Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015208.1 Kokia drynarioides strain JFW-HI SEQ_130252, whole genome shotgun sequence
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: 339328
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 467 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2486 original size:24 final size:24
Alignment explanation
Indices: 2441--2488 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2431 ATGGATGTTC
* **
2441 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTCCATCTCCCTCAACCTTT
2465 AACCTTCCATCTCCCTCAACCTTT
1 AACCTTCCATCTCCCTCAACCTTT
2489 CATATTCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.02, T:0.38
Consensus pattern (24 bp):
AACCTTCCATCTCCCTCAACCTTT
Found at i:31576 original size:21 final size:22
Alignment explanation
Indices: 31552--31593 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31542 CTTTTACATT
*
31552 AAAAGAGATGGAGAAG-AGAAA
1 AAAAGAGAGGGAGAAGTAGAAA
*
31573 AAAATAGAGGGAGAAGTAGAA
1 AAAAGAGAGGGAGAAGTAGAA
31594 GAGAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AAAAGAGAGGGAGAAGTAGAAA
Found at i:42213 original size:21 final size:21
Alignment explanation
Indices: 42188--42236 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
42178 ATGTTTATTA
*
42188 AATTTAATATAATAAATTAAAT
1 AATTTAATATAAT-AATGAAAT
*
42210 -ATTTAATTTAATAATGAAAT
1 AATTTAATATAATAATGAAAT
42230 AATTTAA
1 AATTTAA
42237 AATTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTAATATAATAATGAAAT
Found at i:42536 original size:3 final size:3
Alignment explanation
Indices: 42528--42582 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
42518 ATATTTTGCA
42528 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
42576 ATT ATT A
1 ATT ATT A
42583 GATTAAACCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:44455 original size:16 final size:16
Alignment explanation
Indices: 44434--44466 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44424 CGGAAGCTGT
*
44434 TTGTATGAAAGTTGAA
1 TTGTATGAAAATTGAA
44450 TTGTATGAAAATTGAA
1 TTGTATGAAAATTGAA
44466 T
1 T
44467 GTTTGACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (16 bp):
TTGTATGAAAATTGAA
Found at i:52339 original size:18 final size:19
Alignment explanation
Indices: 52316--52358 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
52306 TCCATATTTT
52316 TTAAATAAATATTT-AATA
1 TTAAATAAATATTTAAATA
*
52334 TTAAAT-AATTTTTAAATA
1 TTAAATAAATATTTAAATA
52352 TTAAATA
1 TTAAATA
52359 TTCATTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATAAATATTTAAATA
Found at i:55478 original size:18 final size:17
Alignment explanation
Indices: 55434--55479 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
55424 GAACAGGTTT
55434 TTTTTCTATT-TTTTTGA
1 TTTTT-TATTATTTTTGA
*
55451 TTATTT-TTATTTTATGA
1 TTTTTTATTATTTT-TGA
55468 TTTTTTATTATT
1 TTTTTTATTATT
55480 AATCAAACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 5 0.21
17 12 0.50
18 5 0.21
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTTTATTATTTTTGA
Found at i:64916 original size:17 final size:17
Alignment explanation
Indices: 64894--64930 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
64884 CAACTCCAAA
64894 TAAGATTGTTTATAAAC
1 TAAGATTGTTTATAAAC
64911 TAAGATTGTTTATAAAC
1 TAAGATTGTTTATAAAC
64928 TAA
1 TAA
64931 AATTAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (17 bp):
TAAGATTGTTTATAAAC
Found at i:65553 original size:26 final size:27
Alignment explanation
Indices: 65524--65580 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
65514 AGAAAACTAC
* * *
65524 AAGAATAAAATTTACACTAAAAA-AAA
1 AAGAAGAAAATCTAAACTAAAAATAAA
*
65550 AAG-AGAAAATCTAAACTAAAAATGAA
1 AAGAAGAAAATCTAAACTAAAAATAAA
65576 AAGAA
1 AAGAA
65581 AAATAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 16 0.64
26 8 0.32
27 1 0.04
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (27 bp):
AAGAAGAAAATCTAAACTAAAAATAAA
Found at i:65567 original size:25 final size:25
Alignment explanation
Indices: 65530--65584 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
65520 CTACAAGAAT
* *
65530 AAAATTTACACTAAAAA-AAAAAGA
1 AAAATCTAAACTAAAAATAAAAAGA
*
65554 GAAAATCTAAACTAAAAATGAAAAGA
1 -AAAATCTAAACTAAAAATAAAAAGA
65580 AAAAT
1 AAAAT
65585 AAAAGAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAATCTAAACTAAAAATAAAAAGA
Found at i:66565 original size:5 final size:5
Alignment explanation
Indices: 66550--66585 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
66540 CATCTTATGA
* *
66550 CATAT CGTAT CATAT CATAT CAAAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
66586 TTACCTCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:66814 original size:6 final size:6
Alignment explanation
Indices: 66805--66840 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
66795 AAAACATAGG
66805 CATAAT CATAAT CATAAT CATAAT CATAAT CATAAT
1 CATAAT CATAAT CATAAT CATAAT CATAAT CATAAT
66841 ATCATACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATAAT
Found at i:77322 original size:2 final size:2
Alignment explanation
Indices: 77315--77362 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
77305 TGATTCTGAA
77315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77357 AT AT AT
1 AT AT AT
77363 TGTGGACTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79123 original size:37 final size:37
Alignment explanation
Indices: 79061--79134 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
79051 TGCACATAAA
*
79061 TATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
1 TATTCAGGCTTTGTGCCTAGGAGGCTTCGTGCCGGTG
* ** *
79098 TATTTAGGCTTTGTGTTTAGGAGGCTTTGTGCCGGTG
1 TATTCAGGCTTTGTGCCTAGGAGGCTTCGTGCCGGTG
79135 ATCAAAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.34, T:0.39
Consensus pattern (37 bp):
TATTCAGGCTTTGTGCCTAGGAGGCTTCGTGCCGGTG
Found at i:81590 original size:137 final size:137
Alignment explanation
Indices: 81337--81612 Score: 462
Period size: 137 Copynumber: 2.0 Consensus size: 137
81327 TTTTTTGGTT
*
81337 AAATTGAACATTTTTTAACAGTCCTGCTAACACGGCCGTTAGTTGACTACTGGTGTTGACGTGAC
1 AAATTGAACATTTTTTAACAGTCCTGCTAACACGGCCGTTAGTTGACTACTGGTGCTGACGTGAC
* * *
81402 AATTTTTTTCACGTGAACACTGTCATGCATGCAATTGCTGATATGATACTATTTTATCTTATATG
66 AATTTTTTTCACGTGAACACTGTCACGCATGCAATTGCTGACATGACACTATTTTATCTTATATG
81467 CCACGTC
131 CCACGTC
* * *
81474 AAATTGAACATTTTTTAACAGTCTTGCTAACACGGCCGTTAGTTGATTACTGGTGCTGACGTGAT
1 AAATTGAACATTTTTTAACAGTCCTGCTAACACGGCCGTTAGTTGACTACTGGTGCTGACGTGAC
* *
81539 AATTTTTTTCACGTGAATACTGTCACGCATGCAATTGCTTACATGACACTATTTTATCTTATATG
66 AATTTTTTTCACGTGAACACTGTCACGCATGCAATTGCTGACATGACACTATTTTATCTTATATG
*
81604 TCACGTC
131 CCACGTC
81611 AA
1 AA
81613 CAAATGATTT
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 129 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (137 bp):
AAATTGAACATTTTTTAACAGTCCTGCTAACACGGCCGTTAGTTGACTACTGGTGCTGACGTGAC
AATTTTTTTCACGTGAACACTGTCACGCATGCAATTGCTGACATGACACTATTTTATCTTATATG
CCACGTC
Found at i:81636 original size:9 final size:9
Alignment explanation
Indices: 81622--81669 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
81612 ACAAATGATT
81622 TTAAAATTA
1 TTAAAATTA
81631 TTAAAATTA
1 TTAAAATTA
* *
81640 TT--ATTTT
1 TTAAAATTA
81647 TTAAAA-TA
1 TTAAAATTA
81655 -TAAAATTA
1 TTAAAATTA
81663 TTAAAAT
1 TTAAAAT
81670 CATCATCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
7 10 0.32
8 3 0.10
9 18 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAAATTA
Found at i:81666 original size:16 final size:15
Alignment explanation
Indices: 81622--81669 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
81612 ACAAATGATT
81622 TTAAAATTATTAAAA
1 TTAAAATTATTAAAA
* * *
81637 TTATTATTTTTTAAAA
1 TTA-AAATTATTAAAA
81653 TATAAAATTATTAAAA
1 T-TAAAATTATTAAAA
81669 T
1 T
81670 CATCATCCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 3 0.12
16 20 0.80
17 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTATTAAAA
Found at i:82332 original size:21 final size:23
Alignment explanation
Indices: 82306--82348 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
82296 TGATGATTTT
82306 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
82327 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
82349 TCATTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:83094 original size:18 final size:18
Alignment explanation
Indices: 83071--83133 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
83061 ATTAGATATA
83071 CTTTAATTTATCACTTAT
1 CTTTAATTTATCACTTAT
83089 CTTTAATTTAT-A-TT-T
1 CTTTAATTTATCACTTAT
* *
83104 -TTTAAAAATCATCACTTAT
1 CTTT--AATTTATCACTTAT
83123 CTTTAATTTAT
1 CTTTAATTTAT
83134 ATTTTAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 7 0.20
17 2 0.06
18 18 0.51
19 1 0.03
20 3 0.09
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.56
Consensus pattern (18 bp):
CTTTAATTTATCACTTAT
Found at i:93151 original size:2 final size:2
Alignment explanation
Indices: 93114--93200 Score: 89
Period size: 2 Copynumber: 45.5 Consensus size: 2
93104 GCCCTCCTAC
93114 TA TA T- TA TA TA -A TA T- TA TA TCA TA TA -A TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
*
93152 -A TA TA CTA -A TA GTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93194 TA TA TA T
1 TA TA TA T
93201 GCATAAATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
1 7 0.10
2 61 0.84
3 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:93536 original size:20 final size:20
Alignment explanation
Indices: 93511--93554 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
93501 ATAATAATAA
* *
93511 TTATATATTATTTTATTATT
1 TTATATATTAGTATATTATT
93531 TTATATATTAGTATATTATT
1 TTATATATTAGTATATTATT
93551 TTAT
1 TTAT
93555 TACCAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATATTAGTATATTATT
Found at i:95085 original size:27 final size:26
Alignment explanation
Indices: 95034--95088 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
95024 GCCATGTTAG
95034 AAATCAATTAATTTTTTAAAAATTAA
1 AAATCAATTAATTTTTTAAAAATTAA
* *
95060 AAAT-AATTATTTATTTTGAAATATTAA
1 AAATCAATTAATT-TTTT-AAAAATTAA
95087 AA
1 AA
95089 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
27 10 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATCAATTAATTTTTTAAAAATTAA
Found at i:97727 original size:24 final size:26
Alignment explanation
Indices: 97690--97737 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
97680 TGATAAATGA
97690 ATTTGAATCTTTTTCTT-AATTTGAT
1 ATTTGAATCTTTTTCTTCAATTTGAT
* *
97715 ATTT-AATTTTTTTGTTCAATTTG
1 ATTTGAATCTTTTTCTTCAATTTG
97738 GTACTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (26 bp):
ATTTGAATCTTTTTCTTCAATTTGAT
Found at i:97783 original size:17 final size:19
Alignment explanation
Indices: 97749--97784 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
97739 TACTTTTTCC
97749 TAACAATATTTTTATAACA
1 TAACAATATTTTTATAACA
97768 TAACAA-ATTTTT-TAACA
1 TAACAATATTTTTATAACA
97785 CAGTTAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TAACAATATTTTTATAACA
Found at i:105827 original size:27 final size:26
Alignment explanation
Indices: 105763--105845 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
105753 CCTTATCATG
*
105763 GTACACCACAAAGGTAGTCCATTTAGA
1 GTACACCACAAAGGTATTCC-TTTAGA
**
105790 GTATGCCACAAAGGTTATTCCTTTAGA
1 GTACACCACAAAGG-TATTCCTTTAGA
* *
105817 GTACACTACAAAGGCTATTCCTTCAGA
1 GTACACCACAAAGG-TATTCCTTTAGA
105844 GT
1 GT
105846 TTGTCGCAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 42 0.89
28 5 0.11
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (26 bp):
GTACACCACAAAGGTATTCCTTTAGA
Found at i:105885 original size:27 final size:27
Alignment explanation
Indices: 105824--105890 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
105814 AGAGTACACT
* *
105824 ACAAAGGCTATTCCTTCAGAGTTTGTC
1 ACAAAGGCTATTCCTTCAGACTTTGCC
* * *
105851 GCAGAGGCTATTCTTTCAGACTTTGCC
1 ACAAAGGCTATTCCTTCAGACTTTGCC
*
105878 ACAAAGGCAATTC
1 ACAAAGGCTATTC
105891 ATAGCTGCCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (27 bp):
ACAAAGGCTATTCCTTCAGACTTTGCC
Found at i:109789 original size:28 final size:28
Alignment explanation
Indices: 109745--109804 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
109735 ATATTTATAT
*
109745 TATATTATTTTAATATTTAATAA-ATTTA
1 TATATTATTTTAATATTGAA-AATATTTA
*
109773 TATATT-TTTTATTTATTGAAAATATTTA
1 TATATTATTTTA-ATATTGAAAATATTTA
109801 TATA
1 TATA
109805 ATCATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TATATTATTTTAATATTGAAAATATTTA
Found at i:117305 original size:24 final size:24
Alignment explanation
Indices: 117244--117306 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
117234 TAGACTAATA
* *
117244 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
117268 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTGAAACAAATAAAC
117292 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
117307 GATTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:117651 original size:21 final size:21
Alignment explanation
Indices: 117615--117691 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
117605 CCTATGACCA
*
117615 AGTTGCCTTC-ACTCCAAACG
1 AGTTGACTTCAACTCCAAACG
117635 AGTTGACTTCAACTCCAAACG
1 AGTTGACTTCAACTCCAAACG
117656 AGTTGACTTCAACTCCAAACG
1 AGTTGACTTCAACTCCAAACG
117677 AGTTGACTTCAACTC
1 AGTTGACTTCAACTC
117692 TGTAACGAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 9 0.16
21 46 0.84
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (21 bp):
AGTTGACTTCAACTCCAAACG
Found at i:119281 original size:24 final size:24
Alignment explanation
Indices: 119268--119332 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
119258 TGACTTAAAT
119268 AAATAAACAAAGTTTAATTGAAAC
1 AAATAAACAAAGTTTAATTGAAAC
*
119292 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACAAAGTTTAATTGAAAC
* *
119316 AATTAAACAGAGTTTAA
1 AAATAAACAAAGTTTAA
119333 CTAAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (24 bp):
AAATAAACAAAGTTTAATTGAAAC
Found at i:120303 original size:16 final size:17
Alignment explanation
Indices: 120269--120302 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
120259 TAATGCAAGT
120269 ATGGATTGGAAATTAAA
1 ATGGATTGGAAATTAAA
120286 ATGGATT-GAAATCTAAA
1 ATGGATTGGAAAT-TAAA
120303 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.21, T:0.29
Consensus pattern (17 bp):
ATGGATTGGAAATTAAA
Found at i:122413 original size:22 final size:23
Alignment explanation
Indices: 122375--122419 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
122365 AATACTCATA
*
122375 TTTATATTATTAAAATAATTATT
1 TTTATATTACTAAAATAATTATT
*
122398 TTTATATT-CTAAAATATTTATT
1 TTTATATTACTAAAATAATTATT
122420 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATATTACTAAAATAATTATT
Found at i:122486 original size:25 final size:25
Alignment explanation
Indices: 122434--122490 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
122424 AAATTTTGCA
* * *
122434 AAAAGATTAATATATATTTATTATT
1 AAAATATTAATATAAATTTATTAAT
122459 AAAATATTAATATAAATATT-TTAAT
1 AAAATATTAATATAAAT-TTATTAAT
122484 AAAATAT
1 AAAATAT
122491 GAAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAATATTAATATAAATTTATTAAT
Found at i:124832 original size:9 final size:9
Alignment explanation
Indices: 124818--124852 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
124808 ATTATTCGGA
124818 TCGAGTTAT
1 TCGAGTTAT
124827 TCGAGTTAT
1 TCGAGTTAT
124836 TCGAGTTAT
1 TCGAGTTAT
124845 TCGAGTTA
1 TCGAGTTA
124853 AACGAATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:125189 original size:57 final size:58
Alignment explanation
Indices: 125080--125194 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 58
125070 ATCAACAAAT
** *
125080 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTTTTCAAAAATACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACTCATAAAC
* *
125138 TAAATCCAAATATTTTT-AACCCAAATATAATTTTATTCCT-AAATAACACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAA-AACACTCATAAAC
125195 AATTCCTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
56 3 0.06
57 32 0.63
58 16 0.31
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACTCATAAAC
Found at i:125758 original size:5 final size:5
Alignment explanation
Indices: 125748--125778 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
125738 GAATAAATAT
125748 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
125779 ATTCTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:126435 original size:98 final size:97
Alignment explanation
Indices: 126259--126450 Score: 244
Period size: 98 Copynumber: 2.0 Consensus size: 97
126249 AACTTTGGAA
* * * *
126259 AAGGATGTTAGATTATCTCGTTTTGGAAAAAAGTCGCACCTAGTAAGTTTAGATACAAATTTTCA
1 AAGGATATTAGATTATCTCGATTTGGAAAAAAATCGCACCTAGTAAGTTAAGATACAAATTTTCA
*
126324 GAATCAAAGATAAAAAAAACATTACCTCGAATT
66 AAATCAAAGAT-AAAAAAACATTACCTCGAATT
* ** *
126357 AAGGATATTCGATTATCTCGATTT-GAAGAAAAATCGTGCCTAGTAAGTTAAGGTACAAATTTTC
1 AAGGATATTAGATTATCTCGATTTGGAA-AAAAATCGCACCTAGTAAGTTAAGATACAAATTTTC
* *
126421 AAAATTCAAA-ATAAAAGAATATTACCTCGA
65 AAAA-TCAAAGATAAAAAAACATTACCTCGA
126451 TTTTAAAGTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
97 19 0.23
98 57 0.70
99 5 0.06
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (97 bp):
AAGGATATTAGATTATCTCGATTTGGAAAAAAATCGCACCTAGTAAGTTAAGATACAAATTTTCA
AAATCAAAGATAAAAAAACATTACCTCGAATT
Found at i:126864 original size:30 final size:28
Alignment explanation
Indices: 126828--127074 Score: 291
Period size: 30 Copynumber: 8.4 Consensus size: 28
126818 TGGACATTCG
*
126828 GGGTAAAAATGGTAATTTTTGAAAGCTTTA
1 GGGTAAAAATGG-AATTTTGGAAAG-TTTA
*
126858 GGGTAAAAAATAGAATTTTTGG-AAGTTTA
1 GGGT-AAAAATGGAA-TTTTGGAAAGTTTA
*
126887 GGGTGAAAAATGGAATTTTGGAAAGTTTTT
1 GGGT-AAAAATGGAATTTTGGAAAG-TTTA
126917 GGGTTAAAAATGGAATTTTTGGAAA-TTTA
1 GGG-TAAAAATGGAA-TTTTGGAAAGTTTA
*
126946 GGGGTAAAAATGGAATTTTGGAAAGTTTT
1 -GGGTAAAAATGGAATTTTGGAAAGTTTA
126975 GAGGTCAAAAATGGAATTTTGGAAAGTTTGA
1 G-GGT-AAAAATGGAATTTTGGAAAGTTT-A
*
127006 GGGTAAAAATGGAATTTTGGAAAGTTTC
1 GGGTAAAAATGGAATTTTGGAAAGTTTA
*
127034 GAGGTCAAAAATGGAATTTTGGAAAGTTTC
1 G-GGT-AAAAATGGAATTTTGGAAAGTTTA
*
127064 GGGGAAAAATG
1 GGGTAAAAATG
127075 ATAAATTTGT
Statistics
Matches: 194, Mismatches: 10, Indels: 28
0.84 0.04 0.12
Matches are distributed among these distances:
28 24 0.12
29 68 0.35
30 79 0.41
31 23 0.12
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGTAAAAATGGAATTTTGGAAAGTTTA
Found at i:127113 original size:59 final size:58
Alignment explanation
Indices: 126804--127124 Score: 325
Period size: 59 Copynumber: 5.5 Consensus size: 58
126794 AATCGAGATA
* * * * *
126804 AAAAATTGAAATTTTGGACA-TTCGGGGTAAAAATGGTAATTTTTGAAAGCTTTAG-GGTA
1 AAAAA-TGGAATTTTGGAAATTTCGGGGTAAAAATGG-AATTTTGGAAAG-TTTCGAGGTC
* * * * *
126863 AAAAATAGAATTTTTGGAAGTTT-AGGGTGAAAAATGGAATTTTGGAAAGTTTTTG-GGTT
1 AAAAATGGAA-TTTTGGAAATTTCGGGGT-AAAAATGGAATTTTGGAAAG-TTTCGAGGTC
* *
126922 AAAAATGGAATTTTTGGAAATTTAGGGGTAAAAATGGAATTTTGGAAAGTTTTGAGGTC
1 AAAAATGGAA-TTTTGGAAATTTCGGGGTAAAAATGGAATTTTGGAAAGTTTCGAGGTC
126981 AAAAATGGAATTTTGGAAAGTTT-GAGGGTAAAAATGGAATTTTGGAAAGTTTCGAGGTC
1 AAAAATGGAATTTTGGAAA-TTTCG-GGGTAAAAATGGAATTTTGGAAAGTTTCGAGGTC
* * * * *
127040 AAAAATGGAATTTTGGAAAGTTTCGGGG-AAAAATGATAAATTT-GTATGTTTCAAGGTC
1 AAAAATGGAATTTTGGAAA-TTTCGGGGTAAAAATG-GAATTTTGGAAAGTTTCGAGGTC
127098 AAAAATGGAATTTTTGGAAA-TTCGGGG
1 AAAAATGGAA-TTTTGGAAATTTCGGGG
127125 ATTAAAACAT
Statistics
Matches: 233, Mismatches: 19, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
57 7 0.03
58 47 0.20
59 164 0.70
60 15 0.06
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (58 bp):
AAAAATGGAATTTTGGAAATTTCGGGGTAAAAATGGAATTTTGGAAAGTTTCGAGGTC
Found at i:129085 original size:6 final size:6
Alignment explanation
Indices: 129074--129139 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
129064 TCAAATTTGA
** * *
129074 TTAAAT TTAAAT TTAAA- GCAAAT TTAAAT TTAAAAAG ATAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT--AAAT TTAAAT TTAAAT
* *
129123 TTAAAA ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
129140 CCAATTTAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
5 3 0.07
6 38 0.84
8 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:129597 original size:37 final size:37
Alignment explanation
Indices: 129547--129617 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
129537 CATATCACTT
* * *
129547 GTTTTGATCCACTTCTCTGTGTTTCATCAGGAAGATG
1 GTTTTGATCCACTTCCCCGTATTTCATCAGGAAGATG
* *
129584 GTTTTGGTTCACTTCCCCGTATTTCATCAGGAAG
1 GTTTTGATCCACTTCCCCGTATTTCATCAGGAAG
129618 CTAACCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (37 bp):
GTTTTGATCCACTTCCCCGTATTTCATCAGGAAGATG
Found at i:130453 original size:411 final size:412
Alignment explanation
Indices: 129496--130462 Score: 1271
Period size: 411 Copynumber: 2.4 Consensus size: 412
129486 TCTGGTTTCA
* * * ** ** * * ** * *
129496 TTGACTTGGCCTTCTTCTCAGTATCTCATCAGGAAGACGACCATATCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATAACCACGTCATTTATTTCAATTCGCTT
* ** * ** * * * *
129561 CTCTGTGTTTCATCAGGAAGATGGTTTTGGTTCACTTCCCCGTATTTCATCAGGAAGCTAACCAT
66 CTCTGTATCACATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
129626 TTTGTTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAACTGGGGTTCGAAGATTTGCACACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAACTGAGGTTCGAAGATTTGCACACAT
* * * * *
129691 CGAGCGTGGGTTTGATTTGGTCTTCTCTTCTGTGTCTCATCAGGAAGATGATCGCGTCGTTTGTT
196 CGAGCGTGAGTTTGATTTGGTCTTCTCTTCTGTATCTCATCAGGAAGATAACCGCGTCGTTTATT
* *
129756 TCAATCCGCTTCTCTGTATCTCAACAGAAAGACGAATTTGGTTCACTTCTTAGTATCTCATCAGG
261 TCAATCCGCTTCTCTGTATCACAACAGAAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGG
* * *
129821 AAGCTAACCATTTTATTACTTCAACCTGTTTCTCAATATATCATCAGGAAGTTGGGGTTCGAGGA
326 AAGCTAACCATTTTATTACTTCAACCCGCTTCTCAATATATCATCAGGAAGTTGGGGTTCGAAGA
* *
129886 TTTGCTCACATCGGGCGTGGGT
391 TTTGCTCACATCGAGCGTGAGT
* * * * *
129908 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAATATGACCGCGTCATTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATAACCACGTCATTTATTTCAATTCGCTT
** *
129973 CTCTGTATCTTATTAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-T
66 CTCTGTATCACATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * * *
130037 TTTATTGCTTCGACCTGCTTCTTAGTGTCTCATCAGGAAGCTGAGGTTTGAAGATTTGCTCACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAACTGAGGTTCGAAGATTTGCACACAT
*
130102 CGAGCGTGAGTTTGATTTGGTCTT-T-TTCTTAGTATCTCATCAGGAAGATAACCGCGTTGTTTA
196 CGAGCGTGAGTTTGATTTGGTCTTCTCTTC-T-GTATCTCATCAGGAAGATAACCGCGTCGTTTA
*
130165 TTTCAATTCGCTTCTCTGTATCACATTA-AG-AAGACGAATTTGGTCCACTTCTTAGTATCTCAT
259 TTTCAATCCGCTTCTCTGTATCACA--ACAGAAAGACGAATTTGGTCCACTTCTTAGTATCTCAT
** * * * *
130228 TTGGAAGCTAACCATTTTATTGCTTCGACCCGCTTCTCAGTAT-TTATCAGGAAGTTGGGGTTCG
322 CAGGAAGCTAACCATTTTATTACTTCAACCCGCTTCTCAATATATCATCAGGAAGTTGGGGTTCG
*
130292 AAGATTTGCTCACATTGAGCGTGAGT
387 AAGATTTGCTCACATCGAGCGTGAGT
* *
130318 TTGATTTGGTCTTTTTCTCAGTATCTCATAAGGAAGATAACCACGTCGTTTATTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATAACCACGTCATTTATTTCAATTCGCTT
** *
130383 CTCTGTATCACATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAACAAACTAACCAT
66 CTCTGTATCACATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
130448 TTTATTGCTTCGACC
131 TTTATTGCTTCGACC
130463 CTTTGAGTTG
Statistics
Matches: 485, Mismatches: 65, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
409 3 0.01
410 159 0.33
411 215 0.44
412 107 0.22
413 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (412 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATAACCACGTCATTTATTTCAATTCGCTT
CTCTGTATCACATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAACTGAGGTTCGAAGATTTGCACACAT
CGAGCGTGAGTTTGATTTGGTCTTCTCTTCTGTATCTCATCAGGAAGATAACCGCGTCGTTTATT
TCAATCCGCTTCTCTGTATCACAACAGAAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGG
AAGCTAACCATTTTATTACTTCAACCCGCTTCTCAATATATCATCAGGAAGTTGGGGTTCGAAGA
TTTGCTCACATCGAGCGTGAGT
Found at i:130463 original size:205 final size:206
Alignment explanation
Indices: 129571--130462 Score: 1207
Period size: 205 Copynumber: 4.3 Consensus size: 206
129561 CTCTGTGTTT
* ** * * * * * *
129571 CATCAGGAAGATGGTTTTGGTTCACTTCCCCGTATTTCATCAGGAAGCTAACCATTTTGTTACTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * *
129636 CGACCTGCTTCTCAGTATCTCATCAGGAAACTGGGGTTCGAAGATTTGCACACATCGAGCGTGGG
66 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG
* * * * *
129701 TTTGATTTGGTCTTCTCTTCT--GTGTCTCATCAGGAAGATGATCGCGTCGTTTGTTTCAATCCG
131 TTTGATTTGGTCTT-T-TTCTCAGTATCTCATCAGGAAGATAACCGCGTCGTTTATTTCAATTCG
*
129764 CTTCTCTGTATCT
194 CTTCTCTGTATCA
* * * * *
129777 CAACAGAAAGACGAATTTGGTTCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTACTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * * * * * * *
129842 CAACCTGTTTCTCAATATATCATCAGGAAGTTGGGGTTCGAGGATTTGCTCACATCGGGCGTGGG
66 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG
* * * * *
129907 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAATATGACCGCGTCATTTGTTTCAATTCGCT
131 TTTGATTTGGTCTTTTTCTCAGTATCTCATCAGGAAGATAACCGCGTCGTTTATTTCAATTCGCT
*
129972 TCTCTGTATCT
196 TCTCTGTATCA
* *
129983 TATTAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-TTTTATTGCTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * * *
130047 CGACCTGCTTCTTAGTGTCTCATCAGGAAGCTGAGGTTTGAAGATTTGCTCACATCGAGCGTGAG
66 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG
* *
130112 TTTGATTTGGTCTTTTTCTTAGTATCTCATCAGGAAGATAACCGCGTTGTTTATTTCAATTCGCT
131 TTTGATTTGGTCTTTTTCTCAGTATCTCATCAGGAAGATAACCGCGTCGTTTATTTCAATTCGCT
130177 TCTCTGTATCA
196 TCTCTGTATCA
* * * **
130188 CATTAAGAAGACGAATTTGGTCCACTTCTTAGTATCTCATTTGGAAGCTAACCATTTTATTGCTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * * *
130253 CGACCCGCTTCTCAGTAT-TTATCAGGAAGTTGGGGTTCGAAGATTTGCTCACATTGAGCGTGAG
66 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG
* *
130317 TTTGATTTGGTCTTTTTCTCAGTATCTCATAAGGAAGATAACCACGTCGTTTATTTCAATTCGCT
131 TTTGATTTGGTCTTTTTCTCAGTATCTCATCAGGAAGATAACCGCGTCGTTTATTTCAATTCGCT
130382 TCTCTGTATCA
196 TCTCTGTATCA
** *
130393 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAACAAACTAACCATTTTATTGCTT
1 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
130458 CGACC
66 CGACC
130463 CTTTGAGTTG
Statistics
Matches: 606, Mismatches: 77, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
204 4 0.01
205 354 0.58
206 248 0.41
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (206 bp):
CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG
TTTGATTTGGTCTTTTTCTCAGTATCTCATCAGGAAGATAACCGCGTCGTTTATTTCAATTCGCT
TCTCTGTATCA
Found at i:130665 original size:78 final size:78
Alignment explanation
Indices: 130547--130791 Score: 305
Period size: 78 Copynumber: 3.1 Consensus size: 78
130537 CCCGTGATCG
* * * * * *
130547 GGGTAGGAGTTTGGTTGACGATGATTTGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGT-AAT
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGACT-TCAAT
* **
130611 CTGCCTTTA-GCTCA
65 ATGCC-CCAGGCTCA
* * * *
130625 GGGTAAGAGATTGGTTAATGATGATCTGCCCTAAGATCGGGGTAAAAGATCAAATGGCTTCAATA
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGACTTCAATA
*
130690 TGCCCCAGGCTCG
66 TGCCCCAGGCTCA
*
130703 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATA
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGACTTCAATA
*
130768 TGCCCCAGGCTCG
66 TGCCCCAGGCTCA
*
130781 GGGTAAAAGAT
1 GGGTAAGAGAT
130792 CAAATGGCTT
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 145 0.99
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (78 bp):
GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGACTTCAATA
TGCCCCAGGCTCA
Found at i:130668 original size:39 final size:39
Alignment explanation
Indices: 130544--130959 Score: 179
Period size: 39 Copynumber: 10.7 Consensus size: 39
130534 TGCCCCGTGA
* * * * *
130544 TCGGGGTAGGAGTTTGGTTGACGATGATTTGCCCCAAGC
1 TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
* ***
130583 TCGGGGTAAGAGA-TCG--AATGACTGTAATCTGCCTTTAGC
1 TCGGGGTAAGAGATTGGTTAATGA-TG--ATCTGCCCCAAGC
* * *
130622 TCAGGGTAAGAGATTGGTTAATGATGATCTGCCCTAAGA
1 TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
* * *
130661 TCGGGGTAAAAGATCAAATGGCTTCA--AT-A--TGCCCCAGGC
1 TCGGGGTAAGAGAT----TGG-TTAATGATGATCTGCCCCAAGC
*
130700 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGC
1 TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
* * *
130739 TCGGGGTAAAAGATCAAATGGCTTCA--AT-A--TGCCCCAGGC
1 TCGGGGTAAGAGAT----TGG-TTAATGATGATCTGCCCCAAGC
* * *
130778 TCGGGGTAAAAGATCAAATGGCT--TCA--ATCTGCCCCAAGC
1 TCGGGGTAAGAGAT----TGGTTAATGATGATCTGCCCCAAGC
* *
130817 TCGGGGTAAGAGATTGGTTGATGATGATCTGCTCCAAGC
1 TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
** * ** * * * *
130856 TCAAGGTAAAAGA-T--CAAATGACTTCAATCTACCCTAGGC
1 TCGGGGTAAGAGATTGGTTAATGA--T-GATCTGCCCCAAGC
* * *
130895 TCGGGGTAAGAGATTAGTTGATGATGATCTGCCCCAGGC
1 TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
*
130934 TCGGGGTAAGAGATTGGTTAACGATG
1 TCGGGGTAAGAGATTGGTTAATGATG
130960 TAGCTTCACT
Statistics
Matches: 287, Mismatches: 55, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
34 3 0.01
35 7 0.02
36 9 0.03
37 6 0.02
38 6 0.02
39 223 0.78
40 4 0.01
41 4 0.01
42 13 0.05
43 6 0.02
44 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (39 bp):
TCGGGGTAAGAGATTGGTTAATGATGATCTGCCCCAAGC
Found at i:130740 original size:117 final size:114
Alignment explanation
Indices: 130573--130869 Score: 341
Period size: 117 Copynumber: 2.6 Consensus size: 114
130563 GACGATGATT
* ** * *** *
130573 TGCCCCAAGCTCGGGGTAAGAGATCGAATGACTG-TAATCTGCCTTTAGCTCAGGGTAAGAGAT-
1 TGCCCCAAGCTCGGGGTAAGAGATTGGTTGA-TGATGATCTGCCCCAAGCTCAGGGTAAAAGATA
130636 TGG-TT-AATGATGATCTGCCCTAAGATCGGGGTAAAAGATCAAATGGCTTCAATA
65 TGGCTTCAAT-ATG--C--CCC-AAGATCGGGGTAAAAGATCAAATGGCTTCAATA
* *
130690 TGCCCCAGGCTCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCA
1 TGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAGGGTAAAAGAT--
* * *
130755 AATGGCTTCAATATGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTTCAATC
64 -ATGGCTTCAATATGCCCCAAGATCGGGGTAAAAGATCAAATGGCTTCAATA
* *
130807 TGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGATGATCTGCTCCAAGCTCAAGGTAAAAGAT
1 TGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAGGGTAAAAGAT
130870 CAAATGACTT
Statistics
Matches: 156, Mismatches: 17, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
116 2 0.01
117 139 0.89
118 3 0.02
120 1 0.01
121 3 0.02
122 5 0.03
123 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (114 bp):
TGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAGGGTAAAAGATAT
GGCTTCAATATGCCCCAAGATCGGGGTAAAAGATCAAATGGCTTCAATA
Found at i:130808 original size:78 final size:76
Alignment explanation
Indices: 130573--130830 Score: 254
Period size: 78 Copynumber: 3.3 Consensus size: 76
130563 GACGATGATT
* * * * ** * *
130573 TGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGT-AATCTGCCTTTA-GCTCAGGGTAAGAGAT
1 TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCT-TCAATATGCC-CCAGGCTCGGGGTAAAAGAT
* *
130636 TGGTTAATGATGATC
64 TGGCT-ATCA-GATC
* * *
130651 TGCCCTAAGATCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAGAGATTG
1 TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAAAGATTG
* *
130716 GTTGATGATGATC
66 GCT-ATCA-GATC
130729 TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAAAGATCA
1 TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAAAGAT--
130794 AATGGCT-TCA-ATC
64 --TGGCTATCAGATC
*
130807 TGCCCCAAGCTCGGGGTAAGAGAT
1 TGCCCCAAGCTCGGGGTAAAAGAT
130831 TGGTTGATGA
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
77 2 0.01
78 150 0.95
80 2 0.01
82 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (76 bp):
TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAAAGATTG
GCTATCAGATC
Found at i:130870 original size:117 final size:117
Alignment explanation
Indices: 130661--130952 Score: 417
Period size: 117 Copynumber: 2.5 Consensus size: 117
130651 TGCCCTAAGA
*
130661 TCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGCTCGGGGTAAGAGATTGGTTGATGATG
1 TCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGATGATG
** * *
130726 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATATGCCCCAGGC
66 ATCTGCCCCAAGCTCAAGGTAAAAGATCAAATGACTTCAATATACCCCAGGC
*
130778 TCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGATG
1 TCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGATGATG
* * *
130843 ATCTGCTCCAAGCTCAAGGTAAAAGATCAAATGACTTCAATCTACCCTAGGC
66 ATCTGCCCCAAGCTCAAGGTAAAAGATCAAATGACTTCAATATACCCCAGGC
* * ** * *
130895 TCGGGGTAAGAGATTAGTTGATG-AT-GATCTGCCCCAGGCTCGGGGTAAGAGATTGGTT
1 TCGGGGTAAAAGATCAAATG--GCTTCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTT
130953 AACGATGTAG
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
117 155 0.99
118 1 0.01
119 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (117 bp):
TCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGATGATG
ATCTGCCCCAAGCTCAAGGTAAAAGATCAAATGACTTCAATATACCCCAGGC
Found at i:130942 original size:78 final size:78
Alignment explanation
Indices: 130768--130947 Score: 270
Period size: 78 Copynumber: 2.3 Consensus size: 78
130758 GGCTTCAATA
* * *
130768 TGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCAAGCTCGGGGTAAGAGATTG
1 TGCCCCAGGCTCGGGGTAAAAGATCAAATGACTTCAATCTACCCCAAGCTCGGGGTAAGAGATTA
130833 GTTGATGATGATC
66 GTTGATGATGATC
* * ** * *
130846 TGCTCCAAGCTCAAGGTAAAAGATCAAATGACTTCAATCTACCCTAGGCTCGGGGTAAGAGATTA
1 TGCCCCAGGCTCGGGGTAAAAGATCAAATGACTTCAATCTACCCCAAGCTCGGGGTAAGAGATTA
130911 GTTGATGATGATC
66 GTTGATGATGATC
*
130924 TGCCCCAGGCTCGGGGTAAGAGAT
1 TGCCCCAGGCTCGGGGTAAAAGAT
130948 TGGTTAACGA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 88 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (78 bp):
TGCCCCAGGCTCGGGGTAAAAGATCAAATGACTTCAATCTACCCCAAGCTCGGGGTAAGAGATTA
GTTGATGATGATC
Found at i:131141 original size:101 final size:101
Alignment explanation
Indices: 131034--131215 Score: 229
Period size: 101 Copynumber: 1.8 Consensus size: 101
131024 ACTTCGCTGT
* * * * * * *
131034 AACTTCAAGAAGTTAGGATTTGATGTTGAAGTTTCATCTTACTCTTACTACAACTTCAAAGAGAT
1 AACTTCAAGAAGATAAGAATTAATGTTAAAGCTTCATCTCACTCTTACTACAACTTCAAAGAGAT
*
131099 AAAGACGTGCTATTGTTTTTAATTCGACTTTACTAC
66 AAAGACGTGCCATTGTTTTTAATTCGACTTTACTAC
* * * * * *
131135 AACTTCAAGAGGATAAGAATTAATGTTAAAGCTTCATCTCGCTTTTGCTGCAACTTCAGAGAGAT
1 AACTTCAAGAAGATAAGAATTAATGTTAAAGCTTCATCTCACTCTTACTACAACTTCAAAGAGAT
*
131200 AAAGACTTGCCATTGT
66 AAAGACGTGCCATTGT
131216 AGTTTTGATT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
101 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (101 bp):
AACTTCAAGAAGATAAGAATTAATGTTAAAGCTTCATCTCACTCTTACTACAACTTCAAAGAGAT
AAAGACGTGCCATTGTTTTTAATTCGACTTTACTAC
Found at i:131461 original size:100 final size:100
Alignment explanation
Indices: 131283--131463 Score: 220
Period size: 100 Copynumber: 1.8 Consensus size: 100
131273 CCTTTCTCCA
* * * * * *
131283 TTGCGACTTAAACCTTTCCCCTTCAAATCTTCATGGTGCTGGATTCGCCGTTGCGGCTTAAATCT
1 TTGCGACTTAAACCTTTCCCCTTCAAATCTTCATAGTACTGGATCCGCCATTACGACTTAAATCT
* *
131348 TTCTCTTCTTGTCTTCTGAGGTTCACGGTCCGTCG
66 TTCCCTTCATGTCTTCTGAGGTTCACGGTCCGTCG
* * * ** *
131383 TTGCGACTTAAACCTTTCCCTTTTATATCTTTGTAGTACTGGATCCGCCATTATGACTTAGAA-C
1 TTGCGACTTAAACCTTTCCCCTTCAAATCTTCATAGTACTGGATCCGCCATTACGACTTA-AATC
131447 TTTCCCTTCATGTCTTC
65 TTTCCCTTCATGTCTTC
131464 GCGGTACTGG
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
100 64 0.97
101 2 0.03
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (100 bp):
TTGCGACTTAAACCTTTCCCCTTCAAATCTTCATAGTACTGGATCCGCCATTACGACTTAAATCT
TTCCCTTCATGTCTTCTGAGGTTCACGGTCCGTCG
Found at i:131492 original size:49 final size:49
Alignment explanation
Indices: 131283--131652 Score: 184
Period size: 49 Copynumber: 7.4 Consensus size: 49
131273 CCTTTCTCCA
** * *
131283 TTGCGACTTAAACCTTTCCCCTTCAAATCTTC-ATGGTGCTGGATTCGCCG
1 TTGCGACTTAAACCTTT-CCCTTCATGTCTTCGA-GGTACTGGATCCGCCG
* * * * *
131333 TTGCGGCTTAAATCTTTCTCTTCTTGTCTTCTGAGGTTCAC-GG-TCCGTCG
1 TTGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGG-T-ACTGGATCCGCCG
* * * *
131383 TTGCGACTTAAACCTTTCCCTTTTATATCTTTGTA-GTACTGGATCCGCCA
1 TTGCGACTTAAACCTTTCCC-TTCATGTCTTCG-AGGTACTGGATCCGCCG
** * *
131433 TTATGACTTAGAA-CTTTCCCTTCATGTCTTCGCGGTACTGGATCCGTCG
1 TTGCGACTTA-AACCTTTCCCTTCATGTCTTCGAGGTACTGGATCCGCCG
* * * ** * * *
131482 TTGCGGCTTAGATCTTTCCAGTCATGTC-TCTGAGGTACAAGG-TTCACCG
1 TTGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGGTAC-TGGATCCGCCG
* * * * * * * *
131531 TTGCGACTTAAACCCTTCCCTTTCGTATCTTTGCGGTACTAGATCTGCCAT
1 TTGCGACTTAAACCTTTCCC-TTCATGTCTTCGAGGTACTGGATCCGCC-G
* * * * * *
131582 TATG-GTCTTAAATCTTTCCCGTAATGTC-TCTGAGGTA-TAAGATTCGCCG
1 T-TGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGGTACT-GGATCCGCCG
131631 TTGCGACTTAAACCTTTCCCTT
1 TTGCGACTTAAACCTTTCCCTT
131653 TTGTATCTTT
Statistics
Matches: 231, Mismatches: 68, Indels: 43
0.68 0.20 0.13
Matches are distributed among these distances:
48 7 0.03
49 99 0.43
50 93 0.40
51 29 0.13
52 3 0.01
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (49 bp):
TTGCGACTTAAACCTTTCCCTTCATGTCTTCGAGGTACTGGATCCGCCG
Found at i:131609 original size:100 final size:100
Alignment explanation
Indices: 131488--131675 Score: 286
Period size: 100 Copynumber: 1.9 Consensus size: 100
131478 GTCGTTGCGG
* * *
131488 CTTAGATCTTTCCAGTCATGTCTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCCTTCCCTT
1 CTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCACCGTTGCGACTTAAACCCTTCCCTT
*
131553 TCGTATCTTTGCGGTACTAGATCTGCCATTATGGT
66 TCGTATCTTTACGGTACTAGATCTGCCATTATGGT
* * * *
131588 CTTAAATCTTTCCCGTAATGTCTCTGAGGTATAAGATTCGCCGTTGCGACTTAAACCTTTCCCTT
1 CTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCACCGTTGCGACTTAAACCCTTCCCTT
* *
131653 TTGTATCTTTACGGTACTGGATC
66 TCGTATCTTTACGGTACTAGATC
131676 AGCTGTTGCG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (100 bp):
CTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCACCGTTGCGACTTAAACCCTTCCCTT
TCGTATCTTTACGGTACTAGATCTGCCATTATGGT
Found at i:131689 original size:100 final size:100
Alignment explanation
Indices: 131465--131690 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 100
131455 CATGTCTTCG
* * * *
131465 CGGTACTGGATCCG-TCGTTGCGG-CTTAGATCTTTCCAGTCATGTCTCTGAGGTACAAGGTTCA
1 CGGTACTGGATCAGCT-GTTGCGGTCTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCA
*
131528 CCGTTGCGACTTAAACCCTTCCCTTTCGTATCTTTG
65 CCGTTGCGACTTAAACCCTTCCCTTTCGTATCTTTA
* * ** ** * * *
131564 CGGTACTAGATCTGCCATTATGGTCTTAAATCTTTCCCGTAATGTCTCTGAGGTATAAGATTCGC
1 CGGTACTGGATCAGCTGTTGCGGTCTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCAC
* *
131629 CGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTA
66 CGTTGCGACTTAAACCCTTCCCTTTCGTATCTTTA
131664 CGGTACTGGATCAGCTGTTGCGGTCTT
1 CGGTACTGGATCAGCTGTTGCGGTCTT
131691 TTATATTTCT
Statistics
Matches: 104, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
99 16 0.15
100 88 0.85
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (100 bp):
CGGTACTGGATCAGCTGTTGCGGTCTTAAATCTTTCCAGTAATGTCTCTGAGGTACAAGATTCAC
CGTTGCGACTTAAACCCTTCCCTTTCGTATCTTTA
Found at i:132928 original size:16 final size:16
Alignment explanation
Indices: 132893--132943 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
132883 CTCCTTTTCT
*
132893 TTTTCTTTTTCTCTTT-
1 TTTTCTTTTTAT-TTTA
132909 TTTTCTTTTTATTTTA
1 TTTTCTTTTTATTTTA
*
132925 TTTTATTATTTA-TTTA
1 TTTTCTT-TTTATTTTA
132941 TTT
1 TTT
132944 ATTTCATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 3 0.10
16 24 0.77
17 4 0.13
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTATTTTA
Found at i:138359 original size:59 final size:56
Alignment explanation
Indices: 138296--138497 Score: 210
Period size: 59 Copynumber: 3.5 Consensus size: 56
138286 TTAGAAAAAA
* * * * * *
138296 TTGGGATCAAAAACAAAAATTTTGGACATCTGGGGTAAAAATGGTAATTTTTGAAAGCT
1 TTGGGGTCAAAAATAGAATTTTTGGA-AT-TGGGGTAAAAATGG-AATTTTGGAAAGTT
138355 TTGGGGT-AAAAATAGAATTTTTGGAAGTTCGGGGATAAAAATGGAATTTTGGAAAGTT
1 TTGGGGTCAAAAATAGAATTTTTGGAA-TT-GGGG-TAAAAATGGAATTTTGGAAAGTT
* * *
138413 TTTGGGTTAAAAATGGAATTTTTGGAAATTTGAGGGTAAAAATGGAATTTTGGAAAGTT
1 TTGGGGTCAAAAATAGAATTTTTGG-AA-TTG-GGGTAAAAATGGAATTTTGGAAAGTT
* *
138472 TTGGGGTCAAGAAT-GAAATTTTGGAA
1 TTGGGGTCAAAAATAGAATTTTTGGAA
138498 AGTTTCGAGG
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
57 4 0.03
58 47 0.38
59 66 0.53
60 7 0.06
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (56 bp):
TTGGGGTCAAAAATAGAATTTTTGGAATTGGGGTAAAAATGGAATTTTGGAAAGTT
Found at i:138424 original size:89 final size:87
Alignment explanation
Indices: 138326--138714 Score: 373
Period size: 89 Copynumber: 4.4 Consensus size: 87
138316 TTTGGACATC
* * * *
138326 TGGGGTAAAAATGGTAATTTTTGAAAGCTTTGGGGTAAAAATAGAATTTTTGGAAG-TTCGGGGA
1 TGGGTTAAAAATGG-AATTTTTGGAAG-TTTGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGG-
138390 T-AAAAATGGAATTTTGGAAAGTTTT
63 TCAAAAATGGAATTTTGGAAAG-TTT
*
138415 TGGGTTAAAAATGGAATTTTTGGAAATTTGAGGGTAAAAATGGAA-TTTTGGAAAGTTTTGGGGT
1 TGGGTTAAAAATGGAATTTTTGGAAGTTTG-GGGTAAAAATGGAATTTTTGG-AAGTTTTGGGGT
* *
138479 CAAGAATGAAATTTTGGAAAGTTT
64 CAAAAATGGAATTTTGGAAAGTTT
* * * **
138503 CGAGGTTAAAAATGGATTTTTTGGAAGTTTGGGGGT-AAAATGGTAAATTTTGGAAGTTTTAAGG
1 TG-GGTTAAAAATGGAATTTTTGGAAGTTT-GGGGTAAAAATGG-AATTTTTGGAAGTTTTGGGG
138567 TCAAAAATGGAATTTTTGG-AAG-TT
63 TCAAAAATGGAA-TTTTGGAAAGTTT
* ** * * *
138591 TGGGCGT-AAAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGATTTTTTGGGAGTTTAGGG
1 TGGG-TTAAAAATGG-AATTTTTGGAAGTTT-GGGGT-AAAAATGGAATTTTTGGAAGTTTTGGG
**
138655 GT--AAAATGGCAATTTTCAAAAGTTT
62 GTCAAAAATGG-AATTTTGGAAAGTTT
*
138680 TGGGGGTCAAAAATGGAATTTTTGGAAGTTTGGGG
1 T--GGGTTAAAAATGGAATTTTTGGAAGTTTGGGG
138715 GTCAAAACAT
Statistics
Matches: 249, Mismatches: 32, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
87 30 0.12
88 64 0.26
89 110 0.44
90 35 0.14
91 10 0.04
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (87 bp):
TGGGTTAAAAATGGAATTTTTGGAAGTTTGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCA
AAAATGGAATTTTGGAAAGTTT
Found at i:138522 original size:59 final size:58
Alignment explanation
Indices: 138331--138721 Score: 330
Period size: 59 Copynumber: 6.6 Consensus size: 58
138321 ACATCTGGGG
* * * * *
138331 TAAAAATGGTAATTTTTGAAAGCTTTGGGGTAAAAATAGAATTTTTGGAAG-TTCGGGGA
1 TAAAAATGG-AATTTTGGAAAGTTTTGGGGT-AAAATGGAATTTTTGGAAGTTTCGAGGT
* * *
138390 TAAAAATGGAATTTTGGAAAGTTTTTGGGTTAAAAATGGAATTTTTGGAAATTT-GAGGG
1 TAAAAATGGAATTTTGGAAAG-TTTTGGGGT-AAAATGGAATTTTTGGAAGTTTCGAGGT
*
138449 TAAAAATGGAATTTTGGAAAGTTTTGGGGTCAAGAAT-GAAATTTTGGAAAGTTTCGAGGT
1 TAAAAATGGAATTTTGGAAAGTTTTGGGGT-AA-AATGGAATTTTTGG-AAGTTTCGAGGT
* * * **
138509 TAAAAATGGATTTTTTGG-AAGTTTGGGGGTAAAATGGTAAATTTTGGAAGTTTTAAGGT
1 TAAAAATGGA-ATTTTGGAAAGTTTTGGGGTAAAATGG-AATTTTTGGAAGTTTCGAGGT
* *
138568 CAAAAATGGAATTTTTGG-AAG-TTTGGGCGTAAAATGGTAATTTTTGGAAGTTTCAAGGT
1 TAAAAATGGAA-TTTTGGAAAGTTTTGGG-GTAAAATGG-AATTTTTGGAAGTTTCGAGGT
* * * * *** * *
138627 CAAAAATGGATTTTTTGG-GAGTTTAGGGGTAAAATGGCAATTTTCAAAAGTTTTGGGGGT
1 TAAAAATGGA-ATTTTGGAAAGTTTTGGGGTAAAATGG-AATTTTTGGAAG-TTTCGAGGT
* *
138687 CAAAAATGGAATTTTTGG-AAGTTTGGGGGTCAAAA
1 TAAAAATGGAA-TTTTGGAAAGTTTTGGGGT-AAAA
138722 CATAATTTCT
Statistics
Matches: 283, Mismatches: 34, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
58 38 0.13
59 162 0.57
60 73 0.26
61 10 0.04
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (58 bp):
TAAAAATGGAATTTTGGAAAGTTTTGGGGTAAAATGGAATTTTTGGAAGTTTCGAGGT
Found at i:138715 original size:30 final size:29
Alignment explanation
Indices: 138327--138721 Score: 345
Period size: 30 Copynumber: 13.3 Consensus size: 29
138317 TTGGACATCT
*
138327 GGGGTAAAAATGGTAATTTTTGAAAGCTTT-
1 GGGGTAAAAATGG-AATTTTTGGAAG-TTTG
* *
138357 GGGGTAAAAATAGAATTTTTGGAAGTTCG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* *
138386 GGGATAAAAATGGAA-TTTTGGAAAGTTTTT
1 GGGGTAAAAATGGAATTTTTGG-AAG-TTTG
* *
138416 GGGTTAAAAATGGAATTTTTGGAAATTTG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* *
138445 AGGGTAAAAATGGAA-TTTTGGAAAGTTTT
1 GGGGTAAAAATGGAATTTTTGG-AAGTTTG
* *
138474 GGGGTCAAGAAT-GAAATTTTGGAAAGTTTCG
1 GGGGT-AAAAATGGAATTTTTGG-AAGTTT-G
* * *
138505 AGGTTAAAAATGGATTTTTTGGAAGTTTG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* *
138534 GGGGT-AAAATGGTAAATTTTGGAAGTTTT
1 GGGGTAAAAATGG-AATTTTTGGAAGTTTG
**
138563 AAGGTCAAAAATGGAATTTTTGGAAGTTTG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTG
* *
138593 GGCGT-AAAATGGTAATTTTTGGAAGTTTC
1 GGGGTAAAAATGG-AATTTTTGGAAGTTTG
** * * *
138622 AAGGTCAAAAATGGATTTTTTGGGAGTTTA
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTG
***
138652 GGGGT-AAAATGGCAATTTTCAAAAGTTTTG
1 GGGGTAAAAATGG-AATTTTTGGAAG-TTTG
138682 GGGGTCAAAAATGGAATTTTTGGAAGTTTG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTG
*
138712 GGGGTCAAAA
1 GGGGTAAAAA
138722 CATAATTTCT
Statistics
Matches: 293, Mismatches: 53, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
28 35 0.12
29 103 0.35
30 108 0.37
31 40 0.14
32 7 0.02
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTG
Found at i:140707 original size:6 final size:6
Alignment explanation
Indices: 140696--140778 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
140686 TCAAATTTGA
** * *
140696 TTAAAT TTAAAT TTAAA- GCAAAT TTAAAT TTAAAAAG ATAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT--AAAT TTAAAT TTAAAT
* * *
140745 TTAAGA- -TAAGT TTAAAT TTAAAA ATAAAT TTAAA
1 TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
140779 CCTAATTTTA
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
5 6 0.11
6 46 0.81
7 1 0.02
8 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:140720 original size:17 final size:16
Alignment explanation
Indices: 140698--140766 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 16
140688 AAATTTGATT
140698 AAATTTAAATTTAAAG
1 AAATTTAAATTTAAAG
140714 CAAATTTAAATTTAAAAAG
1 -AAATTTAAATTT--AAAG
140733 ATAAATTTAAATTT-AAG
1 --AAATTTAAATTTAAAG
140750 ATAAGTTTAAATTTAAA
1 A-AA-TTTAAATTTAAA
140767 AATAAATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 24 0.53
18 2 0.04
19 4 0.09
20 12 0.27
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (16 bp):
AAATTTAAATTTAAAG
Found at i:140739 original size:37 final size:35
Alignment explanation
Indices: 140697--140778 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 35
140687 CAAATTTGAT
140697 TAAATTTAAATTTAAAGCA-AA-TTTAAATTTAAAAAGA
1 TAAATTTAAATTT-AAG-ATAAGTTTAAATTT-AAAA-A
140734 TAAATTTAAATTTAAGATAAGTTTAAATTTAAAAA
1 TAAATTTAAATTTAAGATAAGTTTAAATTTAAAAA
140769 TAAATTTAAA
1 TAAATTTAAA
140779 CCTAATTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
35 12 0.28
36 9 0.21
37 22 0.51
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (35 bp):
TAAATTTAAATTTAAGATAAGTTTAAATTTAAAAA
Found at i:141888 original size:24 final size:26
Alignment explanation
Indices: 141851--141898 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
141841 ACTATCATAT
141851 AATCACACCAATA-TAT-TTAAAAAA
1 AATCACACCAATATTATATTAAAAAA
141875 AATCAC-CCATATATTATATTAAAA
1 AATCACACCA-ATATTATATTAAAA
141899 TTCATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 3 0.14
26 6 0.29
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (26 bp):
AATCACACCAATATTATATTAAAAAA
Found at i:147180 original size:59 final size:57
Alignment explanation
Indices: 147107--147305 Score: 186
Period size: 57 Copynumber: 3.4 Consensus size: 57
147097 ACCCTCAATT
* *
147107 TTTTTCAAAATTACATTTTAAACCTTAAACCTTTCTAAAATTACATTTGAGCCCTAAAG
1 TTTTT-AAAATTACATTTT-AACCTTAAACCTTTCTAAAATTACATTTGAACCCTAAAA
** * *
147166 TTCTTTAAAATTACA-TTTAACCCGAAA-CTTATCTAAAATTATATTTTAACCCTAAAA
1 TT-TTTAAAATTACATTTTAACCTTAAACCTT-TCTAAAATTACATTTGAACCCTAAAA
* * * * * * * *
147223 TTTTCCAAAATTTCATTTTGACATTTAAACTTTTCCAAAATTACATTTTGACCCCTAAAC
1 TTTT-TAAAATTACATTTTAAC-CTTAAACCTTTCTAAAATTACA-TTTGAACCCTAAAA
147283 TTTTTCAAAATTACATTTTAACC
1 TTTTT-AAAATTACATTTTAACC
147306 CCTGAACTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
56 5 0.05
57 39 0.35
58 8 0.07
59 24 0.22
60 34 0.31
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (57 bp):
TTTTTAAAATTACATTTTAACCTTAAACCTTTCTAAAATTACATTTGAACCCTAAAA
Found at i:147232 original size:29 final size:29
Alignment explanation
Indices: 147107--147420 Score: 222
Period size: 30 Copynumber: 10.6 Consensus size: 29
147097 ACCCTCAATT
* *
147107 TTTTTCAAAATTACATTTTAAACCTTAAAC
1 TTTTCCAAAATTACATTTT-AACCCTAAAC
* * * * *
147137 CTTTCTAAAATTACATTTGAGCCCTAAAG
1 TTTTCCAAAATTACATTTTAACCCTAAAC
* *
147166 TTCTT-TAAAATTACA-TTTAACCCGAAAC
1 TT-TTCCAAAATTACATTTTAACCCTAAAC
* * * *
147194 TTATCTAAAATTATATTTTAACCCTAAAA
1 TTTTCCAAAATTACATTTTAACCCTAAAC
* * **
147223 TTTTCCAAAATTTCATTTTGACATTTAAAC
1 TTTTCCAAAATTACATTTTAAC-CCTAAAC
*
147253 TTTTCCAAAATTACATTTTGACCCCTAAAC
1 TTTTCCAAAATTACATTTT-AACCCTAAAC
* *
147283 TTTTTCAAAATTACATTTTAACCCCTGAAC
1 TTTTCCAAAATTACATTTTAA-CCCTAAAC
* * * * *
147313 TTTCCCAAAATAAAAATTTGACCCCTTAAAC
1 TTTTCCAAAAT-TACATTTTAACCC-TAAAC
* * *
147344 -TTCCCAAAATCACATTTTGACTGCC-AAAC
1 TTTTCCAAAATTACATTTTAAC--CCTAAAC
* * * *
147373 TTTTCAAAAACTACATTTTGACCCCTAAAA
1 TTTTCCAAAATTACATTTT-AACCCTAAAC
147403 TTTTCCAAAATTACATTT
1 TTTTCCAAAATTACATTT
147421 GATCCCAAAT
Statistics
Matches: 218, Mismatches: 53, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
27 1 0.00
28 20 0.09
29 59 0.27
30 124 0.57
31 14 0.06
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (29 bp):
TTTTCCAAAATTACATTTTAACCCTAAAC
Found at i:147300 original size:60 final size:59
Alignment explanation
Indices: 147107--147420 Score: 269
Period size: 60 Copynumber: 5.3 Consensus size: 59
147097 ACCCTCAATT
* * * * * *
147107 TTTTTCAAAATTACATTTTAAACCTTAAACCTTTCTAAAATTACA-TTTGAGCCCTAAAG
1 TTTTCCAAAATTACATTTT-AACCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
* * * * * *
147166 TTCTT-TAAAATTACA-TTTAACCCGAAACTTATCTAAAATTATATTTT-AACCCTAAAA
1 TT-TTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
* * ** *
147223 TTTTCCAAAATTTCATTTTGACATTTAAACTTTTCCAAAATTACATTTTGACCCCTAAAC
1 TTTTCCAAAATTACATTTTAAC-CCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
* * * * * * *
147283 TTTTTCAAAATTACATTTTAACCCCTGAACTTTCCCAAAATAAAAATTTGACCCCTTAAA
1 TTTTCCAAAATTACATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
* * * * * *
147343 CTTCCCAAAATCACATTTTGACTGCC-AAACTTTTCAAAAACTACATTTTGACCCCTAAAA
1 TTTTCCAAAATTACATTTTAAC--CCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
147403 TTTTCCAAAATTACATTT
1 TTTTCCAAAATTACATTT
147421 GATCCCAAAT
Statistics
Matches: 199, Mismatches: 47, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
56 2 0.01
57 38 0.19
58 11 0.06
59 32 0.16
60 113 0.57
61 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (59 bp):
TTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAAA
Found at i:155553 original size:18 final size:18
Alignment explanation
Indices: 155532--155569 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
155522 TGAATTTTTG
*
155532 AATTTGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
155550 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
155568 AA
1 AA
155570 AACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:155754 original size:34 final size:34
Alignment explanation
Indices: 155707--155790 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 34
155697 CATAAACAAA
*
155707 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
*
155741 ACCTAAATATTTTTAATTTTTTACCTTTTACCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
155775 ACCCAAATATTGTTTA
1 ACCCAAATATT-TTTA
155791 CTTGGACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 42 0.91
35 4 0.09
ACGTcount: A:0.29, C:0.18, G:0.01, T:0.52
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
Found at i:159213 original size:41 final size:41
Alignment explanation
Indices: 159099--159214 Score: 171
Period size: 41 Copynumber: 2.9 Consensus size: 41
159089 TATTTCACCT
* *
159099 AAAAAA-ATCAAGATAAAAACCCACAAAGGGCATCCCGAAA
1 AAAAAAGATCAAGATGAAAACCCACAAAGGGCGTCCCGAAA
* *
159139 AAAAAAGATCAAGATGAAAACCCACAAAAGGCGTCCTGAAA
1 AAAAAAGATCAAGATGAAAACCCACAAAGGGCGTCCCGAAA
* *
159180 AAAAAAGATCAAGATGAAAACTCGCAAAGGGCGTC
1 AAAAAAGATCAAGATGAAAACCCACAAAGGGCGTC
159215 TTAAAACCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
40 6 0.09
41 62 0.91
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.09
Consensus pattern (41 bp):
AAAAAAGATCAAGATGAAAACCCACAAAGGGCGTCCCGAAA
Found at i:160524 original size:208 final size:207
Alignment explanation
Indices: 160126--160651 Score: 669
Period size: 208 Copynumber: 2.5 Consensus size: 207
160116 CAAGGCAGAT
* * * * * *
160126 TGAAGCTCAATACGAGTGAAACTTCCAAATCCTATCTTCCTGATGAGATACAAAGAAGTGGGTCG
1 TGAAGCTCAATACGAATGAGACTT-CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCA
** * ** * *
160191 AAGCAATAAAGTGATCATCTTCCTGACGAGATGCAAAGAAGTAAACCAAATTCGTCTTTCTAATG
65 AAGCAATAAA-AAATCATCTTCCTGATGAGATATAAAGAAGTAAACCAAATTCGCCTTCCTAATG
* * *
160256 AGATACAGCGAAGTGGATTAAAATAATGAATCGGTCATCTTCTTGATGAGATACAGAGAAGTAGA
129 AGATACAGAGAAGTGGATTAAAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
160321 CCAAATCAATGAAG
194 CCAAATCAATGAAG
* * *
160335 TGAAGCTTAATACGAATGAGACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGAGTCAA
1 TGAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
* * * * * *
160400 AGCAATAAAACAATTATCTTCATGATGAGATATAGAGAAGTAGACCAAA-TCTGCCTTCCTGATT
66 AGCAATAAAA-AATCATCTTCCTGATGAGATATAAAGAAGTAAACCAAATTC-GCCTTCCTAATG
* * * *
160464 AGATATAGAGAAGTGGATT-GAATCAATGAAGCGGTTATCTTCCTGATGAGATATAGAGAAGTAG
129 AGATACAGAGAAGTGGATTAAAAT-AATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAG
*
160528 ACCGAATCAATGAAG
193 ACCAAATCAATGAAG
* * * *
160543 TAAAGCTCAATATGAATAAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAA
1 TGAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
*
160608 AGCAATAAAAAGGTCATCTTCCTGATGAGATATAAAGAAGTAAA
66 AGCAATAAAAA-ATCATCTTCCTGATGAGATATAAAGAAGTAAA
160652 TTAATGAAGA
Statistics
Matches: 271, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
207 6 0.02
208 244 0.90
209 21 0.08
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (207 bp):
TGAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAA
AGCAATAAAAAATCATCTTCCTGATGAGATATAAAGAAGTAAACCAAATTCGCCTTCCTAATGAG
ATACAGAGAAGTGGATTAAAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACC
AAATCAATGAAG
Found at i:161181 original size:17 final size:17
Alignment explanation
Indices: 161159--161228 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 17
161149 AAAAACAATT
161159 TTTAAATTTAAATTTAC
1 TTTAAATTTAAATTTAC
161176 TTTAAATTTTAAATGTCCAATAC
1 TTTAAA-TTTAAAT-T----TAC
161199 ATTTTAAATTTAAATTTA-
1 --TTTAAATTTAAATTTAC
161217 TTTAAATTTAAA
1 TTTAAATTTAAA
161229 AGTCCAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
16 12 0.27
17 6 0.13
18 7 0.16
19 3 0.07
23 4 0.09
24 7 0.16
25 6 0.13
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (17 bp):
TTTAAATTTAAATTTAC
Found at i:161204 original size:42 final size:40
Alignment explanation
Indices: 161158--161235 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
161148 AAAAAACAAT
*
161158 TTTTAAATTTAAATTTACTTTAAATTTTAAATGTCCAATACA
1 TTTTAAATTTAAATTTA-TTTAAA-TTTAAAAGTCCAATACA
161200 TTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAA
1 TTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAA
161236 ATTACAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 12 0.34
41 6 0.17
42 17 0.49
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (40 bp):
TTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAATACA
Found at i:162573 original size:19 final size:19
Alignment explanation
Indices: 162549--162595 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
162539 GAGAAACTGA
162549 GAAGCAAAACAGATTTTTT
1 GAAGCAAAACAGATTTTTT
162568 GAAGCAAAACAGATTTTTT
1 GAAGCAAAACAGATTTTTT
*
162587 GAAACAAAA
1 GAAGCAAAA
162596 TGGGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (19 bp):
GAAGCAAAACAGATTTTTT
Found at i:163146 original size:30 final size:30
Alignment explanation
Indices: 162928--163274 Score: 181
Period size: 30 Copynumber: 12.0 Consensus size: 30
162918 CTCAAGGGAT
** *
162928 CCTTAAAC-TTTCCAAAAACCATATTTTGAC
1 CCTTAAACTTTTCC-AAAATTACATTTTGAC
* * * *
162958 CCTAAAAATTTT--TAAATTATATTTTGA-
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
* * * * * *
162985 CCTTCGAACCTTTCCATAATAACATTCTAAC
1 CCTT-AAACTTTTCCAAAATTACATTTTGAC
* * ** **
163016 CCTCAAACTTTTCTAAACCTACATTTAAAC
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
* *
163046 CC-TAAACTTATCC-TAATTACATTTTGAC
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
*
163074 CCTT-AACTTCTCCAAAATTGA-ATTTTGAC
1 CCTTAAACTTTTCCAAAATT-ACATTTTGAC
* ** *
163103 CCAT-AGTTTTTCCAAAATTATATTTTGAC
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
*
163132 CCTTAAACTTTTCCAAAATTACATTTTAAC
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
* * *
163162 CCCTAAAGTTTTCTAAAATTACA-TTTG--
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
* * *
163189 -C-TAAAC-TTCCCAAAATCACATGTTGACC
1 CCTTAAACTTTTCCAAAATTACATTTTGA-C
* * * *
163217 CCTTAAAC-TTCCCAATATCACATTTT-AA
1 CCTTAAACTTTTCCAAAATTACATTTTGAC
163245 CCTTCAAAC-TTTCCAAAAATTACATTTTGA
1 CCTT-AAACTTTTCC-AAAATTACATTTTGA
163275 TCCTAATTTC
Statistics
Matches: 239, Mismatches: 59, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
24 11 0.05
25 7 0.03
26 1 0.00
27 3 0.01
28 42 0.18
29 60 0.25
30 108 0.45
31 7 0.03
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (30 bp):
CCTTAAACTTTTCCAAAATTACATTTTGAC
Found at i:166586 original size:51 final size:51
Alignment explanation
Indices: 166505--166609 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
166495 TCAGAGGAGG
166505 AATAAATCATGTTTAAGAATAGATCTAATATAATTGAGTAGAGTTGAATGC
1 AATAAATCATGTTTAAGAATAGATCTAATATAATTGAGTAGAGTTGAATGC
*
166556 AATAGATCATGTTTAAGAATAGATCTAATATAATTGAGTAGAGTTGAATGC
1 AATAAATCATGTTTAAGAATAGATCTAATATAATTGAGTAGAGTTGAATGC
166607 AAT
1 AAT
166610 CCTAGAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (51 bp):
AATAAATCATGTTTAAGAATAGATCTAATATAATTGAGTAGAGTTGAATGC
Found at i:170219 original size:62 final size:62
Alignment explanation
Indices: 170119--170245 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 62
170109 CCATTTTATG
170119 TTTATGTGGATAGGACCCTCCTTCCGTTTTCTACTAATTCATCTTTTTCAAGTAGGTTTCAT
1 TTTATGTGGATAGGACCCTCCTTCCGTTTTCTACTAATTCATCTTTTTCAAGTAGGTTTCAT
* *
170181 TTTATGTGGATAGGACCCTCTTTCCGTTTTCTATTAATTCATCTTTTTCAAGTAGGTTTCAT
1 TTTATGTGGATAGGACCCTCCTTCCGTTTTCTACTAATTCATCTTTTTCAAGTAGGTTTCAT
170243 TTT
1 TTT
170246 TTTGCGTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
TTTATGTGGATAGGACCCTCCTTCCGTTTTCTACTAATTCATCTTTTTCAAGTAGGTTTCAT
Found at i:170665 original size:23 final size:23
Alignment explanation
Indices: 170637--170682 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
170627 CACCTCTTGA
170637 TTTTAATAAATTTTCAAATCATG
1 TTTTAATAAATTTTCAAATCATG
170660 TTTTAATAAATTTTCAAATCATG
1 TTTTAATAAATTTTCAAATCATG
170683 ATTGAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTTAATAAATTTTCAAATCATG
Found at i:172193 original size:25 final size:26
Alignment explanation
Indices: 172146--172203 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
172136 ATTAAAGTAA
*
172146 TAAATTATGATAACTTTTATTTTTTT
1 TAAATTATAATAACTTTTATTTTTTT
*
172172 TAAA-TATAATAA-TTTTACTTTTTT
1 TAAATTATAATAACTTTTATTTTTTT
172196 TACAATTA
1 TA-AATTA
172204 GTGTTGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.46
25 9 0.32
26 6 0.21
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TAAATTATAATAACTTTTATTTTTTT
Found at i:176780 original size:19 final size:19
Alignment explanation
Indices: 176712--176780 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
176702 AAATTTTATA
*
176712 TTTTAAAAAAACT-AAAAT
1 TTTTAAAAAAATTAAAAAT
*
176730 TTTTAAAAAATTCTAAAAAAT
1 TTTTAAAAAAAT-T-AAAAAT
*
176751 ATATT-AAAAAATTAAAAAT
1 -TTTTAAAAAAATTAAAAAT
176770 TTTTAAAAAAA
1 TTTTAAAAAAA
176781 ATATTCTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 13 0.32
19 13 0.32
20 1 0.02
21 11 0.27
22 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTTAAAAAAATTAAAAAT
Found at i:178366 original size:14 final size:14
Alignment explanation
Indices: 178349--178378 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
178339 TTTAAACTCT
*
178349 AAAAGATAAATCTA
1 AAAAGATAAATATA
178363 AAAAGATAAATATA
1 AAAAGATAAATATA
178377 AA
1 AA
178379 TTAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:178385 original size:11 final size:11
Alignment explanation
Indices: 178369--178401 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
178359 TCTAAAAAGA
178369 TAAATATAAAT
1 TAAATATAAAT
*
178380 TAAATACAAAT
1 TAAATATAAAT
178391 TAAATATAAAT
1 TAAATATAAAT
178402 AATATCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:179973 original size:4 final size:4
Alignment explanation
Indices: 179960--180005 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
179950 TTTTCTTGAC
179960 AAAT -AAT AAAT AAAT AAAT AAAT AGAA- AAAT AAAT --AT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
180005 A
1 A
180006 TAAAAGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 2 0.05
3 5 0.14
4 28 0.76
5 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:181813 original size:47 final size:47
Alignment explanation
Indices: 181748--181843 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
181738 CTCTAACGTC
181748 TTACCTAAACTGTAGTCCTCATTGACAAACGAAGCTTTTTATAGTCT
1 TTACCTAAACTGTAGTCCTCATTGACAAACGAAGCTTTTTATAGTCT
181795 TTACCTAAACTGTAGTCCTCATTGACAAACGAAGCTTTTTATAGTCT
1 TTACCTAAACTGTAGTCCTCATTGACAAACGAAGCTTTTTATAGTCT
181842 TT
1 TT
181844 CTTTAGGCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (47 bp):
TTACCTAAACTGTAGTCCTCATTGACAAACGAAGCTTTTTATAGTCT
Found at i:184686 original size:29 final size:29
Alignment explanation
Indices: 184653--184717 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
184643 TGAAAACGAG
184653 ATTTTTAGAT-ACTCGAGGGCAAAAAGGTA
1 ATTTTT-GATCACTCGAGGGCAAAAAGGTA
* * *
184682 ATTTTTGGTCACTTGAGGGCAAAATGGTA
1 ATTTTTGATCACTCGAGGGCAAAAAGGTA
184711 ATTTTTG
1 ATTTTTG
184718 GAAAGTTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (29 bp):
ATTTTTGATCACTCGAGGGCAAAAAGGTA
Found at i:184745 original size:29 final size:30
Alignment explanation
Indices: 184702--185050 Score: 185
Period size: 29 Copynumber: 11.9 Consensus size: 30
184692 ACTTGAGGGC
*
184702 AAAATGGTAATTTTTGGAAAGTTCGAGGTTA
1 AAAATGG-AATTTTTGGAAAGTTCGAGGGTA
* *
184733 AAAATGGAATTTTTAGAAA-TTCGGGGGT-
1 AAAATGGAATTTTTGGAAAGTTCGAGGGTA
* * *
184761 AAAATGATAATTTTTGAAAAAG--C-AGAGTTA
1 AAAATG-GAATTTTTG-GAAAGTTCGAG-GGTA
* *
184791 AAAATGGAATTTTTGGAAAAATT-GA-GGTT
1 AAAATGGAATTTTTGG-AAAGTTCGAGGGTA
*
184820 AAAATAGAATTTTTGG-AAGTTC-AGGGGT-
1 AAAATGGAATTTTTGGAAAGTTCGA-GGGTA
*** **
184848 AAAATGGTAATTTTCAAAAAAAAT--A-GGTA
1 AAAATGG-AATTTT-TGGAAAGTTCGAGGGTA
* * *
184877 AAAATGGAATTTTAGGAAAGATCGGGGGTA
1 AAAATGGAATTTTTGGAAAGTTCGAGGGTA
* *
184907 AAAATGTAATTTTTGTG-AAGTTCGAGTGTA
1 AAAATGGAATTTTTG-GAAAGTTCGAGGGTA
* * * * *
184937 AAAATAGAA-TTCTAGAAGGTTCGGGGGT-
1 AAAATGGAATTTTTGGAAAGTTCGAGGGTA
* * * *
184965 AAAATGTAATTTTTGAAAAGTTCAAGGCTA
1 AAAATGGAATTTTTGGAAAGTTCGAGGGTA
** * *
184995 AAAATGGAA-TTTCAGAAAGTTTGAGGATA
1 AAAATGGAATTTTTGGAAAGTTCGAGGGTA
* *
185024 AAAATGTAATTTTTGAAAAGTTC-AGGG
1 AAAATGGAATTTTTGGAAAGTTCGAGGG
185051 GTCAAAATAT
Statistics
Matches: 235, Mismatches: 59, Indels: 50
0.68 0.17 0.15
Matches are distributed among these distances:
27 11 0.05
28 30 0.13
29 110 0.47
30 72 0.31
31 12 0.05
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAGTTCGAGGGTA
Found at i:184861 original size:87 final size:88
Alignment explanation
Indices: 184702--184920 Score: 241
Period size: 87 Copynumber: 2.5 Consensus size: 88
184692 ACTTGAGGGC
* * *
184702 AAAATGGTAATTTTTGG-AAAGTTCGAGGTTAAAAATGGAATTTTTAGAAATTCGGGGGTAAAAT
1 AAAATGG-AATTTTTGGAAAAATTCGAGGTTAAAAATAGAATTTTTAGAAATTCAGGGGTAAAAT
* ** *
184766 GATAATTTTTGAAAAAGCAGAGTTA
65 GATAA-TTTTCAAAAAAAAGAGGTA
* *
184791 AAAATGGAATTTTTGGAAAAATT-GAGGTT-AAAATAGAATTTTTGGAAGTTCAGGGGTAAAATG
1 AAAATGGAATTTTTGGAAAAATTCGAGGTTAAAAATAGAATTTTTAGAAATTCAGGGGTAAAATG
* *
184854 GTAATTTTCAAAAAAAATAGGTA
66 ATAATTTTCAAAAAAAAGAGGTA
* * * *
184877 AAAATGGAATTTTAGGAAAGA-TCGGGGGTAAAAAT-GTAATTTTT
1 AAAATGGAATTTTTGGAAAAATTCGAGGTTAAAAATAG-AATTTTT
184921 GTGAAGTTCG
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
85 1 0.01
86 38 0.34
87 45 0.41
88 15 0.14
89 12 0.11
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (88 bp):
AAAATGGAATTTTTGGAAAAATTCGAGGTTAAAAATAGAATTTTTAGAAATTCAGGGGTAAAATG
ATAATTTTCAAAAAAAAGAGGTA
Found at i:185045 original size:59 final size:59
Alignment explanation
Indices: 184874--185047 Score: 210
Period size: 58 Copynumber: 2.9 Consensus size: 59
184864 AAAAAAATAG
* * ** *
184874 GTAAAAATGGAATTTTAGGAAAGATCGGGGGTAAAAATGTAATTTTTGTGAAGTTCGAGT
1 GTAAAAATGGAATTTCA-GAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAAGT
* *
184934 GTAAAAATAGAA-TTCTAGAAGGTTCGGGGGT-AAAATGTAATTTTTGAAAAGTTCAAG-
1 GTAAAAATGGAATTTC-AGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAAGT
* * *
184991 GCTAAAAATGGAATTTCAGAAAGTTTGAGGATAAAAATGTAATTTTTGAAAAGTTCA
1 G-TAAAAATGGAATTTCAGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCA
185048 GGGGTCAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
57 1 0.01
58 44 0.45
59 41 0.42
60 12 0.12
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (59 bp):
GTAAAAATGGAATTTCAGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAAGT
Found at i:185045 original size:117 final size:116
Alignment explanation
Indices: 184789--185046 Score: 274
Period size: 117 Copynumber: 2.2 Consensus size: 116
184779 AAAGCAGAGT
* * * * *
184789 TAAAAATGGAATTTTTGGAAAAATT-GAGGTTAAAATAGAATTTTTGGAAGTTCAGGGGTAAAAT
1 TAAAAATGTAATTTTT-GAAAAGTTCGAGGTAAAAATAGAATTTCTAGAAGTTCAGGGGTAAAAT
* * *
184853 GGTAATTTTCAAAAAAAATAGGTAAAAATGGAATTTTAGGAAAGATCGGGGG
65 GGTAATTTTCAAAAAAAATAGGTAAAAATGGAATTTCAGGAAAGATCGAGGA
** *
184905 TAAAAATGTAATTTTTGTGAAGTTCGAGTGTAAAAATAGAA-TTCTAGAAGGTTCGGGGGTAAAA
1 TAAAAATGTAATTTTTGAAAAGTTCGAG-GTAAAAATAGAATTTCTAGAA-GTTCAGGGGTAAAA
** ** * *
184969 T-GTAATTTT-TGAAAAGTTCAAGGCTAAAAATGGAATTTCA-GAAAGTTTGAGGA
64 TGGTAATTTTCAAAAAAAAT--AGG-TAAAAATGGAATTTCAGGAAAGATCGAGGA
185022 TAAAAATGTAATTTTTGAAAAGTTC
1 TAAAAATGTAATTTTTGAAAAGTTC
185047 AGGGGTCAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
115 10 0.09
116 32 0.27
117 60 0.51
118 15 0.13
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.31
Consensus pattern (116 bp):
TAAAAATGTAATTTTTGAAAAGTTCGAGGTAAAAATAGAATTTCTAGAAGTTCAGGGGTAAAATG
GTAATTTTCAAAAAAAATAGGTAAAAATGGAATTTCAGGAAAGATCGAGGA
Found at i:185058 original size:59 final size:59
Alignment explanation
Indices: 184873--185058 Score: 207
Period size: 59 Copynumber: 3.2 Consensus size: 59
184863 AAAAAAAATA
* * **
184873 GGTAAAAATGGAATTTTAGGAAAGATCGGGGGTAAAAATGTAATTTTTGTGAAGTTC-GAG
1 GGTAAAAATGGAATTTCA-GAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAG-G
* * * *
184933 TGTAAAAATAGAA-TTCTAGAAGGTTCGGGGGT-AAAATGTAATTTTTGAAAAGTTCAAG
1 GGTAAAAATGGAATTTC-AGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAGG
* * * *
184991 GCTAAAAATGGAATTTCAGAAAGTTTGAGGATAAAAATGTAATTTTTGAAAAGTTCAGG
1 GGTAAAAATGGAATTTCAGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAGG
*
185050 GGTCAAAAT
1 GGTAAAAAT
185059 ATGATTTTTG
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
58 43 0.41
59 49 0.47
60 12 0.12
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (59 bp):
GGTAAAAATGGAATTTCAGAAAGTTCGGGGGTAAAAATGTAATTTTTGAAAAGTTCAGG
Found at i:186159 original size:3 final size:3
Alignment explanation
Indices: 186142--186213 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
186132 TTTTTATTTC
* * *
186142 ATT ATT ACT AAT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
186190 ATT ATT ATT ATT AATT AAT ATT AT
1 ATT ATT ATT ATT -ATT ATT ATT AT
186214 AAATGTTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:186918 original size:6 final size:6
Alignment explanation
Indices: 186899--186964 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
186889 AAATTGTTTC
** **
186899 AAATTT -AA-TT AAATTT AAATTT AAA-GA AAATTT AAAAAT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
**
186944 AAATTT AAAAAT AAATTT AAA
1 AAATTT AAATTT AAATTT AAA
186965 AATTTAAACC
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
4 2 0.04
5 7 0.16
6 36 0.80
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (6 bp):
AAATTT
Found at i:186949 original size:18 final size:18
Alignment explanation
Indices: 186926--186964 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
186916 AATTTAAAGA
186926 AAATTTAAAAATAAATTT
1 AAATTTAAAAATAAATTT
186944 AAATTTAAAAATAAATTT
1 AAATTTAAAAATAAATTT
186962 AAA
1 AAA
186965 AATTTAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATTTAAAAATAAATTT
Found at i:186967 original size:12 final size:12
Alignment explanation
Indices: 186914--186946 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
186904 TAATTAAATT
*
186914 TAAATTTAAAGA
1 TAAATTTAAAAA
186926 -AAATTTAAAAA
1 TAAATTTAAAAA
186937 TAAATTTAAA
1 TAAATTTAAA
186947 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:189641 original size:15 final size:16
Alignment explanation
Indices: 189623--189679 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 16
189613 AAGCAAAAGG
189623 GAAAA-AATTAAAATA
1 GAAAATAATTAAAATA
189638 G-AAA-AATT-AAA-A
1 GAAAATAATTAAAATA
189650 GAAAATAA-TAAAATA
1 GAAAATAATTAAAATA
*
189665 -AAAATAAATAAAATA
1 GAAAATAATTAAAATA
189680 AATAAATGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.05
13 7 0.19
14 19 0.51
15 9 0.24
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
GAAAATAATTAAAATA
Found at i:189644 original size:14 final size:14
Alignment explanation
Indices: 189623--189679 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
189613 AAGCAAAAGG
189623 GAAAAAATTAAAATA
1 GAAAAAA-TAAAATA
*
189638 G-AAAAATTAAA-A
1 GAAAAAATAAAATA
189650 GAAAATAATAAAATA
1 GAAAA-AATAAAATA
*
189665 AAAATAAATAAAATA
1 GAAA-AAATAAAATA
189680 AATAAATGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.06
13 7 0.20
14 11 0.31
15 14 0.40
16 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (14 bp):
GAAAAAATAAAATA
Found at i:189672 original size:24 final size:25
Alignment explanation
Indices: 189639--189685 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
189629 ATTAAAATAG
189639 AAAAATTAAAAGAAAAT-AATAAAAT
1 AAAAATT-AAAGAAAATAAATAAAAT
*
189664 AAAAA-TAAATAAAATAAATAAA
1 AAAAATTAAAGAAAATAAATAAA
189686 TGGCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAATTAAAGAAAATAAATAAAAT
Found at i:190763 original size:25 final size:23
Alignment explanation
Indices: 190734--190780 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
190724 AATTGGATCC
190734 AAATTAAATTCTAAAAAGATAATTA
1 AAATTAAATT-TAAAAA-ATAATTA
*
190759 AAATTAAATTTAAACAATAATT
1 AAATTAAATTTAAAAAATAATT
190781 CCCTATTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATTAAATTTAAAAAATAATTA
Found at i:197793 original size:20 final size:21
Alignment explanation
Indices: 197757--197795 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
197747 AAATAAAAAG
197757 TTAATAAAAATTGAAAAATAT
1 TTAATAAAAATTGAAAAATAT
197778 TTAA-AAAAA-TGTAAAAAT
1 TTAATAAAAATTG-AAAAAT
197796 TATTACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TTAATAAAAATTGAAAAATAT
Found at i:198917 original size:34 final size:34
Alignment explanation
Indices: 198844--198938 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 34
198834 GGTATTTAAA
* * *
198844 TTTTTTTTGTTCAATTTAGTACTTAAACTTGACAC
1 TTTTTTTT-TTTAAATTGGTACTTAAACTTGACAC
198879 ----TTTTTTTAAATTCGGTACTTAAACTTGACAC
1 TTTTTTTTTTTAAATT-GGTACTTAAACTTGACAC
* *
198910 TTTTTTTTTTTAAGTTGGTAGTTAAACTT
1 TTTTTTTTTTTAAATTGGTACTTAAACTT
198939 TTTGGGATCC
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
30 6 0.12
31 21 0.42
34 12 0.24
35 11 0.22
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.53
Consensus pattern (34 bp):
TTTTTTTTTTTAAATTGGTACTTAAACTTGACAC
Found at i:213642 original size:23 final size:22
Alignment explanation
Indices: 213594--213656 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
213584 TTTAAAAATG
213594 ATAAAATTT-TAATTTAATCTC
1 ATAAAATTTATAATTTAATCTC
* * *
213615 TTAAAATTTATATTTTTATCATC
1 ATAAAATTTATAATTTAATC-TC
*
213638 ATAAAAATTATAATTTAAT
1 ATAAAATTTATAATTTAAT
213657 TTCAACCAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 17 0.52
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATTTATAATTTAATCTC
Found at i:214264 original size:2 final size:2
Alignment explanation
Indices: 214252--214293 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
214242 TTATAAAAAT
* * *
214252 TA TA AA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
214294 AAGTTAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:214982 original size:30 final size:29
Alignment explanation
Indices: 214948--215272 Score: 150
Period size: 30 Copynumber: 10.8 Consensus size: 29
214938 AAAAGGCAAA
*
214948 GACCTAGGCGAAACCAGAAATTTGACAATG
1 GACCT-GGTGAAACCAGAAATTTGACAATG
214978 GACCTCGGTGAAACCAGAAATTTGACAATG
1 GACCT-GGTGAAACCAGAAATTTGACAATG
* *
215008 AACCTGAGTGAAACCAG-AATTTG-GAA-G
1 GACCTG-GTGAAACCAGAAATTTGACAATG
* *
215035 GACCTACTGAGCGAAACCAGAACTTTTGA-AATG
1 GA-C--CTG-GTGAAACCAGAA-ATTTGACAATG
* * *
215068 AATCTGGATGAAACTAG-AATTTCGACAATG
1 GACCTGG-TGAAACCAGAAATTT-GACAATG
* * * *
215098 GACCTGGGTAAAACCAGAACTTCGACATTG
1 GACCT-GGTGAAACCAGAAATTTGACAATG
* * ** *
215128 GATCTGGACGAAACCAGAAATTTTG-GGATA
1 GACCTGG-TGAAACCAGAAA-TTTGACAATG
* *
215158 AACCTGGGCGAAACCAG-AATTTGA-AA-G
1 GACCT-GGTGAAACCAGAAATTTGACAATG
*
215185 GACTTGCTGG-GCAAAACCAGAACTTTGACAATG
1 GAC---CTGGTG--AAACCAGAAATTTGACAATG
** * *
215218 GAGGTGGATGAAACTAGAAATTCGACAATG
1 GACCTGG-TGAAACCAGAAATTTGACAATG
*
215248 GACCTAGGGTGAAACCA-TAATTTGA
1 GACCT--GGTGAAACCAGAAATTTGA
215273 GAATACTTAT
Statistics
Matches: 222, Mismatches: 44, Indels: 58
0.69 0.14 0.18
Matches are distributed among these distances:
27 4 0.02
28 12 0.05
29 17 0.08
30 149 0.67
31 24 0.11
32 11 0.05
33 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (29 bp):
GACCTGGTGAAACCAGAAATTTGACAATG
Found at i:232853 original size:20 final size:21
Alignment explanation
Indices: 232819--232866 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
232809 AGATACATTC
232819 TAAAATTATACAAAAATATAA
1 TAAAATTATACAAAAATATAA
* *
232840 TAAATTTATA-AAAAATATTA
1 TAAAATTATACAAAAATATAA
232860 -AAAATTA
1 TAAAATTA
232867 ATTGAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATTATACAAAAATATAA
Found at i:235174 original size:31 final size:30
Alignment explanation
Indices: 235126--235183 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
235116 TAGGGTGAGC
* *
235126 ATTCGGTCGAATTGAATCGAGTGAAATGAA
1 ATTCGGTCGAATCGAATCAAGTGAAATGAA
*
235156 ATTCGAGTCGAGTCGAATCAAGTGAAAT
1 ATTCG-GTCGAATCGAATCAAGTGAAAT
235184 TTTTCGAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (30 bp):
ATTCGGTCGAATCGAATCAAGTGAAATGAA
Found at i:237715 original size:34 final size:34
Alignment explanation
Indices: 237676--237741 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
237666 CCCAAACATA
237676 GTTTGCTATCATGGAAACTATGAGAGAAGGAATT
1 GTTTGCTATCATGGAAACTATGAGAGAAGGAATT
237710 GTTTGCTATCATGGAAACTATGAGAGAAGGAA
1 GTTTGCTATCATGGAAACTATGAGAGAAGGAA
237742 GTTCTATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (34 bp):
GTTTGCTATCATGGAAACTATGAGAGAAGGAATT
Found at i:242068 original size:30 final size:30
Alignment explanation
Indices: 241999--242077 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
241989 ATTAGCAAAT
*
241999 AATTTTAAAATTATTAAAATTATTTTTTTG
1 AATTTTAAAATTATTAAAATTATTTTATTG
* *
242029 AAATATAAAATTATTAAAATT-TTTATATT-
1 AATTTTAAAATTATTAAAATTATTT-TATTG
*
242058 ATATTTTAAAA-TATAAAAAT
1 A-ATTTTAAAATTATTAAAAT
242078 ATTAAAATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 12 0.29
30 29 0.71
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
AATTTTAAAATTATTAAAATTATTTTATTG
Found at i:243200 original size:30 final size:31
Alignment explanation
Indices: 243166--243237 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
243156 GTTACATTTA
* *
243166 ACAAAACAATCACTCAACTT-T-GAAAATGTG
1 ACAAAACAATCACTAAACTTATCGAAAA-CTG
* *
243196 ACAAAACAGTCACTAAAGTTATCGAAAACTG
1 ACAAAACAATCACTAAACTTATCGAAAACTG
243227 ACAAAACAATC
1 ACAAAACAATC
243238 CTCTTGGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 17 0.49
31 13 0.37
32 5 0.14
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (31 bp):
ACAAAACAATCACTAAACTTATCGAAAACTG
Found at i:244054 original size:30 final size:29
Alignment explanation
Indices: 244012--244087 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
244002 ATAGTAAGTA
*
244012 GAGGATTGTTTTGTTAC-TTTTCGATAACTT
1 GAGGACTGTTTTGTTACATTTTC-A-AACTT
* * *
244042 TAGGACTGTTTTGTCACATTTTCAAAGTT
1 GAGGACTGTTTTGTTACATTTTCAAACTT
244071 GAGTGACTGTTTTGTTA
1 GAG-GACTGTTTTGTTA
244088 AATGTAACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 6 0.16
30 27 0.71
31 5 0.13
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
GAGGACTGTTTTGTTACATTTTCAAACTT
Found at i:244364 original size:38 final size:39
Alignment explanation
Indices: 244322--244405 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 39
244312 GTAACATTCT
244322 ATTTTAATAATTTTATATTTCAAAAAAATAATAT-AATA
1 ATTTTAATAATTTTATATTTCAAAAAAATAATATAAATA
* ** * * *
244360 ATTTTAGTGTTTTTTTATTTCAAAAAATTAATTTAAATA
1 ATTTTAATAATTTTATATTTCAAAAAAATAATATAAATA
244399 ATTTTAA
1 ATTTTAA
244406 AATCACTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 28 0.74
39 10 0.26
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (39 bp):
ATTTTAATAATTTTATATTTCAAAAAAATAATATAAATA
Found at i:247593 original size:12 final size:12
Alignment explanation
Indices: 247576--247601 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
247566 TGGAGAAAGA
247576 ATACGTATATGT
1 ATACGTATATGT
247588 ATACGTATATGT
1 ATACGTATATGT
247600 AT
1 AT
247602 GTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATACGTATATGT
Found at i:252686 original size:21 final size:23
Alignment explanation
Indices: 252654--252708 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
252644 GATGCGTGGG
*
252654 AGAGG-AGCAAGAAG-AAGCTGA-
1 AGAGGAAG-AAGAAGTAAGATGAC
252675 AGAGGAAGAAG-AGTAAGATGAC
1 AGAGGAAGAAGAAGTAAGATGAC
252697 A-AGGAAGAAGAA
1 AGAGGAAGAAGAA
252709 CAAGAAGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.07
21 23 0.79
22 4 0.14
ACGTcount: A:0.53, C:0.05, G:0.36, T:0.05
Consensus pattern (23 bp):
AGAGGAAGAAGAAGTAAGATGAC
Found at i:255131 original size:38 final size:38
Alignment explanation
Indices: 255059--255131 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
255049 AGCATGTAGG
* *
255059 CCATTTTAATGGTGTCGCTCCGAAGAGCCTATAGATAA
1 CCATTTTAATGGTGTCGCTCCGAAGAGACAATAGATAA
* *
255097 CCATTTTCATGGTTTCGCTCCGAAGAGACAATAGA
1 CCATTTTAATGGTGTCGCTCCGAAGAGACAATAGA
255132 CTATCTCCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (38 bp):
CCATTTTAATGGTGTCGCTCCGAAGAGACAATAGATAA
Found at i:256392 original size:2 final size:2
Alignment explanation
Indices: 256385--256409 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
256375 ACATACATAC
256385 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
256410 AGCTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:261738 original size:3 final size:3
Alignment explanation
Indices: 261730--261754 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
261720 TTAAGAGATA
261730 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
261755 TATTATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:266857 original size:18 final size:19
Alignment explanation
Indices: 266834--266870 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
266824 TTAAATAAAT
266834 TGTTTTT-TTAAAGAAAAA
1 TGTTTTTCTTAAAGAAAAA
*
266852 TGTTTTTCTTAAATAAAAA
1 TGTTTTTCTTAAAGAAAAA
266871 ATTGACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (19 bp):
TGTTTTTCTTAAAGAAAAA
Found at i:270576 original size:5 final size:5
Alignment explanation
Indices: 270566--270600 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
270556 TTTAGGGGGA
*
270566 AAAAG AAAAG AAAAG AACAG AAAAG AAAA- AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
270601 TGATGATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:285107 original size:3 final size:3
Alignment explanation
Indices: 285099--285153 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
285089 AGTAATAGTT
285099 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
285147 TTA TTA T
1 TTA TTA T
285154 GCAACATATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:285544 original size:6 final size:6
Alignment explanation
Indices: 285535--285625 Score: 57
Period size: 6 Copynumber: 15.7 Consensus size: 6
285525 TGAATTTATT
* * * * * *
285535 TTTAAA TTTAAA TAT-AT TTTAAG TTGAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
285581 CTTAAA TTT-AA TTTAAG TTTAAA TTT--A TTATCAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTA
285626 TCCTAAATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
4 3 0.05
5 13 0.20
6 45 0.69
7 1 0.02
8 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:285556 original size:17 final size:17
Alignment explanation
Indices: 285506--285640 Score: 90
Period size: 17 Copynumber: 7.5 Consensus size: 17
285496 TCTATTTTGT
* * *
285506 TTTAGATTTATCTTAAG
1 TTTAAATTTATTTTAAA
*
285523 TTTGAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
285541 TTTAAATATATTTTAAGTTGAA
1 TTTAAATTTATTTT-A----AA
285563 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
* * *
285581 CTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
285598 TTTAAATTTATTATCAAA
1 TTTAAATTTATT-TTAAA
**
285616 TTTAAATTTATCCTAAA
1 TTTAAATTTATTTTAAA
*
285633 TATAAATT
1 TTTAAATT
285641 AATAAAGTCT
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
17 46 0.50
18 30 0.33
22 3 0.03
23 13 0.14
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:285579 original size:34 final size:34
Alignment explanation
Indices: 285552--285625 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
285542 TTAAATATAT
285552 TTTAAGTTGAAGTTTAAATTTATTTTAAACTTAAA
1 TTTAA-TTGAAGTTTAAATTTATTTTAAACTTAAA
* * *
285587 TTTAATTTAAGTTTAAATTTATTATCAAATTTAAA
1 TTTAATTGAAGTTTAAATTTATT-TTAAACTTAAA
285622 TTTA
1 TTTA
285626 TCCTAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 17 0.49
35 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (34 bp):
TTTAATTGAAGTTTAAATTTATTTTAAACTTAAA
Done.