Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold997
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: 101379
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Found at i:77 original size:40 final size:38
Alignment explanation
Indices: 1--119 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 38
* * * *
1 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGAC
1 AATGCCTTCGGGACTTAACCCGGAATTGATATCTCGAC
*
39 GAATGCCTTCGGGAACTTAACCCGGAATTGGTATCTCGAC
1 -AATGCCTTCGGG-ACTTAACCCGGAATTGATATCTCGAC
* *
79 AAGGCGCTTC-GGACTTAACCC-GAATTAGTTATCTCGCAC
1 AATGC-CTTCGGGACTTAACCCGGAATT-GATATCTCG-AC
118 AA
1 AA
120 AGGCCCTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.07
38 17 0.25
39 22 0.32
40 25 0.36
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGAATTGATATCTCGAC
Found at i:112 original size:38 final size:40
Alignment explanation
Indices: 44--136 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 40
34 TCGACGAATG
44 CCTTCGGGAACTTAACCCGGAATTGGTATCTCG-AC-AAGGC
1 CCTTC-GG-ACTTAACCCGGAATTGGTATCTCGCACAAAGGC
* *
84 GCTTCGGACTTAACCC-GAATTAGTTATCTCGCACAAAGGC
1 CCTTCGGACTTAACCCGGAATT-GGTATCTCGCACAAAGGC
124 CCTTCGGATCTTA
1 CCTTCGGA-CTTA
137 GTCCGGATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
37 5 0.11
38 17 0.37
39 4 0.09
40 16 0.35
41 4 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGACTTAACCCGGAATTGGTATCTCGCACAAAGGC
Found at i:7173 original size:40 final size:38
Alignment explanation
Indices: 7129--7297 Score: 132
Period size: 39 Copynumber: 4.3 Consensus size: 38
7119 TCAATGCTTC
* * *
7129 GACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGG
1 GACTTAACCCGGATTGT--AACTCGCACAAAGGCCTTCGG
*
7169 GACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGG
1 GACTTAACCCGG-ATTGTAACTCGCACAAAGGCCTTCGG
*
7208 GACTTAACCCGGAATTAGTATCTCGCACAAA--CCTTC-G
1 GACTTAACCCGG-ATT-GTAACTCGCACAAAGGCCTTCGG
** * *
7245 GATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTC-G
1 GA-CTTAACCCGGAT-T-GTAAC-TCGCACAAAGGCCTTCGG
*
7285 GACTTAGCCCGGA
1 GACTTAACCCGGA
7298 CAGCATTCAA
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.04
38 18 0.16
39 52 0.46
40 34 0.30
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
GACTTAACCCGGATTGTAACTCGCACAAAGGCCTTCGG
Found at i:7204 original size:39 final size:39
Alignment explanation
Indices: 7150--7297 Score: 155
Period size: 39 Copynumber: 3.8 Consensus size: 39
7140 GATTTTAAAA
*
7150 CTCGCACGAATGCCTTCGGGACTTAACCCGGAATT-GTAT
1 CTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTAGTAT
7189 CTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAGTAT
1 CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTAGTAT
**
7229 CTCGCACAAA-CCTTC-GGATCTTAGTCCGG-ATATAGTCA-
1 CTCGCACAAAGCCTTCGGGA-CTTAACCCGGAAT-TAGT-AT
* *
7267 CTTAGCACAAAGCCTTC-GGACTTAGCCCGGA
1 C-TCGCACAAAGCCTTCGGGACTTAACCCGGA
7298 CAGCATTCAA
Statistics
Matches: 96, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
37 5 0.05
38 20 0.21
39 49 0.51
40 22 0.23
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CTCGCACAAAGCCTTCGGGACTTAACCCGGAATTAGTAT
Found at i:14510 original size:38 final size:38
Alignment explanation
Indices: 14373--14550 Score: 166
Period size: 40 Copynumber: 4.6 Consensus size: 38
14363 CTCATTCAAT
* * * *
14373 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTATATCTCGCAC-AAA
*
14413 GCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTATATCTCGCACAAA
14451 GGCCTTCGGGACTTAACCCGGAATTAATATCTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATT-ATATCTCGCACAAA
** *
14491 -CCTTC-GGATCTTAGTCCGG-A-TATAGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAACCCGGAATTATA-T--C-TCGCACAAA
*
14530 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
14551 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
35 3 0.03
36 2 0.02
37 4 0.03
38 16 0.14
39 42 0.36
40 48 0.41
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGACTTAACCCGGAATTATATCTCGCACAAA
Found at i:22297 original size:29 final size:27
Alignment explanation
Indices: 22279--22348 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
22269 ATATTAAGTC
22279 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
22306 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
22334 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
22349 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:22342 original size:28 final size:28
Alignment explanation
Indices: 22279--22376 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
22269 ATATTAAGTC
*
22279 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
22306 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22334 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
22363 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22377 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30376 original size:29 final size:27
Alignment explanation
Indices: 30358--30427 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
30348 ATATTAAGTC
30358 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
30385 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
30413 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
30428 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:30421 original size:28 final size:28
Alignment explanation
Indices: 30358--30455 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
30348 ATATTAAGTC
*
30358 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30385 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30413 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30442 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30456 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32416 original size:40 final size:40
Alignment explanation
Indices: 32330--32438 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 40
32320 TAAGTCAGTA
* * *
32330 TCGCACACTTACTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATT-TATAGTCGAAGCTATGCAAAC
**
32370 TCGCACACTTAGTGCCATTTATAGTCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGTCGAAGCTAT-GCAAAC
* * *
32411 T-GCACACTCAGTGCCAATCATAGTCGAA
1 TCGCACACTTAGTGCCATTTATAGTCGAA
32439 TATCATTATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 53 0.90
41 6 0.10
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (40 bp):
TCGCACACTTAGTGCCATTTATAGTCGAAGCTATGCAAAC
Found at i:35773 original size:40 final size:40
Alignment explanation
Indices: 35717--35880 Score: 269
Period size: 40 Copynumber: 4.1 Consensus size: 40
35707 TGGATGATAA
*
35717 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
35758 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35797 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35837 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
35877 CCGG
1 CCGG
35881 TTAAATCCCA
Statistics
Matches: 118, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
39 4 0.03
40 114 0.97
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49187 original size:10 final size:10
Alignment explanation
Indices: 49172--49230 Score: 91
Period size: 10 Copynumber: 5.9 Consensus size: 10
49162 AATTTTAGCT
49172 TTTATCTTTA
1 TTTATCTTTA
*
49182 TTTATCCTTA
1 TTTATCTTTA
49192 TTTATCTTTA
1 TTTATCTTTA
*
49202 ATTATCTTTA
1 TTTATCTTTA
*
49212 TTTATTTTTA
1 TTTATCTTTA
49222 TTTATCTTT
1 TTTATCTTT
49231 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:49956 original size:6 final size:6
Alignment explanation
Indices: 49945--49973 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49935 TTTCGTTAAA
49945 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
49974 CGTAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:50462 original size:15 final size:17
Alignment explanation
Indices: 50432--50464 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
50422 TTGTTACAAT
50432 ATTTAGAGAGACATTGA
1 ATTTAGAGAGACATTGA
50449 ATTT-GAGA-ACATTGA
1 ATTTAGAGAGACATTGA
50464 A
1 A
50465 GTGTGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (17 bp):
ATTTAGAGAGACATTGA
Found at i:52486 original size:25 final size:26
Alignment explanation
Indices: 52427--52488 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
52417 AATTTATAAC
52427 ATATTAAAA-AATAAATCTATACTAA
1 ATATTAAAATAATAAATCTATACTAA
* *
52452 ATA-TATAATAAT-AATCTA-ATGTAA
1 ATATTAAAATAATAAATCTATA-CTAA
52476 ATATTAAAATAAT
1 ATATTAAAATAAT
52489 GTTAAGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.03
24 16 0.52
25 14 0.45
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (26 bp):
ATATTAAAATAATAAATCTATACTAA
Found at i:52758 original size:17 final size:17
Alignment explanation
Indices: 52721--52759 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52711 CCATATTATT
* *
52721 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
52738 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
52755 TCTTT
1 TCTTT
52760 GGTTACCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:52788 original size:18 final size:18
Alignment explanation
Indices: 52773--52808 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
52763 TACCCTTCTT
52773 CTCCCCTTTCCCCTTCCC
1 CTCCCCTTTCCCCTTCCC
*
52791 CTTCCCTTTCCCCTTCCC
1 CTCCCCTTTCCCCTTCCC
52809 TTTGGTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (18 bp):
CTCCCCTTTCCCCTTCCC
Found at i:52801 original size:12 final size:12
Alignment explanation
Indices: 52774--52811 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
52764 ACCCTTCTTC
*
52774 TCCCCTTTCCCCT
1 TCCCC-TTCCCTT
52787 TCCCCTTCCCTT
1 TCCCCTTCCCTT
52799 TCCCCTTCCCTT
1 TCCCCTTCCCTT
52811 T
1 T
52812 GGTTTGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
TCCCCTTCCCTT
Found at i:52810 original size:5 final size:6
Alignment explanation
Indices: 52774--52808 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
52764 ACCCTTCTTC
*
52774 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCC
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCC
52809 TTTGGTTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCCT
Found at i:53150 original size:19 final size:17
Alignment explanation
Indices: 53128--53181 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 17
53118 CTGTGATTGA
53128 ATTTTTGTAAATTCAATAT
1 ATTTTTGTAAATT--ATAT
*
53147 ATTTTTTTAAATTATAT
1 ATTTTTGTAAATTATAT
*
53164 ATTTTTATTAAATTATAT
1 ATTTTT-GTAAATTATAT
53182 TTAATAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 10 0.30
18 11 0.33
19 12 0.36
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTTGTAAATTATAT
Found at i:53169 original size:18 final size:19
Alignment explanation
Indices: 53128--53181 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
53118 CTGTGATTGA
*
53128 ATTTTTGTAAATTCA-ATAT
1 ATTTTTTTAAATT-ATATAT
53147 ATTTTTTTAAATTATATAT
1 ATTTTTTTAAATTATATAT
*
53166 -TTTTATTAAATTATAT
1 ATTTTTTTAAATTATAT
53182 TTAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTTTTAAATTATATAT
Found at i:53368 original size:21 final size:21
Alignment explanation
Indices: 53344--53399 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
53334 CACCGCTGTT
* * *
53344 TCTAATATCACTGCTACATTA
1 TCTAATCTCACCGCTACAGTA
53365 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
53386 CCTAATCTCACCGC
1 TCTAATCTCACCGC
53400 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.07, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:53787 original size:18 final size:18
Alignment explanation
Indices: 53748--53800 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
53738 TGTTAAAATA
*
53748 ATTATATAAAAAAT-T-T
1 ATTAAATAAAAAATATAT
*
53764 AATAAATAAAAAATATAT
1 ATTAAATAAAAAATATAT
53782 ATTAAATTAAAATAATATA
1 ATTAAA-TAAAA-AATATA
53801 AATATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.40
17 1 0.03
18 6 0.20
19 5 0.17
20 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAATAAAAAATATAT
Found at i:61456 original size:61 final size:60
Alignment explanation
Indices: 61384--61501 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 60
61374 CATCCCAAAT
* * *
61384 GCTCACATGTAACAGAGAACAATG-ACAAAGGCTTCCACATATAACGGGTTCAGCCACTAGG
1 GCTCAAATGTAACAGAGAAC--TGCACAAAAGCTTCCACATATAACAGGTTCAGCCACTAGG
*
61445 GCTCAAATGTAATAGAGAACTGCCACAAAAGCTTCCACATATAACAGGTTCAGCCAC
1 GCTCAAATGTAACAGAGAACTG-CACAAAAGCTTCCACATATAACAGGTTCAGCCAC
61502 AAAGCCATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 2 0.04
61 49 0.96
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (60 bp):
GCTCAAATGTAACAGAGAACTGCACAAAAGCTTCCACATATAACAGGTTCAGCCACTAGG
Found at i:62675 original size:17 final size:16
Alignment explanation
Indices: 62650--62717 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 16
62640 CACTTTTAAG
62650 CATATATCACATTACA
1 CATATATCACATTACA
*
62666 CATATAATCACATAACATTTAA
1 CATAT-ATCACATTAC-----A
62688 GCATATATCACATTACA
1 -CATATATCACATTACA
62705 CATATAATCACAT
1 CATAT-ATCACAT
62718 AACATTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
16 10 0.24
17 17 0.40
22 10 0.24
23 5 0.12
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (16 bp):
CATATATCACATTACA
Found at i:62687 original size:39 final size:39
Alignment explanation
Indices: 62644--62860 Score: 323
Period size: 39 Copynumber: 5.6 Consensus size: 39
62634 CATTTTCACT
*
62644 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACATTACTCATATAATCACATAACA
*
62683 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACATTACTCATATAATCACATAACA
62722 TTTAAGCATATATCACAATT-CTCATATAATCACATAACA
1 TTTAAGCATATATCAC-ATTACTCATATAATCACATAACA
* *
62761 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACATTACTCATATAATCACATAACA
* * *
62800 TTCAA--ACATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACATTACTCATATAATCACATAACA
* *
62837 TTTAAGCATATATCGCAATACTCA
1 TTTAAGCATATATCACATTACTCA
62861 AAAACATGTT
Statistics
Matches: 167, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
37 35 0.21
38 2 0.01
39 127 0.76
40 3 0.02
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACATTACTCATATAATCACATAACA
Found at i:63635 original size:31 final size:31
Alignment explanation
Indices: 63600--63667 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
63590 TTAAATTTTA
*
63600 ATAAAAA-TATTTAAAATTAGAAAAAAAAGTT
1 ATAAAAACTATTAAAAATTAGAAAAAAAA-TT
* *
63631 ATAAAAACTGTTAAAAATTATAAAAAAAATT
1 ATAAAAACTATTAAAAATTAGAAAAAAAATT
*
63662 GTAAAA
1 ATAAAA
63668 TTTTATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (31 bp):
ATAAAAACTATTAAAAATTAGAAAAAAAATT
Found at i:64035 original size:10 final size:10
Alignment explanation
Indices: 64012--64087 Score: 61
Period size: 10 Copynumber: 7.9 Consensus size: 10
64002 TATGATAAAT
*
64012 TTTTACAATA
1 TTTTATAATA
*
64022 TTTTATAATG
1 TTTTATAATA
64032 TTTTATAATA
1 TTTTATAATA
64042 TTTTAT-AT-
1 TTTTATAATA
*
64050 TTTTAT-ATT
1 TTTTATAATA
*
64059 TTTTAT-ATT
1 TTTTATAATA
*
64068 TTTTATTAAAA
1 TTTTA-TAATA
*
64079 TTTGATAAT
1 TTTTATAAT
64088 TCTTATTGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 8 0.14
9 16 0.29
10 27 0.48
11 5 0.09
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTATAATA
Found at i:64063 original size:9 final size:9
Alignment explanation
Indices: 64022--64073 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
64012 TTTTACAATA
*
64022 TTTTATAATG
1 TTTTAT-ATT
*
64032 TTTTATAATA
1 TTTTAT-ATT
64042 TTTTATA-T
1 TTTTATATT
64050 TTTTATATT
1 TTTTATATT
64059 TTTTATATT
1 TTTTATATT
64068 TTTTAT
1 TTTTAT
64074 TAAAATTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
8 7 0.18
9 17 0.44
10 15 0.38
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:64405 original size:83 final size:83
Alignment explanation
Indices: 64261--64427 Score: 214
Period size: 83 Copynumber: 2.0 Consensus size: 83
64251 AAAAATTCGA
* * *
64261 GGGCTTAATTACTTTTTTTGAAAAAATTTAAGAACATTTTTAATACATTTTAAAATTTTAAATA-
1 GGGCTTAATTACTTTCTTTAAAAAAATTTAAGAACATTTTTAATACATTTTAAAAATTTAAATAT
64325 CTCAATTAAATGTAAAAAAAG
66 CT-AATTAAA--TAAAAAAAG
** * *
64346 GGGCTTAATTACTTTCTTTAAAAAAATTT-A-AATTTTTTTGATGCATTTTAAAAATTTAAATAT
1 GGGCTTAATTACTTTCTTTAAAAAAATTTAAGAACATTTTTAATACATTTTAAAAATTTAAATAT
*
64409 CTAATTGAATAAAAAAAG
66 CTAATTAAATAAAAAAAG
64427 G
1 G
64428 TTTAATTATT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
81 10 0.14
83 33 0.45
84 3 0.04
85 27 0.37
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.41
Consensus pattern (83 bp):
GGGCTTAATTACTTTCTTTAAAAAAATTTAAGAACATTTTTAATACATTTTAAAAATTTAAATAT
CTAATTAAATAAAAAAAG
Found at i:65394 original size:16 final size:16
Alignment explanation
Indices: 65373--65440 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
65363 TTTGGTTCGC
65373 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65389 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
65405 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
65421 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65437 TGTA
1 TGTA
65441 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65696 original size:16 final size:16
Alignment explanation
Indices: 65656--65710 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
65646 TTAATCATAT
*
65656 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
65672 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
65687 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
65705 -TAAAAT
1 TTAAAAT
65711 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:65703 original size:18 final size:17
Alignment explanation
Indices: 65676--65710 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65666 TTTTTATTAA
*
65676 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65694 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65711 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65823 original size:18 final size:17
Alignment explanation
Indices: 65796--65830 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65786 TTACTATTAA
*
65796 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65814 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65831 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65876 original size:61 final size:60
Alignment explanation
Indices: 65691--65881 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
65681 TTTTAATTAA
* *
65691 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
65752 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
65810 A
60 T
*
65811 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
65872 AATATATAAT
1 AATATATAAT
65882 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:65959 original size:120 final size:120
Alignment explanation
Indices: 65654--65937 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
65644 ATTTAATCAT
*
65654 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
65719 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
65775 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
65840 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
65895 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
65938 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:67870 original size:19 final size:19
Alignment explanation
Indices: 67846--67882 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
67836 ATAAAATATT
67846 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
67865 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
67883 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:74986 original size:12 final size:13
Alignment explanation
Indices: 74963--74987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74953 GTGTTTATTA
74963 TATTGTTAAAAAG
1 TATTGTTAAAAAG
74976 TATTGTTAAAAA
1 TATTGTTAAAAA
74988 ATAAAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TATTGTTAAAAAG
Found at i:79117 original size:55 final size:56
Alignment explanation
Indices: 79027--79158 Score: 152
Period size: 57 Copynumber: 2.5 Consensus size: 56
79017 CTTATTCACC
* * *
79027 TTAATATTAAAT-TATT---ATAAT-ACTTA-TATCAAGATAAGTATTAGATT-CT
1 TTAATATTAAATCTATTAAAATAATAACATATTATCAAGATAAGTATTAAATTAAT
* *
79076 TTAATATTTAATCTATTAAATTAATAACATATTATCAAGATAAGTATTAAATTAAAT
1 TTAATATTAAATCTATTAAAATAATAACATATTATCAAGATAAGTATTAAATT-AAT
*
79133 TTAATATTAAATTTATTAAAATAATA
1 TTAATATTAAATCTATTAAAATAATA
79159 TTATTTTTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
49 11 0.16
50 4 0.06
53 4 0.06
54 4 0.06
55 20 0.30
57 24 0.36
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (56 bp):
TTAATATTAAATCTATTAAAATAATAACATATTATCAAGATAAGTATTAAATTAAT
Found at i:80615 original size:51 final size:50
Alignment explanation
Indices: 80467--80625 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 50
80457 ATATGTTTTG
80467 CATTAAA-TACAGTCATGCATTATGTAACTCTCATATTAGTTAAGTTTGCAT
1 CATTAAATTA-AGTCATGCATTATGTAACTCTCATATTA-TTAAGTTTGCAT
* * * * * *
80518 CA-TAAATTATGACACGCTTTATGTAACTCTCATGTTAGATAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATATT--ATTAAGTTTGCAT
* *
80569 CATTAAATTAAGTCATGCATTAAGTAACTCATC-TATTCATTTAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTC-TCATATT-ATTAAGTTTGCAT
80620 C-TTAAA
1 CATTAAA
80626 CCATGCATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
50 31 0.35
51 29 0.33
52 26 0.30
53 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (50 bp):
CATTAAATTAAGTCATGCATTATGTAACTCTCATATTATTAAGTTTGCAT
Found at i:81228 original size:27 final size:27
Alignment explanation
Indices: 81197--81252 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
81187 AAATAGAACT
81197 TTGATAACTAATTTGAATTTTTCTAAG
1 TTGATAACTAATTTGAATTTTTCTAAG
81224 TTGATAACTAATTTGAATTTTTCTAAG
1 TTGATAACTAATTTGAATTTTTCTAAG
81251 TT
1 TT
81253 TTGTGTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (27 bp):
TTGATAACTAATTTGAATTTTTCTAAG
Found at i:82130 original size:53 final size:53
Alignment explanation
Indices: 82037--82233 Score: 256
Period size: 53 Copynumber: 3.7 Consensus size: 53
82027 ACATGACACA
* * * * *
82037 ATAGTCTCAGAGTAGGTTTTACACTATGTAGTCTTTATTTCTCCATATGATGTC
1 ATAGTCTCAGACTAGGTCTTACACTATATGGTCTTCATTTC-CCATATGATGTC
*
82091 ATAGTCTCAGGCTAGGTC-TACACTATATGGTCTTCATTTCCCTATATGATGTC
1 ATAGTCTCAGACTAGGTCTTACACTATATGGTCTTCATTTCCC-ATATGATGTC
* * *
82144 ATAGTCCCAGACTAGGTCTTACACTATATGGTATTCATTTCCCAGATGAT-TC
1 ATAGTCTCAGACTAGGTCTTACACTATATGGTCTTCATTTCCCATATGATGTC
82196 TATAGTC-CTAGACTAGGTCTTACACTATATGGTCTTCA
1 -ATAGTCTC-AGACTAGGTCTTACACTATATGGTCTTCA
82234 CTTGCCATGT
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
52 5 0.04
53 85 0.66
54 38 0.30
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (53 bp):
ATAGTCTCAGACTAGGTCTTACACTATATGGTCTTCATTTCCCATATGATGTC
Found at i:82223 original size:107 final size:107
Alignment explanation
Indices: 82037--82233 Score: 265
Period size: 107 Copynumber: 1.8 Consensus size: 107
82027 ACATGACACA
* * * * * * * *
82037 ATAGTCTCAGAGTAGGTTTTACACTATGTAGTCTTTATTTCTCCATATGATGTCATAGTCTCAGG
1 ATAGTCCCAGACTAGGTCTTACACTATATAGTATTCATTTCTCCAGATGATGTCATAGTCTCAGA
82102 CTAGGTCTACACTATATGGTCTTCATTTCCCTATATGATGTC
66 CTAGGTCTACACTATATGGTCTTCATTTCCCTATATGATGTC
*
82144 ATAGTCCCAGACTAGGTCTTACACTATATGGTATTCATTTC-CCAGATGAT-TCTATAGTC-CTA
1 ATAGTCCCAGACTAGGTCTTACACTATATAGTATTCATTTCTCCAGATGATGTC-ATAGTCTC-A
82206 GACTAGGTCTTACACTATATGGTCTTCA
64 GACTAGGTC-TACACTATATGGTCTTCA
82234 CTTGCCATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 3 0.04
106 23 0.29
107 52 0.67
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (107 bp):
ATAGTCCCAGACTAGGTCTTACACTATATAGTATTCATTTCTCCAGATGATGTCATAGTCTCAGA
CTAGGTCTACACTATATGGTCTTCATTTCCCTATATGATGTC
Found at i:86572 original size:22 final size:19
Alignment explanation
Indices: 86547--86589 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
86537 ATTCAAAATA
86547 ATTCATAAATCATAACAATATT
1 ATTCA-AAATCAT-AC-ATATT
*
86569 ATTCAAACTCATACATATT
1 ATTCAAAATCATACATATT
86588 AT
1 AT
86590 CCTTTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 6 0.30
22 5 0.25
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTCAAAATCATACATATT
Found at i:87475 original size:17 final size:17
Alignment explanation
Indices: 87453--87486 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87443 ACACGGCCAT
87453 GTAGTCAGGCCGTGTGA
1 GTAGTCAGGCCGTGTGA
*
87470 GTAGTCAGGTCGTGTGA
1 GTAGTCAGGCCGTGTGA
87487 CTCACATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.41, T:0.26
Consensus pattern (17 bp):
GTAGTCAGGCCGTGTGA
Found at i:89259 original size:44 final size:42
Alignment explanation
Indices: 89185--89344 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
89175 CGATATGTGT
* *
89185 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGA
* *
89228 TTTACGTGTAAGACCATGTCTAGGACATTGGCATTGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
* * *
89271 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTGA
* * * * *
89314 TTACATGTAAGACTACGTCTGGGACGTTGGC
1 TTTCGTGTAAGACCATGTCTGGGACATTGGC
89345 CTTGTACGAG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
Found at i:89315 original size:86 final size:85
Alignment explanation
Indices: 89185--89350 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
89175 CGATATGTGT
* * *
89185 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTGTAAGACCATGTCTA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGA-TTACATGTAAGACCACGTCTA
89250 GGACATTGGCATTGTATTTGA
65 GGACATTGGCATTGTATTTGA
* *
89271 TTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC-AATATTTGATTACATGTAAGACTACGTC
1 TTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAT-TATGATTACATGTAAGACCACGTC
* * *
89333 TGGGACGTTGGCCTTGTA
63 TAGGACATTGGCATTGTA
89351 CGAGCTTTCC
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 34 0.49
86 34 0.49
87 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (85 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGATTACATGTAAGACCACGTCTAG
GACATTGGCATTGTATTTGA
Found at i:96854 original size:27 final size:26
Alignment explanation
Indices: 96817--96900 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
96807 AGCATGGCTG
*
96817 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
96843 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
96870 CCAGAACAGATATTTGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
96897 CCAG
1 CCAG
96901 TATACTCCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:98567 original size:79 final size:81
Alignment explanation
Indices: 98443--98626 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
98433 GCTACTCGTT
* *
98443 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
98506 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
98522 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
98585 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
98602 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98627 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:98626 original size:40 final size:40
Alignment explanation
Indices: 98424--98626 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
98414 CGGAATTTAA
** *
98424 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
98464 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
98503 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
98542 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
98582 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
98622 CCGGA
1 CCGGA
98627 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.