Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 62 of 226
Found at i:20047974 original size:24 final size:24
Alignment explanation
Indices: 20047899--20047983 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
20047889 TCTGTCACGA
*
20047899 TCATTTCTTTTAATTTGATTTGTA
1 TCATTTCTTTTAATTTGATTTGTG
* * **
20047923 CCAATTTTTTTTTGTTT-ATTAT-TGG
1 TC-ATTTCTTTTAATTTGATT-TGT-G
20047948 TCATTTCTTTTAATTTGATTTGTG
1 TCATTTCTTTTAATTTGATTTGTG
*
20047972 TCACTTTTTTTT
1 TCA-TTTCTTTT
20047984 CTTATTTGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (24 bp):
TCATTTCTTTTAATTTGATTTGTG
Found at i:20053485 original size:6 final size:6
Alignment explanation
Indices: 20053474--20053498 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20053464 GAAACAAGCG
20053474 GTGTGA GTGTGA GTGTGA GTGTGA G
1 GTGTGA GTGTGA GTGTGA GTGTGA G
20053499 AAGTTCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTGTGA
Found at i:20056620 original size:14 final size:14
Alignment explanation
Indices: 20056601--20056627 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20056591 AATTTAAAAA
20056601 TATTTTTATTTAAT
1 TATTTTTATTTAAT
20056615 TATTTTTATTTAA
1 TATTTTTATTTAA
20056628 GTTAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTATTTAAT
Found at i:20059502 original size:22 final size:20
Alignment explanation
Indices: 20059474--20059515 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20059464 TAATTTTTCG
*
20059474 TTATTATTGTTATTGTATTATA
1 TTATTATT-TT-TAGTATTATA
20059496 TTATTATTTTTAGTATTATA
1 TTATTATTTTTAGTATTATA
20059516 GATTGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTATTATTTTTAGTATTATA
Found at i:20063364 original size:15 final size:15
Alignment explanation
Indices: 20063344--20063372 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20063334 ACTAGCACGG
20063344 GTTACATTAAAATGA
1 GTTACATTAAAATGA
20063359 GTTACATTAAAATG
1 GTTACATTAAAATG
20063373 GATCACGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
GTTACATTAAAATGA
Found at i:20064122 original size:31 final size:31
Alignment explanation
Indices: 20064084--20064145 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20064074 AGGCAAATTA
20064084 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20064115 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20064146 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:20069705 original size:22 final size:21
Alignment explanation
Indices: 20069678--20069718 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20069668 AGGCAACCTT
20069678 TTTTTGCGGGTTTTTTTTGCAC
1 TTTTTG-GGGTTTTTTTTGCAC
**
20069700 TTTTTGGTTTTTTTTTTGC
1 TTTTTGGGGTTTTTTTTGC
20069719 TATTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.02, C:0.10, G:0.20, T:0.68
Consensus pattern (21 bp):
TTTTTGGGGTTTTTTTTGCAC
Found at i:20070294 original size:31 final size:31
Alignment explanation
Indices: 20070256--20070317 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20070246 AGGCAAATTA
20070256 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20070287 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20070318 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:20072495 original size:32 final size:31
Alignment explanation
Indices: 20072439--20072511 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 31
20072429 TTATTCTTTG
20072439 AAAAAAAAAGCAAAAAGCACAAAAAAACCGC
1 AAAAAAAAAGCAAAAAGCACAAAAAAACCGC
*
20072470 AAAAAAAAAGCAAAAAGCGTA-AAAAAAATCGC
1 AAAAAAAAAGCAAAAAGC--ACAAAAAAACCGC
20072502 AAAAAAAAAG
1 AAAAAAAAAG
20072512 TTGTCTACCT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 18 0.46
32 20 0.51
33 1 0.03
ACGTcount: A:0.73, C:0.14, G:0.11, T:0.03
Consensus pattern (31 bp):
AAAAAAAAAGCAAAAAGCACAAAAAAACCGC
Found at i:20077959 original size:31 final size:31
Alignment explanation
Indices: 20077923--20077984 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20077913 AGATAATTTT
20077923 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
20077954 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
20077985 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:20080081 original size:28 final size:27
Alignment explanation
Indices: 20080024--20080083 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
20080014 AAAACCTTTT
*
20080024 TTTTTTAAATTTACCGAAATGGGCTGA
1 TTTTTTAAATTTACCGAAATGGGCTCA
* *
20080051 TTTTTTAATTATTTACCGGAATGGTC-CA
1 TTTTTTAA--ATTTACCGAAATGGGCTCA
20080079 TTTTT
1 TTTTT
20080084 CGGGAAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
28 6 0.21
29 14 0.50
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATGGGCTCA
Found at i:20080176 original size:40 final size:41
Alignment explanation
Indices: 20080086--20080177 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
20080076 CCATTTTTCG
**
20080086 GGAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGTCA
1 GGAAATCGCGTCCACGTCAGCGCGATGTCA-GGTACGTGGAA
* *
20080128 GGACATCGCGTCCACGTCAGCGCGACCTG-C-TG-ACGTGGAA
1 GGAAATCGCGTCCACGTCAGCGCGA--TGTCAGGTACGTGGAA
20080168 GGAAATCGCG
1 GGAAATCGCG
20080178 CCCTCGATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 15 0.35
41 1 0.02
42 24 0.56
43 1 0.02
44 2 0.05
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (41 bp):
GGAAATCGCGTCCACGTCAGCGCGATGTCAGGTACGTGGAA
Found at i:20080332 original size:22 final size:22
Alignment explanation
Indices: 20080304--20080353 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
20080294 ACAAATCCTA
*
20080304 TCTCAATTTTCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
20080326 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
20080348 TCTCAA
1 TCTCAA
20080354 ACTCTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:20080361 original size:30 final size:30
Alignment explanation
Indices: 20080325--20080383 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
20080315 TTCCAAAATC
*
20080325 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
20080355 CTCTCAATTTCCTTCCAAAATCCTCTCAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAA
20080384 TTTCCTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAA
Found at i:20080361 original size:52 final size:52
Alignment explanation
Indices: 20080304--20080406 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
20080294 ACAAATCCTA
* *
20080304 TCTCAATTTTCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCCTCTCAAAC
20080356 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCCTCTCAAA
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCCTCTCAAA
20080407 TCCATATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCCTCTCAAAC
Found at i:20080380 original size:22 final size:22
Alignment explanation
Indices: 20080355--20080405 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
20080345 TTCTCTCAAA
20080355 CTCTCAATTTCCTTCCAAAATC
1 CTCTCAATTTCCTTCCAAAATC
20080377 CTCTCAATTTCCTTCCAAAATC
1 CTCTCAATTTCCTTCCAAAATC
20080399 CTCTCAA
1 CTCTCAA
20080406 ATCCATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATC
Found at i:20080475 original size:31 final size:31
Alignment explanation
Indices: 20080439--20080504 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
20080429 CCTCAATTTC
*
20080439 ATTTTTTAAAAATAATTTTATA-TTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
20080469 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
20080500 ATTTT
1 ATTTT
20080505 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:20082864 original size:30 final size:30
Alignment explanation
Indices: 20082830--20083990 Score: 1689
Period size: 30 Copynumber: 38.8 Consensus size: 30
20082820 TAATAAAAAT
* *
20082830 CCTAATTTAATTAAAAATCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20082860 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20082889 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20082919 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20082949 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20082978 CCTAATTTAATTAAAAACCCTAAATCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083008 CCTAATTTAATTAAAAACCTTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083038 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083067 CCTAATTTAATT-AAAACCCATAAATCCTAA
1 CCTAATTTAATTAAAAACCC-TAAACCCTAA
* *
20083097 TCTAATTTAATAAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083126 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083156 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083186 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083215 CTTAA-TTAATTAAAAACCCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
*
20083250 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083280 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083309 CCTAATTTAATTAAAAATCCTAAATCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083339 CCTAATTTAATTAAAAACCCTAAACCCAAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083369 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083398 CTTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083428 CCTACTTTAATTAAAAACCAT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083457 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083487 TCTAATTTAATTAAAAACCCTAAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083516 TCTAATTTAATTAAAAACCCTAAACCCTGA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083546 TCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083575 CCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083604 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083633 CTTAATTTAATTAAAAACGCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
20083669 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083698 CCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083727 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083757 CTTAATTTAATTAAAAACCCTAAACCCTAG
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083787 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20083817 CCTAATTTAATTAAAAACCCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
*
20083853 CCTAATTTAATTAAAAA-CCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
**
20083882 CCTAATTTAATTAAAAACTATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083912 CTTAATTTAATTAAAAACCCT-AA--C-AA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083938 CCTAATTTAATTAAAAACCTTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083968 CTTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
20083991 CCATTAACAA
Statistics
Matches: 1034, Mismatches: 57, Indels: 80
0.88 0.05 0.07
Matches are distributed among these distances:
26 21 0.02
27 3 0.00
28 28 0.03
29 380 0.37
30 511 0.49
31 7 0.01
32 1 0.00
34 1 0.00
35 15 0.01
36 67 0.06
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (30 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:20082919 original size:59 final size:60
Alignment explanation
Indices: 20082830--20083990 Score: 1689
Period size: 59 Copynumber: 19.4 Consensus size: 60
20082820 TAATAAAAAT
* *
20082830 CCTAATTTAATTAAAAATCCTAAACACTAACCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20082889 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20082949 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAATCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083008 CCTAATTTAATTAAAAACCTTAAACCCTAACTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083067 CCTAATTTAATT-AAAACCCATAAATCCTAATCTAATTTAATAAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCC-TAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
20083126 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083186 CTTAATTTAATTAAAAACCCT-AACCCTAACTTAA-TTAATTAAAAACCCTAAACCCTAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT--A----AACCCTA
20083249 A
60 A
*
20083250 CCTAATTTAATTAAAAACCCTAAACCTTAACCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083309 CCTAATTTAATTAAAAATCCTAAATCCTAACCTAATTTAATTAAAAACCCTAAACCCAAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083369 CTTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083428 CCTACTTTAATTAAAAACCAT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083487 TCTAATTTAATTAAAAACCCTAAA-CCTAATCTAATTTAATTAAAAACCCTAAACCCTGA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083546 TCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083604 CTTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAAAAACGCTAAACCCTAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT--A----AACCCTA
20083668 A
60 A
20083669 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083727 CCTAATTTAATTAAAAACCCTAAACCTTAACTTAATTTAATTAAAAACCCTAAACCCTAG
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
20083787 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT--A----AACCCTA
20083852 A
60 A
* **
20083853 CCTAATTTAATTAAAAA-CCTTAACCCTAACCTAATTTAATTAAAAACTATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083912 CTTAATTTAATTAAAAACCCT-AA--C-AACCTAATTTAATTAAAAACCTTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20083968 CTTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
20083991 CCATTAACAA
Statistics
Matches: 1010, Mismatches: 59, Indels: 68
0.89 0.05 0.06
Matches are distributed among these distances:
56 51 0.05
57 2 0.00
58 92 0.09
59 527 0.52
60 173 0.17
62 1 0.00
63 2 0.00
64 34 0.03
65 89 0.09
66 39 0.04
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (60 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:20082976 original size:89 final size:89
Alignment explanation
Indices: 20082830--20083990 Score: 1659
Period size: 89 Copynumber: 12.9 Consensus size: 89
20082820 TAATAAAAAT
* *
20082830 CCTAATTTAATTAAAAATCCTAAACACTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
20082895 TTAATTAAAAACCCTAAACCCTAA
66 TTAATTAAAAACCCTAAACCCTAA
*
20082919 CCTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
*
20082984 TTAATTAAAAACCCTAAATCCTAA
66 TTAATTAAAAACCCTAAACCCTAA
* *
20083008 CCTAATTTAATTAAAAACCTTAAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
*
20083073 TTAATT-AAAACCCATAAATCCTAA
66 TTAATTAAAAACCC-TAAACCCTAA
* *
20083097 TCTAATTTAATAAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
20083161 TTTAATTAAAAACCCTAAACCCTAA
65 TTTAATTAAAAACCCTAAACCCTAA
* *
20083186 CTTAATTTAATTAAAAACCCT-AACCCTAACTTAA-TTAATTAAAAACCCTAAACCCTAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATT---AA----AAACCCTAACCCTA
*
20083249 ACCTAATTTAATTAAAAACCCTAAACCTTAA
59 ACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20083280 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAATCCTAAATCCTAACCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
*
20083344 TTTAATTAAAAACCCTAAACCCAAA
65 TTTAATTAAAAACCCTAAACCCTAA
* * *
20083369 CTTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAAAAACCCTAAACCCTAACCTAC
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
*
20083433 TTTAATTAAAAACCAT-AACCCTAA
65 TTTAATTAAAAACCCTAAACCCTAA
* * *
20083457 CCTAATTTAATTAAAAACCCTAAACCCTAATCTAATTTAATTAAAAACCCTAAACCTAATCTAAT
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
*
20083522 TTAATTAAAAACCCTAAACCCTGA
66 TTAATTAAAAACCCTAAACCCTAA
* *
20083546 TCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-ACTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
20083609 TTTAATTAAAAACCCT-AACCCTAA
65 TTTAATTAAAAACCCTAAACCCTAA
* *
20083633 CTTAATTTAATTAAAAACGCTAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
20083698 CCTAATTTAATTAAAAACCCTAAACCCT-A
60 CCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083727 CCTAATTTAATTAAAAACCCTAAACCTTAACTTAATTTAATTAAAAACCCTAAACCCTAGCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
20083792 TTTAATTAAAAACCCTAAACCCTAA
65 TTTAATTAAAAACCCTAAACCCTAA
*
20083817 CCTAATTTAATTAAAAACCCTAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
**
20083882 CCTAATTTAATTAAAAACTATAAACCCTAA
60 CCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20083912 CTTAATTTAATTAAAAACCCT-AA--C-AACCTAATTTAATTAAAAACCTTAAACCCTAACTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
20083973 TTTAATTAAAAACCCTAA
65 TTTAATTAAAAACCCTAA
20083991 CCATTAACAA
Statistics
Matches: 978, Mismatches: 61, Indels: 69
0.88 0.06 0.06
Matches are distributed among these distances:
85 23 0.02
86 29 0.03
87 25 0.03
88 176 0.18
89 445 0.46
90 29 0.03
91 2 0.00
92 4 0.00
93 6 0.01
94 139 0.14
95 74 0.08
96 26 0.03
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (89 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
TTAATTAAAAACCCTAAACCCTAA
Found at i:20087341 original size:126 final size:124
Alignment explanation
Indices: 20087119--20087399 Score: 485
Period size: 126 Copynumber: 2.3 Consensus size: 124
20087109 CCACGAGGGC
20087119 GCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATATTTCTTACATGACCAACTGTAGCA
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCAACTGTAGCA
* *
20087183 AAATCGCGTCCACGAGGGCATGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
20087242 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTATTTCTTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA--TATTTCTTACATGACCAACTGTAG
**
20087307 TGAAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
64 CAAAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
20087368 GCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
20087400 CTCGAAATAA
Statistics
Matches: 150, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
123 30 0.20
124 8 0.05
126 111 0.74
127 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCAACTGTAGCA
AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:20088908 original size:18 final size:20
Alignment explanation
Indices: 20088887--20088929 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
20088877 TTGTTTGAAC
*
20088887 TTTTAGGTTTTTA-G-AAAA
1 TTTTAGATTTTTATGAAAAA
20088905 TTTTAGATTTTTATGAAAAA
1 TTTTAGATTTTTATGAAAAA
20088925 TTTTA
1 TTTTA
20088930 AGGATTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
20 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTTAGATTTTTATGAAAAA
Found at i:20089800 original size:30 final size:30
Alignment explanation
Indices: 20089766--20089824 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
20089756 TTATTTTATT
20089766 GTTAATTTTGTTATTATTTTAAAGACATTG
1 GTTAATTTTGTTATTATTTTAAAGACATTG
*
20089796 GTTAATTTTGTTATTATTTTAGAGACATT
1 GTTAATTTTGTTATTATTTTAAAGACATT
20089825 TGCTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
GTTAATTTTGTTATTATTTTAAAGACATTG
Found at i:20090063 original size:6 final size:6
Alignment explanation
Indices: 20090052--20090086 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
20090042 TTGGGCCAGA
*
20090052 CCGGGG CCGGGG CCGGGG CCGGGG TCGGGG CCGGG
1 CCGGGG CCGGGG CCGGGG CCGGGG CCGGGG CCGGG
20090087 CCTAACAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.66, T:0.03
Consensus pattern (6 bp):
CCGGGG
Found at i:20090487 original size:15 final size:15
Alignment explanation
Indices: 20090467--20090511 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20090457 TGGATATATG
20090467 AATTTATTAAATTTA
1 AATTTATTAAATTTA
20090482 AATTTA-T-AATTTA
1 AATTTATTAAATTTA
*
20090495 AATAT-TTATAATTTA
1 AATTTATTA-AATTTA
20090510 AA
1 AA
20090512 AAACAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTATTAAATTTA
Found at i:20091234 original size:18 final size:19
Alignment explanation
Indices: 20091213--20091251 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
20091203 ATTAATATAA
20091213 AATTTTAAAT-AAAA-TTAT
1 AATTTT-AATCAAAATTTAT
20091231 AATTTTAATCAAAATTTAT
1 AATTTTAATCAAAATTTAT
20091250 AA
1 AA
20091252 AACTTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTTAATCAAAATTTAT
Found at i:20092894 original size:204 final size:204
Alignment explanation
Indices: 20092541--20092956 Score: 724
Period size: 204 Copynumber: 2.0 Consensus size: 204
20092531 GAGGATTGGT
* * * *
20092541 GGATGAGCTGTGTAAAGGCATAAGCAAGATAAGCATGACAGAGATGTCCACGGGAAAGCAGACGA
1 GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
20092606 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
66 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
*
20092671 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAGGAAAGCACCTGCGCTTTCCTCT
131 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
20092736 GGAGGAGGA
196 GGAGGAGGA
* * *
20092745 GGCTGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTTCATGGGAAAGCACACGA
1 GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
* * *
20092810 GATTTGTTTACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGGGAGCATGGGGAGTAT
66 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
*
20092875 TCCAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
131 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
20092940 GGAGGAGGA
196 GGAGGAGGA
20092949 GGATGAGC
1 GGATGAGC
20092957 AAGATTAAGT
Statistics
Matches: 199, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
204 199 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (204 bp):
GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
GGAGGAGGA
Found at i:20102761 original size:42 final size:42
Alignment explanation
Indices: 20102714--20102840 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
20102704 TGAGTTTCAT
*
20102714 TTTAACCC-TATTGGGTTTCCATTCAGCTCTTTTGAGCTT-TAG
1 TTTAACCCTTA-TGGGTTTCCATTCAGCTCTTATGAGCTTCT-G
* * *
20102756 TTTAACCCTTATAGGTTTTCGTTCAGCTCTTATGAGCTTCTG
1 TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTCTG
* * * *
20102798 TTCAACCCTTATGGGTTT-CTTTCTAGCACTTATGTGCTTCTG
1 TTTAACCCTTATGGGTTTCCATTC-AGCTCTTATGAGCTTCTG
20102840 T
1 T
20102841 GCAGCCTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.05
42 66 0.90
43 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTCTG
Found at i:20102800 original size:21 final size:21
Alignment explanation
Indices: 20102776--20102845 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
20102766 ATAGGTTTTC
*
20102776 GTTCAGCTCTTATGAGCTTCT
1 GTTCAGCACTTATGAGCTTCT
* * * *
20102797 GTTCAACCCTTATGGGTTTCT
1 GTTCAGCACTTATGAGCTTCT
*
20102818 -TTCTAGCACTTATGTGCTTCT
1 GTTC-AGCACTTATGAGCTTCT
*
20102839 GTGCAGC
1 GTTCAGC
20102846 CTTCAGGCTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 3 0.08
21 33 0.87
22 2 0.05
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.41
Consensus pattern (21 bp):
GTTCAGCACTTATGAGCTTCT
Found at i:20105042 original size:16 final size:17
Alignment explanation
Indices: 20105005--20105046 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
20104995 CTTATATCAA
*
20105005 TAAAA-TAAAATAATTT
1 TAAAATTAAAATAACTT
20105021 TAAAAATTAAAAT-ACTT
1 T-AAAATTAAAATAACTT
20105038 TAAAATTAA
1 TAAAATTAA
20105047 CTTACTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATTAAAATAACTT
Found at i:20106435 original size:24 final size:24
Alignment explanation
Indices: 20106408--20106459 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20106398 ACGAAGACAG
*
20106408 GGGTGGAGATAAAGATGAATATGA
1 GGGTGGAAATAAAGATGAATATGA
* * *
20106432 GGGTTGAAATGAAGATGAATATGG
1 GGGTGGAAATAAAGATGAATATGA
20106456 GGGT
1 GGGT
20106460 CAAGGTGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (24 bp):
GGGTGGAAATAAAGATGAATATGA
Found at i:20133130 original size:19 final size:19
Alignment explanation
Indices: 20133102--20133215 Score: 78
Period size: 19 Copynumber: 6.2 Consensus size: 19
20133092 CTTTATATTT
* *
20133102 TTTTAGAATTTTTTTGAAA
1 TTTTATAATTATTTTGAAA
20133121 TTTTATAATT-TTTT-AAA
1 TTTTATAATTATTTTGAAA
** * *
20133138 -AATATAAAT-TTTTGAAT
1 TTTTATAATTATTTTGAAA
*
20133155 TTTTATAAATATTTT-AAA
1 TTTTATAATTATTTTGAAA
* *
20133173 TTTTAAAAATTATTTTGAAC
1 TTTT-ATAATTATTTTGAAA
*
20133193 TTTTGAAAATTATTTTG-AA
1 TTTT-ATAATTATTTTGAAA
20133212 TTTT
1 TTTT
20133216 TTTGTATTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.13
17 5 0.06
18 17 0.22
19 27 0.35
20 18 0.23
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTATAATTATTTTGAAA
Found at i:20133147 original size:25 final size:28
Alignment explanation
Indices: 20133118--20133177 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 28
20133108 AATTTTTTTG
20133118 AAATTTTAT-AATTTTT-TAAA-AATAT
1 AAATTTTATGAATTTTTATAAATAATAT
* *
20133143 AAATTTT-TGAATTTTTATAAATATTTT
1 AAATTTTATGAATTTTTATAAATAATAT
20133170 AAATTTTA
1 AAATTTTA
20133178 AAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 14 0.48
26 4 0.14
27 10 0.34
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
AAATTTTATGAATTTTTATAAATAATAT
Found at i:20133216 original size:20 final size:19
Alignment explanation
Indices: 20133147--20133216 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
20133137 AAATATAAAT
20133147 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTA-AAATTA
* *
20133166 TTTTAAATTTTAAAAATTA
1 TTTTGAATTTTTAAAATTA
*
20133185 TTTTGAACTTTTGAAAATTA
1 TTTTGAA-TTTTTAAAATTA
20133205 TTTTGAATTTTT
1 TTTTGAATTTTT
20133217 TTGTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 3 0.07
19 23 0.52
20 18 0.41
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:20225018 original size:18 final size:18
Alignment explanation
Indices: 20224995--20225041 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
20224985 TCACCAGAAT
*
20224995 AGTTCACCAAGAA-CTACG
1 AGTTCACCAA-AATATACG
20225013 AGTTCACCAAAATATACG
1 AGTTCACCAAAATATACG
*
20225031 AGCTCACCAAA
1 AGTTCACCAAA
20225042 TGTGCAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (18 bp):
AGTTCACCAAAATATACG
Found at i:20228156 original size:12 final size:12
Alignment explanation
Indices: 20228139--20228163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20228129 TTTTTCCTTC
20228139 TTCTTCTTCTTT
1 TTCTTCTTCTTT
20228151 TTCTTCTTCTTT
1 TTCTTCTTCTTT
20228163 T
1 T
20228164 GTTTGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:20229514 original size:8 final size:7
Alignment explanation
Indices: 20229499--20229548 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 7
20229489 TTATTAACAT
20229499 TAAAAAA
1 TAAAAAA
20229506 TAGAAAAA
1 TA-AAAAA
20229514 T-AAAAA
1 TAAAAAA
20229520 T-AAAAA
1 TAAAAAA
20229526 T-AAAAA
1 TAAAAAA
20229532 T-AAAAA
1 TAAAAAA
20229538 T-AAAAA
1 TAAAAAA
20229544 TAAAA
1 TAAAA
20229549 TTAGGTTGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 30 0.73
7 5 0.12
8 6 0.15
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:20229518 original size:6 final size:6
Alignment explanation
Indices: 20229509--20229548 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
20229499 TAAAAAATAG
20229509 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
20229549 TTAGGTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:20238216 original size:25 final size:25
Alignment explanation
Indices: 20238182--20238230 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
20238172 CACACCATTA
20238182 CTCACATGAGCTT-CTCGTTATTCAG
1 CTCACATGAGCTTCCT-GTTATTCAG
20238207 CTCACATGAGCTTCCTGTTATTCA
1 CTCACATGAGCTTCCTGTTATTCA
20238231 TCTCGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (25 bp):
CTCACATGAGCTTCCTGTTATTCAG
Found at i:20240932 original size:12 final size:10
Alignment explanation
Indices: 20240905--20240951 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
20240895 GAAAATAGTC
*
20240905 AAAATTAATC
1 AAAATTAATT
20240915 AAAATTAACTAT
1 AAAATTAA-T-T
20240927 AAAATTAATT
1 AAAATTAATT
*
20240937 AAAATTCA-T
1 AAAATTAATT
20240946 AAAATT
1 AAAATT
20240952 CATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 7 0.21
10 16 0.48
11 2 0.06
12 8 0.24
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATT
Found at i:20243185 original size:27 final size:27
Alignment explanation
Indices: 20243147--20243201 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20243137 AACTCGAATG
20243147 TGGTTGTCATGCCATTTCTTGAGTCTT
1 TGGTTGTCATGCCATTTCTTGAGTCTT
20243174 TGGTTGTCATGCCATTTCTTGAGTCTT
1 TGGTTGTCATGCCATTTCTTGAGTCTT
20243201 T
1 T
20243202 CTTTAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (27 bp):
TGGTTGTCATGCCATTTCTTGAGTCTT
Found at i:20250620 original size:18 final size:18
Alignment explanation
Indices: 20250580--20250622 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20250570 GACTGGGAAA
* *
20250580 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
20250598 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
20250616 AGGATAC
1 AGGATAC
20250623 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:20252677 original size:30 final size:29
Alignment explanation
Indices: 20252643--20252728 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
20252633 AGAATCAGTC
* * *
20252643 TGGGCCTGAGCCCTATACAG-AAGTAGTGTG
1 TGGGCCT-AGCCCAATACAGTAA-CAGAGTG
*
20252673 TGGGCCATAGCCCAATATAGTAACAGAGTG
1 TGGGCC-TAGCCCAATACAGTAACAGAGTG
20252703 TGGGCCTTAGCCCAATACAGTAACAG
1 TGGGCC-TAGCCCAATACAGTAACAG
20252729 TGCAAATGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAGTAACAGAGTG
Found at i:20252871 original size:26 final size:26
Alignment explanation
Indices: 20252842--20252938 Score: 90
Period size: 26 Copynumber: 3.7 Consensus size: 26
20252832 ATATTGCAAC
*
20252842 AAAGTTGTCAGTAATAGTAACGCAGT
1 AAAGCTGTCAGTAATAGTAACGCAGT
* * ** *
20252868 AAAGCTGCCAGTAACAGTAATACAAT
1 AAAGCTGTCAGTAATAGTAACGCAGT
*
20252894 AGAGCTGTCAGT-ATCAGTAACGCAGT
1 AAAGCTGTCAGTAAT-AGTAACGCAGT
*
20252920 AAAGCT-TCCAGTAACAGTA
1 AAAGCTGT-CAGTAATAGTA
20252939 TTTGTGGCAA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
25 2 0.04
26 51 0.94
27 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
AAAGCTGTCAGTAATAGTAACGCAGT
Found at i:20253164 original size:27 final size:27
Alignment explanation
Indices: 20253133--20253247 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
20253123 GTATAATGGA
*
20253133 CATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTTCAGT
* *
20253160 AATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCCTATA-AGGGTATTTCAGT
*
20253187 CATTTTACCC-ATCGAGGGTATTTC-GAT
1 CATTTTACCCTAT-AAGGGTATTTCAG-T
* *
20253214 CATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCTATAAGGGTATTTCAGT
20253241 CATTTTA
1 CATTTTA
20253248 GAGGCCTATT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.09
27 64 0.85
28 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATAAGGGTATTTCAGT
Found at i:20253191 original size:54 final size:54
Alignment explanation
Indices: 20253133--20253247 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
20253123 GTATAATGGA
*
20253133 CATTTTACCCTAT-AAGGGTATTTCGGTAATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCC-ATCAAGGGTATTTCGATAATTTTACCCT-TAGAGGATATTTCAGT
* * * *
20253187 CATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
20253241 CATTTTA
1 CATTTTA
20253248 GAGGCCTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.04
54 49 0.91
55 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (54 bp):
CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
Found at i:20255783 original size:30 final size:29
Alignment explanation
Indices: 20255741--20255828 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 29
20255731 AGAATCAATC
*
20255741 TGGGCCTGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCT-AGCCCTATACAGTAACAGTGTG
* * *
20255771 TGGGCCATAGCCCAATATAGTAACAGAGTG
1 TGGGCC-TAGCCCTATACAGTAACAGTGTG
*
20255801 TGGGTCTTAGCCCTATACAGTAACAGTG
1 TGGG-CCTAGCCCTATACAGTAACAGTG
20255829 CAAATGCAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGGCCTAGCCCTATACAGTAACAGTGTG
Found at i:20255951 original size:26 final size:26
Alignment explanation
Indices: 20255913--20255990 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
20255903 AAATCGACCC
20255913 ACGCAGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * * **
20255939 ATGCAGCAGAGCTGTCAGTATTAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * *
20255965 ACGCAGGAAAGCTACCAGAAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
20255991 TTTGTGGCAA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
ACGCAGCAAAGCTGCCAGTAACAGTA
Found at i:20256211 original size:27 final size:27
Alignment explanation
Indices: 20256181--20256241 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
20256171 AGGGGTATAA
20256181 CGGTCATTTTACCCTATAGA-GGTATTT
1 CGGTCATTTTACCC-ATAGAGGGTATTT
* * *
20256208 CGGTAATTTTATCCATCGAGGGTATTT
1 CGGTCATTTTACCCATAGAGGGTATTT
*
20256235 CGCTCAT
1 CGGTCAT
20256242 GGGGGCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
CGGTCATTTTACCCATAGAGGGTATTT
Found at i:20269211 original size:7 final size:7
Alignment explanation
Indices: 20269199--20269228 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
20269189 GTCATGATGG
20269199 CATGGTA
1 CATGGTA
20269206 CATGGTA
1 CATGGTA
20269213 CATGGTA
1 CATGGTA
20269220 CATGGTA
1 CATGGTA
20269227 CA
1 CA
20269229 CGGTGTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (7 bp):
CATGGTA
Found at i:20269431 original size:33 final size:33
Alignment explanation
Indices: 20269377--20269467 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
20269367 GCATCCACAA
*
20269377 AGTAAGTCCACCAGGATAGTAAACACGGAATAG
1 AGTAAGTCCACCAGGACAGTAAACACGGAATAG
* * *
20269410 AGTAAGTTCACCGGGACAGTAAACACGGAATAA
1 AGTAAGTCCACCAGGACAGTAAACACGGAATAG
* *
20269443 AG-ATAGTCCATCAAGACAGTAAACA
1 AGTA-AGTCCACCAGGACAGTAAACA
20269468 TGAGATAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
AGTAAGTCCACCAGGACAGTAAACACGGAATAG
Found at i:20271202 original size:28 final size:28
Alignment explanation
Indices: 20271162--20271232 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
20271152 TGACGTACAG
20271162 CTCGTGTGAGCAAATTCAAATATCACAA
1 CTCGTGTGAGCAAATTCAAATATCACAA
* * *
20271190 CTCGTGTGAGCAAATTCAAATATTATAG
1 CTCGTGTGAGCAAATTCAAATATCACAA
*
20271218 CTTGTGTGAGCAAAT
1 CTCGTGTGAGCAAAT
20271233 CGGCCTCGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (28 bp):
CTCGTGTGAGCAAATTCAAATATCACAA
Found at i:20274104 original size:40 final size:40
Alignment explanation
Indices: 20274054--20274134 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
20274044 ATTATAAGGT
20274054 TAGATTAGATTCTCTAGTATTAGAGGCTTAGAGCTTTAGA
1 TAGATTAGATTCTCTAGTATTAGAGGCTTAGAGCTTTAGA
20274094 TAGATTAGATTCTCTAGTATTAGAGGCTTAGAGCTTTAGA
1 TAGATTAGATTCTCTAGTATTAGAGGCTTAGAGCTTTAGA
20274134 T
1 T
20274135 GTCGGCCGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (40 bp):
TAGATTAGATTCTCTAGTATTAGAGGCTTAGAGCTTTAGA
Found at i:20277523 original size:45 final size:45
Alignment explanation
Indices: 20277463--20277617 Score: 229
Period size: 45 Copynumber: 3.4 Consensus size: 45
20277453 AGTGAACAGT
* * *
20277463 AATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
20277508 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
20277553 AGTCGGTAACAGTAACAGTAACAGTATTTGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
20277598 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
20277618 GTCGGCACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:20277562 original size:39 final size:39
Alignment explanation
Indices: 20277474--20277644 Score: 139
Period size: 45 Copynumber: 4.1 Consensus size: 39
20277464 ATCAGTAACG
* *
20277474 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT--CA
*
20277519 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGA----GT--CA
* *
20277564 GTAACAGTAACAGTATTTGACACACAAAGTGCCGAATCA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCA
* * *
20277603 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-TCA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGTCA
20277641 GTAA
1 GTAA
20277645 GCCGGCAAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
38 14 0.12
39 25 0.22
41 1 0.01
44 1 0.01
45 71 0.63
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCA
Found at i:20278575 original size:30 final size:31
Alignment explanation
Indices: 20278541--20278613 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
20278531 TTCCATAATA
*
20278541 AAATAATATAATTAAAATAAAT-TACTATTT
1 AAATAATATAATTAAAATAAATATAATATTT
* *
20278571 AAATAA-ATAATTATAATAATTATAATATTT
1 AAATAATATAATTAAAATAAATATAATATTT
*
20278601 ATATACATATAAT
1 AAATA-ATATAAT
20278614 ATTTATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.36
30 17 0.47
31 1 0.03
32 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATAATATAATTAAAATAAATATAATATTT
Found at i:20283959 original size:9 final size:9
Alignment explanation
Indices: 20283945--20283973 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
20283935 TTTCAAATCA
20283945 CAACCAATT
1 CAACCAATT
20283954 CAACCAATT
1 CAACCAATT
20283963 CAACCAATT
1 CAACCAATT
20283972 CA
1 CA
20283974 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:20284642 original size:45 final size:45
Alignment explanation
Indices: 20284582--20284733 Score: 232
Period size: 45 Copynumber: 3.4 Consensus size: 45
20284572 AGTGAACAGT
* * *
20284582 AATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
20284627 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
20284672 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
20284717 AATCAGTAACAGTAACA
1 AATCAGTAACAGTAACA
20284734 ATAGTCGGCA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:20285694 original size:30 final size:31
Alignment explanation
Indices: 20285660--20285732 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
20285650 TTCCATAATA
*
20285660 AAATAATATAATTAAAATAAAT-TACTATTT
1 AAATAATATAATTAAAATAAATATAATATTT
* *
20285690 AAATAA-ATAATTATAATAATTATAATATTT
1 AAATAATATAATTAAAATAAATATAATATTT
*
20285720 ATATACATATAAT
1 AAATA-ATATAAT
20285733 ATTTATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.36
30 17 0.47
31 1 0.03
32 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATAATATAATTAAAATAAATATAATATTT
Found at i:20286505 original size:27 final size:26
Alignment explanation
Indices: 20286103--20286516 Score: 393
Period size: 27 Copynumber: 15.3 Consensus size: 26
20286093 ACCCCCATAA
** *
20286103 GGTAAAATGATCGAAATACCCCCATAT
1 GGTAAAATGATCGAAATACCCTGA-AG
*
20286130 GATAAAATGA-CAGAAATACCCCT-ATAG
1 GGTAAAATGATC-GAAATA-CCCTGA-AG
* * *
20286157 GATAAAATGACCGAAATACCCCTTAAG
1 GGTAAAATGATCGAAATA-CCCTGAAG
* *
20286184 GGTAAAATGATCAAAATACCCCTAAAG
1 GGTAAAATGATCGAAATA-CCCTGAAG
* * *
20286211 GGTAAAATGA-CTAAAATACCCTCAAAT
1 GGTAAAATGATC-GAAATACCCT-GAAG
* * * *
20286238 GGTAAAATGACCAAAATATCGTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
20286265 GGTAAAATGATCGAAATACCTTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
20286292 GATAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
20286319 GATAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
* * *
20286346 GGTAAAATCACCAAAATACCCCCTGAAG
1 GGTAAAATGATCGAAATA--CCCTGAAG
*
20286374 GGTAAAATGATCGAAATACCCCCGAAG
1 GGTAAAATGATCGAAATA-CCCTGAAG
20286401 GGTAAAATGATCGAAATACTCCTGAAG
1 GGTAAAATGATCGAAATAC-CCTGAAG
*
20286428 GGTAAAATGACCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
* *
20286455 GGTAAAATGATCAAAATACCCCTGATG
1 GGTAAAATGATCGAAATA-CCCTGAAG
*
20286482 GGTAAATTGATCGAAATACTCCTGAAG
1 GGTAAAATGATCGAAATAC-CCTGAAG
20286509 GGTAAAAT
1 GGTAAAAT
20286517 AATTGTTATG
Statistics
Matches: 339, Mismatches: 35, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.03
27 295 0.87
28 29 0.09
29 4 0.01
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (26 bp):
GGTAAAATGATCGAAATACCCTGAAG
Found at i:20286713 original size:27 final size:27
Alignment explanation
Indices: 20286668--20286741 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 27
20286658 AAAGGGGAAG
**
20286668 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCCACA
**
20286694 TATACTGTTACTGGCAGCTTTGCTGCA
1 TATACTGTTACTGGCAGCTTTGCCACA
* *
20286721 T-T-CTATTACTGGCAACTTTGC
1 TATACTGTTACTGGCAGCTTTGC
20286742 TGCATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 17 0.41
26 8 0.20
27 16 0.39
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCCACA
Found at i:20286795 original size:25 final size:26
Alignment explanation
Indices: 20286696--20286794 Score: 132
Period size: 25 Copynumber: 3.9 Consensus size: 26
20286686 TTGCCACATA
* *
20286696 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTATTACTGGCAACTTTGCTGCAT
20286722 T-CTATTACTGGCAACTTTGCTGCAT
1 TACTATTACTGGCAACTTTGCTGCAT
* *
20286747 TATTATT-CTGGCAACTTTGCTGCGT
1 TACTATTACTGGCAACTTTGCTGCAT
*
20286772 TACTATTA-TGGCAGCTTTGCTGC
1 TACTATTACTGGCAACTTTGCTGC
20286795 GATATTGGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
25 60 0.92
26 5 0.08
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (26 bp):
TACTATTACTGGCAACTTTGCTGCAT
Found at i:20286943 original size:28 final size:28
Alignment explanation
Indices: 20286905--20286987 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
20286895 TATTTTGTTT
* *
20286905 ACTGTATTGGGCTAAGGCCCACATTGTC
1 ACTGTAATGGGCTAAGGCCCACACTGTC
* * *
20286933 ACTGTACTGGGCTAAGGTCCACACTGTT
1 ACTGTAATGGGCTAAGGCCCACACTGTC
20286961 ACTGTAATGGGCTAAGGCCCACACTGT
1 ACTGTAATGGGCTAAGGCCCACACTGT
20286988 ACCGATATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (28 bp):
ACTGTAATGGGCTAAGGCCCACACTGTC
Found at i:20292603 original size:41 final size:41
Alignment explanation
Indices: 20292546--20292672 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 41
20292536 AGAATATTGT
* *
20292546 TGAATTGCATATACGTGACCTTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGACCTTATTTGTACTTCGGTACCCC
* * * * **
20292587 TGAATTGCACATACGTGTCCCTGTTTATACTTCAATACCCC
1 TGAATTGCACATACGTGACCTTATTTGTACTTCGGTACCCC
* * * *
20292628 TGAATTGCACATACGTGCCCTTCTTCGTACTTCGGTGCCCC
1 TGAATTGCACATACGTGACCTTATTTGTACTTCGGTACCCC
20292669 TGAA
1 TGAA
20292673 CGCACTTTTG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGACCTTATTTGTACTTCGGTACCCC
Found at i:20300465 original size:22 final size:21
Alignment explanation
Indices: 20300435--20300487 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
20300425 GGTTAGATTA
*
20300435 TCTCGAGACATAAGGTGCCAA-G
1 TCTCAAGACAT-AGGT-CCAATG
*
20300457 TCTCAAGACATAGGTTCAATG
1 TCTCAAGACATAGGTCCAATG
20300478 TCTCAAGACA
1 TCTCAAGACA
20300488 CTGTCCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 10 0.36
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
TCTCAAGACATAGGTCCAATG
Found at i:20312270 original size:30 final size:31
Alignment explanation
Indices: 20312214--20312271 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
20312204 TATTATTATC
20312214 AAATTTATCGTACGTAGTAAAAAACGACGTT
1 AAATTTATCGTACGTAGTAAAAAACGACGTT
* *
20312245 AAATTTATCGTATGTAGT-CAAAACGAC
1 AAATTTATCGTACGTAGTAAAAAACGAC
20312272 ATTAGGTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (31 bp):
AAATTTATCGTACGTAGTAAAAAACGACGTT
Found at i:20319848 original size:2 final size:2
Alignment explanation
Indices: 20319841--20319869 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20319831 TAAATTTTGT
20319841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20319870 TGTGAGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20323555 original size:110 final size:110
Alignment explanation
Indices: 20323157--20323832 Score: 975
Period size: 110 Copynumber: 6.1 Consensus size: 110
20323147 TGGATTAAGA
* * * *
20323157 TTTAAGAGGATATTCGGCTATTTGGTCCAACGAG--AAATCGAAACCCAACGCATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
*
20323220 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG-AAGTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* * * *
20323264 TTTAAAAGGATATTTGGCCATTTGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
*
20323329 TTTCTCGAATTTCCAAACGCAAAACATTG-CTTCATTTTGAATTTTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTT-ATTTTGAA-ATTT
* *
20323375 TTTAAAAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCAC
1 TTT-AAA-AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCAC
20323440 GTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
64 GTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* * *
20323487 TTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGAAACTCAACACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* * *
20323552 TTTCTCGAATTTCCAAAAGCAAAACATTACCTCATTTTGAAATTTTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA--TTT
* * * **
20323599 TTTAAAAGAGGATATTTGGCTATTTGGTCGAA-TAGGAAAGATCGAAGCCCGGCACATTAGGGCA
1 TTT-AAA-AGGATATTTGGCTATTTGGTCGAACGA-GAAAAATCGAAACCCAACACATTAGGGCA
* *
20323663 CGTTTTCTCGAATTTCGAAACGCAAAACATTACCTTATTTTGAAATTT
63 CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* *
20323711 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATTGAAACCCAACACATTTGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* *
20323776 TTTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAATTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
20323821 TTTAAAAGGATA
1 TTTAAAAGGATA
20323833 ATTAGTATGC
Statistics
Matches: 508, Mismatches: 47, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
107 29 0.06
108 3 0.01
109 61 0.12
110 197 0.39
111 12 0.02
112 21 0.04
113 94 0.19
114 91 0.18
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (110 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
Found at i:20323560 original size:223 final size:223
Alignment explanation
Indices: 20323160--20323828 Score: 1051
Period size: 224 Copynumber: 3.0 Consensus size: 223
20323150 ATTAAGATTT
* * * *
20323160 AAGAGGATATTCGGCTATTTGGTCCAACGAG-AA-ATCGAAACCCAACGCATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
* *
20323223 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG-AAGTTTTTAAAAGGATATTTGGCCATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
* * *
20323287 GGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTCGAATTTCCAAACGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
20323352 ACATTGCTTCATTTTGAATTTTTTTTAA
196 ACATTGCTTCATTTTGAATTTTTTTTAA
20323380 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
*
20323445 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTAGCTATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
*
20323510 GGTCGAACGAGAAAAATCGAAACTCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
* *
20323575 ACATTACCTCATTTTGAAATTTTTTTTAA
196 ACATTGCTTCATTTTG-AATTTTTTTTAA
** * **
20323604 AAGAGGATATTTGGCTATTTGGTCGAATAGGAAAGATCGAAGCCCGGCACATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
* *
20323669 CTCGAATTTCGAAACGCAAAACATTACCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
* * * *
20323734 GGTCGAACGAGAAAAATTGAAACCCAACACATTTGGGCACGTTTTCTCGAATTTCCAAATGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
* *
20323799 ATATTGCCTT-ATTTTGAA-ATTTTTTAA
196 ACATTG-CTTCATTTTGAATTTTTTTTAA
20323826 AAG
1 AAG
20323829 GATAATTAGT
Statistics
Matches: 414, Mismatches: 30, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
220 28 0.07
221 2 0.00
222 76 0.18
223 102 0.25
224 204 0.49
225 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (223 bp):
AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
ACATTGCTTCATTTTGAATTTTTTTTAA
Found at i:20328511 original size:88 final size:90
Alignment explanation
Indices: 20328419--20328613 Score: 202
Period size: 88 Copynumber: 2.2 Consensus size: 90
20328409 GAACTTAAAA
* * *
20328419 AAAAAAACAATTAAGTCACT-ATTTTTTTTTGCACCCAGTTGAATACTTGAACTTTCAAGATGCA
1 AAAAAAACAATTAAGCCACTCATTTTTTTTTGCACCCAATTGAATACTTGAACTTTCAAAATGCA
* *
20328483 TAAAAAAGACTC-TCATA-TTTTTTT
66 CAAAAAA-ACTCTTCAAACTTTTTTT
* * * * * *
20328507 -AAAAAA-AATTAGGCCCCTGCTTTTTTTTTTGGACTCAATTGAGTACTTGAACTTTCAAAATGC
1 AAAAAAACAATTAAGCCACT-CATTTTTTTTTGCACCCAATTGAATACTTGAACTTTCAAAATGC
* *
20328570 ACCAAAAAATTCTTCAAACTTTTTTTT
65 ACAAAAAAACTCTTCAAAC-TTTTTTT
20328597 AGAAAAAACAATTAAGC
1 A-AAAAAACAATTAAGC
20328614 TCCTTTTTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
86 9 0.11
87 9 0.11
88 47 0.55
90 7 0.08
92 6 0.07
93 7 0.08
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (90 bp):
AAAAAAACAATTAAGCCACTCATTTTTTTTTGCACCCAATTGAATACTTGAACTTTCAAAATGCA
CAAAAAAACTCTTCAAACTTTTTTT
Found at i:20328816 original size:29 final size:30
Alignment explanation
Indices: 20328784--20328863 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
20328774 AAATCAATAA
20328784 AAAATTTAT-AAAAATGA-TTAAATTTTAAT
1 AAAATTTATAAAAAAT-ATTTAAATTTTAAT
* *
20328813 AAAA-CTATAAAAAATATTTAAATTTTATT
1 AAAATTTATAAAAAATATTTAAATTTTAAT
*
20328842 AAAA-TTAGAAAAAA-ATTATAAA
1 AAAATTTATAAAAAATATT-TAAA
20328864 AATTGTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTTATAAAAAATATTTAAATTTTAAT
Found at i:20328860 original size:20 final size:19
Alignment explanation
Indices: 20328837--20328882 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
20328827 TATTTAAATT
*
20328837 TTATTAAAATTAGAAAAAAA
1 TTATAAAAATT-GAAAAAAA
*
20328857 TTATAAAAATTGTAAAAAA
1 TTATAAAAATTGAAAAAAA
20328876 -TATAAAA
1 TTATAAAA
20328883 TATATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 7 0.29
20 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
TTATAAAAATTGAAAAAAA
Found at i:20328951 original size:19 final size:21
Alignment explanation
Indices: 20328922--20328980 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
20328912 TTTTATAAAG
20328922 TCGTAAGAAAATTATAAAAAAA
1 TCGTAA-AAAATTATAAAAAAA
* *
20328944 T-GTAAAAAA--ATATAAAAT
1 TCGTAAAAAATTATAAAAAAA
20328962 TCGTAAAAAATTATAAAAA
1 TCGTAAAAAATTATAAAAA
20328981 TTATAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 4 0.13
21 10 0.32
22 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
TCGTAAAAAATTATAAAAAAA
Found at i:20328987 original size:19 final size:19
Alignment explanation
Indices: 20328837--20328988 Score: 71
Period size: 19 Copynumber: 7.9 Consensus size: 19
20328827 TATTTAAATT
* *
20328837 TTATTAAAATTAGAAAAAAA
1 TTATAAAAATTA-TAAAAAA
*
20328857 TTATAAAAATTGTAAAAAA
1 TTATAAAAATTATAAAAAA
*
20328876 -TAT-AAAA-TATATAGAAA
1 TTATAAAAATTATA-AAAAA
* * **
20328893 TATAGAAAAAGTTATAAGATT
1 T-TATAAAAA-TTATAAAAAA
* **
20328914 TTAT-AAAGTCGTAAGAAAA
1 TTATAAAAATTATAA-AAAA
* *
20328933 TTATAAAAAAATGTAAAAAA
1 TTAT-AAAAATTATAAAAAA
* *
20328953 ATAT-AAAATTCGTAAAAAA
1 TTATAAAAATT-ATAAAAAA
20328972 TTATAAAAATTATAAAA
1 TTATAAAAATTATAAAA
20328989 TACTTCTTTT
Statistics
Matches: 99, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
16 3 0.03
17 8 0.08
18 12 0.12
19 32 0.32
20 29 0.29
21 11 0.11
22 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (19 bp):
TTATAAAAATTATAAAAAA
Found at i:20328989 original size:8 final size:9
Alignment explanation
Indices: 20328852--20328988 Score: 50
Period size: 9 Copynumber: 14.4 Consensus size: 9
20328842 AAAATTAGAA
20328852 AAAAATTAT
1 AAAAATTAT
*
20328861 AAAAATTGT
1 AAAAATTAT
*
20328870 AAAAAATAT
1 AAAAATTAT
20328879 -AAAATATAT
1 AAAAAT-TAT
* *
20328888 AGAAATATAG
1 AAAAAT-TAT
20328898 AAAAAGTTAT
1 AAAAA-TTAT
* *
20328908 -AAGATTTT
1 AAAAATTAT
*
20328916 ATAAAGTCGTA-
1 A-AAAAT--TAT
20328927 AGAAAATTAT
1 A-AAAATTAT
20328937 AAAAAAATGTA-
1 --AAAAAT-TAT
*
20328948 AAAAAATAT
1 AAAAATTAT
*
20328957 -AAAATTCGT
1 AAAAATT-AT
20328966 AAAAAATTAT
1 -AAAAATTAT
20328976 AAAAATTAT
1 AAAAATTAT
20328985 AAAA
1 AAAA
20328989 TACTTCTTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
8 14 0.15
9 42 0.45
10 17 0.18
11 17 0.18
12 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:20329026 original size:12 final size:12
Alignment explanation
Indices: 20329009--20329039 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20328999 GGTACGATAA
20329009 TTTTTATAATTT
1 TTTTTATAATTT
20329021 TTTTTATAATTT
1 TTTTTATAATTT
*
20329033 TTATTAT
1 TTTTTAT
20329040 CGTACCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:20329164 original size:20 final size:20
Alignment explanation
Indices: 20329141--20329179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20329131 TTAAATGACC
20329141 TTTTTAATG-TATTTTATAAT
1 TTTTTAATGAT-TTTTATAAT
*
20329161 TTTTTTATGATTTTTATAA
1 TTTTTAATGATTTTTATAA
20329180 AAGTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTAATGATTTTTATAAT
Found at i:20329223 original size:49 final size:46
Alignment explanation
Indices: 20329153--20329250 Score: 117
Period size: 49 Copynumber: 2.1 Consensus size: 46
20329143 TTTAATGTAT
* *
20329153 TTTATAATTTTTTTATGATTTTTATAAAAG-TTTACAATTTTTTATTATA
1 TTTATAATTTATTTATAATTTTTA-AAAAGATTT--AATTTTTT-TTATA
* *
20329202 TTTATAATTTATTTCTAATTTTTAATAAGATTTAATTTTTTTTATA
1 TTTATAATTTATTTATAATTTTTAAAAAGATTTAATTTTTTTTATA
20329248 TTT
1 TTT
20329251 TTATTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
46 8 0.18
47 8 0.18
48 4 0.09
49 24 0.55
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (46 bp):
TTTATAATTTATTTATAATTTTTAAAAAGATTTAATTTTTTTTATA
Found at i:20329271 original size:28 final size:29
Alignment explanation
Indices: 20329191--20329284 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 29
20329181 AGTTTACAAT
* *
20329191 TTTTTATT-ATATTT-ATAATTTATTTCTAA
1 TTTTTATTAAAATTTAATAA-TT-TTTATAA
* * **
20329220 TTTTTAATAAGATTTAATTTTTTTTAT-A
1 TTTTTATTAAAATTTAATAATTTTTATAA
20329248 TTTTTATTAAAATTTAATAATTTTTATAA
1 TTTTTATTAAAATTTAATAATTTTTATAA
*
20329277 ATTTTATT
1 TTTTTATT
20329285 GATTTTTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
28 24 0.46
29 19 0.37
30 7 0.13
31 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTTATTAAAATTTAATAATTTTTATAA
Found at i:20339998 original size:29 final size:29
Alignment explanation
Indices: 20339976--20340038 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
20339966 AAAAGTTATT
*
20339976 AAATTTTAATAAAAATATAAAAAATATAA
1 AAATTTTAATAAAAATAGAAAAAATATAA
*
20340005 AAATTTTATTAAAAATAGAAAATATATATAA
1 AAATTTTAATAAAAATAGAAAA-A-ATATAA
20340036 AAA
1 AAA
20340039 ATTGTAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.67
30 1 0.03
31 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATTTTAATAAAAATAGAAAAAATATAA
Found at i:20340026 original size:19 final size:20
Alignment explanation
Indices: 20339995--20340059 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
20339985 TAAAAATATA
20339995 AAAAATA-TAAAAATTTTATT
1 AAAAATAGT-AAAATTTTATT
* *
20340015 AAAAATAG-AAAATATATATA
1 AAAAATAGTAAAAT-TTTATT
* *
20340035 AAAAATTGTAAGATTTTA-T
1 AAAAATAGTAAAATTTTATT
20340054 AAAAAT
1 AAAAAT
20340060 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 11 0.31
20 21 0.58
21 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAATAGTAAAATTTTATT
Found at i:20340038 original size:20 final size:20
Alignment explanation
Indices: 20339990--20340040 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
20339980 TTTAATAAAA
*
20339990 ATATAAAAAATATAAAAATT
1 ATATAAAAAATAGAAAAATT
* *
20340010 TTATTAAAAATAG-AAAATAT
1 ATATAAAAAATAGAAAAAT-T
20340030 ATATAAAAAAT
1 ATATAAAAAAT
20340041 TGTAAGATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATAAAAAATAGAAAAATT
Found at i:20346237 original size:24 final size:24
Alignment explanation
Indices: 20346210--20346272 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
20346200 CAGCTCGAAA
*
20346210 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAC
* * * *
20346234 GAGCATTCTGATATTTGGCTCTCAC
1 GAGCATCCCGTTA-TTAGCTCTCAC
*
20346259 GAGCTTCCCGTTAT
1 GAGCATCCCGTTAT
20346273 ATGGTTCTTG
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAC
Found at i:20353098 original size:66 final size:65
Alignment explanation
Indices: 20353011--20353144 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 65
20353001 ATTCTGAAGC
**
20353011 TGTAACTGGAGTTCGTCATATTTTCTGCTT-GCCTCTACTTCCCTCGCTGCTGCCTCCGCTTTAA
1 TGTAACTGGAGTTCGTCATATTTTCT--TTAGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAA
20353075 GT
64 GT
* * * *
20353077 TGTAGCTGGAGTTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCAATGCTGCCTCCGCTTTAAG
1 TGTAACTGGAGTTCGTCATATTTTCTTT-AGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAAG
20353142 T
65 T
20353143 TG
1 TG
20353145 AGCAATTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 2 0.03
66 58 0.97
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (65 bp):
TGTAACTGGAGTTCGTCATATTTTCTTTAGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAAGT
Found at i:20358689 original size:43 final size:46
Alignment explanation
Indices: 20358637--20358761 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 46
20358627 TTCTGATCCA
20358637 AAAT-TTTATGTAAGTTATGATATGATATATATTTATGTATTATGT
1 AAATGTTTATGTAAGTTATGATATGATATATATTTATGTATTATGT
** * * * *
20358682 -AA-G-TTATGTAAGTTATGAT-CCA-A-AGT-TTTTTTTATTCTTT
1 AAATGTTTATGTAAGTTATGATATGATATA-TATTTATGTATTATGT
20358722 AAATGTTTATGTAAGTTATGATATGATATATATTTATGTA
1 AAATGTTTATGTAAGTTATGATATGATATATATTTATGTA
20358762 AGTTATGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
40 11 0.18
41 4 0.07
42 2 0.03
43 32 0.52
44 3 0.05
45 2 0.03
46 7 0.11
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (46 bp):
AAATGTTTATGTAAGTTATGATATGATATATATTTATGTATTATGT
Found at i:20358758 original size:27 final size:27
Alignment explanation
Indices: 20358727--20358788 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
20358717 TCTTTAAATG
20358727 TTTATGTAAGTTATGATATGATATATA
1 TTTATGTAAGTTATGATATGATATATA
*
20358754 TTTATGTAAGTTATGGTATGATATATA
1 TTTATGTAAGTTATGATATGATATATA
20358781 TTTATGTA
1 TTTATGTA
20358789 TTATGTAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (27 bp):
TTTATGTAAGTTATGATATGATATATA
Found at i:20358887 original size:13 final size:13
Alignment explanation
Indices: 20358869--20358895 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20358859 TGATTATCAT
20358869 CTTTAAATTTTAA
1 CTTTAAATTTTAA
20358882 CTTTAAATTTTAA
1 CTTTAAATTTTAA
20358895 C
1 C
20358896 CTTTTAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:20358904 original size:14 final size:14
Alignment explanation
Indices: 20358869--20358920 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
20358859 TGATTATCAT
20358869 CTTTAAATTTTAA-
1 CTTTAAATTTTAAC
20358882 CTTTAAATTTTAAC
1 CTTTAAATTTTAAC
* * *
20358896 CTTTTAATTGTACC
1 CTTTAAATTTTAAC
*
20358910 CTTTTAATTTT
1 CTTTAAATTTT
20358921 TAAATTTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (14 bp):
CTTTAAATTTTAAC
Found at i:20359734 original size:8 final size:8
Alignment explanation
Indices: 20359707--20359752 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
20359697 TTATTTTAGC
20359707 TAAAATTA
1 TAAAATTA
*
20359715 -AAAATAA
1 TAAAATTA
*
20359722 AAAAATTA
1 TAAAATTA
20359730 TAAAATTA
1 TAAAATTA
20359738 TAAAATTA
1 TAAAATTA
20359746 TAAAATT
1 TAAAATT
20359753 TAACATAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAATTA
Found at i:20360755 original size:22 final size:22
Alignment explanation
Indices: 20360725--20360767 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20360715 ACACCAAAAC
* *
20360725 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
20360747 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
20360768 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:20360859 original size:43 final size:43
Alignment explanation
Indices: 20360827--20361055 Score: 298
Period size: 43 Copynumber: 5.3 Consensus size: 43
20360817 TTTATTTAAA
*
20360827 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * * * *
20360870 AAACGCCGCTAAAGAATATGACCTTTAGCGACGCTTTTTCTAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* *
20360913 AAACGCCGCTAAAGAACATGATCTTTAGCGACGC-TTTACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* ** * * *
20360955 AAACGCCACTAAAGGTCAGGTTCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * *
20360998 AAACGCCGCTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
20361041 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
20361056 TCATAAAAAA
Statistics
Matches: 158, Mismatches: 27, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
42 33 0.21
43 125 0.79
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
Found at i:20361004 original size:85 final size:85
Alignment explanation
Indices: 20360827--20361055 Score: 298
Period size: 85 Copynumber: 2.7 Consensus size: 85
20360817 TTTATTTAAA
*
20360827 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAATATGAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTA-CCACAAACGCCGCTAAAGAATAGGAC
* *
20360892 CTTTAGCGACGCTTTTTCTAC
65 CTTTAGCGACGCTTTTCCCAC
* * * **
20360913 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCACAAACGCCACTAAAG-GTCAGGTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAAT-AGGAC
* *
20360977 CTTTAGTGGCGCTTTTCCCAC
65 CTTTAGCGACGCTTTTCCCAC
* * * *
20360998 AAACGCCGCTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCACAAACGCCGCTAAAGA
20361056 TCATAAAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 1 0.01
85 67 0.54
86 56 0.45
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCACAAACGCCGCTAAAGAATAGGACC
TTTAGCGACGCTTTTCCCAC
Found at i:20363355 original size:13 final size:13
Alignment explanation
Indices: 20363337--20363362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20363327 GCTGAAGCTT
20363337 TGTAAAATGTAAA
1 TGTAAAATGTAAA
20363350 TGTAAAATGTAAA
1 TGTAAAATGTAAA
20363363 AATTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTAAAATGTAAA
Found at i:20365428 original size:21 final size:22
Alignment explanation
Indices: 20365404--20365459 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
20365394 GACCTCGAAT
20365404 CTCTAAACC-CTAAATCACTAA
1 CTCTAAACCTCTAAATCACTAA
* *
20365425 CTCTTAACCTCT-AATCCCTAA
1 CTCTAAACCTCTAAATCACTAA
20365446 -TCCTAAACCTCTAA
1 CT-CTAAACCTCTAA
20365460 CCCCTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 3 0.10
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (22 bp):
CTCTAAACCTCTAAATCACTAA
Found at i:20365461 original size:28 final size:29
Alignment explanation
Indices: 20365395--20365467 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
20365385 CCCTAACCTG
* * *
20365395 ACCTCGAATCTCTAAACCCTAAATCACTA
1 ACCTCTAACCTCTAATCCCTAAATCACTA
20365424 A-CTCTTAACCTCTAATCCCT-AATC-CTAA
1 ACCTC-TAACCTCTAATCCCTAAATCACT-A
*
20365452 ACCTCTAACCCCTAAT
1 ACCTCTAACCTCTAAT
20365468 TACTAACCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.05
28 19 0.51
29 16 0.43
ACGTcount: A:0.34, C:0.37, G:0.01, T:0.27
Consensus pattern (29 bp):
ACCTCTAACCTCTAATCCCTAAATCACTA
Found at i:20365475 original size:21 final size:20
Alignment explanation
Indices: 20365429--20365480 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
20365419 CACTAACTCT
* *
20365429 TAACCTCTAATCCCTAATCC
1 TAACCTCTAACCCCTAATAC
20365449 TAAACCTCTAACCCCTAATTAC
1 T-AACCTCTAACCCCTAA-TAC
*
20365471 TAACCCCTAA
1 TAACCTCTAA
20365481 ACATTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (20 bp):
TAACCTCTAACCCCTAATAC
Found at i:20365528 original size:21 final size:21
Alignment explanation
Indices: 20365488--20365543 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
20365478 TAAACATTAT
**
20365488 TTAGCCTCTAAACCTTAAACC
1 TTAGCCTCTAAACCACAAACC
*
20365509 TTAGCCTTTAAACCACAAACC
1 TTAGCCTCTAAACCACAAACC
* * *
20365530 ATAACCCCTAAACC
1 TTAGCCTCTAAACC
20365544 CATAATCCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.23
Consensus pattern (21 bp):
TTAGCCTCTAAACCACAAACC
Found at i:20365563 original size:22 final size:21
Alignment explanation
Indices: 20365516--20365563 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
20365506 ACCTTAGCCT
*
20365516 TTAAACCACAAACCATAACCC
1 TTAAACCACAAACCATAAACC
*
20365537 CTAAACC-CATAATCCATAAACC
1 TTAAACCACA-AA-CCATAAACC
20365559 TTAAA
1 TTAAA
20365564 ATGGTAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 8 0.36
22 12 0.55
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
TTAAACCACAAACCATAAACC
Found at i:20365593 original size:14 final size:14
Alignment explanation
Indices: 20365573--20365619 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
20365563 AATGGTAACA
*
20365573 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
20365587 TCTAAACCATATAC
1 CCTAAACCATAAAC
*
20365601 CCTAAACCAGAAAC
1 CCTAAACCATAAAC
20365615 CCTAA
1 CCTAA
20365620 CTATAGTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:20366050 original size:114 final size:114
Alignment explanation
Indices: 20365830--20366325 Score: 771
Period size: 114 Copynumber: 4.4 Consensus size: 114
20365820 CCCCGAAAGC
** *
20365830 GCTTAGGTTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG-CACTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCC
*
20365894 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTG
66 TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTG
*
20365943 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGTTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCC
* * * * *
20366008 TTAAAAACGCTGCTAAATCCTCAAAAGCTCAAAAAACAGCGTC-TTTTCA
66 TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTT-G
* * *
20366057 GCTTAAGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCC
*
20366122 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTG
66 TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTG
* * *
20366171 CCTTAGGTTTTTTACGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCC
* *
20366236 TTAAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTG
66 TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTG
* * *
20366285 GCTTAGATTATTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
20366326 TCCCCAAAAG
Statistics
Matches: 346, Mismatches: 34, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
113 59 0.17
114 283 0.82
115 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (114 bp):
GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCC
TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTG
Found at i:20366321 original size:73 final size:73
Alignment explanation
Indices: 20366238--20366471 Score: 371
Period size: 73 Copynumber: 3.2 Consensus size: 73
20366228 ACGCTTCCTT
* *
20366238 AAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTATTTGCGGC
1 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTTTTTGCGGC
*
20366303 GCTTTCTC
66 GCTTTCCC
*
20366311 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTCGGCTTA-AGTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGA-TTTTTTGCGG
20366375 CGCTTTCCC
65 CGCTTTCCC
* * * *
20366384 AAAAACGTCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTTGGCTTAGGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTTTTTGCGGC
20366449 GCTTTCCC
66 GCTTTCCC
*
20366457 AAAAATGCCGCTAAA
1 AAAAACGCCGCTAAA
20366472 GCCCTGAGCA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.01
73 147 0.99
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (73 bp):
AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTTTTTGCGGC
GCTTTCCC
Found at i:20366493 original size:187 final size:185
Alignment explanation
Indices: 20366300--20366638 Score: 491
Period size: 187 Copynumber: 1.8 Consensus size: 185
20366290 GATTATTTGC
* *
20366300 GGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTC-TTTTCGGCTTAA
1 GGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTT-GGCTTAA
** * *
20366364 GTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTT
65 GTTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTC-GTT
*
20366429 TGGCTTAGGTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGT
129 GGGCTTAGG-TTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGT
** * * * *
20366487 GGCGCTTCCTTGAAAACGCTGCTAAATTCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTTAGG
1 GGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAAG
* * *
20366552 TTTTTTGCGGCTCTTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGG
66 TTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGG
*
20366617 GCTTAGGTTTTTGTGGCGCTTT
131 GCTTAGGTTTTTGCGGCGCTTT
20366639 TTAAAAAACA
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
185 14 0.10
186 10 0.07
187 106 0.79
188 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (185 bp):
GGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAAG
TTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGG
GCTTAGGTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGT
Found at i:20366572 original size:260 final size:259
Alignment explanation
Indices: 20366111--20366655 Score: 799
Period size: 260 Copynumber: 2.1 Consensus size: 259
20366101 TTGAGCATTA
* *
20366111 GCGGCGC-TTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGCCTT
1 GCGGCGCTTTCCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTTGCCTT
20366175 AGGTTTTTTACGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAA
66 AGGTTTTTTACGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAA
* * *
20366240 AAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTATTTGCGGCGC
131 AAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGGCGC
* * *
20366305 TTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTCGGCTTAAGTTTTT
196 TTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTC-GTTCGGCTT-AGGTTTT
20366370 T
259 T
* *
20366371 GCGGCGCTTTCC-CAAAAACGTCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTTGGCTT
1 GCGGCGCTTTCCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTTGCCTT
* * * * * *
20366435 AGGTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTCCTTGA
66 AGGTTTTTTACGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAA
* * * * * *
20366500 AAACGCTGCTAAATTCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTTAGGTTTTTTGCGGCTC
131 AAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGGCGC
* *
20366565 TTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
196 TTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTCGGCTTAGGTTTTT
* * * *
20366629 GTGGCGCTTT-TTAAAAAACACCGCTAA
1 GCGGCGCTTTCCTCAAAAACGCCGCTAA
20366656 TTCTTATTGT
Statistics
Matches: 254, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
258 28 0.11
259 7 0.03
260 215 0.85
261 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (259 bp):
GCGGCGCTTTCCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTTGCCTT
AGGTTTTTTACGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAA
AAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGGCGC
TTTCTCAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTCGGCTTAGGTTTTT
Found at i:20368992 original size:50 final size:50
Alignment explanation
Indices: 20368809--20368993 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 50
20368799 GATAATAACA
* * ** * *
20368809 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
20368860 TGCCCATGCCATGTCCCAAACATGGTCTTA-AGGTGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
20368910 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
20368960 TGCCAACGCCATGTCCCAGGCATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
20368994 AGATCTCTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 83 0.73
51 31 0.27
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20373633 original size:34 final size:35
Alignment explanation
Indices: 20373595--20373682 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
20373585 TACATGTTTA
* *
20373595 ACCATCCAACACACCAGATGCTTATAAGAGCTA-T
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* * * *
20373629 ACCATCTAGCACACCAAATGCTCATAATAGCCAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* *
20373664 ACCAACCATCACACCAGAT
1 ACCATCCAACACACCAGAT
20373683 AACACTGTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
34 27 0.63
35 16 0.37
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (35 bp):
ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
Found at i:20374184 original size:31 final size:31
Alignment explanation
Indices: 20374142--20374208 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
20374132 TCCATGGCTC
*
20374142 AATTTTCAACCCATTCTTGATTTAGAATAAT
1 AATTTTCAACCCATTCTTGATCTAGAATAAT
*
20374173 AATTTTTAACCCATTCTTGATCTAGAATAAT
1 AATTTTCAACCCATTCTTGATCTAGAATAAT
20374204 AATTT
1 AATTT
20374209 CATTCAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (31 bp):
AATTTTCAACCCATTCTTGATCTAGAATAAT
Found at i:20378652 original size:29 final size:28
Alignment explanation
Indices: 20378618--20378716 Score: 72
Period size: 29 Copynumber: 3.4 Consensus size: 28
20378608 AATTGAATAA
*
20378618 TTGGTGACCATTTTATAACTTTTCATAG
1 TTGGTGACCATTTTATAAATTTTCATAG
* **** *
20378646 TTAGGTGACTAAAAAATAAATTTACTAATAG
1 TT-GGTGACCATTTTATAAATTT--TCATAG
* *
20378677 TTGGATAACCATTTTATAATTTTTCATAG
1 TTGG-TGACCATTTTATAAATTTTCATAG
20378706 TTGGGTGACCA
1 TT-GGTGACCA
20378717 AAAATGAAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 9
0.67 0.21 0.12
Matches are distributed among these distances:
28 2 0.04
29 26 0.52
30 4 0.08
31 18 0.36
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (28 bp):
TTGGTGACCATTTTATAAATTTTCATAG
Found at i:20383931 original size:16 final size:16
Alignment explanation
Indices: 20383910--20383940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20383900 AAATAAAGTA
20383910 TAATAAAACAAATAGG
1 TAATAAAACAAATAGG
*
20383926 TAATAAAAGAAATAG
1 TAATAAAACAAATAG
20383941 AAATCCATGC
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:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
TAATAAAACAAATAGG
Found at i:20391067 original size:52 final size:52
Alignment explanation
Indices: 20390893--20391081 Score: 220
Period size: 52 Copynumber: 3.6 Consensus size: 52
20390883 TGTACCGGAA
* * * * *
20390893 TAGCAGGCCTTGAGCC-AGTGTTTACTTAGCAAGCCTTAAGCCAGTGTTTATT
1 TAGCAGGCTTTGAGCCGA-TGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
* * *
20390945 TAGCAGGCTTTGAGCTGATGTTTACTTAGCAGGCCTTGAGCCGATGTTTATT
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
* * *
20390997 TAGTAGGTTTTGAGCCGATGATTACTTAGTAGG-CTATGAGCCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCT-TGAGCCGGTGTTTATT
* * *
20391049 TAGCAGGCTTTGAACCGATGAATAGTTAGCAGG
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGG
20391082 TATTATGTAC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 2 0.02
52 114 0.97
53 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (52 bp):
TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
Found at i:20391081 original size:26 final size:26
Alignment explanation
Indices: 20390893--20391068 Score: 176
Period size: 26 Copynumber: 6.8 Consensus size: 26
20390883 TGTACCGGAA
*
20390893 TAGCAGGCCTTGAGCC-AGTGTTTACT
1 TAGCAGGCTTTGAGCCGA-TGTTTACT
* * * *
20390919 TAGCAAGCCTTAAGCC-AGTGTTTATT
1 TAGCAGGCTTTGAGCCGA-TGTTTACT
*
20390945 TAGCAGGCTTTGAGCTGATGTTTACT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* *
20390971 TAGCAGGCCTTGAGCCGATGTTTATT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* * *
20390997 TAGTAGGTTTTGAGCCGATGATTACT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* * * *
20391023 TAGTAGGCTATGAGCCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGATGTTTACT
*
20391049 TAGCAGGCTTTGAACCGATG
1 TAGCAGGCTTTGAGCCGATG
20391069 AATAGTTAGC
Statistics
Matches: 124, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 123 0.99
27 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCCGATGTTTACT
Found at i:20391692 original size:12 final size:13
Alignment explanation
Indices: 20391677--20391711 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
20391667 TAAAAATAGA
*
20391677 TATATGAATTG-T
1 TATATGAAGTGTT
20391689 TATATGAAGTGTT
1 TATATGAAGTGTT
20391702 TATATGAAGT
1 TATATGAAGT
20391712 ATTTGTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (13 bp):
TATATGAAGTGTT
Found at i:20393744 original size:42 final size:42
Alignment explanation
Indices: 20393683--20393799 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
20393673 GATATGTGTT
*
20393683 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGA
1 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGA
20393725 TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGA
1 TTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACATGTGA
* * *
20393767 TTACATGTAAGACCACGTTTGTGACGTTGGCAT
1 TT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
20393800 TGTACGGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 40 0.61
43 24 0.36
44 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (42 bp):
TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGA
Found at i:20396878 original size:36 final size:36
Alignment explanation
Indices: 20396831--20396905 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
20396821 GAGGAAAACA
20396831 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
1 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
20396867 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
1 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
20396903 TAT
1 TAT
20396906 GGAGAGCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
Found at i:20397611 original size:9 final size:9
Alignment explanation
Indices: 20397597--20397624 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20397587 TGAGTTTTCG
20397597 AATTCGAAT
1 AATTCGAAT
20397606 AATTCGAAT
1 AATTCGAAT
20397615 AATTCGAAT
1 AATTCGAAT
20397624 A
1 A
20397625 TCAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:20397875 original size:30 final size:31
Alignment explanation
Indices: 20397839--20397898 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20397829 AAACCTTTTA
*
20397839 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
20397869 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
20397899 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:20397911 original size:7 final size:7
Alignment explanation
Indices: 20397899--20397931 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
20397889 TCCCTTCCCA
20397899 TCCCACC
1 TCCCACC
20397906 TCCCACC
1 TCCCACC
20397913 TCCCACC
1 TCCCACC
20397920 TCCCACC
1 TCCCACC
20397927 TCCCA
1 TCCCA
20397932 TCTACCCCAA
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:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:20398038 original size:19 final size:19
Alignment explanation
Indices: 20397988--20398044 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
20397978 CTATTTACTT
20397988 TCCCTCAAACTTTTA--TTC
1 TCCCT-AAACTTTTATTTTC
*
20398006 T-CCAAAACTTTTTATTTTC
1 TCCCTAAAC-TTTTATTTTC
20398025 TCCCTAAACTTTTACTTTTC
1 TCCCTAAACTTTTA-TTTTC
20398045 ACCATTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.12
17 7 0.22
18 1 0.03
19 9 0.28
20 11 0.34
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (19 bp):
TCCCTAAACTTTTATTTTC
Found at i:20400022 original size:3 final size:3
Alignment explanation
Indices: 20400014--20400054 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
20400004 CACTGATATT
20400014 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
20400055 TGTATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20400195 original size:35 final size:35
Alignment explanation
Indices: 20400156--20400265 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
20400146 TGATTAGGAT
20400156 TTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTC
1 TTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTC
* * ** * * * *
20400191 TTTT-AATTTAC-GGTTTCTACTTGCTAAAAAG-GC
1 TTTTAAAGTTACAGATTTGGAGTTGGT-AATAGTTC
20400224 TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTC
1 -TTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTC
20400260 TTTTAA
1 TTTTAA
20400266 TTTACGGTTT
Statistics
Matches: 54, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
33 10 0.19
34 14 0.26
35 20 0.37
36 10 0.19
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (35 bp):
TTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTC
Found at i:20400237 original size:69 final size:69
Alignment explanation
Indices: 20400155--20400293 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
20400145 ATGATTAGGA
20400155 TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTCTTTTAATTTACGGTTTCTACTTGCTAAAA
1 TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTCTTTTAATTTACGGTTTCTACTTGCTAAAA
20400220 AGGC
66 AGGC
20400224 TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTCTTTTAATTTACGGTTTCTACTTGCTAAAA
1 TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTCTTTTAATTTACGGTTTCTACTTGCTAAAA
20400289 AGGC
66 AGGC
20400293 T
1 T
20400294 GAGTTTTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (69 bp):
TTTTTAAAGTTACAGATTTGGAGTTGGTAATAGTTCTTTTAATTTACGGTTTCTACTTGCTAAAA
AGGC
Done.