Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 185 of 221
Found at i:54894478 original size:20 final size:19
Alignment explanation
Indices: 54894440--54894504 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
54894430 CTTTTTTTTT
*
54894440 CATTTCATTT-A-CATTTC
1 CATTTCATTTAATTATTTC
*
54894457 CATTTCATTTAATTTTTTTC
1 CATTTCATTTAA-TTATTTC
*
54894477 CATTTATATTTAATTATTTC
1 CATTT-CATTTAATTATTTC
54894497 TCATTTCA
1 -CATTTCA
54894505 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.26
18 1 0.03
20 16 0.42
21 11 0.29
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (19 bp):
CATTTCATTTAATTATTTC
Found at i:54894508 original size:21 final size:21
Alignment explanation
Indices: 54894452--54894508 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
54894442 TTTCATTTAC
54894452 ATTTC-CATTTC-ATTTAATT
1 ATTTCTCATTTCAATTTAATT
*
54894471 -TTTTTCCATTT-ATATTTAATT
1 ATTTCT-CATTTCA-ATTTAATT
54894492 ATTTCTCATTTCAATTT
1 ATTTCTCATTTCAATTT
54894509 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 3 0.10
20 5 0.17
21 17 0.57
22 5 0.17
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTCTCATTTCAATTTAATT
Found at i:54894536 original size:35 final size:36
Alignment explanation
Indices: 54894459--54894543 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 36
54894449 TACATTTCCA
54894459 TTTCATTT-AA-TTTTTTTCCATTTATATTTAATTAT
1 TTTCATTTCAATTTTTTTTCCATTTATATTT-ATTAT
* *
54894494 TTCTCATTTCAATTTTTTTTTCATTT-TAGTTT-TTGT
1 TT-TCATTTCAATTTTTTTTCCATTTATA-TTTATTAT
54894530 TTTCATTTCAATTT
1 TTTCATTTCAATTT
54894544 ATAATTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 14 0.32
36 11 0.25
37 4 0.09
38 15 0.34
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (36 bp):
TTTCATTTCAATTTTTTTTCCATTTATATTTATTAT
Found at i:54894594 original size:5 final size:5
Alignment explanation
Indices: 54894565--54894651 Score: 61
Period size: 5 Copynumber: 16.4 Consensus size: 5
54894555 TCATTTAAAC
* * *
54894565 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTCA TATTCA TTACAAA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTTC--A
*
54894612 TTACA TTTCA TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
54894652 AATTTTTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.04
5 42 0.62
6 13 0.19
7 10 0.15
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:54894595 original size:19 final size:19
Alignment explanation
Indices: 54894567--54894605 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
54894557 ATTTAAACTT
54894567 TCATTCCATTTCATAATCA
1 TCATTCCATTTCATAATCA
* *
54894586 TCATTTCATTTCATATTCA
1 TCATTCCATTTCATAATCA
54894605 T
1 T
54894606 TACAAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTCCATTTCATAATCA
Found at i:54894619 original size:23 final size:22
Alignment explanation
Indices: 54894592--54894652 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
54894582 ATCATCATTT
54894592 CATTTCATATTCATTACAAATT-A
1 CATTTCAT-TTCATTAC-AATTAA
* *
54894615 CATTTCATTTCATATTCATTTAA
1 CATTTCATTTCAT-TACAATTAA
54894638 CATTTCATTTCATTA
1 CATTTCATTTCATTA
54894653 ATTTTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 9 0.27
23 24 0.73
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (22 bp):
CATTTCATTTCATTACAATTAA
Found at i:54894620 original size:28 final size:28
Alignment explanation
Indices: 54894587--54894651 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
54894577 TCATAATCAT
54894587 CATTTCATTTCATATTCA-TTACAAATTA
1 CATTTCATTTCATATTCATTTA-AAATTA
* *
54894615 CATTTCATTTCATATTCATTTAACATTT
1 CATTTCATTTCATATTCATTTAAAATTA
54894643 CATTTCATT
1 CATTTCATT
54894652 AATTTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (28 bp):
CATTTCATTTCATATTCATTTAAAATTA
Found at i:54894646 original size:12 final size:11
Alignment explanation
Indices: 54894586--54894651 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
54894576 TTCATAATCA
54894586 TCATTT-CATT
1 TCATTTACATT
54894596 TCATATT-CATT
1 TCAT-TTACATT
* *
54894607 ACAAATTACATT
1 TC-ATTTACATT
54894619 TCATTT-CATAT
1 TCATTTACAT-T
54894630 TCATTTAACATT
1 TCATTT-ACATT
54894642 TCATTT-CATT
1 TCATTTACATT
54894652 AATTTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
10 11 0.24
11 19 0.41
12 13 0.28
13 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATTTACATT
Found at i:54895012 original size:29 final size:29
Alignment explanation
Indices: 54894978--54895044 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
54894968 CCTAGGCACT
* * *
54894978 AGGCCTGTTGGTGCCGACCACTGATTCCC
1 AGGCCTGCTAGTGCCGACAACTGATTCCC
* * *
54895007 AGGCCTACTAGTGCTGACAACTTATTCCC
1 AGGCCTGCTAGTGCCGACAACTGATTCCC
54895036 AGGCCTGCT
1 AGGCCTGCT
54895045 GCAATGTCCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (29 bp):
AGGCCTGCTAGTGCCGACAACTGATTCCC
Found at i:54895080 original size:5 final size:5
Alignment explanation
Indices: 54895072--54895208 Score: 105
Period size: 5 Copynumber: 25.6 Consensus size: 5
54895062 TTCTTTTTTT
* * * *
54895072 TTTCA TTTCA TTTTTA TTTCCA TTTCA TTTTA TTTC- TTCCA TTTCA TTCCA
1 TTTCA TTTCA -TTTCA TTT-CA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * *
54895123 TTTGTA TTTCCA TTTCA TTTCA TTTCCA TTTCA TTCCA TTTGTA TTTCCA
1 TTT-CA TTT-CA TTTCA TTTCA TTT-CA TTTCA TTTCA TTT-CA TTT-CA
*
54895173 TTTCA TTTCA TTTCCA TTTCCA TTTTCA TTTTA TTT
1 TTTCA TTTCA TTT-CA TTT-CA -TTTCA TTTCA TTT
54895209 AAATTATTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
4 3 0.03
5 62 0.58
6 39 0.36
7 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.01, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:54895085 original size:16 final size:16
Alignment explanation
Indices: 54895061--54895119 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
54895051 TCCTTTCATC
*
54895061 TTTCTTTTTTTTTTCA
1 TTTCATTTTTTTTTCA
*
54895077 TTTCATTTTTATTTCCA
1 TTTCATTTTT-TTTTCA
54895094 TTTCATTTTATTTCTTCCA
1 TTTCATTTT-TTT-TT-CA
54895113 TTTCATT
1 TTTCATT
54895120 CCATTTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.25
17 16 0.44
18 2 0.06
19 9 0.25
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTCATTTTTTTTTCA
Found at i:54895099 original size:22 final size:22
Alignment explanation
Indices: 54895072--54895208 Score: 130
Period size: 22 Copynumber: 6.6 Consensus size: 22
54895062 TTCTTTTTTT
*
54895072 TTTCATTTCATTTTTATTTCCA
1 TTTCATTTCATTTGTATTTCCA
* *
54895094 TTTCATTTTA-TT-T-CTTCCA
1 TTTCATTTCATTTGTATTTCCA
*
54895113 TTTCATTCCATTTGTATTTCCA
1 TTTCATTTCATTTGTATTTCCA
54895135 TTTCATTTC------ATTTCCA
1 TTTCATTTCATTTGTATTTCCA
*
54895151 TTTCATTCCATTTGTATTTCCA
1 TTTCATTTCATTTGTATTTCCA
**
54895173 TTTCATTTCATTTCCATTTCCA
1 TTTCATTTCATTTGTATTTCCA
*
54895195 TTTTCATTTTATTT
1 -TTTCATTTCATTT
54895209 AAATTATTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
16 15 0.16
19 13 0.14
20 3 0.03
21 3 0.03
22 48 0.51
23 12 0.13
ACGTcount: A:0.18, C:0.21, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTCATTTCATTTGTATTTCCA
Found at i:54895159 original size:38 final size:38
Alignment explanation
Indices: 54895072--54895192 Score: 188
Period size: 38 Copynumber: 3.1 Consensus size: 38
54895062 TTCTTTTTTT
* * *
54895072 TTTCATTTCATTTTTATTTCCATTTCATTTTATTTCTTCCA
1 TTTCATTCCATTTGTATTTCCATTTCATTTCA--T-TTCCA
54895113 TTTCATTCCATTTGTATTTCCATTTCATTTCATTTCCA
1 TTTCATTCCATTTGTATTTCCATTTCATTTCATTTCCA
54895151 TTTCATTCCATTTGTATTTCCATTTCATTTCATTTCCA
1 TTTCATTCCATTTGTATTTCCATTTCATTTCATTTCCA
54895189 TTTC
1 TTTC
54895193 CATTTTCATT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
38 47 0.61
39 1 0.01
41 29 0.38
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (38 bp):
TTTCATTCCATTTGTATTTCCATTTCATTTCATTTCCA
Found at i:54895204 original size:6 final size:6
Alignment explanation
Indices: 54895071--54895208 Score: 52
Period size: 6 Copynumber: 24.5 Consensus size: 6
54895061 TTTCTTTTTT
* *
54895071 TTTTCA -TTTCA TTTTTA TTTCCA -TTTCA TTTT-A TTTCTTCCA -TTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA -TT-TT-CA TTTTCA
* * * *
54895118 -TTCCA TTTGT-A TTTCCA -TTTCA -TTTCA TTTCCA -TTTCA -TTCCA
1 TTTTCA TTT-TCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
* * *
54895161 TTTGT-A TTTCCA -TTTCA -TTTCA TTTCCA TTTCCA TTTTCA TTTT-A
1 TTT-TCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
54895206 TTT
1 TTT
54895209 AAATTATTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
5 46 0.45
6 52 0.51
7 3 0.03
9 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.01, T:0.60
Consensus pattern (6 bp):
TTTTCA
Found at i:54895255 original size:26 final size:26
Alignment explanation
Indices: 54895223--54895441 Score: 118
Period size: 26 Copynumber: 9.0 Consensus size: 26
54895213 TATTTTTTCC
54895223 CATTTAAATTTATTTTTTTCTCATTT
1 CATTTAAATTTATTTTTTTCTCATTT
*
54895249 CATTTAAA-TTATATTTCTTC-C----
1 CATTTAAATTTAT-TTTTTTCTCATTT
* *
54895270 CATTTTAATTAATTTTTTTCTCATTT
1 CATTTAAATTTATTTTTTTCTCATTT
*
54895296 CATTTAAA-TTATCTTTTT-TC----
1 CATTTAAATTTATTTTTTTCTCATTT
*
54895316 CATTTAATTTTATTTTTTTCTCATTT
1 CATTTAAATTTATTTTTTTCTCATTT
* ** *
54895342 CGTTTAAATTGCCTTTCTTTC-CA--T
1 CATTTAAATT-TATTTTTTTCTCATTT
*
54895366 --TTT-AATTTATTTTTTTCTTATTT
1 CATTTAAATTTATTTTTTTCTCATTT
* * * *
54895389 TATTTAAATTTAATATTATTCTCTTTT
1 CATTTAAATTT-ATTTTTTTCTCATTT
*
54895416 CTTTTAAA-TTATCTTTCTTTC-CATTT
1 CATTTAAATTTAT-TTT-TTTCTCATTT
54895442 TAATTTACGT
Statistics
Matches: 143, Mismatches: 27, Indels: 46
0.66 0.12 0.21
Matches are distributed among these distances:
20 14 0.10
21 27 0.19
22 9 0.06
23 1 0.01
24 3 0.02
25 18 0.13
26 44 0.31
27 27 0.19
ACGTcount: A:0.22, C:0.14, G:0.01, T:0.63
Consensus pattern (26 bp):
CATTTAAATTTATTTTTTTCTCATTT
Found at i:54895331 original size:46 final size:47
Alignment explanation
Indices: 54895198--54895398 Score: 266
Period size: 47 Copynumber: 4.3 Consensus size: 47
54895188 ATTTCCATTT
* *
54895198 TCATTTTATTTAAATTAT-TTT-TTCCCATTTAAATTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTATTTTTTTC
* *
54895243 TCATTTCATTTAAATTATATTTCTTCCCATTTTAATTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTATTTTTTTC
*
54895290 TCATTTCATTTAAATTATCTTT-TTTCCA-TTTAATTTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAA-TTTATTTTTTTC
* ** *
54895336 TCATTTCGTTTAAATTGCCTTTCTTTCCATTTTAATTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTATTTTTTTC
* *
54895383 TTATTTTATTTAAATT
1 TCATTTCATTTAAATT
54895399 TAATATTATT
Statistics
Matches: 139, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 22 0.16
46 38 0.27
47 74 0.53
48 5 0.04
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.63
Consensus pattern (47 bp):
TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTATTTTTTTC
Found at i:54895338 original size:93 final size:92
Alignment explanation
Indices: 54895198--54895398 Score: 303
Period size: 93 Copynumber: 2.2 Consensus size: 92
54895188 ATTTCCATTT
*
54895198 TCATTTTATTTAAATTATTTTTTCCCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTATAT
1 TCATTTTATTTAAATTATTTTTTCCCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTACAT
54895263 TTCTTCCCATTTTAATTAATTTTTTTC
66 TTCTTCCCATTTTAATTAATTTTTTTC
* * * * * *
54895290 TCATTTCATTTAAATTATCTTTTTTCCATTTAATTTTATTTTTTTCTCATTTCGTTTAAATTGCC
1 TCATTTTATTTAAATTAT-TTTTTCCCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTACA
* *
54895355 TTTCTTTCCATTTTAATTTATTTTTTTC
65 TTTCTTCCCATTTTAATTAATTTTTTTC
*
54895383 TTATTTTATTTAAATT
1 TCATTTTATTTAAATT
54895399 TAATATTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 17 0.18
93 80 0.82
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.63
Consensus pattern (92 bp):
TCATTTTATTTAAATTATTTTTTCCCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTACAT
TTCTTCCCATTTTAATTAATTTTTTTC
Found at i:54895421 original size:21 final size:23
Alignment explanation
Indices: 54895397--54895445 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
54895387 TTTATTTAAA
*
54895397 TTTAATATTAT-TCTCTTTTC-T
1 TTTAATATTATCTCTCTTTCCAT
*
54895418 TTTAA-ATTATCTTTCTTTCCAT
1 TTTAATATTATCTCTCTTTCCAT
54895440 TTTAAT
1 TTTAAT
54895446 TTACGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTAATATTATCTCTCTTTCCAT
Found at i:54895571 original size:15 final size:16
Alignment explanation
Indices: 54895553--54895593 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
54895543 AGTAATCTCA
54895553 TTTCAAATT-ATCTTT
1 TTTCAAATTCATCTTT
*
54895568 TTTC-AATTCATTTTT
1 TTTCAAATTCATCTTT
54895583 TTTC-AATTCAT
1 TTTCAAATTCAT
54895594 TTAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCAAATTCATCTTT
Found at i:54895594 original size:15 final size:15
Alignment explanation
Indices: 54895565--54895595 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
54895555 TCAAATTATC
54895565 TTTTTTCAATTCATT
1 TTTTTTCAATTCATT
54895580 TTTTTTCAATTCATT
1 TTTTTTCAATTCATT
54895595 T
1 T
54895596 AATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTCAATTCATT
Found at i:54895892 original size:5 final size:5
Alignment explanation
Indices: 54895882--54895953 Score: 56
Period size: 5 Copynumber: 13.6 Consensus size: 5
54895872 TTCTTCTTTT
* * *
54895882 TTTCA TTTCA TTTC- TTCCA TTTCA TTCCA TTTGTA TTTCCA TTTCA TTTCCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTT-CA
*
54895934 TTTTCA TGTCCA TTTCA TTT
1 -TTTCA T-TTCA TTTCA TTT
54895954 AAATTATCTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.06
5 31 0.58
6 16 0.30
7 3 0.06
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:54895923 original size:12 final size:11
Alignment explanation
Indices: 54895882--54895953 Score: 80
Period size: 12 Copynumber: 6.7 Consensus size: 11
54895872 TTCTTCTTTT
54895882 TTTCATTT-CA
1 TTTCATTTCCA
54895892 TTTC--TTCCA
1 TTTCATTTCCA
54895901 TTTCA-TTCCA
1 TTTCATTTCCA
*
54895911 TTTGTATTTCCA
1 TTT-CATTTCCA
54895923 TTTCATTTCCA
1 TTTCATTTCCA
*
54895934 TTTTCATGTCCA
1 -TTTCATTTCCA
54895946 TTTCATTT
1 TTTCATTT
54895954 AAATTATCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 2 0.04
9 6 0.11
10 12 0.23
11 15 0.28
12 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.57
Consensus pattern (11 bp):
TTTCATTTCCA
Found at i:54895925 original size:6 final size:6
Alignment explanation
Indices: 54895896--54895953 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
54895886 ATTTCATTTC
** *
54895896 TTCCAT TT-CA- TTCCAT TTGTAT TTCCAT TT-CAT TTCCAT TTTCAT
1 TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT
*
54895941 GTCCAT TT-CAT TT
1 TTCCAT TTCCAT TT
54895954 AAATTATCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
4 2 0.05
5 14 0.34
6 25 0.61
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.55
Consensus pattern (6 bp):
TTCCAT
Found at i:54895936 original size:23 final size:23
Alignment explanation
Indices: 54895896--54895953 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 23
54895886 ATTTCATTTC
*
54895896 TTCCA-TTTCA-TTCCATTTGTAT
1 TTCCATTTTCATTTCCATTT-CAT
54895918 TTCCA-TTTCATTTCCATTTTCAT
1 TTCCATTTTCATTTCCA-TTTCAT
*
54895941 GTCCA-TTTCATTT
1 TTCCATTTTCATTT
54895954 AAATTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 10 0.31
23 19 0.59
24 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.55
Consensus pattern (23 bp):
TTCCATTTTCATTTCCATTTCAT
Found at i:54895974 original size:22 final size:22
Alignment explanation
Indices: 54895946--54896165 Score: 128
Period size: 22 Copynumber: 9.4 Consensus size: 22
54895936 TTCATGTCCA
54895946 TTTCATTTAAATTATCTTTTTT
1 TTTCATTTAAATTATCTTTTTT
54895968 TTTCATTT-AATT-T-TTTTTCT
1 TTTCATTTAAATTATCTTTTT-T
54895988 CATTTCATTTAAATTTAATTTCTTTTTCT
1 --TTTCATTTAAA-TT-A--TCTTTTT-T
*
54896017 TTTCATTTAAATTATC-TTTCT
1 TTTCATTTAAATTATCTTTTTT
* * *
54896038 TTCCATTTTAATTTATTTTTTTCT
1 TTTCA-TTTAAATTATCTTTTT-T
54896062 CATTTCATTTAAATTATC-TTTTT
1 --TTTCATTTAAATTATCTTTTTT
* *
54896085 TTCCATTTAAATTTAATGTTTTTTTTCT
1 TTTCATTTAAA-TT-A---TCTTTTT-T
54896113 CATTTCATTTAAATTATCTTTTTT
1 --TTTCATTTAAATTATCTTTTTT
* * *
54896137 TTCCATTTAGATT-TATTTTTT
1 TTTCATTTAAATTATCTTTTTT
*
54896158 TCTCATTT
1 TTTCATTT
54896166 CATTTAGTTG
Statistics
Matches: 157, Mismatches: 17, Indels: 49
0.70 0.08 0.22
Matches are distributed among these distances:
19 5 0.03
20 2 0.01
21 32 0.20
22 41 0.26
23 9 0.06
24 8 0.05
25 16 0.10
26 7 0.04
27 15 0.10
28 3 0.02
29 9 0.06
30 10 0.06
ACGTcount: A:0.21, C:0.12, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTCATTTAAATTATCTTTTTT
Found at i:54895980 original size:27 final size:27
Alignment explanation
Indices: 54895944--54896151 Score: 93
Period size: 27 Copynumber: 8.4 Consensus size: 27
54895934 TTTTCATGTC
*
54895944 CATTTCATTTAAATTATCTTTTTTTTT
1 CATTTAATTTAAATTATCTTTTTTTTT
* **
54895971 CATTTAATTT---TT-T-TTCTCATTT
1 CATTTAATTTAAATTATCTTTTTTTTT
54895993 CATTTAAATTT-AATT-TCTTTTTCTTTT
1 CATTT-AATTTAAATTATCTTTTT-TTTT
* *
54896020 C-----ATTTAAATTATC-TTTCTTTC
1 CATTTAATTTAAATTATCTTTTTTTTT
* *
54896041 CA--T--TTT-AATT-TATTTTTTTCT
1 CATTTAATTTAAATTATCTTTTTTTTT
* *
54896062 CATTTCATTTAAATTATC-TTTTTTTC
1 CATTTAATTTAAATTATCTTTTTTTTT
* *
54896088 CATTTAAATTT-AA-TGT-TTTTTTTCT
1 CATTT-AATTTAAATTATCTTTTTTTTT
* *
54896113 CATTTCATTTAAATTATCTTTTTTTTC
1 CATTTAATTTAAATTATCTTTTTTTTT
54896140 CATTTAGATTTA
1 CATTTA-ATTTA
54896152 TTTTTTTCTC
Statistics
Matches: 134, Mismatches: 25, Indels: 43
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.01
21 19 0.14
22 21 0.16
23 9 0.07
24 6 0.04
25 21 0.16
26 22 0.16
27 30 0.22
28 5 0.04
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (27 bp):
CATTTAATTTAAATTATCTTTTTTTTT
Found at i:54895984 original size:17 final size:17
Alignment explanation
Indices: 54895962--54895997 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
54895952 TTAAATTATC
54895962 TTTTTTTT-TCATTTAA
1 TTTTTTTTCTCATTTAA
*
54895978 TTTTTTTTCTCATTTCA
1 TTTTTTTTCTCATTTAA
54895995 TTT
1 TTT
54895998 AAATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTTTCTCATTTAA
Found at i:54896076 original size:47 final size:48
Alignment explanation
Indices: 54895993--54896171 Score: 256
Period size: 47 Copynumber: 3.7 Consensus size: 48
54895983 TTTCTCATTT
* *
54895993 CATTTAAATTTAATTTCTTTT-TCTTTTCATTTAAATTATCTTTCTTTC
1 CATTTAAATTTAATTT-TTTTCTCATTTCATTTAAATTATCTTTTTTTC
*
54896041 CATTTTAATTT-ATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
1 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
54896088 CATTTAAATTTAATGTTTTTTTTCTCATTTCATTTAAATTATCTTTTTTTTC
1 CATTTAAATTTAA---TTTTTTTCTCATTTCATTTAAATTATC-TTTTTTTC
*
54896140 CATTTAGATTT-ATTTTTTTCTCATTTCATTTA
1 CATTTAAATTTAATTTTTTTCTCATTTCATTTA
54896172 GTTGAATATA
Statistics
Matches: 120, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
46 4 0.03
47 39 0.32
48 31 0.26
51 28 0.23
52 18 0.15
ACGTcount: A:0.22, C:0.13, G:0.01, T:0.64
Consensus pattern (48 bp):
CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
Found at i:54896124 original size:30 final size:27
Alignment explanation
Indices: 54896088--54896144 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
54896078 TCTTTTTTTC
*
54896088 CATTTAAATTTAATGTTTTTTTTCTCATTT
1 CATTTAAA-TT-ATCTTTTTTTTC-CATTT
54896118 CATTTAAATTATCTTTTTTTTCCATTT
1 CATTTAAATTATCTTTTTTTTCCATTT
54896145 AGATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 11 0.42
29 2 0.08
30 8 0.31
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (27 bp):
CATTTAAATTATCTTTTTTTTCCATTT
Found at i:54896170 original size:20 final size:20
Alignment explanation
Indices: 54896132--54896171 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
54896122 TAAATTATCT
*
54896132 TTTTTTTCCATTTAGATTTA
1 TTTTTTTCCATTTACATTTA
54896152 TTTTTTTCTCATTT-CATTTA
1 TTTTTTTC-CATTTACATTTA
54896172 GTTGAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTTTCCATTTACATTTA
Found at i:54899624 original size:3 final size:3
Alignment explanation
Indices: 54899616--54899655 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
54899606 AAAATGAAAC
*
54899616 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
54899656 CAACACTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:54900351 original size:19 final size:18
Alignment explanation
Indices: 54900307--54900353 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
54900297 AATAGTTTCG
*
54900307 AAAGGAAGA-AAAAATAA
1 AAAGGAAAATAAAAATAA
* *
54900324 AGAGAAAAATAAAAATAAA
1 AAAGGAAAATAAAAAT-AA
54900343 AAAGGAAAATA
1 AAAGGAAAATA
54900354 GATCTTATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AAAGGAAAATAAAAATAA
Found at i:54902191 original size:102 final size:97
Alignment explanation
Indices: 54902063--54902407 Score: 330
Period size: 96 Copynumber: 3.5 Consensus size: 97
54902053 ACTAGTTCAC
54902063 CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTACTTGGTGCTGGCCAT
1 CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTAC----TGCTGGCCAT
*
54902128 GTACCAATTTTTTTTAATAAAAATACACTGATGCTAA
62 GCACCAATTTTTTTTAATAAAAATACACTG-TGCTAA
* * **
54902165 CCATCAGAGTTTCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAA-T-TA-TAATGGCCA-GCAC
1 CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTACTGCTGGCCATGCA-
** ** * *
54902226 CCAAATTTTCTTTTTTTTTAAATACACT-TGTTCGA
65 CC-AATTTT-TTTTAATAAAAATACACTGTGCT-AA
* * * * *
54902261 CCATCAGTGTTCCAAAGTAAAAGAAAATGCATTGGGAGCCGAAAATTGAAC-GCTGG-CATCCAA
1 CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTACTGCTGGCCATGCAC
* * *
54902324 AAATTTTTTTTTAATAAAAATACACTGGTGCCAG
66 CAA-TTTTTTTTAATAAAAATACACT-GTGCTAA
* * *
54902358 CCATCAGTGCTCTAAAGTAAAAAAAAA--CATTGGGAGCCGAAAATTGTACT
1 CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTACT
54902408 TGGTGCTAGC
Statistics
Matches: 198, Mismatches: 33, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
94 2 0.01
95 33 0.17
96 64 0.32
97 45 0.23
98 8 0.04
100 2 0.01
101 1 0.01
102 43 0.22
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (97 bp):
CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTGTACTGCTGGCCATGCAC
CAATTTTTTTTAATAAAAATACACTGTGCTAA
Found at i:54902267 original size:198 final size:191
Alignment explanation
Indices: 54902038--54902402 Score: 493
Period size: 198 Copynumber: 1.9 Consensus size: 191
54902028 GCACTCAAAT
54902038 TTTTTTTTTAAATACACTAGTTCACCCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCC
1 TTTTTTTTTAAATACACTAGTTCACCCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCC
* ** ** *
54902103 AAAAATTGTACTTGGTGCTGGCCATGTACCAA-TTTTTTTTAATAAAAATACACTGATGCTAACC
66 AAAAATTGAAC-----GCTGG-CATCCAAAAATTTTTTTTTAATAAAAATACACTGATGCCAACC
*
54902167 ATCAGAG-TTTCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTATAATGGCCAGCACCCAAA
125 ATCAGAGCTCT-AAAGTAAAAAAAAA--CATTGGGAGCCAAAAATTATAATGGCCAGCACCCAAA
54902231 TTTTC
187 TTTTC
* *
54902236 TTTTTTTTTAAATACACTTGTTCGA-CCATCAGTGTTCCAAAGTAAAAGAAAATGCATTGGGAGC
1 TTTTTTTTTAAATACACTAGTTC-ACCCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGC
* * *
54902300 CGAAAATTGAACGCTGGCATCCAAAAATTTTTTTTTAATAAAAATACACTGGTGCCAGCCATCAG
65 CAAAAATTGAACGCTGGCATCCAAAAATTTTTTTTTAATAAAAATACACTGATGCCAACCATCAG
* *
54902365 TGCTCTAAAGTAAAAAAAAACATTGGGAGCCGAAAATT
130 AGCTCTAAAGTAAAAAAAAACATTGGGAGCCAAAAATT
54902403 GTACTTGGTG
Statistics
Matches: 150, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
191 17 0.11
192 6 0.04
193 54 0.36
194 2 0.01
198 70 0.47
199 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (191 bp):
TTTTTTTTTAAATACACTAGTTCACCCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGCC
AAAAATTGAACGCTGGCATCCAAAAATTTTTTTTTAATAAAAATACACTGATGCCAACCATCAGA
GCTCTAAAGTAAAAAAAAACATTGGGAGCCAAAAATTATAATGGCCAGCACCCAAATTTTC
Found at i:54905576 original size:30 final size:30
Alignment explanation
Indices: 54905542--54905604 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
54905532 ACTTATTTTA
54905542 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
54905572 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
54905602 TTG
1 TTG
54905605 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:54905755 original size:23 final size:24
Alignment explanation
Indices: 54905714--54905767 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
54905704 TTTTTAATAT
*
54905714 ATTATATATATAAATATAT-TAAA
1 ATTATATATAAAAATATATATAAA
54905737 ATTATATA-AAAAATA-ATATATAA
1 ATTATATATAAAAATATATATA-AA
54905760 ATTA-ATAT
1 ATTATATAT
54905768 GGGCAGGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 11 0.41
23 14 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATATATAAAAATATATATAAA
Found at i:54908697 original size:16 final size:16
Alignment explanation
Indices: 54908676--54908707 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54908666 AATTGAGTTG
*
54908676 GGAAAATTATTTAATT
1 GGAAAATTAATTAATT
54908692 GGAAAATTAATTAATT
1 GGAAAATTAATTAATT
54908708 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
GGAAAATTAATTAATT
Found at i:54919768 original size:20 final size:20
Alignment explanation
Indices: 54919743--54919798 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
54919733 CATTTTGGCA
*
54919743 TACCAAAATTTTTAATGATT
1 TACCAAAATTTTTAAGGATT
*
54919763 TACCAATATTTTTAAGGATT
1 TACCAAAATTTTTAAGGATT
* *
54919783 TATCAAAATTTATAAG
1 TACCAAAATTTTTAAG
54919799 AATTCCTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (20 bp):
TACCAAAATTTTTAAGGATT
Found at i:54919851 original size:40 final size:40
Alignment explanation
Indices: 54919807--54919883 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
54919797 AGAATTCCTA
* *
54919807 AAGTTATACCAAAATATCTATGGATTTACCAAAATTTCTG
1 AAGTTACACCAAAACATCTATGGATTTACCAAAATTTCTG
* * * *
54919847 AAGTTCCACTAAAACATCTATGGATTTATCAACATTT
1 AAGTTACACCAAAACATCTATGGATTTACCAAAATTT
54919884 TTAAGGTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (40 bp):
AAGTTACACCAAAACATCTATGGATTTACCAAAATTTCTG
Found at i:54920023 original size:20 final size:20
Alignment explanation
Indices: 54919998--54920111 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
54919988 TGAACTACCT
*
54919998 TTAGAAATATTGTTAAATCC
1 TTAGAAATATTGATAAATCC
* *
54920018 TTAGAAAT-TTTAGTAAATGC
1 TTAGAAATATTGA-TAAATCC
*
54920038 GTAGAAATATTGATAAA-CAC
1 TTAGAAATATTGATAAATC-C
* *
54920058 TTAGAAATACTGACAAATCC
1 TTAGAAATATTGATAAATCC
** * * *
54920078 TTAGATGTTTTGGTAAATCT
1 TTAGAAATATTGATAAATCC
54920098 TTAGAAATATTGAT
1 TTAGAAATATTGAT
54920112 TTTTGATAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
19 2 0.03
20 64 0.91
21 4 0.06
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTAGAAATATTGATAAATCC
Found at i:54920094 original size:60 final size:60
Alignment explanation
Indices: 54919998--54920111 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
54919988 TGAACTACCT
* **
54919998 TTAGAAATATTGTTAAATCCTTAGAAATTTTAGTAAATGC-GTAGAAATATTGATAAACAC
1 TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAAT-CTGTAGAAATATTGATAAACAC
** * *
54920058 TTAGAAATACTGACAAATCCTTAGATGTTTTGGTAAATCTTTAGAAATATTGAT
1 TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAATCTGTAGAAATATTGAT
54920112 TTTTGATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (60 bp):
TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAATCTGTAGAAATATTGATAAACAC
Found at i:54920274 original size:20 final size:19
Alignment explanation
Indices: 54920212--54920313 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 19
54920202 AGTCAACTAA
54920212 GTAAATCTTTAGAAATTTTG
1 GTAAATC-TTAGAAATTTTG
* *
54920232 GTTAAAACTTTTAGAAATATTG
1 G-T-AAA-TCTTAGAAATTTTG
54920254 GTAAAGTCTT-GAAAATTTTG
1 GTAAA-TCTTAG-AAATTTTG
*
54920274 GTATAATCTTAGAAATTCTG
1 GTA-AATCTTAGAAATTTTG
*
54920294 GTAAATACTTAGATATTTTG
1 GTAAAT-CTTAGAAATTTTG
54920314 ATATGTTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.06
20 42 0.63
21 5 0.07
22 15 0.22
23 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (19 bp):
GTAAATCTTAGAAATTTTG
Found at i:54920578 original size:20 final size:20
Alignment explanation
Indices: 54920518--54920620 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
54920508 TTGATCAGGG
*
54920518 AGAAATTTT-ATAAAATCTTT
1 AGAAATTTTGATAAATTC-TT
* * * **
54920538 ATATATTTTGATATAGCCTT
1 AGAAATTTTGATAAATTCTT
54920558 AGAAATTTTGATAAATTCTT
1 AGAAATTTTGATAAATTCTT
* *
54920578 A-AATATTTTGGTAAA-ACATT
1 AGAA-ATTTTGATAAATTC-TT
*
54920598 ATAAATTTTGA-AAATTACTT
1 AGAAATTTTGATAAATT-CTT
54920618 AGA
1 AGA
54920621 TATATTAATG
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
19 6 0.10
20 48 0.77
21 8 0.13
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (20 bp):
AGAAATTTTGATAAATTCTT
Found at i:54920604 original size:40 final size:40
Alignment explanation
Indices: 54920518--54920623 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
54920508 TTGATCAGGG
* * * * *
54920518 AGAAATTTT-ATAAAATCTTTATATATTTTGATATAGCCTT
1 AGAAATTTTGATAAATTC-TTAAATATTTTGATAAAACATT
*
54920558 AGAAATTTTGATAAATTCTTAAATATTTTGGTAAAACATT
1 AGAAATTTTGATAAATTCTTAAATATTTTGATAAAACATT
* *
54920598 ATAAATTTTGA-AAATTACTTAGATAT
1 AGAAATTTTGATAAATT-CTTAAATAT
54920624 ATTAATGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.09
40 44 0.79
41 7 0.12
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (40 bp):
AGAAATTTTGATAAATTCTTAAATATTTTGATAAAACATT
Found at i:54925762 original size:12 final size:13
Alignment explanation
Indices: 54925735--54925769 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
54925725 CCAAATTATT
54925735 TTTTTCTTTTCTTC
1 TTTTT-TTTTCTTC
54925749 TTTTTTTTTC-TC
1 TTTTTTTTTCTTC
54925761 TTTTTTTTT
1 TTTTTTTTT
54925770 ATGCTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.52
13 5 0.24
14 5 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:54926816 original size:17 final size:17
Alignment explanation
Indices: 54926793--54926835 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
54926783 AAAATAAAAT
*
54926793 AAAATAAAATAAAGCAA
1 AAAATAAAATAAAGAAA
* *
54926810 TAAATAAAGTAAAGAAA
1 AAAATAAAATAAAGAAA
54926827 AAAATAAAA
1 AAAATAAAA
54926836 AATAAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAGAAA
Found at i:54932066 original size:22 final size:23
Alignment explanation
Indices: 54932041--54932085 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
54932031 AAATAAAGAA
*
54932041 AATTTTA-TCAATAAATATTAAT
1 AATTTTATTAAATAAATATTAAT
54932063 AATTTTATTTAAATAAATATTAA
1 AATTTTA-TTAAATAAATATTAA
54932086 ATTCATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTTATTAAATAAATATTAAT
Found at i:54938205 original size:15 final size:14
Alignment explanation
Indices: 54938185--54938234 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
54938175 TAGAGTTAAA
54938185 CTAAACCCATAAACC
1 CTAAACCC-TAAACC
54938200 CTAAACCCTAAACC
1 CTAAACCCTAAACC
54938214 CTAAAACCCTAAACC
1 CT-AAACCCTAAACC
54938229 CATAAA
1 C-TAAA
54938235 TATATTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.24
15 24 0.73
16 1 0.03
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (14 bp):
CTAAACCCTAAACC
Found at i:54938206 original size:7 final size:7
Alignment explanation
Indices: 54938185--54938234 Score: 73
Period size: 7 Copynumber: 6.7 Consensus size: 7
54938175 TAGAGTTAAA
54938185 CTAAACC
1 CTAAACC
54938192 CATAAACC
1 C-TAAACC
54938200 CTAAACC
1 CTAAACC
54938207 CTAAACC
1 CTAAACC
54938214 CTAAAACC
1 CT-AAACC
54938222 CTAAACC
1 CTAAACC
54938229 CATAAA
1 C-TAAA
54938235 TATATTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 22 0.55
8 18 0.45
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:54944537 original size:19 final size:20
Alignment explanation
Indices: 54944497--54944539 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
54944487 TGACTGTATA
*
54944497 AAAATAAGAAATTTTGTTAC
1 AAAATAAGAAATTTTGTGAC
54944517 AAAATAA-AAATTTCT-TGAC
1 AAAATAAGAAATTT-TGTGAC
54944536 AAAA
1 AAAA
54944540 AATATGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATAAGAAATTTTGTGAC
Found at i:54944540 original size:20 final size:21
Alignment explanation
Indices: 54944496--54944540 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
54944486 CTGACTGTAT
*
54944496 AAAAATAAGAAATTTTGTTAC
1 AAAAATAAGAAATTTTGTGAC
54944517 -AAAATAA-AAATTTCT-TGAC
1 AAAAATAAGAAATTT-TGTGAC
54944536 AAAAA
1 AAAAA
54944541 ATATGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAATAAGAAATTTTGTGAC
Found at i:54958488 original size:27 final size:27
Alignment explanation
Indices: 54958458--54958534 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
54958448 TTTTTTTGAC
54958458 ATACATATTTTTAATTATAAAAACGAA
1 ATACATATTTTTAATTATAAAAACGAA
* * * *
54958485 ATACACATTTTTAATTAAAAAAATGTA
1 ATACATATTTTTAATTATAAAAACGAA
*
54958512 ATACATAATTTATAATTATAAAA
1 ATACAT-ATTTTTAATTATAAAA
54958535 GTGTAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 28 0.67
28 14 0.33
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (27 bp):
ATACATATTTTTAATTATAAAAACGAA
Found at i:54958522 original size:28 final size:28
Alignment explanation
Indices: 54958458--54958554 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
54958448 TTTTTTTGAC
* *
54958458 ATACAT-ATTTTTAATTATAAAAACGAA
1 ATACATAATTTTTAATTATAAAAATGTA
* *
54958485 ATACA-CATTTTTAATTAAAAAAATGTA
1 ATACATAATTTTTAATTATAAAAATGTA
* *
54958512 ATACATAATTTATAATTATAAAAGTGTA
1 ATACATAATTTTTAATTATAAAAATGTA
* * *
54958540 ACAAATACTTTTTAA
1 ATACATAATTTTTAA
54958555 ACATTAAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
27 28 0.49
28 29 0.51
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (28 bp):
ATACATAATTTTTAATTATAAAAATGTA
Found at i:54961591 original size:12 final size:12
Alignment explanation
Indices: 54961571--54961603 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54961561 CATAAAAAAC
54961571 ATTTTATTTAAT
1 ATTTTATTTAAT
*
54961583 ATTTCATTTAAT
1 ATTTTATTTAAT
54961595 -TTTTATTTA
1 ATTTTATTTA
54961604 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:54964322 original size:674 final size:674
Alignment explanation
Indices: 54963027--54964378 Score: 2542
Period size: 674 Copynumber: 2.0 Consensus size: 674
54963017 GGATCGAAGA
* **
54963027 ATCTGCTGGTTCGGGTACCTTTGCTTTAGAGCTGAACCACATATAATGAACCTAAGAGCCCACCC
1 ATCTACTGGTTCAAGTACCTTTGCTTTAGAGCTGAACCACATATAATGAACCTAAGAGCCCACCC
54963092 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
66 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
54963157 TTTACTTTGTACTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
131 TTTACTTTGTACTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
54963222 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
196 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
54963287 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGAATGATA
261 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGAATGATA
54963352 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
326 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
* *
54963417 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGTATTACGAGGATGAGTGAGCAATGAGTT
391 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGAGGATGAGTGAGCAACGAGTT
*
54963482 GCGGCCCGGATCAAGCGAAAACGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
456 GCGGCCCAGATCAAGCGAAAACGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
54963547 TTAACGCTCGAATGAAGAAAAGGATCAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
521 TTAACGCTCGAATGAAGAAAAGGATCAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
*
54963612 CGTTTTATGTACAAAGATTTATTTTCTAGTAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
586 CGTTTTATGTACAAAGATTTATTTTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
54963677 TTTCTTTTTGCATTCATTCCATGC
651 TTTCTTTTTGCATTCATTCCATGC
* *
54963701 ATCTACTGGTTCAAGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCATCC
1 ATCTACTGGTTCAAGTACCTTTGCTTTAGAGCTGAACCACATATAATGAACCTAAGAGCCCACCC
54963766 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
66 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
* *
54963831 TTTGCTTTGTACTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGTATTATCATCATTAAA
131 TTTACTTTGTACTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
54963896 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
196 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
*
54963961 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGGATGATA
261 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGAATGATA
*
54964026 GTTTAATGGAAGACTACAAGACTATTGCTCCTTTGCCCAAGGATTCAAGATGACAAAGATTATTC
326 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
54964091 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGAGGATGAGTGAGCAACGAGTT
391 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGAGGATGAGTGAGCAACGAGTT
*
54964156 GCGGCCCAGATCAAGTGAAAACGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
456 GCGGCCCAGATCAAGCGAAAACGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
* *
54964221 TTAACGCTCGAATGAAGAAGAGGATTAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
521 TTAACGCTCGAATGAAGAAAAGGATCAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
* *
54964286 TGTTTTATGTACAGAGATTTATTTTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
586 CGTTTTATGTACAAAGATTTATTTTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
54964351 TTTCTTTTTGCATTCATTCCATGC
651 TTTCTTTTTGCATTCATTCCATGC
54964375 ATCT
1 ATCT
54964379 GCATTACATT
Statistics
Matches: 660, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
674 660 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (674 bp):
ATCTACTGGTTCAAGTACCTTTGCTTTAGAGCTGAACCACATATAATGAACCTAAGAGCCCACCC
TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
TTTACTTTGTACTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGAATGATA
GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGAGGATGAGTGAGCAACGAGTT
GCGGCCCAGATCAAGCGAAAACGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
TTAACGCTCGAATGAAGAAAAGGATCAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
CGTTTTATGTACAAAGATTTATTTTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
TTTCTTTTTGCATTCATTCCATGC
Found at i:54964405 original size:24 final size:25
Alignment explanation
Indices: 54964363--54964415 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
54964353 TCTTTTTGCA
*
54964363 TTCATTCCATGCATCTGCATTACAT
1 TTCATTCCATGCATCTGCATTAAAT
* *
54964388 TTCATTGCAT-CATTTGCATTAAAT
1 TTCATTCCATGCATCTGCATTAAAT
54964412 TTCA
1 TTCA
54964416 CAAAAGGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (25 bp):
TTCATTCCATGCATCTGCATTAAAT
Found at i:54967171 original size:8 final size:9
Alignment explanation
Indices: 54967150--54967217 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
54967140 TGGAGGCAAA
54967150 AAAAAACAC
1 AAAAAACAC
54967159 AAAAAACAC
1 AAAAAACAC
*
54967168 AAAAAAGTA-
1 AAAAAA-CAC
54967177 AAAAAA-AC
1 AAAAAACAC
*
54967185 AAAAAAAAC
1 AAAAAACAC
* *
54967194 AAAAAAAAG
1 AAAAAACAC
*
54967203 AACAAA-AC
1 AAAAAACAC
54967211 AAAAAAC
1 AAAAAAC
54967218 CTCTATCGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.02
8 12 0.24
9 36 0.72
10 1 0.02
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (9 bp):
AAAAAACAC
Found at i:54967179 original size:28 final size:28
Alignment explanation
Indices: 54967148--54967216 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
54967138 AGTGGAGGCA
* *
54967148 AAAAAAAACACAAAAAACACAAAAAAGT
1 AAAAAAAACAAAAAAAACAAAAAAAAGT
54967176 AAAAAAAACAAAAAAAACAAAAAAAAG-
1 AAAAAAAACAAAAAAAACAAAAAAAAGT
*
54967203 -AACAAAACAAAAAA
1 AAAAAAAACAAAAAA
54967217 CCTCTATCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 13 0.34
28 25 0.66
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (28 bp):
AAAAAAAACAAAAAAAACAAAAAAAAGT
Found at i:54967197 original size:17 final size:17
Alignment explanation
Indices: 54967149--54967216 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
54967139 GTGGAGGCAA
54967149 AAAAAAACACAAAAAACAC
1 AAAAAAACA-AAAAAA-AC
**
54967168 AAAAAAGTAAAAAAAAC
1 AAAAAAACAAAAAAAAC
*
54967185 AAAAAAAACAAAAAAAAG
1 -AAAAAAACAAAAAAAAC
*
54967203 AACAAAACAAAAAA
1 AAAAAAACAAAAAA
54967217 CCTCTATCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.36
18 20 0.48
19 7 0.17
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:54967664 original size:13 final size:12
Alignment explanation
Indices: 54967646--54967696 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
54967636 ACTTCACTTG
54967646 AAAAAAAAG-AA
1 AAAAAAAAGAAA
*
54967657 ACAAAAAAGAAA
1 AAAAAAAAGAAA
54967669 AGAAAAAAAGAAA
1 A-AAAAAAAGAAA
* * *
54967682 AGAAGAACGAAA
1 AAAAAAAAGAAA
54967694 AAA
1 AAA
54967697 GAAGAAGGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 8 0.25
12 13 0.41
13 11 0.34
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:54967679 original size:8 final size:8
Alignment explanation
Indices: 54967647--54967688 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
54967637 CTTCACTTGA
54967647 AAAAAAAG
1 AAAAAAAG
54967655 AAACAAAA-
1 AAA-AAAAG
*
54967663 AAGAAAAG
1 AAAAAAAG
54967671 AAAAAAAG
1 AAAAAAAG
*
54967679 AAAAGAAG
1 AAAAAAAG
54967687 AA
1 AA
54967689 CGAAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 4 0.14
8 21 0.72
9 4 0.14
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:54968719 original size:24 final size:24
Alignment explanation
Indices: 54968700--54968745 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
54968690 AAATTACCAT
*
54968700 GGATTTAACCTTGAAGATTACAAC
1 GGATTGAACCTTGAAGATTACAAC
*
54968724 GGATTGAACTTTGAAGATTACA
1 GGATTGAACCTTGAAGATTACA
54968746 GTGGGGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (24 bp):
GGATTGAACCTTGAAGATTACAAC
Found at i:54969158 original size:50 final size:50
Alignment explanation
Indices: 54969092--54969719 Score: 356
Period size: 50 Copynumber: 12.6 Consensus size: 50
54969082 TAAGGCTACG
* *
54969092 ACGGCGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
** * * * ** * * *
54969142 ACGGCGAATCTCGCTTCCCTGGA-AGTAC-AGTAGAGCAGATTAAAGCTACG
1 ACGGCGAATCTTACTTCCCT-GACATTGCAATTA-AAAAGATTGAAGCCACA
* * * * * * *
54969192 ACAGCAAATCTTACTTCTCTGATATTGTAATTTAAAAGATTGAAGTCACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
* ** * * *
54969242 ACGGCGAATCTTACTTCCCTGGCGGTGC-AGTAAAACAGATTAAAGCTACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA-AGATTGAAGCCACA
* **
54969292 ACGACGAATCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * * ** ** * * *
54969342 ACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACG
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * * * *
54969392 ATGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * * * *
54969442 ACGGTGAATCTTACTTCCCTGGCAGTGC-AGTAGAACAGATTAAAGCTACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTA-AAAAGATTGAAGCCACA
* ** *
54969492 ACGGCGAATTTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * * ** ** * * *
54969542 ATGGCGAATCTCACTTCCCT-A-GTAGTATAGTGGAGCAGATTAAAGCTACG
1 ACGGCGAATCTTACTTCCCTGACATTGCA-A-TTAAAAAGATTGAAGCCACA
* * * * *
54969592 ACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCTGA-A
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGC-CACA
**** * * *
54969642 ACGGCGAATCTTACTTCCCTGGTGGTGC-AGTAAAACAGATTAAAGCTACA
1 ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA-AGATTGAAGCCACA
* * *
54969692 ACGGCAAATCTT-GTTCCGTGACATTGCA
1 ACGGCGAATCTTACTTCCCTGACATTGCA
54969720 GTCAATTTGA
Statistics
Matches: 412, Mismatches: 150, Indels: 32
0.69 0.25 0.05
Matches are distributed among these distances:
48 3 0.01
49 29 0.07
50 362 0.88
51 15 0.04
52 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
ACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
Found at i:54969248 original size:100 final size:100
Alignment explanation
Indices: 54969075--54969719 Score: 790
Period size: 100 Copynumber: 6.5 Consensus size: 100
54969065 AGTGCAGTGA
* *
54969075 AGCAGATTAAGGCTACGACGGCGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCA
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* *
54969140 CAACGGCGAATCTCGCTTCCCTGGAAGTACAGTAG
66 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * * * * * *
54969175 AGCAGATTAAAGCTACGACAGCAAATCTTACTTCTCTGATATTGTAATTTAAAAGATTGAAGTCA
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * *
54969240 CAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAA
66 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * *
54969275 AACAGATTAAAGCTACAACGACGAATCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
*
54969340 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTGG
66 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * * * *
54969375 AGCAGATTAAAGCTACGATGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAATATTGAAGCCG
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * *
54969440 CAACGGTGAATCTTACTTCCCTGGCAGTGCAGTAG
66 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * * *
54969475 AACAGATTAAAGCTACAACGGCGAATTTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCA
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * *
54969540 CAATGGCGAATCTCACTTCCCTAGTAGTATAGTGG
66 CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * *
54969575 AGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCTG
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGC-C
* ** * *
54969640 A-AACGGCGAATCTTACTTCCCTGGTGGTGCAGTAA
65 ACAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
* * * *
54969675 AACAGATTAAAGCTACAACGGCAAATCTTG-TTCCGTGACATTGCA
1 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCA
54969720 GTCAATTTGA
Statistics
Matches: 455, Mismatches: 89, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
99 13 0.03
100 441 0.97
101 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
CAACGGCGAATCTCACTTCCCTGGCAGTACAGTAG
Found at i:54969416 original size:200 final size:200
Alignment explanation
Indices: 54969066--54969719 Score: 988
Period size: 200 Copynumber: 3.3 Consensus size: 200
54969056 TTTCCTGAAA
* * * * * *
54969066 GTGCAGTGAAGCAGATTAAGGCTACGACGGCGAATCTTGCTTCCCTAACATTGCAATTAAAAAGA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCAATTAAAAAGA
* * *
54969131 TTGAAGCCACAACGGCGAATCTCGCTTCCCTGGAAGTACAGTAGAGCAGATTAAAGCTACGACAG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGG
** * * *
54969196 CAAATCTTACTTCTCTGATATTGTAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCC
131 TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCC
54969261 TGGCG
196 TGGCG
*
54969266 GTGCAGTAAAACAGATTAAAGCTACAACGACGAATCTTGTTTCCCTGACATTGCAATTAAAAAGA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCAATTAAAAAGA
* *
54969331 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGATGG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGG
* * * *
54969396 TGAATCTTGCTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAACGGTGAATCTTACTTCCC
131 TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCC
*
54969461 TGGCA
196 TGGCG
* * *
54969466 GTGCAGTAGAACAGATTAAAGCTACAACGGCGAATTTTGTTTCCCCGACATTGCAATTAAAAAGA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCAATTAAAAAGA
* * * *
54969531 TTGAAGCCACAATGGCGAATCTCACTTCCCTAGTAGTATAGTGGAGCAGATTAAAGCTACGACGG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGG
*
54969596 TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCTGA-AACGGCGAATCTTACTTCC
131 TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAG-TCACAACGGCGAATCTTACTTCC
*
54969660 CTGGTG
195 CTGGCG
* *
54969666 GTGCAGTAAAACAGATTAAAGCTACAACGGCAAATCTTG-TTCCGTGACATTGCA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCA
54969720 GTCAATTTGA
Statistics
Matches: 410, Mismatches: 43, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
199 13 0.03
200 397 0.97
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (200 bp):
GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCTGACATTGCAATTAAAAAGA
TTGAAGCCACAACGGCGAATCTCACTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGG
TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCC
TGGCG
Found at i:54969828 original size:40 final size:40
Alignment explanation
Indices: 54969784--54970356 Score: 214
Period size: 44 Copynumber: 13.8 Consensus size: 40
54969774 AAACCACAGA
*
54969784 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
54969824 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCAAG
* ** * * ** *
54969867 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* * * *
54969910 ATCTTATCTCCATAAGCAGTAGTGGAGCAGTTTGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
** *
54969951 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C-AAAAAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* * * ** * *
54969989 TCCTATCTCCCTGAA--ATTACAGTGGAGCGGATTAAAACCACAAA
1 TCTTATCTCCCT-AAGCAGT--AGTGGAGCAGA-TCGAA--TCAAG
* * * * **
54970033 TCTTATCTCTCTAA-AATTACAGTAGAGCAGATC-ACATCCCG
1 TCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGA-ATCAAG
54970074 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCAAG
* ** * * ** *
54970117 TCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAATCACAAA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAAT--CAAG
* * **
54970161 TCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGTATCCCG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
** *
54970201 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAAAAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCAAG
* ** * ** *
54970241 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* ** * * * **
54970284 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCCG
1 -TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAATCAAG
* *
54970326 TCTTATCTCCCTTAAGTAGTAGCGGAGCAGA
1 TCTTATCTCCC-TAAGCAGTAGTGGAGCAGA
54970357 CTAAAGGAAA
Statistics
Matches: 397, Mismatches: 95, Indels: 81
0.69 0.17 0.14
Matches are distributed among these distances:
37 2 0.01
38 14 0.04
39 15 0.04
40 111 0.28
41 62 0.16
42 19 0.05
43 61 0.15
44 112 0.28
45 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:54969886 original size:127 final size:127
Alignment explanation
Indices: 54969730--54970357 Score: 889
Period size: 127 Copynumber: 5.0 Consensus size: 127
54969720 GTCAATTTGA
*
54969730 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
**
54969795 TAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
66 TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
*
54969857 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTC-C
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * **
54969921 ATAAGCAGTAGTGGAGCAGTTTGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC--
66 -TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* * *
54969982 AA-AAA--AATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAAACCACAAATCTTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * * *
54970044 TAA-AATTACAGTAGAGCAGATCACATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
66 TAAGCAGT--AGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* * * *
54970107 AAGAAATCAATCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAATCACAAATCTTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
*
54970172 TAAGCAGTAGTGGAGCAGATCGTATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
66 TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* *
54970234 AA-AAA--AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
** * * * *
54970296 TGAAGTTGCAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTTAAGTAGTAGCGGAGCAGAC
66 T-AAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCC-TAAGCAGTAGTGGAGCAGAC
54970358 TAAAGGAAAT
Statistics
Matches: 452, Mismatches: 37, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
121 2 0.00
122 54 0.12
123 47 0.10
124 56 0.12
125 38 0.08
126 25 0.06
127 173 0.38
128 55 0.12
129 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (127 bp):
AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
Found at i:54970178 original size:250 final size:250
Alignment explanation
Indices: 54969738--54970357 Score: 931
Period size: 250 Copynumber: 2.5 Consensus size: 250
54969728 GAAAGAAATC
* * *
54969738 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAA-AATT
* **
54969803 -AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA
65 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA
* * *
54969867 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCCATAAGCAGTAG
130 TCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCACAAATCTTATCTCCATAAGCAGTAG
* *
54969932 TGGAGCAGTTTGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAAA
195 TGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAA
* * *
54969987 AATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAATTA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAATT-
*
54970052 CAGTAGAGCAGATCACATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA
65 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA
* *
54970117 TCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAATCACAAATCTTATCTCTC-TAAGCAGTA
130 TCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCACAAATCTTATCTC-CATAAGCAGTA
* **
54970181 GTGGAGCAGATCGTATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAA
194 GTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAAAA
* * * *
54970239 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAATT-
* *
54970304 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTTAAGTAGTAGCGGAGCAGAC
65 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCC-TAAGCAGTAGTGGAGCAGAC
54970358 TAAAGGAAAT
Statistics
Matches: 334, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
248 2 0.01
249 56 0.17
250 163 0.49
251 1 0.00
252 94 0.28
253 18 0.05
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (250 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAATTC
AGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAAT
CCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCACAAATCTTATCTCCATAAGCAGTAGT
GGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAA
Found at i:54972064 original size:12 final size:12
Alignment explanation
Indices: 54972044--54972076 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54972034 CATAAAAAAC
54972044 ATTTTATTTAAT
1 ATTTTATTTAAT
*
54972056 ATTTCATTTAAT
1 ATTTTATTTAAT
54972068 -TTTTATTTA
1 ATTTTATTTA
54972077 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:54974293 original size:45 final size:45
Alignment explanation
Indices: 54974224--54974335 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
54974214 TCTCATCACT
* * * * *
54974224 ACTGTATTTTTACCTTCTGATTCAGGATCTGCTGTTCCATTACCG
1 ACTGTATATTTGCCTTCTGGTTCAGAATCTGCTGTTCCATCACCG
* *
54974269 ATTGTATATTTGCCTTCTGGTTCAGAATCTGCTGTTCCATCACTG
1 ACTGTATATTTGCCTTCTGGTTCAGAATCTGCTGTTCCATCACCG
*
54974314 ACTGTATCTTTGCCTTCTGGTT
1 ACTGTATATTTGCCTTCTGGTT
54974336 TAGGTTACAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (45 bp):
ACTGTATATTTGCCTTCTGGTTCAGAATCTGCTGTTCCATCACCG
Found at i:54983707 original size:3 final size:3
Alignment explanation
Indices: 54983680--54983744 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
54983670 CAAACCTTAG
* * * *
54983680 ATT ATT CATT ATTT ATT ATT TTT ATT ATC ATT CA-T ATT ATT CTC ATT
1 ATT ATT -ATT A-TT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
*
54983727 ATT ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
54983745 TTTAAAACCC
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 1 0.02
3 40 0.83
4 7 0.15
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:54986218 original size:21 final size:20
Alignment explanation
Indices: 54986192--54986235 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
54986182 TAAAGACTTA
* *
54986192 AATGAAGTGTTATGTGATAGT
1 AATGAAGTGTAAGGTGATA-T
54986213 AATGAAGTGTAAGGTGATAT
1 AATGAAGTGTAAGGTGATAT
54986233 AAT
1 AAT
54986236 AATTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (20 bp):
AATGAAGTGTAAGGTGATAT
Found at i:54988091 original size:23 final size:25
Alignment explanation
Indices: 54988008--54988080 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
54987998 GAGCCATGAT
* *
54988008 CGGTAAGCTCATTTTGAGCTGAAGAA
1 CGGTAAGCTC-TATCGAGCTGAAGAA
54988034 CGGTAAGCTCTATCGAGCTGAAGAA
1 CGGTAAGCTCTATCGAGCTGAAGAA
54988059 CGGTAAGCTCTATCGAGCTGAA
1 CGGTAAGCTCTATCGAGCTGAA
54988081 ATGGTAAGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 35 0.78
26 10 0.22
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCTATCGAGCTGAAGAA
Found at i:54988099 original size:23 final size:27
Alignment explanation
Indices: 54988006--54988120 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 27
54987996 TCGAGCCATG
* * *
54988006 ATCGGTAAGCTCATTTTGAGCTGA-AG
1 ATCGGTAAGCTCATATAGAGCTGATAT
* * *
54988032 AACGGTAAGCTC-TATCGAGCTGA-AG
1 ATCGGTAAGCTCATATAGAGCTGATAT
* *
54988057 AACGGTAAGCTC-TATCGAGCTGA-A-
1 ATCGGTAAGCTCATATAGAGCTGATAT
54988081 AT-GGTAAGCTCATA-AGAGCTGATAT
1 ATCGGTAAGCTCATATAGAGCTGATAT
*
54988106 ATCAGTAAGCTCATA
1 ATCGGTAAGCTCATA
54988121 CGAGATGTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
23 16 0.20
24 4 0.05
25 37 0.47
26 22 0.28
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (27 bp):
ATCGGTAAGCTCATATAGAGCTGATAT
Found at i:54988100 original size:48 final size:51
Alignment explanation
Indices: 54988008--54988124 Score: 118
Period size: 48 Copynumber: 2.4 Consensus size: 51
54987998 GAGCCATGAT
* * *
54988008 CGGTAAGCTCATTTTGAGCTGAAGAACGGTAAGCTCTATCGAGCTGAAGAA
1 CGGTAAGCTCATATCGAGCTGAAGAACGGTAAGCTCTATAGAGCTGAAGAA
* * *
54988059 CGGTAAGCTC-TATCGAGCTG-A-AATGGTAAGCTC-ATAAGAGCTGATATAT
1 CGGTAAGCTCATATCGAGCTGAAGAACGGTAAGCTCTAT-AGAGCTGA-AGAA
*
54988108 CAGTAAGCTCATA-CGAG
1 CGGTAAGCTCATATCGAG
54988125 ATGTGGTGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
47 2 0.04
48 18 0.32
49 16 0.29
50 10 0.18
51 10 0.18
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (51 bp):
CGGTAAGCTCATATCGAGCTGAAGAACGGTAAGCTCTATAGAGCTGAAGAA
Found at i:54991113 original size:11 final size:11
Alignment explanation
Indices: 54991092--54991131 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
54991082 AATTTAGTGA
*
54991092 AAGAAAGAGAG
1 AAGAAAAAGAG
*
54991103 AAGAAGAAGAG
1 AAGAAAAAGAG
54991114 AAGAAAAAGA-
1 AAGAAAAAGAG
54991124 AAGAAAAA
1 AAGAAAAA
54991132 AAAAAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:54995488 original size:42 final size:42
Alignment explanation
Indices: 54995429--54995524 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
54995419 CTATATGAAC
* *
54995429 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
* *
54995471 GGCACTAAGTGTACGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
54995513 GGCACTAAGTGT
1 GGCACTAAGTGT
54995525 GCGATACCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
Found at i:54997594 original size:7 final size:7
Alignment explanation
Indices: 54997582--54997606 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54997572 AGTCGATTGA
54997582 TATTTAG
1 TATTTAG
54997589 TATTTAG
1 TATTTAG
54997596 TATTTAG
1 TATTTAG
54997603 TATT
1 TATT
54997607 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:54998284 original size:18 final size:18
Alignment explanation
Indices: 54998258--54998294 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
54998248 AGGTGCGTTC
*
54998258 CCTAGCCCTTATATGTAT
1 CCTAACCCTTATATGTAT
54998276 CCTAACCCTTATATGTAT
1 CCTAACCCTTATATGTAT
54998294 C
1 C
54998295 TTTTTCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (18 bp):
CCTAACCCTTATATGTAT
Found at i:54998576 original size:21 final size:21
Alignment explanation
Indices: 54998552--54998600 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
54998542 AGATGTCGTA
* *
54998552 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
54998573 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
54998594 CCGGAAG
1 CCGGAAG
54998601 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:54998755 original size:25 final size:25
Alignment explanation
Indices: 54998721--54998844 Score: 134
Period size: 25 Copynumber: 5.1 Consensus size: 25
54998711 TGATTATTTT
54998721 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
54998746 GAAGTTTATTTGATGTAATAAAAATA
1 GAAGTTTATTTGATGTAAT-AAAATA
* * ***
54998772 GAAATTTTTTTGA-GT--TATTGT-
1 GAAGTTTATTTGATGTAATAAAATA
*
54998793 G-A-TATTATTTGATATAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
54998817 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
54998842 GAA
1 GAA
54998845 ATTTTTGAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.01
20 8 0.10
21 2 0.03
22 2 0.03
23 4 0.05
24 1 0.01
25 44 0.55
26 18 0.22
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:54998920 original size:28 final size:24
Alignment explanation
Indices: 54998889--54999073 Score: 218
Period size: 23 Copynumber: 7.6 Consensus size: 24
54998879 GAGAATTGTA
54998889 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
*
54998917 CTAACCTAATTAAATT-GAAAACT
1 CTAACCTAATTAAATTAGAAAACC
54998940 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
* **
54998963 CTAACCTAATTAAACT-CTAAACC
1 CTAACCTAATTAAATTAGAAAACC
54998986 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
54999014 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
54999037 CTAACCTAATTAAATTA-AAAACT
1 CTAACCTAATTAAATTAGAAAACC
54999060 CTAACCTAATTAAA
1 CTAACCTAATTAAA
54999074 CCCTAAACTA
Statistics
Matches: 141, Mismatches: 8, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
23 104 0.74
28 37 0.26
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (24 bp):
CTAACCTAATTAAATTAGAAAACC
Found at i:54998927 original size:23 final size:23
Alignment explanation
Indices: 54998901--54999127 Score: 199
Period size: 23 Copynumber: 10.0 Consensus size: 23
54998891 AACCTAATTA
54998901 AATTGAAA-AGAAAACCCTAACCT
1 AATT-AAATAGAAAACCCTAACCT
* *
54998924 AATTAAATTGAAAACTCTAACCT
1 AATTAAATAGAAAACCCTAACCT
54998947 AATTAAATTA-AAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
**
54998970 AATTAAACT-CTAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
54998993 AATTAAATTGAAAAGAAAACCCTAACCT
1 AATTAAA-T----AGAAAACCCTAACCT
*
54999021 AATTAAATTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
54999044 AATTAAATTA-AAAACTCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
*
54999067 AA-T---T---AAACCCTAAACT
1 AATTAAATAGAAAACCCTAACCT
* *
54999083 AATTAACTTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
54999106 AATTAAATTA-AAAACCCTAACC
1 AATTAAA-TAGAAAACCCTAACC
54999128 CTAACCCTAA
Statistics
Matches: 170, Mismatches: 17, Indels: 34
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.07
17 1 0.01
18 1 0.01
20 1 0.01
22 4 0.02
23 128 0.75
24 3 0.02
27 1 0.01
28 19 0.11
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.25
Consensus pattern (23 bp):
AATTAAATAGAAAACCCTAACCT
Found at i:54998964 original size:46 final size:46
Alignment explanation
Indices: 54998911--54999127 Score: 259
Period size: 46 Copynumber: 4.8 Consensus size: 46
54998901 AATTGAAAAG
*
54998911 AAAACCCTAACCTAATTAAATTGAAAACTCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
* **
54998957 AAAACCCTAACCTAATTAAACTCTAAACCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATT----A
54999007 GAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
1 -AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
* * * *
54999054 AAAACTCTAACC----T-AATT--AAACCCTAAACTAATTAACTTG
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
54999093 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACC
54999128 CTAACCCTAA
Statistics
Matches: 146, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
39 30 0.21
41 4 0.03
42 1 0.01
43 1 0.01
44 4 0.03
46 62 0.42
47 1 0.01
50 1 0.01
51 42 0.29
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.25
Consensus pattern (46 bp):
AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
Found at i:54999054 original size:97 final size:97
Alignment explanation
Indices: 54998889--54999081 Score: 359
Period size: 97 Copynumber: 2.0 Consensus size: 97
54998879 GAGAATTGTA
*
54998889 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACTCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
54998954 TTAAAAACCCTAACCTAATTAAACTCTAAACC
66 TTAAAAACCCTAACCTAATTAAACCCTAAACC
54998986 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
54999051 TTAAAAACTCTAACCTAATTAAACCCTAAAC
66 TTAAAAACCCTAACCTAATTAAACCCTAAAC
54999082 TAATTAACTT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.25
Consensus pattern (97 bp):
CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
TTAAAAACCCTAACCTAATTAAACCCTAAACC
Found at i:54999079 original size:16 final size:16
Alignment explanation
Indices: 54999055--54999088 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54999045 ATTAAATTAA
* *
54999055 AAACTCTAACCTAATT
1 AAACCCTAAACTAATT
54999071 AAACCCTAAACTAATT
1 AAACCCTAAACTAATT
54999087 AA
1 AA
54999089 CTTGAAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
AAACCCTAAACTAATT
Found at i:54999106 original size:62 final size:62
Alignment explanation
Indices: 54999009--54999127 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 62
54998999 ATTGAAAAGA
* *
54999009 AAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAATT
1 AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT
*
54999071 AAACCCTAAACTAATTAACTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
1 AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
54999128 CTAACCCTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (62 bp):
AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT
Found at i:54999128 original size:29 final size:29
Alignment explanation
Indices: 54999095--54999158 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
54999085 TTAACTTGAA
54999095 AACCCTAA-CCTAATTA-AATTAAAAACCCT
1 AACCCTAACCCTAA--ACAATTAAAAACCCT
**
54999124 AACCCTAACCCTAAACCCTTAAAAACCCT
1 AACCCTAACCCTAAACAATTAAAAACCCT
54999153 AACCCT
1 AACCCT
54999159 TAACATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 25 0.81
30 5 0.16
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (29 bp):
AACCCTAACCCTAAACAATTAAAAACCCT
Found at i:54999152 original size:17 final size:16
Alignment explanation
Indices: 54999113--54999161 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
54999103 CCTAATTAAA
54999113 TTAAAAACCCTAACCC
1 TTAAAAACCCTAACCC
54999129 -T---AACCCTAAACCC
1 TTAAAAACCCT-AACCC
54999142 TTAAAAACCCTAACCC
1 TTAAAAACCCTAACCC
54999158 TTAA
1 TTAA
54999162 CATTCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (16 bp):
TTAAAAACCCTAACCC
Found at i:54999299 original size:23 final size:20
Alignment explanation
Indices: 54999250--54999293 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
54999240 TACTAACAAT
54999250 TAATACAATTTATCGGATAA
1 TAATACAATTTATCGGATAA
54999270 TAATACAATTTATCGGATAA
1 TAATACAATTTATCGGATAA
54999290 TAAT
1 TAAT
54999294 TTTACATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (20 bp):
TAATACAATTTATCGGATAA
Found at i:54999406 original size:135 final size:135
Alignment explanation
Indices: 54999161--54999408 Score: 385
Period size: 135 Copynumber: 1.8 Consensus size: 135
54999151 CTAACCCTTA
* * *
54999161 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATATTAGATTTGGAAAAATG-TTTTTCCTAGTACTAACAAATAATAATTTTATA
* *
54999226 TAATTTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATACAATTTATCGGATAAT
65 TAAATTGATAATTTTACTAACAATTAATACAATTTATCGAATAATAATACAATTTATCGGATAAT
54999291 AATTTT
130 AATTTT
54999297 ACATTCACATAATATTAGATTTGGAAAAATG-TTTTCACTAGTACTAACAAATAATAATTTTATA
1 ACATTCACATAATATTAGATTTGGAAAAATGTTTTTC-CTAGTACTAACAAATAATAATTTTATA
*
54999361 TAAATTGA-AATTTTTACTAACCATTAATACAATTTATC-AATTAATAAT
65 TAAATTGATAA-TTTTACTAACAATTAATACAATTTATCGAA-TAATAAT
54999409 TTCACAAACT
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
134 8 0.08
135 65 0.63
136 30 0.29
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (135 bp):
ACATTCACATAATATTAGATTTGGAAAAATGTTTTTCCTAGTACTAACAAATAATAATTTTATAT
AAATTGATAATTTTACTAACAATTAATACAATTTATCGAATAATAATACAATTTATCGGATAATA
ATTTT
Found at i:55001685 original size:604 final size:604
Alignment explanation
Indices: 55000537--55001744 Score: 2344
Period size: 604 Copynumber: 2.0 Consensus size: 604
55000527 ATCAGGTTGG
55000537 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
1 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
*
55000602 TATTGCAAATGCAATTGGAAGAATTATCCCACCGTCATTCTGTGCCACTGCAAGCAATAGCTGAT
66 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
* *
55000667 GAGTATACCTCCTGAACATAAAGGTACTGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
131 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
*
55000732 TCTCGGTATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
196 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
*
55000797 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTTTCTAGCACCT
261 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
*
55000862 GACACCACTGCCATATTTCATTATATGAGGCATCCCACCCCCTATGCATCTTCTCCAATGCCTTT
326 GACACCACTGCCATATTTCATTATATGAGGCATCCCACCCCCTATGCATCTTCTCCAACGCCTTT
55000927 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
391 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
55000992 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
456 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
55001057 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
521 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
55001122 TGCATAATAAAAGTATTGT
586 TGCATAATAAAAGTATTGT
55001141 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
1 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
55001206 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
66 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
55001271 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
131 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
55001336 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
196 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
*
55001401 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACTTGGGACGTATCTCTCTAGCACCT
261 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
*
55001466 GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
326 GACACCACTGCCATATTTCATTATATGAGGCATCCCACCCCCTATGCATCTTCTCCAACGCCTTT
55001531 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
391 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
55001596 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
456 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
55001661 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
521 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
55001726 TGCATAATAAAAGTATTGT
586 TGCATAATAAAAGTATTGT
55001745 TCAGAAACCG
Statistics
Matches: 596, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
604 596 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (604 bp):
GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
GACACCACTGCCATATTTCATTATATGAGGCATCCCACCCCCTATGCATCTTCTCCAACGCCTTT
TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
TGCATAATAAAAGTATTGT
Found at i:55003253 original size:126 final size:125
Alignment explanation
Indices: 55003022--55003387 Score: 522
Period size: 123 Copynumber: 2.9 Consensus size: 125
55003012 CCGAAACATG
* * *
55003022 CTACTGTAGCAAAAGCGTGTCCACGAGGGTGCGATTTTCACAAATTTTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTT-ACAAATTATTCTCAAATAGCATTCTG
* * *
55003087 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGTAAAAAAAAAATTTATTTTATCCATGAT
65 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAA-TTATTTCATCCATGAC
* *
55003149 CTACTGTAGTAAAAGCGCGTCCACGAGGGTGTGATTTTACAAATTATTCTCAAATAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTCTGC
55003214 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTC--AAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAATTATTTCATCCATGAC
* * *
55003272 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCAATTTCACAAATTATTCTCTAATAGCA-TCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTC-TG
* * * * ***
55003336 CTAGAAGTGATTTTATACTATTTGATTAGAAACGTCAACTCAAAATTATTTC
65 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAATTATTTC
55003388 TTCCCGGATC
Statistics
Matches: 216, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
122 2 0.01
123 102 0.47
124 7 0.03
125 11 0.05
126 59 0.27
127 35 0.16
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAATTATTTCATCCATGAC
Found at i:55009150 original size:3 final size:3
Alignment explanation
Indices: 55009142--55009170 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
55009132 AAAACCAGTT
55009142 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
55009171 TACATTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:55013359 original size:16 final size:16
Alignment explanation
Indices: 55013334--55013369 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55013324 ATAACAAAAT
55013334 TACA-ATATATATACA
1 TACACATATATATACA
*
55013349 TACACATATATATATA
1 TACACATATATATACA
55013365 TACAC
1 TACAC
55013370 GAATTAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACATATATATACA
Found at i:55016357 original size:50 final size:50
Alignment explanation
Indices: 55016282--55016523 Score: 322
Period size: 50 Copynumber: 4.8 Consensus size: 50
55016272 GTGAGCCAGT
*
55016282 GTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * * *
55016332 GTAAGTCCATGTCTGGGACATGGCGTTGGCACTGAAATGAGAGGTTCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * *
55016382 GTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGGTGAAAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * * *
55016432 GTAAGACCATGTTTGGGATATGGCGTTCGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * *
55016482 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
55016524 ACCCCCATAT
Statistics
Matches: 163, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 163 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
Found at i:55016537 original size:50 final size:50
Alignment explanation
Indices: 55016281--55016549 Score: 306
Period size: 50 Copynumber: 5.4 Consensus size: 50
55016271 TGTGAGCCAG
* *
55016281 TGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCA
* * * * * *
55016331 CGTAAGTCCATGTCTGGGACATGGCGTTGGCACTGAAATGAGAGGTTCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCA
* *
55016381 TGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGGTGA-AAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA-GTCCCA
* * * * * *
55016431 TGTAAGACCATGTTTGGGATATGGCGTTCGCATCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCA
* * * * **
55016481 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACCCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCA
* *
55016531 TATAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
55016550 TATGACATTG
Statistics
Matches: 180, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 178 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCCCA
Found at i:55016561 original size:150 final size:150
Alignment explanation
Indices: 55016281--55016562 Score: 375
Period size: 150 Copynumber: 1.9 Consensus size: 150
55016271 TGTGAGCCAG
* *
55016281 TGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGTCCATGTCT
1 TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
* * * **** * * * *
55016346 GGGACATGGCGTTGGCACTGAAATGAGAGGTTCCATGTAAGACCATGTCTAGGACATGGCGTTGG
66 GGGACATGGCATGGGCACCGAAATGAGAACCCCCATATAAGACCATATCTAGGACATGACATTGG
55016411 CACCGAGGTGAAAGGTCCCA
131 CACCGAGGTGAAAGGTCCCA
* * * * *
55016431 TGTAAGACCATGTTTGGGATATGGCGTTCGCATCGAGATGAGAGGTCCCCCGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
* * *
55016496 GGGACATGGCATGGGCACCGATATGAGAACCCCCATATAAGACCATATCTGGGATATGACATTGG
66 GGGACATGGCATGGGCACCGAAATGAGAACCCCCATATAAGACCATATCTAGGACATGACATTGG
55016561 CA
131 CA
55016563 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
150 111 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (150 bp):
TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
GGGACATGGCATGGGCACCGAAATGAGAACCCCCATATAAGACCATATCTAGGACATGACATTGG
CACCGAGGTGAAAGGTCCCA
Found at i:55023563 original size:3 final size:3
Alignment explanation
Indices: 55023548--55023616 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
55023538 TTTAAGATTT
* * ** **
55023548 TTA TTA TTG TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
55023596 TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
55023617 AATTGTTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:55023612 original size:21 final size:21
Alignment explanation
Indices: 55023557--55023613 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
55023547 TTTATTATTG
*
55023557 TTATTATTATTAATACCATTA
1 TTATTATTATTATTACCATTA
55023578 TTATTATTATTATTACCATTA
1 TTATTATTATTATTACCATTA
*
55023599 TTATTATTACTATTA
1 TTATTATTATTATTA
55023614 TTAAATTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTATTATTATTACCATTA
Found at i:55026867 original size:11 final size:11
Alignment explanation
Indices: 55026839--55026868 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
55026829 TAAAAAATAA
55026839 AAAAAGTATTTT
1 AAAAA-TATTTT
55026851 AAAAATATTTT
1 AAAAATATTTT
55026862 AAAAATA
1 AAAAATA
55026869 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:55026885 original size:7 final size:7
Alignment explanation
Indices: 55026873--55026905 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
55026863 AAAATAATAA
55026873 AAAAAAT
1 AAAAAAT
55026880 AAAAAAT
1 AAAAAAT
55026887 AAAAAAT
1 AAAAAAT
55026894 AAAAAAT
1 AAAAAAT
55026901 AAAAA
1 AAAAA
55026906 TATTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:55033414 original size:22 final size:22
Alignment explanation
Indices: 55033389--55033432 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
55033379 TTTAACAATA
*
55033389 AATTCTTATAAT-TTTATTATTT
1 AATTCTTAAAATATTT-TTATTT
*
55033411 AATTTTTAAAATATTTTTATTT
1 AATTCTTAAAATATTTTTATTT
55033433 TAATCATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
AATTCTTAAAATATTTTTATTT
Found at i:55041187 original size:29 final size:29
Alignment explanation
Indices: 55041151--55041209 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
55041141 TCCTCAAGAT
55041151 AAGTTTTGATTTGGAATTTTTATGTTTTA
1 AAGTTTTGATTTGGAATTTTTATGTTTTA
55041180 AAGTTTTGATTTGGAATTTTTATGTTTTA
1 AAGTTTTGATTTGGAATTTTTATGTTTTA
55041209 A
1 A
55041210 TTGAAAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (29 bp):
AAGTTTTGATTTGGAATTTTTATGTTTTA
Found at i:55041953 original size:19 final size:20
Alignment explanation
Indices: 55041929--55041966 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
55041919 TAGCATATCA
55041929 TAATAAAACA-AAATTTTAG
1 TAATAAAACATAAATTTTAG
*
55041948 TAATAATACATAAATTTTA
1 TAATAAAACATAAATTTTA
55041967 AAACAAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TAATAAAACATAAATTTTAG
Found at i:55042212 original size:26 final size:26
Alignment explanation
Indices: 55042176--55042234 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
55042166 GTCCTCAAGG
55042176 GCGCGCTTTGTCGACGTGGACATAAA
1 GCGCGCTTTGTCGACGTGGACATAAA
55042202 GCGCGCTTTGTCGACGTGGACATAAA
1 GCGCGCTTTGTCGACGTGGACATAAA
55042228 GCGCGCT
1 GCGCGCT
55042235 GACGTGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.22
Consensus pattern (26 bp):
GCGCGCTTTGTCGACGTGGACATAAA
Found at i:55042238 original size:21 final size:23
Alignment explanation
Indices: 55042186--55042243 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 23
55042176 GCGCGCTTTG
55042186 TCGACGTGGACATAAAGCGCGCTTT
1 TCGACGTGGACATAAAGCGCGC--T
55042211 GTCGACGTGGACATAAAGCGCGC-
1 -TCGACGTGGACATAAAGCGCGCT
55042234 T-GACGTGGAC
1 TCGACGTGGAC
55042244 GCGTTTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.28
22 1 0.03
26 22 0.69
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (23 bp):
TCGACGTGGACATAAAGCGCGCT
Found at i:55043261 original size:6 final size:6
Alignment explanation
Indices: 55043241--55043290 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
55043231 ACTTAAAAAC
* *
55043241 ACCCTAA ACCCTA ACCTTA ACCTTA ACCCTA ACCCTA ACCCTA ACCCTA
1 ACCCT-A ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA
55043290 A
1 A
55043291 TCTATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (6 bp):
ACCCTA
Found at i:55043898 original size:7 final size:7
Alignment explanation
Indices: 55043888--55043957 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
55043878 TTTAATTTTT
55043888 AACCCTA
1 AACCCTA
55043895 AACCCTA
1 AACCCTA
55043902 AACCCTAA
1 AACCCT-A
*
55043910 AACCTTA
1 AACCCTA
**
55043917 AACTATAA
1 AACCCT-A
*
55043925 AACCATA
1 AACCCTA
*
55043932 AACCATA
1 AACCCTA
*
55043939 AACCTTAA
1 AACCCT-A
55043947 AACCCATA
1 AACCC-TA
55043955 AAC
1 AAC
55043958 GGGCAAAACG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
7 31 0.58
8 21 0.40
9 1 0.02
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:55043918 original size:15 final size:14
Alignment explanation
Indices: 55043888--55043957 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
55043878 TTTAATTTTT
* *
55043888 AACCCTAAACCCTA
1 AACCATAAACCTTA
*
55043902 AACCCTAAAACCTTA
1 AACCAT-AAACCTTA
* *
55043917 AACTATAAAACCATA
1 AACCAT-AAACCTTA
55043932 AACCATAAACCTTAA
1 AACCATAAACCTT-A
55043947 AACCCATAAAC
1 AA-CCATAAAC
55043958 GGGCAAAACG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.26
15 27 0.57
16 8 0.17
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCATAAACCTTA
Found at i:55044283 original size:12 final size:12
Alignment explanation
Indices: 55044266--55044295 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55044256 CAATATAAAG
*
55044266 ATAATAGGAATA
1 ATAATAGCAATA
55044278 ATAATAGCAATA
1 ATAATAGCAATA
55044290 ATAATA
1 ATAATA
55044296 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (12 bp):
ATAATAGCAATA
Found at i:55044304 original size:12 final size:12
Alignment explanation
Indices: 55044289--55044354 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
55044279 TAATAGCAAT
55044289 AATAATATTAAA
1 AATAATATTAAA
*
55044301 AATATATATATTAA
1 AATA-ATAT-TAAA
*
55044315 AATAATAATAAA
1 AATAATATTAAA
* *
55044327 GATAACTA-AAAA
1 AATAA-TATTAAA
55044339 AATAAT-TTAAA
1 AATAATATTAAA
55044350 AATAA
1 AATAA
55044355 AATAATAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
11 9 0.21
12 18 0.42
13 9 0.21
14 7 0.16
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (12 bp):
AATAATATTAAA
Found at i:55044304 original size:15 final size:14
Alignment explanation
Indices: 55044286--55044324 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
55044276 TAATAATAGC
55044286 AATAATAATATTAA
1 AATAATAATATTAA
55044300 AA-ATATATATATTAA
1 AATA-ATA-ATATTAA
55044315 AATAATAATA
1 AATAATAATA
55044325 AAGATAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 8 0.36
15 12 0.55
16 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATAATATTAA
Found at i:55045945 original size:143 final size:143
Alignment explanation
Indices: 55045687--55046284 Score: 901
Period size: 143 Copynumber: 4.2 Consensus size: 143
55045677 TTTTAATCCA
* * * *
55045687 CTCCACTACAACTTCAGGGAGAT-AGGATTGGTGGCTTCAATCTGCTTCACTACAACTTTAGGAA
1 CTCCACTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAA
* * *
55045751 GATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAATATTTG
65 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
*
55045816 TTGTCTTCAGTCTG
130 CTGTCTTCAGTCTG
* ** * *
55045830 CTCCACTACAACTTCAAAGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
** * * *
55045895 ATAAGATTTGTCATAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
55045960 TGTCTTCAGTCTG
131 TGTCTTCAGTCTG
*
55045973 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
* * * *
55046038 ATAAGATCTGCCATAATTTGTAGCTTTAATTTGTTCCACTGCAACGCCAGAGAAATAAGATTCAC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
*
55046103 TGTCTTTAGTCTG
131 TGTCTTCAGTCTG
* * *
55046116 CTCCACTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTATAACTTCAGGAAA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
* *
55046181 ATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
*
55046246 TATCTTCAGTCTG
131 TGTCTTCAGTCTG
*
55046259 CTCCGCTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
55046285 ACTTGTATCT
Statistics
Matches: 411, Mismatches: 43, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
143 408 0.99
144 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (143 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
TGTCTTCAGTCTG
Found at i:55045998 original size:45 final size:45
Alignment explanation
Indices: 55045922--55046285 Score: 216
Period size: 45 Copynumber: 7.7 Consensus size: 45
55045912 TTGTAGCTTT
* **
55045922 AATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCTGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTC
* * ** * *
55045967 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-GGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTC
*
55046011 AATCTGCTCCACTGCAACTTCA-GGAAGATAAGA-TCTGCCATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTC-G-C------TGT--CTTC
* * ** * * *
55046065 AATTTGTTCCACTGCAACGCCAGAGAAATAAGATTCACTGTCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTC
* * * * *
55046110 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-GGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTC
** * *
55046154 AATCTGCTCCACTATAACTTCAGGAAAATAAGATTCGCCATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG-C------TGT--CTTC
* * *
55046208 AATCTGTTCCACTGCAAC-GCTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTC-AGGGAAATAAGATTCGCTGTCTTC
* * *
55046253 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGA
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGA
55046286 CTTGTATCTT
Statistics
Matches: 239, Mismatches: 54, Indels: 52
0.69 0.16 0.15
Matches are distributed among these distances:
43 4 0.02
44 67 0.28
45 90 0.38
46 1 0.00
47 5 0.02
52 4 0.02
53 3 0.01
54 60 0.25
55 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTC
Found at i:55046026 original size:44 final size:44
Alignment explanation
Indices: 55045917--55046177 Score: 162
Period size: 44 Copynumber: 5.7 Consensus size: 44
55045907 ATAACTTGTA
* * ** * * *
55045917 GCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-GGTG
* * *
55045962 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
* * *
55046006 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G------TTGGTG
* * * ** * * * **
55046060 GCTTTAATTTGTTCCACTGCAACGCCAGAGAAATAAGATTCACTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-GGTG
* * *
55046105 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
**
55046149 GCTTCAATCTGCTCCACTATAACTTCAGG
1 GCTTCAATCTGCTCCACTGCAACTTCAGG
55046178 AAAATAAGAT
Statistics
Matches: 161, Mismatches: 44, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
44 65 0.40
45 63 0.39
48 1 0.01
54 32 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
Found at i:55048250 original size:45 final size:45
Alignment explanation
Indices: 55048181--55048266 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
55048171 AGATACTCAA
* * *
55048181 TGGATTCAGCACATAGTAACCACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
55048226 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
55048267 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
Found at i:55049617 original size:45 final size:46
Alignment explanation
Indices: 55049554--55049720 Score: 166
Period size: 45 Copynumber: 3.7 Consensus size: 46
55049544 TAGTCCGCTT
* *
55049554 CACTG-CAACTTCAGGGAGATAAGATTTGCTATCTTGAATCCACTC
1 CACTGTCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCCACTC
* * * *
55049599 CA-TTTCAACTTCAAGGAGATAGGATTTGCTATCTTCAATGCGCTC
1 CACTGTCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCCACTC
* * **
55049644 CACTGT-AACTT-TAGGAAGATAAGATTTGCTATCTTCAGTCTGCTC
1 CACTGTCAACTTCAAGG-AGATAAGATTTGCTATCTTCAATCCACTC
* *
55049689 CGCTG-CAACTTC-AGTGAGATAAGACTTGCTAT
1 CACTGTCAACTTCAAG-GAGATAAGATTTGCTAT
55049721 ATTCGATCTG
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.04
45 95 0.93
46 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (46 bp):
CACTGTCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCCACTC
Found at i:55049708 original size:90 final size:90
Alignment explanation
Indices: 55049549--55049720 Score: 211
Period size: 90 Copynumber: 1.9 Consensus size: 90
55049539 GGCTTTAGTC
* * * * *
55049549 CGCTTCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTGAATCCACTCCATTTCAACTTCAAG
1 CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCACTGCAACTTCAAG
* *
55049614 GAGATAGGATTTGCTATCTTCAATG
66 GAGATAAGACTTGCTATCTTCAATG
* * * ** *
55049639 CGCTCCACTGTAACTTTAGGAAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTC-AG
1 CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCACTGCAACTTCAAG
55049703 TGAGATAAGACTTGCTAT
66 -GAGATAAGACTTGCTAT
55049721 ATTCGATCTG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
89 2 0.03
90 66 0.97
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (90 bp):
CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCACTGCAACTTCAAG
GAGATAAGACTTGCTATCTTCAATG
Found at i:55050920 original size:16 final size:17
Alignment explanation
Indices: 55050901--55050942 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
55050891 TTAGCCTCTC
* *
55050901 TTTTTCTT-TTTCTTCT
1 TTTTTCTTATTTATTAT
55050917 TTTTTCTTATTTATTAT
1 TTTTTCTTATTTATTAT
55050934 TTTTT-TTAT
1 TTTTTCTTAT
55050943 GACTCAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTTATTTATTAT
Done.