Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 200 of 349
Found at i:64449101 original size:30 final size:30
Alignment explanation
Indices: 64449031--64449117 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 30
64449021 CATAGTATCG
* * * *
64449031 TATCTTGGGTTTCTTTATCCT-GGATTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
64449060 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
*
64449090 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
64449118 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.02
29 24 0.48
30 24 0.48
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:64451539 original size:46 final size:45
Alignment explanation
Indices: 64451489--64451664 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
64451479 TATTTGGGCA
64451489 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
64451535 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
64451580 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
64451628 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64451665 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:64451644 original size:93 final size:93
Alignment explanation
Indices: 64451485--64451656 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
64451475 TGGATATTTG
* * *
64451485 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
64451550 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
64451578 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
*
64451643 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
64451657 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:64453183 original size:20 final size:20
Alignment explanation
Indices: 64453160--64453206 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
64453150 GGGTTAAGAT
*
64453160 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
64453180 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
64453200 TGAGCTG
1 TGAGCTG
64453207 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:64456103 original size:46 final size:45
Alignment explanation
Indices: 64456051--64456226 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
64456041 TATTTGGGCA
* *
64456051 TCCGAGCTCGTTGAGTCGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
64456097 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
64456142 CATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGTGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
64456190 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64456227 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:64456171 original size:93 final size:93
Alignment explanation
Indices: 64456047--64456219 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
64456037 AGGATATTTG
* * * * *
64456047 GGCATCCGAGCTCGTTGAGTCGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
64456112 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
64456140 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
64456205 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
64456220 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:64469001 original size:30 final size:31
Alignment explanation
Indices: 64468967--64469064 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 31
64468957 AGCTCACTCC
64468967 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCATACTTTAGCTCACGAGCTAAACCT
* * * * * *
64468997 TAGCTC-TACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCATACTTTAGCTCACGAGCTAAACCT
* *
64469027 CAGCTCA-ACTTTAGCTCACGAGCTAAAACT
1 TAGCTCATACTTTAGCTCACGAGCTAAACCT
64469057 TAGCTCAT
1 TAGCTCAT
64469065 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
29 2 0.04
30 48 0.96
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (31 bp):
TAGCTCATACTTTAGCTCACGAGCTAAACCT
Found at i:64473374 original size:17 final size:18
Alignment explanation
Indices: 64473352--64473392 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
64473342 CGTTTCTTTT
64473352 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
64473369 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
64473387 T-TTTTG
1 TCTTTTG
64473393 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:64473376 original size:24 final size:25
Alignment explanation
Indices: 64473323--64473376 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
64473313 AACAAATTCT
* *
64473323 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
64473348 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
64473371 TTTTTT
1 TTTTTT
64473377 ATCACTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:64478837 original size:13 final size:13
Alignment explanation
Indices: 64478819--64478857 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
64478809 AAAGGAGAAG
64478819 AAATTCAGAAAAA
1 AAATTCAGAAAAA
64478832 AAATTCA-AAAAA
1 AAATTCAGAAAAA
*
64478844 AAAATC-GAAAAA
1 AAATTCAGAAAAA
64478856 AA
1 AA
64478858 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (13 bp):
AAATTCAGAAAAA
Found at i:64479843 original size:37 final size:37
Alignment explanation
Indices: 64479792--64479862 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
64479782 CATTCTTGTA
64479792 AAGAGAAAATAAAGAAAA-GAAAAGAAAAAGAAAAAGT
1 AAGAGAAAATAAAGAAAATG-AAAGAAAAAGAAAAAGT
*
64479829 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AATAAAGAAAATGAAAGAAAAAGAAAA
64479863 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (37 bp):
AAGAGAAAATAAAGAAAATGAAAGAAAAAGAAAAAGT
Found at i:64479862 original size:6 final size:6
Alignment explanation
Indices: 64479802--64479851 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
64479792 AAGAGAAAAT
*
64479802 AAAG-A AAAG-A AAAGAA AAAGAA AAAGTAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
64479851 A
1 A
64479852 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (6 bp):
AAAGAA
Found at i:64479862 original size:21 final size:23
Alignment explanation
Indices: 64479806--64479864 Score: 59
Period size: 27 Copynumber: 2.5 Consensus size: 23
64479796 GAAAATAAAG
64479806 AAAAGAAAAGAAAAAGAAAAAGTA
1 AAAAGAAAAGAAAAAG-AAAAGTA
*
64479830 AGAGAAGAAAAAGAAAATG-AAA-TA
1 A-A-AAG-AAAAGAAAAAGAAAAGTA
64479854 AAAAGAAAAGA
1 AAAAGAAAAGA
64479865 GAGGCAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.19
22 3 0.10
23 1 0.03
24 4 0.13
25 4 0.13
26 3 0.10
27 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (23 bp):
AAAAGAAAAGAAAAAGAAAAGTA
Found at i:64479944 original size:11 final size:12
Alignment explanation
Indices: 64479912--64479942 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
64479902 TTGAGAGAAC
64479912 TTGAAAAAGCCT
1 TTGAAAAAGCCT
64479924 TTGAAAAAGCCT
1 TTGAAAAAGCCT
64479936 TTGAAAA
1 TTGAAAA
64479943 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:64481589 original size:30 final size:30
Alignment explanation
Indices: 64481503--64481590 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
64481493 CTAGCTTATA
64481503 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * * *
64481533 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
*
64481563 TTTAGCTCACGAGCTAAAACTTAGCTCA
1 TTTAGCTCACGAGCTAAACCTTAGCTCA
64481591 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TTTAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:64483330 original size:10 final size:11
Alignment explanation
Indices: 64483307--64483342 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
64483297 AAAGGAGAAG
64483307 AAATTCAGAAAA
1 AAATTCA-AAAA
64483319 AAATTCAAAAA
1 AAATTCAAAAA
*
64483330 AAATTGAAAAA
1 AAATTCAAAAA
64483341 AA
1 AA
64483343 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:64484320 original size:37 final size:37
Alignment explanation
Indices: 64484269--64484339 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
64484259 CATTCTTGTA
64484269 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
64484306 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
64484340 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:64484339 original size:6 final size:6
Alignment explanation
Indices: 64484279--64484328 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
64484269 AAGAGAAAAC
*
64484279 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
64484328 A
1 A
64484329 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:64484421 original size:11 final size:12
Alignment explanation
Indices: 64484389--64484419 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
64484379 TTGAGAGAAC
64484389 TTGAAAAAGCCT
1 TTGAAAAAGCCT
64484401 TTGAAAAAGCCT
1 TTGAAAAAGCCT
64484413 TTGAAAA
1 TTGAAAA
64484420 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:64486633 original size:30 final size:30
Alignment explanation
Indices: 64486599--64486694 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
64486589 AGCTCACTCC
64486599 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
64486629 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
64486659 CAGCTCAACTTTAGCTCACGAGCTAAA-CT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
64486688 TAGCTCA
1 TAGCTCA
64486695 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 9 0.18
30 42 0.82
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:64494616 original size:13 final size:13
Alignment explanation
Indices: 64494598--64494626 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64494588 CGGCTAACCT
64494598 ACATAATTAAATA
1 ACATAATTAAATA
64494611 ACATAATTAAATA
1 ACATAATTAAATA
64494624 ACA
1 ACA
64494627 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:64500973 original size:20 final size:20
Alignment explanation
Indices: 64500950--64500996 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
64500940 GGGTTAAGAT
*
64500950 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
64500970 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
64500990 TGAGCTG
1 TGAGCTG
64500997 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:64502678 original size:18 final size:18
Alignment explanation
Indices: 64502655--64502730 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 18
64502645 TTGTCTTTTC
64502655 TTTCTTTTTCAATCTCAA
1 TTTCTTTTTCAATCTCAA
* *
64502673 TTTCTTTTTCGATTTC--
1 TTTCTTTTTCAATCTCAA
*
64502689 TTTCTCTTT---T-TCACA
1 TTTCTTTTTCAATCTCA-A
*
64502704 -TCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATCTCAA
64502721 TTTCTTTTTC
1 TTTCTTTTTC
64502731 CATGACACTC
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
12 2 0.05
13 1 0.02
14 6 0.14
16 8 0.18
17 2 0.05
18 25 0.57
ACGTcount: A:0.14, C:0.24, G:0.01, T:0.61
Consensus pattern (18 bp):
TTTCTTTTTCAATCTCAA
Found at i:64505336 original size:20 final size:20
Alignment explanation
Indices: 64505313--64505359 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
64505303 GGGTTAAGAT
*
64505313 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
64505333 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
64505353 TGAGCTG
1 TGAGCTG
64505360 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:64505814 original size:30 final size:30
Alignment explanation
Indices: 64505780--64505876 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
64505770 TAAACTAAAA
*
64505780 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
64505810 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
64505840 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
64505869 ATGAGCTA
1 -TGAGCTA
64505877 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:64513693 original size:13 final size:13
Alignment explanation
Indices: 64513675--64513703 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64513665 CGGCTAACCT
64513675 ACATAATTAAATA
1 ACATAATTAAATA
64513688 ACATAATTAAATA
1 ACATAATTAAATA
64513701 ACA
1 ACA
64513704 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:64513940 original size:10 final size:10
Alignment explanation
Indices: 64513925--64513983 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
64513915 ATGAAAAAGG
64513925 AATGAGCTAA
1 AATGAGCTAA
64513935 AATGAGCTAA
1 AATGAGCTAA
* *
64513945 ATTCGAGCTCA
1 AAT-GAGCTAA
*
64513956 AACGAGCTAA
1 AATGAGCTAA
* *
64513966 AACGAGCTCA
1 AATGAGCTAA
*
64513976 AGTGAGCT
1 AATGAGCT
64513984 GATGGGAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 33 0.82
11 7 0.17
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (10 bp):
AATGAGCTAA
Found at i:64513982 original size:20 final size:21
Alignment explanation
Indices: 64513928--64513983 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
64513918 AAAAAGGAAT
* *
64513928 GAGCTAAAATGAGCTAAATTC
1 GAGCTCAAATGAGCTAAATAC
*
64513949 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAATGAGCTAAATAC
*
64513969 GAGCTCAAGTGAGCT
1 GAGCTCAAATGAGCT
64513984 GATGGGAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (21 bp):
GAGCTCAAATGAGCTAAATAC
Found at i:64516928 original size:16 final size:16
Alignment explanation
Indices: 64516907--64516937 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64516897 TGTAACGCCC
*
64516907 CAAAAATCTCGAAATT
1 CAAAAATCCCGAAATT
64516923 CAAAAATCCCGAAAT
1 CAAAAATCCCGAAAT
64516938 CCTGAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
CAAAAATCCCGAAATT
Found at i:64518090 original size:16 final size:16
Alignment explanation
Indices: 64518040--64518090 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
64518030 ATGTATAGGC
*
64518040 AAAAGCTGAAATGCTG
1 AAAAGCCGAAATGCTG
*
64518056 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCTG
* * *
64518072 AAATGTCGAAAAGCTG
1 AAAAGCCGAAATGCTG
64518088 AAA
1 AAA
64518091 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.14
Consensus pattern (16 bp):
AAAAGCCGAAATGCTG
Found at i:64518383 original size:28 final size:28
Alignment explanation
Indices: 64518301--64518384 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 28
64518291 GTGAGCATGA
*
64518301 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
** *
64518329 ATAAAAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* * *
64518358 ATATGAATATGATTGGGCTTAGTGGGC
1 ATATGAATGTGATTGGGCCTAATGGGC
64518385 TAGATACAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:64526606 original size:6 final size:6
Alignment explanation
Indices: 64526593--64526628 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
64526583 TCAATTTTTT
* *
64526593 TCTCAA TATCAA TATCAA TCTCAA TCTCAA TCTCAA
1 TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA
64526629 ATTCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (6 bp):
TCTCAA
Found at i:64526679 original size:20 final size:20
Alignment explanation
Indices: 64526636--64526679 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64526626 CAAATTCTTT
*
64526636 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
*
64526656 TTTCTTTTT-TCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
64526676 TTTC
1 TTTC
64526680 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:64526681 original size:26 final size:27
Alignment explanation
Indices: 64526617--64526682 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
64526607 TCAATCTCAA
** *
64526617 TCTCAATCTCAAATTCTTTTTTCTTTT
1 TCTCAATCTCATTTTCTTTTTTCTTTC
*
64526644 TCTCACTCTCATTTTCTTTTTTC-TTC
1 TCTCAATCTCATTTTCTTTTTTCTTTC
*
64526670 TCTCAATTTCATT
1 TCTCAATCTCATT
64526683 CAAGATTCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (27 bp):
TCTCAATCTCATTTTCTTTTTTCTTTC
Found at i:64527536 original size:28 final size:30
Alignment explanation
Indices: 64527484--64527551 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
64527474 TTTCAATCAC
*
64527484 TCTTTTTTTTTCAATTTTG-ATTTTTTTCT
1 TCTTTTTTTTTCAATTTCGAATTTTTTTCT
*
64527513 TCTTTTTTTTTTAA-TTCGAATTTTTTTCT
1 TCTTTTTTTTTCAATTTCGAATTTTTTTCT
64527542 TCTTTTTTTT
1 TCTTTTTTTT
64527552 CTTCAATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (30 bp):
TCTTTTTTTTTCAATTTCGAATTTTTTTCT
Found at i:64527614 original size:13 final size:13
Alignment explanation
Indices: 64527596--64527641 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
64527586 GAATACAAAC
64527596 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
**
64527609 TTTTTTTTCAAAT
1 TTTTTTTTTGAAT
64527622 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
64527635 TTTTTTT
1 TTTTTTT
64527642 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:64527650 original size:13 final size:12
Alignment explanation
Indices: 64527596--64527652 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 12
64527586 GAATACAAAC
*
64527596 TTTTTTTTTGAA
1 TTTTTTTTTTAA
*
64527608 TTTTTTTTTCAAA
1 TTTTTTTTT-TAA
64527621 TTTTTTTTTTGAA
1 TTTTTTTTTT-AA
*
64527634 TTTTTTTTAT-A
1 TTTTTTTTTTAA
64527645 TTTTTTTT
1 TTTTTTTT
64527653 ACAATACCGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 9 0.22
12 9 0.22
13 22 0.55
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTTAA
Found at i:64527652 original size:26 final size:26
Alignment explanation
Indices: 64527591--64527641 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
64527581 AAATTGAATA
*
64527591 CAAACTTTTTTTTTGAATTTTTTTTT
1 CAAATTTTTTTTTTGAATTTTTTTTT
64527617 CAAATTTTTTTTTTGAATTTTTTTT
1 CAAATTTTTTTTTTGAATTTTTTTT
64527642 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.71
Consensus pattern (26 bp):
CAAATTTTTTTTTTGAATTTTTTTTT
Found at i:64529758 original size:20 final size:20
Alignment explanation
Indices: 64529735--64529781 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
64529725 GGGTTAAGAT
*
64529735 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
64529755 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
64529775 TGAGCTG
1 TGAGCTG
64529782 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:64531504 original size:48 final size:48
Alignment explanation
Indices: 64531448--64531553 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
64531438 TTGTCTTTTC
*
64531448 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
64531496 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
64531544 TTTCTTTTTC
1 TTTCTTTTTC
64531554 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:64532617 original size:22 final size:21
Alignment explanation
Indices: 64532569--64532626 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
64532559 ACTCACAAGA
* *
64532569 CTTTTCACTTTTTTTGTTCTTT
1 CTTTT-ACTTTTTTTGCTCCTT
*
64532591 TTTTTACTTTTTTTGCTCACTT
1 CTTTTACTTTTTTTGCTC-CTT
*
64532613 CTTTT-TTTTTTTTG
1 CTTTTACTTTTTTTG
64532627 AATTTCGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (21 bp):
CTTTTACTTTTTTTGCTCCTT
Found at i:64534175 original size:20 final size:20
Alignment explanation
Indices: 64534152--64534198 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
64534142 GGGTTAAGAT
*
64534152 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
64534172 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
64534192 TGAGCTG
1 TGAGCTG
64534199 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:64534885 original size:11 final size:12
Alignment explanation
Indices: 64534866--64534898 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64534856 CATTCTAATA
64534866 AATTAAGTTT-T
1 AATTAAGTTTAT
*
64534877 AATTCAGTTTAT
1 AATTAAGTTTAT
64534889 AATTAAGTTT
1 AATTAAGTTT
64534899 GCTACAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
AATTAAGTTTAT
Found at i:64959400 original size:30 final size:30
Alignment explanation
Indices: 64959305--64959401 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
64959295 AGCTCACTCC
* *
64959305 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * **
64959335 TATCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
64959365 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
64959395 TAGCTCA
1 TAGCTCA
64959402 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:64961368 original size:24 final size:23
Alignment explanation
Indices: 64961314--64961391 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
64961304 GGATAATTAA
**
64961314 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
64961337 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
64961361 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
64961382 GAAATAGTAT
1 GAAATGGTAT
64961392 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:64961376 original size:21 final size:21
Alignment explanation
Indices: 64961350--64961416 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
64961340 TTGGTATTTG
64961350 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
64961371 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
64961392 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
64961415 GG
1 GG
64961417 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:64963655 original size:20 final size:19
Alignment explanation
Indices: 64963615--64963651 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
64963605 TAAGTATGGG
64963615 TGGATTTCTTGATTGGGCT
1 TGGATTTCTTGATTGGGCT
64963634 TGGATCTTCTT-ATTGGGC
1 TGGAT-TTCTTGATTGGGC
64963652 CTTGCCTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.46
Consensus pattern (19 bp):
TGGATTTCTTGATTGGGCT
Found at i:64964952 original size:4 final size:4
Alignment explanation
Indices: 64964943--64964970 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
64964933 AAGTTTTATT
64964943 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
64964971 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:64968694 original size:4 final size:4
Alignment explanation
Indices: 64968685--64968711 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
64968675 AAGTTTTATT
64968685 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
64968712 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:64971425 original size:15 final size:15
Alignment explanation
Indices: 64971393--64971426 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64971383 GTTCAACGAA
*
64971393 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
64971408 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
64971423 GAGG
1 GAGG
64971427 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:64983958 original size:29 final size:29
Alignment explanation
Indices: 64983925--64983984 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
64983915 ATAACCAAAC
*
64983925 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
64983954 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
64983983 CT
1 CT
64983985 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:64983977 original size:15 final size:15
Alignment explanation
Indices: 64983931--64983978 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
64983921 AAACCTACAA
*
64983931 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
64983946 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
64983960 AAACTTCATATCCAT
1 AAACTTCATATCCAT
64983975 AAAC
1 AAAC
64983979 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:64984213 original size:12 final size:12
Alignment explanation
Indices: 64984196--64984236 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
64984186 AAGTAAGTTT
64984196 AAAAAAAAATCG
1 AAAAAAAAATCG
**
64984208 AAAAAAAAATTA
1 AAAAAAAAATCG
64984220 AAAAAAAAATCTG
1 AAAAAAAAATC-G
64984233 AAAA
1 AAAA
64984237 TTTGAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:64988354 original size:23 final size:22
Alignment explanation
Indices: 64988302--64988354 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
64988292 TCCACGTCTT
*
64988302 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
64988324 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
64988347 TTTCTTTT
1 TTTCTTTT
64988355 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:64990323 original size:28 final size:27
Alignment explanation
Indices: 64990290--64990351 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
64990280 GCACAAGTAG
64990290 GAATAAAGAAATA-AAA-TGAAACAGCAA
1 GAATAAAGAAA-AGAAATTG-AACAGCAA
64990317 GAAATAAAGAAAAGAAATTGAACAGCAA
1 G-AATAAAGAAAAGAAATTGAACAGCAA
64990345 GAATAAA
1 GAATAAA
64990352 AGATAAGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.11
Consensus pattern (27 bp):
GAATAAAGAAAAGAAATTGAACAGCAA
Found at i:64992010 original size:18 final size:18
Alignment explanation
Indices: 64991987--64992036 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
64991977 GAAAGAAAAA
*
64991987 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
64992005 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
64992023 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
64992037 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:64992013 original size:24 final size:24
Alignment explanation
Indices: 64991980--64992061 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
64991970 AAGAAATGAA
64991980 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
64992004 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
64992028 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
*
64992052 AGAGAAAGAA
1 AGAAAAAGAA
64992062 TGTGAACAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:64994532 original size:14 final size:14
Alignment explanation
Indices: 64994513--64994557 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
64994503 AACTCATCTT
*
64994513 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
64994527 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
64994540 AATTTAATTTAATG
1 AGTTTAATTTAATG
64994554 AGTT
1 AGTT
64994558 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:64995565 original size:29 final size:29
Alignment explanation
Indices: 64995532--64995591 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
64995522 ATAACCAAAC
*
64995532 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
64995561 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
64995590 CT
1 CT
64995592 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:64995584 original size:15 final size:15
Alignment explanation
Indices: 64995538--64995585 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
64995528 AAACCTACAA
*
64995538 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
64995553 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
64995567 AAACTTCATATCCAT
1 AAACTTCATATCCAT
64995582 AAAC
1 AAAC
64995586 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:64997660 original size:20 final size:20
Alignment explanation
Indices: 64997637--64997690 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
64997627 AGTTTTTCCC
*
64997637 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
64997657 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
64997677 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
64997691 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:64997672 original size:30 final size:30
Alignment explanation
Indices: 64997637--64997710 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
64997627 AGTTTTTCCC
64997637 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
64997667 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
64997697 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
64997711 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:64997700 original size:20 final size:20
Alignment explanation
Indices: 64997637--64997701 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
64997627 AGTTTTTCCC
* * * *
64997637 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
64997657 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
64997676 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
64997697 AGCTC
1 AGCTC
64997702 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:64999389 original size:598 final size:598
Alignment explanation
Indices: 64998254--64999449 Score: 2392
Period size: 598 Copynumber: 2.0 Consensus size: 598
64998244 ATTACCTTAA
64998254 TTCATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTAGAAGGTACATGCTT
1 TTCATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTAGAAGGTACATGCTT
64998319 CCATTCATGAACCAGCCCATCATTAAAGCTTTAATTAAGAGAGATACATGACCCATGCACCTAGC
66 CCATTCATGAACCAGCCCATCATTAAAGCTTTAATTAAGAGAGATACATGACCCATGCACCTAGC
64998384 ATTTGTCCAAGAGGGGTTGGATATGAATTGAAGATGCACATTCATGGAACAAGGAAGCTTTCTTA
131 ATTTGTCCAAGAGGGGTTGGATATGAATTGAAGATGCACATTCATGGAACAAGGAAGCTTTCTTA
64998449 TTGGTTAAGCATGCATGAACGGGTTTTGGGAAGAAACATGATTATTCAACCATGCATGAACTTAC
196 TTGGTTAAGCATGCATGAACGGGTTTTGGGAAGAAACATGATTATTCAACCATGCATGAACTTAC
64998514 ACTATCCATGAACAGAGATTTAATGCTTGAAGTGTGAACATTTTTAATTGTTGTGTGAACACATT
261 ACTATCCATGAACAGAGATTTAATGCTTGAAGTGTGAACATTTTTAATTGTTGTGTGAACACATT
64998579 AGTAGCTGAATTTTAATAGGCATTAGAGAGCCTATAAATAGTTTATTTTGTTTATTGTAAAAGGT
326 AGTAGCTGAATTTTAATAGGCATTAGAGAGCCTATAAATAGTTTATTTTGTTTATTGTAAAAGGT
64998644 TACAGAATTTGATCAATTAAACTTAATAGAACTTTTGTTCTTGTGAGGTTACCTCCTCTCTTCTT
391 TACAGAATTTGATCAATTAAACTTAATAGAACTTTTGTTCTTGTGAGGTTACCTCCTCTCTTCTT
64998709 TCGTTCGAGTCTCGAAGCGACTTATCTAGCTTGCTAGTGGTGTCAATCCGAACTCCATTGAACTT
456 TCGTTCGAGTCTCGAAGCGACTTATCTAGCTTGCTAGTGGTGTCAATCCGAACTCCATTGAACTT
64998774 ATCACCGAATCGGTGTGGCGTTCAACCATCTTCCTATACCTTTGGTTCTTACCTCCATATAGGTA
521 ATCACCGAATCGGTGTGGCGTTCAACCATCTTCCTATACCTTTGGTTCTTACCTCCATATAGGTA
64998839 ACGGGTCAAGGTC
586 ACGGGTCAAGGTC
64998852 TTCATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTAGAAGGTACATGCTT
1 TTCATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTAGAAGGTACATGCTT
64998917 CCATTCATGAACCAGCCCATCATTAAAGCTTTAATTAAGAGAGATACATGACCCATGCACCTAGC
66 CCATTCATGAACCAGCCCATCATTAAAGCTTTAATTAAGAGAGATACATGACCCATGCACCTAGC
64998982 ATTTGTCCAAGAGGGGTTGGATATGAATTGAAGATGCACATTCATGGAACAAGGAAGCTTTCTTA
131 ATTTGTCCAAGAGGGGTTGGATATGAATTGAAGATGCACATTCATGGAACAAGGAAGCTTTCTTA
64999047 TTGGTTAAGCATGCATGAACGGGTTTTGGGAAGAAACATGATTATTCAACCATGCATGAACTTAC
196 TTGGTTAAGCATGCATGAACGGGTTTTGGGAAGAAACATGATTATTCAACCATGCATGAACTTAC
64999112 ACTATCCATGAACAGAGATTTAATGCTTGAAGTGTGAACATTTTTAATTGTTGTGTGAACACATT
261 ACTATCCATGAACAGAGATTTAATGCTTGAAGTGTGAACATTTTTAATTGTTGTGTGAACACATT
64999177 AGTAGCTGAATTTTAATAGGCATTAGAGAGCCTATAAATAGTTTATTTTGTTTATTGTAAAAGGT
326 AGTAGCTGAATTTTAATAGGCATTAGAGAGCCTATAAATAGTTTATTTTGTTTATTGTAAAAGGT
64999242 TACAGAATTTGATCAATTAAACTTAATAGAACTTTTGTTCTTGTGAGGTTACCTCCTCTCTTCTT
391 TACAGAATTTGATCAATTAAACTTAATAGAACTTTTGTTCTTGTGAGGTTACCTCCTCTCTTCTT
64999307 TCGTTCGAGTCTCGAAGCGACTTATCTAGCTTGCTAGTGGTGTCAATCCGAACTCCATTGAACTT
456 TCGTTCGAGTCTCGAAGCGACTTATCTAGCTTGCTAGTGGTGTCAATCCGAACTCCATTGAACTT
64999372 ATCACCGAATCGGTGTGGCGTTCAACCATCTTCCTATACCTTTGGTTCTTACCTCCATATAGGTA
521 ATCACCGAATCGGTGTGGCGTTCAACCATCTTCCTATACCTTTGGTTCTTACCTCCATATAGGTA
64999437 ACGGGTCAAGGTC
586 ACGGGTCAAGGTC
64999450 CGCTTCTATC
Statistics
Matches: 598, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
598 598 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (598 bp):
TTCATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTAGAAGGTACATGCTT
CCATTCATGAACCAGCCCATCATTAAAGCTTTAATTAAGAGAGATACATGACCCATGCACCTAGC
ATTTGTCCAAGAGGGGTTGGATATGAATTGAAGATGCACATTCATGGAACAAGGAAGCTTTCTTA
TTGGTTAAGCATGCATGAACGGGTTTTGGGAAGAAACATGATTATTCAACCATGCATGAACTTAC
ACTATCCATGAACAGAGATTTAATGCTTGAAGTGTGAACATTTTTAATTGTTGTGTGAACACATT
AGTAGCTGAATTTTAATAGGCATTAGAGAGCCTATAAATAGTTTATTTTGTTTATTGTAAAAGGT
TACAGAATTTGATCAATTAAACTTAATAGAACTTTTGTTCTTGTGAGGTTACCTCCTCTCTTCTT
TCGTTCGAGTCTCGAAGCGACTTATCTAGCTTGCTAGTGGTGTCAATCCGAACTCCATTGAACTT
ATCACCGAATCGGTGTGGCGTTCAACCATCTTCCTATACCTTTGGTTCTTACCTCCATATAGGTA
ACGGGTCAAGGTC
Found at i:64999924 original size:12 final size:13
Alignment explanation
Indices: 64999907--64999941 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
64999897 TTGGAGTAAC
64999907 AAAAAAAAATC-A
1 AAAAAAAAATCGA
*
64999919 AAAAAAAATTCGA
1 AAAAAAAAATCGA
64999932 AAAAAAAAAT
1 AAAAAAAAAT
64999942 TGATTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:64999942 original size:14 final size:12
Alignment explanation
Indices: 64999906--64999939 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
64999896 ATTGGAGTAA
64999906 CAAAAAAAAA-T
1 CAAAAAAAAATT
64999917 CAAAAAAAAATT
1 CAAAAAAAAATT
64999929 CGAAAAAAAAA
1 C-AAAAAAAAA
64999940 ATTGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 2 0.10
13 9 0.43
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (12 bp):
CAAAAAAAAATT
Found at i:65000914 original size:15 final size:16
Alignment explanation
Indices: 65000894--65000925 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
65000884 AGAAAATGAA
65000894 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
65000909 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
65000925 A
1 A
65000926 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:65001040 original size:17 final size:18
Alignment explanation
Indices: 65001008--65001041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65000998 AAAAGAGAGT
*
65001008 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
65001026 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
65001042 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:65002330 original size:20 final size:20
Alignment explanation
Indices: 65002307--65002360 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
65002297 AGTTTTTCCC
*
65002307 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
65002327 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
65002347 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
65002361 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:65002342 original size:30 final size:30
Alignment explanation
Indices: 65002307--65002380 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
65002297 AGTTTTTCCC
65002307 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
65002337 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
65002367 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
65002381 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:65002370 original size:20 final size:20
Alignment explanation
Indices: 65002307--65002371 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
65002297 AGTTTTTCCC
* * * *
65002307 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
65002327 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
65002346 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
65002367 AGCTC
1 AGCTC
65002372 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:65005292 original size:30 final size:31
Alignment explanation
Indices: 65005258--65005354 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65005248 AGCTCACTCC
*
65005258 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65005288 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65005318 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65005348 TAGCTCA
1 TAGCTCA
65005355 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65007174 original size:13 final size:13
Alignment explanation
Indices: 65007156--65007184 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65007146 CGGCTAACCT
65007156 ACATAATTAAATA
1 ACATAATTAAATA
65007169 ACATAATTAAATA
1 ACATAATTAAATA
65007182 ACA
1 ACA
65007185 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:65011766 original size:24 final size:23
Alignment explanation
Indices: 65011712--65011789 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
65011702 GGATAATTAA
**
65011712 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
65011735 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
65011759 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
65011780 GAAATAGTAT
1 GAAATGGTAT
65011790 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:65011774 original size:21 final size:21
Alignment explanation
Indices: 65011748--65011814 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
65011738 TTGGTATTTG
65011748 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
65011769 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
65011790 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
65011813 GG
1 GG
65011815 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:65016079 original size:17 final size:17
Alignment explanation
Indices: 65016054--65016109 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
65016044 TCTCTTTTCA
*
65016054 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
65016071 TTCTTTTTTTTT-ATCATTT
1 TTCTTTTTTTTTGA--A-TT
* *
65016090 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
65016107 TTC
1 TTC
65016110 GCTCTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 2 0.06
19 13 0.41
ACGTcount: A:0.09, C:0.12, G:0.04, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:65018340 original size:14 final size:14
Alignment explanation
Indices: 65018321--65018357 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
65018311 AAACCGTATG
65018321 CAATTTTTTTTTTT
1 CAATTTTTTTTTTT
65018335 CAA-TTTTTTTTTT
1 CAATTTTTTTTTTT
65018348 CAATTTTTTT
1 CAATTTTTTT
65018358 CGAACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (14 bp):
CAATTTTTTTTTTT
Found at i:65018688 original size:24 final size:23
Alignment explanation
Indices: 65018634--65018711 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
65018624 GGATAATTAA
**
65018634 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
65018657 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
65018681 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
65018702 GAAATAGTAT
1 GAAATGGTAT
65018712 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:65018696 original size:21 final size:21
Alignment explanation
Indices: 65018670--65018736 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
65018660 TTGGTATTTG
65018670 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
65018691 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
65018712 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
65018735 GG
1 GG
65018737 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:65020810 original size:11 final size:12
Alignment explanation
Indices: 65020791--65020823 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65020781 CATTCTAATA
65020791 AATTAAGTTT-T
1 AATTAAGTTTAT
*
65020802 AATTCAGTTTAT
1 AATTAAGTTTAT
65020814 AATTAAGTTT
1 AATTAAGTTT
65020824 GCTACAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
AATTAAGTTTAT
Found at i:65024124 original size:11 final size:11
Alignment explanation
Indices: 65024108--65024132 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65024098 TGTGGTGAGG
65024108 ATTTGAAAATT
1 ATTTGAAAATT
65024119 ATTTGAAAATT
1 ATTTGAAAATT
65024130 ATT
1 ATT
65024133 ATGGAACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTTGAAAATT
Found at i:65028187 original size:22 final size:22
Alignment explanation
Indices: 65028136--65028201 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
65028126 GGTATTTGGG
* * *
65028136 AATTGGTTCAAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
65028157 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
65028179 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
65028202 TCAAAGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 18 0.47
22 15 0.39
23 5 0.13
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:65030486 original size:21 final size:21
Alignment explanation
Indices: 65030460--65030517 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
65030450 AATGAGAGTG
**
65030460 GAAAAAGAAAGGCAAGAAAAT
1 GAAAAAGAAAGAAAAGAAAAT
* *
65030481 GAAAAAGAGAGAAAAGAAATT
1 GAAAAAGAAAGAAAAGAAAAT
*
65030502 GAAAGAGAAAAGAAAA
1 GAAAAAG-AAAGAAAA
65030518 AGAGTTGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAAAT
Found at i:65030988 original size:20 final size:20
Alignment explanation
Indices: 65030963--65031034 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
65030953 TGTGGTTCAA
65030963 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
* * *
65030983 CTCATTTGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
* * *
65031003 CTCATTCAAGCTCAATTTAA
1 CTCATTCGAGCTCAAGTTAG
65031023 CTCATT-GAGCTC
1 CTCATTCGAGCTC
65031035 GTTATTAGCT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:65032836 original size:16 final size:16
Alignment explanation
Indices: 65032815--65032851 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
65032805 AAAAAAAAGG
65032815 AAAAAAAATTCAAAAA
1 AAAAAAAATTCAAAAA
65032831 AAAAAAAATTCAAAAA
1 AAAAAAAATTCAAAAA
65032847 AAAAA
1 AAAAA
65032852 TTTGTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAAATTCAAAAA
Found at i:65034394 original size:16 final size:15
Alignment explanation
Indices: 65034375--65034404 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65034365 AGTATCAATT
65034375 TTTGATTGGTGATGAC
1 TTTGATTGG-GATGAC
65034391 TTTGATTGGGATGA
1 TTTGATTGGGATGA
65034405 TGGATTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTGATTGGGATGAC
Found at i:65035318 original size:20 final size:19
Alignment explanation
Indices: 65035293--65035347 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
65035283 TGTGGTTCAA
*
65035293 CTCATTCGAGCTCAAGTTAG
1 CTCATTC-AGCTCAAGTCAG
65035313 CTCATTCATGCTCAAGTCAG
1 CTCATTCA-GCTCAAGTCAG
65035333 CTCATTCAAGCTCAA
1 CTCATTC-AGCTCAA
65035348 TTTAACTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (19 bp):
CTCATTCAGCTCAAGTCAG
Found at i:65037824 original size:11 final size:12
Alignment explanation
Indices: 65037805--65037837 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65037795 CATTCTAATA
65037805 AATTAAGTTT-T
1 AATTAAGTTTAT
*
65037816 AATTCAGTTTAT
1 AATTAAGTTTAT
65037828 AATTAAGTTT
1 AATTAAGTTT
65037838 GCTACAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
AATTAAGTTTAT
Found at i:65039782 original size:30 final size:29
Alignment explanation
Indices: 65039748--65039850 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
65039738 AGCTCACTCC
*
65039748 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTT-AGCTCACGAGCTAAACCT
* * * * *
65039778 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTC-ACTTTAGCTCACGAGCTAAACCT
* *
65039808 CAGCTCAGCTTTAGCTCACGAGCTAAAGCT
1 TAGCTCA-CTTTAGCTCACGAGCTAAACCT
*
65039838 TAGCTCATTTTAG
1 TAGCTCACTTTAG
65039851 TTTAAACTCG
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
29 6 0.11
30 45 0.80
31 5 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (29 bp):
TAGCTCACTTTAGCTCACGAGCTAAACCT
Found at i:65043602 original size:30 final size:30
Alignment explanation
Indices: 65043568--65043664 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65043558 TAAACTAAAA
65043568 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65043598 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65043628 TGAGCTGAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65043658 TGAGCTA
1 TGAGCTA
65043665 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 1 0.02
30 41 0.85
31 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65044008 original size:19 final size:19
Alignment explanation
Indices: 65043984--65044023 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65043974 AGCTCCCATG
65043984 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
65044003 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
65044022 TA
1 TA
65044024 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:65045277 original size:14 final size:14
Alignment explanation
Indices: 65045255--65045302 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
65045245 ACCTAAACCG
* *
65045255 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
65045269 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
65045283 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
65045297 ACCATT
1 ACCATT
65045303 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:65045836 original size:10 final size:10
Alignment explanation
Indices: 65045821--65045847 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65045811 TACTCCTTCA
65045821 AGCTCAAATC
1 AGCTCAAATC
65045831 AGCTCAAATC
1 AGCTCAAATC
65045841 AGCTCAA
1 AGCTCAA
65045848 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:65047297 original size:14 final size:14
Alignment explanation
Indices: 65047278--65047310 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
65047268 GTAGGGTCAG
65047278 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
65047292 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
65047306 AAAAA
1 AAAAA
65047311 TTTTTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:65051114 original size:30 final size:30
Alignment explanation
Indices: 65051080--65051176 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65051070 TAAACTAAAA
*
65051080 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
65051110 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65051140 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65051169 ATGAGCTA
1 -TGAGCTA
65051177 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:65052810 original size:39 final size:39
Alignment explanation
Indices: 65052767--65052948 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
65052757 TCCTCGTTCA
* * * *
65052767 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
* * *
65052806 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
*
65052846 AATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65052885 AATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
* *
65052924 AAGGCCTTCGGATCTTAATCCGGAT
1 AATGCCTTCGGA-CTTAACCCGGAT
65052949 ATATTCACTT
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 108 0.84
40 20 0.16
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65052867 original size:78 final size:78
Alignment explanation
Indices: 65052765--65052987 Score: 234
Period size: 78 Copynumber: 2.8 Consensus size: 78
65052755 GCTCCTCGTT
* * * *
65052765 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
65052830 TTTAACAAT-TCGCA
65 TTT-ACAATCTCGCA
* * *
65052844 CGAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTC-GGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
**
65052908 TTTAGTATCTCGCA
65 TTTACAATCTCGCA
* * * * * * * *
65052922 CAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACTTAACCCGG
65052987 A
64 A
65052988 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
77 3 0.03
78 57 0.48
79 43 0.36
80 16 0.13
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGAT
TTACAATCTCGCA
Found at i:65062261 original size:1 final size:1
Alignment explanation
Indices: 65062221--65062248 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
65062211 CAACACCCCC
65062221 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
65062249 CTCAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:65066518 original size:23 final size:22
Alignment explanation
Indices: 65066466--65066518 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
65066456 TCCACGTCTT
*
65066466 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
65066488 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
65066511 TTTCTTTT
1 TTTCTTTT
65066519 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:65066561 original size:27 final size:27
Alignment explanation
Indices: 65066513--65066569 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
65066503 TTCTTCAATT
*
65066513 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTCC
* ** *
65066540 TCTTTTTCATTCTCTTTTTCTTTTTCC
1 TCTTTTTCACTCTCAATCTCTTTTTCC
65066567 TCT
1 TCT
65066570 CTTGTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTCC
Found at i:65068205 original size:4 final size:4
Alignment explanation
Indices: 65068191--65068222 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
65068181 GTTGTAAAGT
65068191 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
65068223 TACTTAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:65069096 original size:12 final size:12
Alignment explanation
Indices: 65069081--65069111 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65069071 TTCTTTTTGC
65069081 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65069093 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65069105 TTTTCAA
1 TTTTCAA
65069112 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:65069200 original size:17 final size:17
Alignment explanation
Indices: 65069177--65069226 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
65069167 TTTATTTCAT
65069177 TTTTTTTTCTTCTCTTGC
1 TTTTTTTT-TTCTCTTGC
*
65069195 TTTTTTTTTTCT-TTTC
1 TTTTTTTTTTCTCTTGC
65069211 TTTTTTGTTTTCTCTT
1 TTTTTT-TTTTCTCTT
65069227 TACAAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.31
17 10 0.34
18 10 0.34
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTTCTCTTGC
Found at i:65070159 original size:21 final size:21
Alignment explanation
Indices: 65070133--65070198 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
65070123 TTTTTTTAAC
65070133 TCGATTTTTTTTTCCTTTTTT
1 TCGATTTTTTTTTCCTTTTTT
**
65070154 TCGATTTTTTTTTAATTTTTTT
1 TCGATTTTTTTTT-CCTTTTTT
* * *
65070176 TCTGAATTTCTTCTCCTTTTTT
1 TC-GATTTTTTTTTCCTTTTTT
65070198 T
1 T
65070199 AAATCCAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.36
22 15 0.42
23 8 0.22
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.73
Consensus pattern (21 bp):
TCGATTTTTTTTTCCTTTTTT
Found at i:65071941 original size:30 final size:30
Alignment explanation
Indices: 65071907--65072003 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65071897 TAAACTAAAA
*
65071907 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
65071937 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65071967 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65071996 ATGAGCTA
1 -TGAGCTA
65072004 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:65074964 original size:17 final size:17
Alignment explanation
Indices: 65074930--65074964 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65074920 TTCTTTTTCT
*
65074930 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATACCGAA
*
65074947 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACCGAA
65074964 T
1 T
65074965 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAATACCGAA
Found at i:65082728 original size:19 final size:21
Alignment explanation
Indices: 65082697--65082741 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
65082687 AGTTCCCATC
*
65082697 AGCTCACTTGAGCTCG-TTTT
1 AGCTCACTTGAGCTCGAATTT
65082717 AGCTCA-TTGAGCTCGAATTT
1 AGCTCACTTGAGCTCGAATTT
65082737 AGCTC
1 AGCTC
65082742 GTTTCAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGAATTT
Found at i:65082994 original size:13 final size:13
Alignment explanation
Indices: 65082976--65083004 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65082966 AATAGTTGTG
65082976 TGTTATTTAATTA
1 TGTTATTTAATTA
65082989 TGTTATTTAATTA
1 TGTTATTTAATTA
65083002 TGT
1 TGT
65083005 AGGTTAGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:65083773 original size:10 final size:10
Alignment explanation
Indices: 65083758--65083795 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
65083748 GCTCGTTTCC
*
65083758 AGCTCACTCG
1 AGCTCAATCG
65083768 AGCTCAAGTC-
1 AGCTCAA-TCG
65083778 AGCTCAATCG
1 AGCTCAATCG
65083788 AGCTCAAT
1 AGCTCAAT
65083796 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:65083782 original size:20 final size:20
Alignment explanation
Indices: 65083757--65083794 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65083747 AGCTCGTTTC
*
65083757 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
65083777 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
65083795 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:65083801 original size:20 final size:20
Alignment explanation
Indices: 65083758--65083818 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
65083748 GCTCGTTTCC
* * *
65083758 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
65083778 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
65083798 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
65083818 A
1 A
65083819 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:65083812 original size:11 final size:10
Alignment explanation
Indices: 65083768--65083814 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
65083758 AGCTCACTCG
*
65083768 AGCTCAAGTC
1 AGCTCAATTC
65083778 AGCTCAA-TC
1 AGCTCAATTC
*
65083787 GAGCTCAATTT
1 -AGCTCAATTC
65083798 AGCTACAATTC
1 AGCT-CAATTC
65083809 AGCTCA
1 AGCTCA
65083815 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 20 0.62
11 10 0.31
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:65085208 original size:14 final size:14
Alignment explanation
Indices: 65085189--65085268 Score: 76
Period size: 13 Copynumber: 5.6 Consensus size: 14
65085179 CAAAAAAATC
65085189 AAAAAAAATTCGAA
1 AAAAAAAATTCGAA
*
65085203 AAAAAAAATTGATTGAA
1 AAAAAAAA-T--TCGAA
65085220 AAAAAAAATTC-AA
1 AAAAAAAATTCGAA
*
65085233 AAAAAAAAGT-GAA
1 AAAAAAAATTCGAA
65085246 AAAAAAAA-TCGAGCA
1 AAAAAAAATTCGA--A
65085261 AAAAAAAA
1 AAAAAAAA
65085269 AGGTGACCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
12 1 0.02
13 23 0.41
14 9 0.16
15 10 0.18
16 1 0.02
17 12 0.21
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAAAAATTCGAA
Found at i:65085234 original size:26 final size:26
Alignment explanation
Indices: 65085189--65085308 Score: 89
Period size: 31 Copynumber: 4.1 Consensus size: 26
65085179 CAAAAAAATC
65085189 AAAAAAAATTCGAAAAAAAAAATTGATTGAA
1 AAAAAAAATTC-AAAAAAAAAA--G--TGAA
65085220 AAAAAAAATTCAAAAAAAAAAGTGAA
1 AAAAAAAATTCAAAAAAAAAAGTGAA
*
65085246 AAAAAAAATCGAGCAAAAAAAAAAGGTGACCAA
1 AAAAAAAAT---TCAAAAAAAAAA-GTG---AA
65085279 AAAAAATCAAGTT-AAAAAAAAAAGTGAA
1 AAAAAA--AA-TTCAAAAAAAAAAGTGAA
65085307 AA
1 AA
65085309 GTCTTGTGAG
Statistics
Matches: 77, Mismatches: 2, Indels: 23
0.75 0.02 0.23
Matches are distributed among these distances:
26 13 0.17
28 5 0.06
29 11 0.14
30 13 0.17
31 14 0.18
32 10 0.13
33 8 0.10
35 2 0.03
36 1 0.01
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.12
Consensus pattern (26 bp):
AAAAAAAATTCAAAAAAAAAAGTGAA
Found at i:65085269 original size:31 final size:29
Alignment explanation
Indices: 65085231--65085308 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
65085221 AAAAAAATTC
*
65085231 AAAAAAAAAAGTGAAAAAAAAAATCGAGCA
1 AAAAAAAAAAGTGAAAAAAAAAATCAAG-A
* * *
65085261 AAAAAAAAAGGTGACCAAAAAAAATCAAGTT
1 AAAAAAAAAAGTGA-AAAAAAAAATCAAG-A
65085292 AAAAAAAAAAGTGAAAA
1 AAAAAAAAAAGTGAAAA
65085309 GTCTTGTGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.72, C:0.06, G:0.13, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAGTGAAAAAAAAAATCAAGA
Found at i:65086258 original size:18 final size:18
Alignment explanation
Indices: 65086220--65086261 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
65086210 AAATCGAAAG
* **
65086220 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
65086238 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
65086256 AAAAGA
1 AAAAGA
65086262 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:65086326 original size:33 final size:34
Alignment explanation
Indices: 65086289--65086353 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
65086279 AAAGTGAAAA
*
65086289 TGAGA-GAGGAAATGAAA-AGAGAAAAAGAGAAGT
1 TGAGATGA-GAAAAGAAACAGAGAAAAAGAGAAGT
*
65086322 TGAGATTAGAAAAGAAACGAGAGAAAAAGAGA
1 TGAGATGAGAAAAGAAAC-AGAGAAAAAGAGA
65086354 TAAACGAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 13 0.48
34 1 0.04
35 13 0.48
ACGTcount: A:0.58, C:0.02, G:0.31, T:0.09
Consensus pattern (34 bp):
TGAGATGAGAAAAGAAACAGAGAAAAAGAGAAGT
Found at i:65087971 original size:10 final size:10
Alignment explanation
Indices: 65087956--65087993 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
65087946 GCTCGTTTCC
*
65087956 AGCTCACTCG
1 AGCTCAATCG
65087966 AGCTCAAGTC-
1 AGCTCAA-TCG
65087976 AGCTCAATCG
1 AGCTCAATCG
65087986 AGCTCAAT
1 AGCTCAAT
65087994 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:65087980 original size:20 final size:20
Alignment explanation
Indices: 65087955--65087992 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65087945 AGCTCGTTTC
*
65087955 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
65087975 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
65087993 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:65087999 original size:20 final size:20
Alignment explanation
Indices: 65087956--65088016 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
65087946 GCTCGTTTCC
* * *
65087956 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
65087976 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
65087996 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
65088016 A
1 A
65088017 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Done.