAAAACAAAACAGAAAA
1 AAAAAAAAAGA-AAAAA-AAAAAAACAAAACA-AAAA
8898515 TCTCAGTGAG
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
33 2 0.03
34 7 0.11
35 20 0.32
36 6 0.10
37 18 0.29
38 9 0.15
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAGAAAAAAAAAAAAACAAAACAAAAAG
Found at i:8899412 original size:16 final size:17
Alignment explanation
Indices: 8899387--8899424 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
8899377 TTGTGCTGTA
* *
8899387 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
8899403 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
8899420 ATCAT
1 ATCAT
8899425 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:8899605 original size:34 final size:33
Alignment explanation
Indices: 8899562--8900195 Score: 454
Period size: 33 Copynumber: 18.9 Consensus size: 33
8899552 CTTTTCTGCA
* *
8899562 AAGCCCACAACTACGTGGCACTCTTTTCCCGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT-CCTTTT
*
8899596 AAGCCCACAACTCCGTGGCACTCCTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACT-CTTTTCCTTTT
*
8899630 AAGTCCACAACTCCGTGGCAC-C--TT-CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
8899659 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 --AAGCCCACAACTCCGTGGCACTC-TTTT-CCTTTT
* *
8899696 AAAGCCCAAAACTCCGTGGCACTCTTTTTCTTTTT
1 -AAGCCCACAACTCCGTGGCACTC-TTTTCCTTTT
* * *
8899731 ATGTCCACAACCCCGTGGCA-TCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
* *
8899764 AAGTCCACGACTCCGTGGCA-TCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
* *
8899797 AAGTCCACGACTCCGTGGCAC-C--TT-CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
* *
8899826 CAAAGCCCACAACTCTGTGGCACTTTTTTTTCCCTTTTT
1 --AAGCCCACAACTCCGTGGCAC--TCTTTT-CC-TTTT
* * *
8899865 AAGTCCACAACCCCATGGCA-TCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
* *
8899898 AAGTCCACGACTCCGTGGCA-TCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
* *
8899931 AAGTCCACGACTCCGTGGCAC-C--TT-CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
8899960 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 --AAGCCCACAACTCCGTGGCACTC-TTTT-CCTTTT
* * * *
8899997 AAAGTCTACAACCCCGTGGCAC-CTTGTTTCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
*
8900031 AAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTT-TTCCTTTT
* *
8900065 AAGTCCACGACTCCGTGGCAC-C--TT-CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
* *
8900094 CAAAGCCCACAACTCCGTGACACTATTTTTCCCTTTT
1 --AAGCCCACAACTCCGTGGCACT-CTTTT-CCTTTT
** *
8900131 AAAGTTCACAACCCCGTGGCACGT-TGTTT-CTTTT
1 -AAGCCCACAACTCCGTGGCAC-TCT-TTTCCTTTT
* * *
8900165 AAGTCCACAAC-CCGCGACACTCTTTTTCCTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTT
8900196 CTAAAAGCCC
Statistics
Matches: 506, Mismatches: 49, Indels: 91
0.78 0.08 0.14
Matches are distributed among these distances:
29 19 0.04
30 8 0.02
31 76 0.15
32 15 0.03
33 150 0.30
34 109 0.22
35 22 0.04
36 70 0.14
37 32 0.06
38 1 0.00
39 4 0.01
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
Found at i:8899737 original size:101 final size:100
Alignment explanation
Indices: 8899560--8900152 Score: 496
Period size: 101 Copynumber: 5.9 Consensus size: 100
8899550 TCCTTTTCTG
* * * *
8899560 CAAAGCCCACAACTACGTGGCACTC-TTTTCCCGTTTAAGCCCACAACTCCGTGGCACTCCTTTT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* *
8899624 CCTTCTAAGTCCACAACTCCGTGGCACCTTCTTTT
66 CTTTTTAAGTCCACAACTCCGTGGCACCTTCTTTT
* *
8899659 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCAAAACTCCGTGGCACTCTTTT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCACTCTTTT
* * * *
8899724 TCTTTTTATGTCCACAACCCCGTGGCATCTTGTTCCTT
65 TCTTTTTAAGTCCACAACTCCGTGGCACCTTCTT--TT
** * * * *
8899762 TTAAGTCCACGACTCCGTGGCA-TCTTGTT-CCTTTTAAGTCCACGACTCCGTGGCAC-C---TT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * * * *
8899821 CTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTTT
66 CTTTT-TAAGTCCACAACTCCGTGGCACCTTCTTTT
* * * * * *
8899857 CCCTTTTTAAGTCCACAACCCCATGGCA-TCTTGTT-CCTTTTAAGTCCACGACTCCGTGGCA-T
1 --C----AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACT
* * *
8899919 CTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
60 CTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTCTTTT
* *
8899960 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCTACAACCCCGTGGCAC-CTTGT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCACTCTT-T
* *
8900024 TTCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTT
64 TTCTTTTTAAGTCCACAACTCCGTGGCACCTTCTT--TT
** * * * ** * * *
8900063 TTAAGTCCACGACTCCGTGGCAC-CTTCTT---TTCAAAGCCCACAACTCCGTGACACTATTTTT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * *
8900124 CCCTTTTAAAGTTCACAACCCCGTGGCAC
66 --CTTTTTAAGTCCACAACTCCGTGGCAC
8900153 GTTGTTTCTT
Statistics
Matches: 405, Mismatches: 64, Indels: 49
0.78 0.12 0.09
Matches are distributed among these distances:
95 2 0.00
96 7 0.02
97 37 0.09
98 26 0.06
99 35 0.09
100 73 0.18
101 143 0.35
102 11 0.03
103 65 0.16
104 6 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (100 bp):
CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
CTTTTTAAGTCCACAACTCCGTGGCACCTTCTTTT
Found at i:8899863 original size:134 final size:133
Alignment explanation
Indices: 8899530--8900175 Score: 826
Period size: 134 Copynumber: 4.8 Consensus size: 133
8899520 TACCTTCTTA
** * *
8899530 AAGTCCACGACTTAGTGGCATCCTT-TTCTGCAAAGCCCACAACTACGTGGCACTC-TTTTCCC-
1 AAGTCCACGACTCCGTGGCA-CCTTCTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
* * * * *
8899592 GTTTAAGCCCACAACTCCGTGGCACTCCTT-TTCCTTCTAAGTCCACAACTCCGTGGCACCTTCT
64 TTTTAAGTCCACAACCCCGTGGCA-T-CTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGT
**
8899656 T--TTCA
127 TCCTTTT
* * *
8899661 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCAAAACTCCGTGGCACTCTTTTT
1 AAGTCCACGACTCCGTGGCAC-C---TT--CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
8899725 --CTTTTTATGTCCACAACCCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTT
60 CCCTTTTTAAGTCCACAACCCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
8899788 GTTCCTTTT
125 GTTCCTTTT
* *
8899797 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTTTCCCTT
1 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-TCTTTTTCCCTT
* * *
8899862 TTTAAGTCCACAACCCCATGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTTCC
65 TTTAAGTCCACAACCCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
8899927 TTTT
130 TTTT
8899931 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * *
8899996 TAAAGTCTACAACCCCGTGGCACCTTGTTTCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCC
66 TTAAGTCCACAACCCCGTGGCATCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTGTTCC
8900061 TTTT
130 TTTT
* *
8900065 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGACACTATTTTTCCCTTT
1 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * *
8900130 TAAAGTTCACAACCCCGTGGCA-CGTTGTTTCTTTTAAGTCCACAAC
66 TTAAGTCCACAACCCCGTGGCATC-TTGTTCCTTTTAAGTCCACAAC
8900176 CCGCGACACT
Statistics
Matches: 460, Mismatches: 37, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
130 6 0.01
131 37 0.08
132 8 0.02
133 57 0.12
134 281 0.61
135 43 0.09
136 26 0.06
137 2 0.00
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (133 bp):
AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
TTAAGTCCACAACCCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
TTT
Found at i:8899916 original size:167 final size:165
Alignment explanation
Indices: 8899566--8900084 Score: 618
Period size: 167 Copynumber: 3.1 Consensus size: 165
8899556 TCTGCAAAGC
* * * *
8899566 CCACAACTACGTGGCACTCTT-TTCCCGTTTAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCT
1 CCACAACTCCGTGGCA-TCTTGTT-CCTTTTAAGTCCACGACTCCGTGGCA-T-CTTTTCCTTCT
*
8899630 AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
62 AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTTCCCTTT
* * * * *
8899695 TAAAGCCCAAAACTCCGTGGCACTCTTTTTCTTTTTATGT
127 TAAAGTCCACAACTCCGTGGCA-TCTTGTTCCTTTTAAGT
* *
8899735 CCACAACCCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTTCCTTTTAAG
1 CCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTT-TTCCTTCTAAG
* * *
8899800 TCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTTTCCCTTTTT
65 TCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTTTCCCTTTTA
* *
8899865 AAGTCCACAACCCCATGGCATCTTGTTCCTTTTAAGT
129 AAGTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGT
* * *
8899902 CCACGACTCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTT--TTCAAAG
1 CCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTT-TTCCTTCTAAG
* * * * * *
8899965 CCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGTCTACAACCCCGTGGCACCTTGTTT--C
65 TCCACAACTCCGTGGCAC-C---TT--CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTTCCC
*
8900027 TTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
124 TTTTAAAGTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGT
*
8900069 CCACGACTCCGTGGCA
1 CCACAACTCCGTGGCA
8900085 CCTTCTTTTC
Statistics
Matches: 306, Mismatches: 35, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
165 21 0.07
166 4 0.01
167 179 0.58
168 56 0.18
169 23 0.08
170 18 0.06
171 5 0.02
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (165 bp):
CCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTTTTCCTTCTAAGT
CCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTTCCCTTTTAAA
GTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGT
Found at i:8900177 original size:167 final size:165
Alignment explanation
Indices: 8899593--8900152 Score: 596
Period size: 167 Copynumber: 3.4 Consensus size: 165
8899583 TCTTTTCCCG
* *
8899593 TTTAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTCTTT
1 TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTT
* * * *
8899658 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCAAAACTCCGTGGCACTCTTT
66 TCAAAGCCCACAACCCCGTGGCACTCTTTTT-CCTTTTAAAGTCCACAACTCCGTGGCAC-CTTG
* * * *
8899723 TTCTTTTTATGTCCACAACCCCGTGGCATCTTGTTCCT
129 TTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTT-CT
* * * *
8899761 TTTAAGTCCACGACTCCGTGGCA-TCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
1 TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTT
* * * * * * *
8899825 TCAAAGCCCACAACTCTGTGGCACTTTTTTTTCCCTTTTTAAGTCCACAACCCCATGGCATCTTG
66 TCAAAGCCCACAACCCCGTGGCAC-TCTTTTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTTG
8899890 TTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTTCCT
129 TTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTT-CT
* * * ** *
8899928 TTTAAGTCCACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C---TT
* *
8899990 CCCTTTT-AAAGTCTACAACCCCGTGGCAC-CTTGTTT-CTTTTAAAGTCCACAACTCCGTGGCA
62 --CTTTTCAAAGCCCACAACCCCGTGGCACTCTT-TTTCCTTTTAAAGTCCACAACTCCGTGGCA
* *
8900052 CCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTT-T
124 CCTTGTTCCTTTTAAGTCCACGACTCCGTGGCATCTTGTTCT
** * * * *
8900093 TCAAAGCCCACAACTCCGTGACACTATTTTTCCCTTTTAAAGTTCACAACCCCGTGGCAC
1 TTTAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAGTCCACAACTCCGTGGCAC
8900153 GTTGTTTCTT
Statistics
Matches: 331, Mismatches: 47, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
165 41 0.12
166 5 0.02
167 185 0.56
168 52 0.16
169 7 0.02
170 36 0.11
171 5 0.02
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (165 bp):
TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTT
TCAAAGCCCACAACCCCGTGGCACTCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
CCTTTTAAGTCCACGACTCCGTGGCATCTTGTTCT
Found at i:8900235 original size:32 final size:31
Alignment explanation
Indices: 8900199--8900300 Score: 152
Period size: 32 Copynumber: 3.3 Consensus size: 31
8900189 TTTCCTTCTA
8900199 AAAGCCCACACAAGTTGGTGGCAACCTCTTCC
1 AAAGCCCACACAAGTTGGTGGCAACC-CTTCC
* *
8900231 AAAGCCCACACAAGTTGGTGGTAACCCTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCCT-TCC
8900263 AAAGCCCACACAAGTTGGTGGCAACCCTT-C
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCC
*
8900293 TAAGCCCA
1 AAAGCCCA
8900301 ATATCGTTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 7 0.11
31 3 0.05
32 54 0.84
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTCC
Found at i:8900408 original size:43 final size:43
Alignment explanation
Indices: 8900342--8900989 Score: 533
Period size: 43 Copynumber: 14.0 Consensus size: 43
8900332 CCTTCATCTT
* *
8900342 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
* *
8900385 CAAGCCCAATATCGCTGGCCTTGAATCAGC-CTATTGGCATCTTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCAC-ATTGGCA-C--C-TC
* * *
8900432 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
*
8900477 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * * *
8900524 TTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
* * *
8900569 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTATATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTC
* *
8900618 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
* *
8900661 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA------CC-TC
* *
8900711 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTC
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
* * *
8900756 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * * *
8900803 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
*
8900848 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * * *
8900895 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCGAATCAGCACATTGGCACCTT
1 --TAAGTCCAATATCGCTGGCC-T---T----GAATCAGCACATTGGCACCTC
* * *
8900948 TAAGTCCAATATAGCTGGCCTCGAATCAGCATATTGGCACCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
8900990 TTTCCATCTT
Statistics
Matches: 499, Mismatches: 57, Indels: 98
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.00
43 231 0.46
44 5 0.01
45 5 0.01
46 9 0.02
47 6 0.01
48 4 0.01
49 159 0.32
50 4 0.01
51 18 0.04
52 37 0.07
53 2 0.00
54 1 0.00
56 1 0.00
57 16 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC
Found at i:8900451 original size:92 final size:92
Alignment explanation
Indices: 8900288--8901034 Score: 1109
Period size: 92 Copynumber: 8.0 Consensus size: 92
8900278 TGGTGGCAAC
* * *
8900288 CCTTCTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
8900353 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
** * *
8900381 CCTCCAAGCCCAATATCGCTGGCCTTGAATCAGCCTATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
8900446 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
8900473 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
8900538 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
8900565 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTAT-ATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT-TCATCTTTAAGTCCAATG
*
8900629 TCGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
8900657 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
8900722 TGTAGCTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
** *
8900752 CCTCCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
* * *
8900817 CGTTGGCCTTGAATCAGCACATTAGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
8900844 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
8900909 AGCTGACCTTGAATCAGCGAATCAGCACATTGGCA
66 AGCTGGCC-T---T----GAATCAGCACATTGGCA
* * * *
8900944 CCTTTAAGTCCAATATAGCTGGCCTCGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
8901009 TGTAGCTGGCCTTGAATCAGCACATT
63 TGTAGCTGGCCTTGAATCAGCACATT
8901035 AACATCCTTT
Statistics
Matches: 596, Mismatches: 42, Indels: 30
0.89 0.06 0.04
Matches are distributed among these distances:
92 405 0.68
93 9 0.02
94 2 0.00
95 95 0.16
96 1 0.00
99 1 0.00
100 57 0.10
102 3 0.01
103 23 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:8900974 original size:51 final size:50
Alignment explanation
Indices: 8900827--8901029 Score: 187
Period size: 51 Copynumber: 4.0 Consensus size: 50
8900817 CGTTGGCCTT
*
8900827 GAATCAGCACATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 GAATCAGCACATT-GCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
** * ** * *
8900878 -ATATTGGCACCTT-CTTCTTTAAGTCCAATGTAGCTGACCTTGAATCAGC
1 GA-ATCAGCACATTGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
*
8900927 GAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTCGAATCAGC
1 GAATCAGCACATT-GCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
** * * * * *
8900978 -ATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGC
1 GA-ATCAGCA-C-ATTGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
8901030 ACATTAACAT
Statistics
Matches: 121, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
49 39 0.32
50 3 0.02
51 44 0.36
52 33 0.27
53 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (50 bp):
GAATCAGCACATTGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
Found at i:8901074 original size:55 final size:52
Alignment explanation
Indices: 8900845--8901082 Score: 198
Period size: 52 Copynumber: 4.6 Consensus size: 52
8900835 ACATTAGCAC
* * ** *
8900845 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAACACCTTTTCCAT
* * * * * ** *
8900894 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCGA-ATCAGCA-CATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGC-ACATTAACACCTTTTCCAT
* * **
8900945 CTTTAAGTCCAATATAGCTGGCCTCGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAACACCTTTTCCAT
* *
8900997 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTAACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAACA-CC-TTTTC-CAT
* * * *
8901052 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
8901083 ACATATTGGC
Statistics
Matches: 151, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.23
50 3 0.02
51 36 0.24
52 41 0.27
53 2 0.01
54 5 0.03
55 28 0.19
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAACACCTTTTCCAT
Found at i:8901156 original size:67 final size:68
Alignment explanation
Indices: 8901048--8901174 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
8901038 ATCCTTTTTC
* * *
8901048 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
8901112 TCT
66 TCT
* * * *
8901115 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
8901175 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:8902010 original size:33 final size:33
Alignment explanation
Indices: 8901968--8902032 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
8901958 CAACGATTTG
8901968 TATCGATACATAAAGTGTTGTATCGATACAATA
1 TATCGATACATAAAGTGTTGTATCGATACAATA
*** *
8902001 TATCGATACATATTTTTTTGTATCGATACAAT
1 TATCGATACATAAAGTGTTGTATCGATACAAT
8902033 TTAAGCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATA
Found at i:8902091 original size:13 final size:13
Alignment explanation
Indices: 8902073--8902097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8902063 ATTACTCAAA
8902073 TGTATCGATACAT
1 TGTATCGATACAT
8902086 TGTATCGATACA
1 TGTATCGATACA
8902098 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8902162 original size:52 final size:52
Alignment explanation
Indices: 8902106--8902234 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
8902096 CACTGATCTT
8902106 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
* * *
8902158 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
*
8902210 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGAAAATTT
8902235 TCATATTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
Done.