Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, 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: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 17
Found at i:6517 original size:29 final size:28
Alignment explanation
Indices: 6457--6546 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
6447 ACCGTTGACC
* ** *
6457 GGTGCTATTTGGGAATTAATTCGATTTT
1 GGTGCTATTTGGGAATTAATTCAAAATG
6485 GGTGCTATTATGGGAATTAATTCAAAATG
1 GGTGCTATT-TGGGAATTAATTCAAAATG
* * *
6514 GGTGCTATTTTTGTAATTAATTCGAAAAGG
1 GGTGCTA-TTTGGGAATTAATTC-AAAATG
6544 GGT
1 GGT
6547 TATTTCTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.17
29 33 0.63
30 10 0.19
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (28 bp):
GGTGCTATTTGGGAATTAATTCAAAATG
Found at i:6556 original size:28 final size:29
Alignment explanation
Indices: 6499--6557 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
6489 CTATTATGGG
*
6499 AATTAATTCAAAATGGGTGCTATTTTTGT
1 AATTAATTCAAAATGGGTGCTATTTCTGT
*
6528 AATTAATTCGAAAA-GGG-GTTATTTCTGT
1 AATTAATTC-AAAATGGGTGCTATTTCTGT
6556 AA
1 AA
6558 AATGGTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (29 bp):
AATTAATTCAAAATGGGTGCTATTTCTGT
Found at i:9676 original size:31 final size:31
Alignment explanation
Indices: 9638--9700 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
9628 CCCAAGAGTT
*
9638 TGGGAGTTCCTAGTGAGAATGACATGTTGAA
1 TGGGAGTTCCTAGTGAGAATGACATATTGAA
9669 TGGGAGTTCCTAGTGAGAATGACATATTGAA
1 TGGGAGTTCCTAGTGAGAATGACATATTGAA
9700 T
1 T
9701 TCACTGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (31 bp):
TGGGAGTTCCTAGTGAGAATGACATATTGAA
Found at i:10332 original size:35 final size:36
Alignment explanation
Indices: 10265--10344 Score: 117
Period size: 35 Copynumber: 2.2 Consensus size: 36
10255 TCAGTTGACT
* *
10265 ATTGGAATTAATGTTCAAATTAGGTATTTCCACTAGC
1 ATTGGAA-AAATGCTCAAATTAGGTATTTCCACTAGC
*
10302 ATTGGAAAAATGCTCAAGTTAGGT-TTTCCACTAGC
1 ATTGGAAAAATGCTCAAATTAGGTATTTCCACTAGC
10337 ATTGGAAA
1 ATTGGAAA
10345 TGACTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 19 0.47
36 14 0.35
37 7 0.17
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (36 bp):
ATTGGAAAAATGCTCAAATTAGGTATTTCCACTAGC
Found at i:12211 original size:18 final size:18
Alignment explanation
Indices: 12188--12224 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12178 CAACTTTTAA
12188 CAGTGTTCCTACCAACTT
1 CAGTGTTCCTACCAACTT
12206 CAGTGTTCCTACCAACTT
1 CAGTGTTCCTACCAACTT
12224 C
1 C
12225 CCGATACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.35, G:0.11, T:0.32
Consensus pattern (18 bp):
CAGTGTTCCTACCAACTT
Found at i:12452 original size:18 final size:18
Alignment explanation
Indices: 12431--12483 Score: 74
Period size: 16 Copynumber: 3.1 Consensus size: 18
12421 TGTTTAGAGT
*
12431 GCTTTATTTAAATGATTG
1 GCTTAATTTAAATGATTG
*
12449 GCTTAATTT-AA-GATAG
1 GCTTAATTTAAATGATTG
12465 GCTTAATTTAAATGATTG
1 GCTTAATTTAAATGATTG
12483 G
1 G
12484 GTTACGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 13 0.43
17 4 0.13
18 13 0.43
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (18 bp):
GCTTAATTTAAATGATTG
Found at i:19119 original size:23 final size:23
Alignment explanation
Indices: 19092--19138 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
19082 AGAGCAGAAG
*
19092 AAAAAAATGTGTCACAAAAACAT
1 AAAAAAATGTATCACAAAAACAT
* *
19115 AAAAAAGTGTATCACAAAGACAT
1 AAAAAAATGTATCACAAAAACAT
19138 A
1 A
19139 GATTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.17
Consensus pattern (23 bp):
AAAAAAATGTATCACAAAAACAT
Found at i:19696 original size:33 final size:33
Alignment explanation
Indices: 19594--19697 Score: 79
Period size: 33 Copynumber: 3.1 Consensus size: 33
19584 CTCATAAATG
*
19594 AACTAATAATGAACTTATTTGTAAATATATATATA
1 AACTAATAATGAACTTATTCGT-AA-ATATATATA
* * ** *
19629 AACCAA-ATAT-ATCTCTATTCAG-ATTTATAAATA
1 AACTAATA-ATGAACT-TATTC-GTAAATATATATA
*
19662 AACTAATAATGAGCTTATTCGTAAATATATATA
1 AACTAATAATGAACTTATTCGTAAATATATATA
19695 AAC
1 AAC
19698 CGAATATATC
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
32 1 0.02
33 30 0.58
34 9 0.17
35 11 0.21
36 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.37
Consensus pattern (33 bp):
AACTAATAATGAACTTATTCGTAAATATATATA
Found at i:19704 original size:66 final size:68
Alignment explanation
Indices: 19587--19715 Score: 199
Period size: 66 Copynumber: 1.9 Consensus size: 68
19577 AAATGAGCTC
* * *
19587 ATAAATGAACTAATAATGAACTTATTTGTAAATATATATATAAACCAAATATATCTCTATTCAGA
1 ATAAATAAACTAATAATGAACTTATTCGTAAATATATATATAAACCAAATATATCTATATTCAGA
19652 TTT
66 TTT
* *
19655 ATAAATAAACTAATAATGAGCTTATTCGT-AA-ATATATATAAACCGAATATATCTATATTCA
1 ATAAATAAACTAATAATGAACTTATTCGTAAATATATATATAAACCAAATATATCTATATTCA
19716 TGTTTATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 28 0.50
67 2 0.04
68 26 0.46
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (68 bp):
ATAAATAAACTAATAATGAACTTATTCGTAAATATATATATAAACCAAATATATCTATATTCAGA
TTT
Found at i:19714 original size:33 final size:32
Alignment explanation
Indices: 19620--19715 Score: 79
Period size: 33 Copynumber: 2.9 Consensus size: 32
19610 ATTTGTAAAT
*
19620 ATATATATAAACCAAATATATCTCTATTCAGAT
1 ATATATATAAACCAAATATATCT-TATTCAGAA
* * * *
19653 TTATAAATAAA-CTAATAATGAGCTTATTC-GTAA
1 ATATATATAAACCAAAT-AT-ATCTTATTCAG-AA
*
19686 ATATATATAAACCGAATATATCTATATTCA
1 ATATATATAAACCAAATATATCT-TATTCA
19716 TGTTTATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
32 8 0.17
33 33 0.69
34 7 0.15
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (32 bp):
ATATATATAAACCAAATATATCTTATTCAGAA
Found at i:27006 original size:36 final size:36
Alignment explanation
Indices: 26966--27044 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
26956 TTACAGTTAG
26966 GACATAAAAACAACAAATCATAA-ACAATACATTAAA
1 GACATAAAAACAACAAA-CATAACACAATACATTAAA
* * *
27002 GACATAAAAACAATAAACCTAACACAATACATTAAG
1 GACATAAAAACAACAAACATAACACAATACATTAAA
27038 GACATAA
1 GACATAA
27045 GCCTTCCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (36 bp):
GACATAAAAACAACAAACATAACACAATACATTAAA
Found at i:27739 original size:24 final size:23
Alignment explanation
Indices: 27690--27781 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 23
27680 TTTAAACAAA
*
27690 AAAAACCTAAATCACTTT-ACTCT
1 AAAAACCTAAATCATTTTAAC-CT
*
27713 AAAAACCATAAATCATTTTAACAT
1 AAAAACC-TAAATCATTTTAACCT
* *
27737 AAAAATC-ATAACCATTTTAACCT
1 AAAAACCTA-AATCATTTTAACCT
*
27760 AAAAAACCCAAATCA-TTTAACC
1 -AAAAACCTAAATCATTTTAACC
27782 CTAACCCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.02
23 26 0.46
24 27 0.47
25 3 0.05
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAACCTAAATCATTTTAACCT
Found at i:27740 original size:23 final size:23
Alignment explanation
Indices: 27712--27764 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
27702 CACTTTACTC
*
27712 TAAAAACCATAAATCATTTTAACA
1 TAAAAACCAT-AACCATTTTAACA
* *
27736 TAAAAATCATAACCATTTTAACC
1 TAAAAACCATAACCATTTTAACA
27759 TAAAAA
1 TAAAAA
27765 ACCCAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAACCATAACCATTTTAACA
Found at i:28094 original size:26 final size:28
Alignment explanation
Indices: 28039--28094 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
28029 TTTGGGTGAG
*
28039 TTTTAGATAAAATTTTTATAAAAATATA
1 TTTTAGATAAAAATTTTATAAAAATATA
28067 TTTTA-ATAAAAATTTTA-AAAAATATA
1 TTTTAGATAAAAATTTTATAAAAATATA
28093 TT
1 TT
28095 AAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 11 0.41
27 11 0.41
28 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTTAGATAAAAATTTTATAAAAATATA
Found at i:37020 original size:27 final size:27
Alignment explanation
Indices: 36990--37048 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
36980 CCACCACCAC
* *
36990 CATCATTTTGAACTTGAAACTCCATAG
1 CATCACTTTGAACTTGAAACTCCACAG
*
37017 CATCACTTTGAACTTGAAAGTCCACAG
1 CATCACTTTGAACTTGAAACTCCACAG
37044 CATCA
1 CATCA
37049 ATATCTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (27 bp):
CATCACTTTGAACTTGAAACTCCACAG
Found at i:37712 original size:19 final size:18
Alignment explanation
Indices: 37664--37718 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
37654 CATACAGAAC
*
37664 ATTAAAAA-ATAAAA-ACT
1 ATTAAAAATATAAAATA-A
37681 ATTAAAAATATAAAATAA
1 ATTAAAAATATAAAATAA
37699 ATTAAAAATCATAAAATAA
1 ATTAAAAAT-ATAAAATAA
37718 A
1 A
37719 AAATTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.24
18 15 0.44
19 11 0.32
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
ATTAAAAATATAAAATAA
Found at i:39155 original size:17 final size:17
Alignment explanation
Indices: 39129--39188 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
39119 CTGAACCGAT
39129 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
* *
39146 CCGACACGACCCGTTGG
1 CCGACCCGACCCGTTGA
*
39163 CTGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
39180 CCCGACCCG
1 -CCGACCCG
39189 GTGATATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 29 0.81
18 7 0.19
ACGTcount: A:0.17, C:0.47, G:0.25, T:0.12
Consensus pattern (17 bp):
CCGACCCGACCCGTTGA
Found at i:39182 original size:13 final size:13
Alignment explanation
Indices: 39164--39188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39154 ACCCGTTGGC
39164 TGACCCGACCCGT
1 TGACCCGACCCGT
39177 TGACCCGACCCG
1 TGACCCGACCCG
39189 GTGATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:39236 original size:29 final size:31
Alignment explanation
Indices: 39189--39325 Score: 132
Period size: 29 Copynumber: 4.7 Consensus size: 31
39179 ACCCGACCCG
*
39189 GTGATATTTTGGGAATTATTTTG-AAAAAA-
1 GTGACATTTTGGGAATTATTTTGAAAAAAAT
*
39218 GTGTCATTTTGGGAATTATTTTGAAAAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAAAT
39249 GTGACATTTTGGGAA-T-TTTT-AAAAAACAT
1 GTGACATTTTGGGAATTATTTTGAAAAAA-AT
* * *
39278 -TGACA-TTAGGTAATTATTTT---TAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAAAT
*
39304 GATGACATTCTGGGAATTATTT
1 G-TGACATTTTGGGAATTATTT
39326 GTAAAATGAT
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.02
27 9 0.10
28 17 0.19
29 42 0.46
30 7 0.08
31 14 0.15
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (31 bp):
GTGACATTTTGGGAATTATTTTGAAAAAAAT
Found at i:39292 original size:27 final size:28
Alignment explanation
Indices: 39235--39292 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
39225 TTTGGGAATT
*
39235 ATTTTGAAAAAAATGTGACATTTTGGGA
1 ATTTTGAAAAAAATGTGACATTTAGGGA
* *
39263 ATTTTTAAAAAACAT-TGACA-TTAGGTA
1 ATTTTGAAAAAA-ATGTGACATTTAGGGA
39290 ATT
1 ATT
39293 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 8 0.31
28 16 0.62
29 2 0.08
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (28 bp):
ATTTTGAAAAAAATGTGACATTTAGGGA
Found at i:39330 original size:29 final size:29
Alignment explanation
Indices: 39194--39343 Score: 121
Period size: 29 Copynumber: 5.2 Consensus size: 29
39184 ACCCGGTGAT
* *
39194 ATTTTGGGAATTATTTTGAAAAAAG-TGTC
1 ATTTTGGGAATTA-TTTGAAAAATGATGAC
39223 ATTTTGGGAATTATTTTGAAAAAAATG-TGAC
1 ATTTTGGGAATTA-TTTG--AAAAATGATGAC
**
39254 ATTTTGGGAATT-TTT-AAAAAACATTGAC
1 ATTTTGGGAATTATTTGAAAAATGA-TGAC
* * **
39282 A-TTAGGTAATTATTTTTAAAATGATGAC
1 ATTTTGGGAATTATTTGAAAAATGATGAC
* * *
39310 ATTCTGGGAATTATTTGTAAAATGATGAT
1 ATTTTGGGAATTATTTGAAAAATGATGAC
39339 ATTTT
1 ATTTT
39344 AGTAGTTGTT
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
26 5 0.05
27 8 0.08
28 13 0.13
29 52 0.53
31 21 0.21
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (29 bp):
ATTTTGGGAATTATTTGAAAAATGATGAC
Found at i:42791 original size:19 final size:19
Alignment explanation
Indices: 42767--42835 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
42757 AGAATATCCA
42767 GGGGGTA-CAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
42786 GGGGGTATCGATTCCCC--
1 GGGGGTATCGATTCCCCTG
*
42803 --GGG-AACAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
42820 GGGGGTATCGATTCCC
1 GGGGGTATCGATTCCC
42836 TTCTAAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
14 2 0.05
15 11 0.27
19 25 0.61
20 3 0.07
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.22
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:43823 original size:31 final size:31
Alignment explanation
Indices: 43785--44002 Score: 384
Period size: 31 Copynumber: 7.0 Consensus size: 31
43775 AGGGTCGAGG
43785 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
43816 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
43847 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
43878 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
43909 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
43940 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
43971 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
44002 G
1 G
44003 GTCCTTCAGG
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 180 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:44508 original size:21 final size:21
Alignment explanation
Indices: 44483--44525 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
44473 AAAGAATATA
44483 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
44504 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
44525 T
1 T
44526 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:46494 original size:19 final size:19
Alignment explanation
Indices: 46470--46506 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
46460 CAGAATGTCC
46470 AGGGGGTA-CAGATTCCCCT
1 AGGGGGTATC-GATTCCCCT
46489 AGGGGGTATCGATTCCCC
1 AGGGGGTATCGATTCCCC
46507 GGAACAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.22
Consensus pattern (19 bp):
AGGGGGTATCGATTCCCCT
Found at i:46531 original size:32 final size:33
Alignment explanation
Indices: 46477--46538 Score: 117
Period size: 32 Copynumber: 1.9 Consensus size: 33
46467 TCCAGGGGGT
46477 ACAGATTCCCCTAGGGGGTATCGATTCCCCGGA
1 ACAGATTCCCCTAGGGGGTATCGATTCCCCGGA
46510 ACAGATTCCCCT-GGGGGTATCGATTCCCC
1 ACAGATTCCCCTAGGGGGTATCGATTCCCC
46539 CCTAAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (33 bp):
ACAGATTCCCCTAGGGGGTATCGATTCCCCGGA
Found at i:47530 original size:31 final size:31
Alignment explanation
Indices: 47492--47631 Score: 217
Period size: 31 Copynumber: 4.5 Consensus size: 31
47482 AGGGTCGAGG
47492 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
*
47523 GTTTACCTATGTTCTTCAAGACATATGGACT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
* *
47554 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
*
47585 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
* * *
47616 GATTACGTAGGTTCTT
1 GTTTACCTATGTTCTT
47632 TGGAATCTAT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGAGACATATGGACT
Found at i:47643 original size:62 final size:62
Alignment explanation
Indices: 47494--47647 Score: 195
Period size: 62 Copynumber: 2.5 Consensus size: 62
47484 GGTCGAGGGT
* *
47494 TTACCTATGTTCTTC-GAGACATATGGACTGTTTACCTATGTTCTTCAAGACATATGGACTGT
1 TTACCTAGGTTCTTCGGA-ACATATGGACTGTTTACCTATGTTCTTCAAGACATATGGACTGA
* * * **
47556 TTACCTATGTTCTTCGGGACATATGGATTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTAGGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCAAGACATATGGACTGA
* *
47618 TTACGTAGGTTCTTTGGAATC-TATGGACTG
1 TTACCTAGGTTCTTCGGAA-CATATGGACTG
47648 GTTCTTCGAG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
62 78 0.98
63 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (62 bp):
TTACCTAGGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCAAGACATATGGACTGA
Found at i:48153 original size:21 final size:21
Alignment explanation
Indices: 48128--48170 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48118 AAAGAATATA
48128 TTGTATAA-GATCTGAATAATT
1 TTGTA-AATGATCTGAATAATT
* *
48149 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGATCTGAATAATT
48170 T
1 T
48171 AAATTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGATCTGAATAATT
Found at i:53000 original size:13 final size:13
Alignment explanation
Indices: 52982--53007 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52972 TGGTCTGACC
52982 TGACCCGACCCGA
1 TGACCCGACCCGA
52995 TGACCCGACCCGA
1 TGACCCGACCCGA
53008 CCCGGTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (13 bp):
TGACCCGACCCGA
Found at i:53004 original size:18 final size:18
Alignment explanation
Indices: 52977--53011 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52967 CGAACTGGTC
*
52977 TGACCTGACCCGACCCGA
1 TGACCCGACCCGACCCGA
52995 TGACCCGACCCGACCCG
1 TGACCCGACCCGACCCG
53012 GTGATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.49, G:0.23, T:0.09
Consensus pattern (18 bp):
TGACCCGACCCGACCCGA
Found at i:53115 original size:57 final size:57
Alignment explanation
Indices: 53011--53146 Score: 177
Period size: 56 Copynumber: 2.4 Consensus size: 57
53001 GACCCGACCC
* *
53011 GGTGATATTTTGGGAATTATTTTAAAAAATGTGACATTTTGGGAATTATTTTGAAAAA
1 GGTGACATTTTGGGAATTATTTTAAAAAATGTGACATTCTGGGAATTATTTT-AAAAA
* * *
53069 GGTGACATTTTGGGAATT-TTTT-AAAAATAGTGACGTTCTGGTAATTATTTTTAAAA
1 GGTGACATTTTGGGAATTATTTTAAAAAAT-GTGACATTCTGGGAATTATTTTAAAAA
* *
53125 GATAACATTTTGGGAATTATTT
1 GGTGACATTTTGGGAATTATTT
53147 GTTTAACGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 26 0.38
57 26 0.38
58 17 0.25
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.43
Consensus pattern (57 bp):
GGTGACATTTTGGGAATTATTTTAAAAAATGTGACATTCTGGGAATTATTTTAAAAA
Found at i:53201 original size:30 final size:29
Alignment explanation
Indices: 53011--53194 Score: 169
Period size: 29 Copynumber: 6.4 Consensus size: 29
53001 GACCCGACCC
* *
53011 GGTGATATTTTGGGAATTATTTTAAAAAA
1 GGTGACATTTTGGGAATTATTTTTAAAAA
* *
53040 TGTGACATTTTGGGAATTATTTTGAAAAA
1 GGTGACATTTTGGGAATTATTTTTAAAAA
53069 GGTGACATTTTGGGAA-T-TTTTTAAAAA
1 GGTGACATTTTGGGAATTATTTTTAAAAA
* * * *
53096 TAGTGACGTTCTGGTAATTATTTTT-AAAA
1 -GGTGACATTTTGGGAATTATTTTTAAAAA
* * * *
53125 GATAACATTTTGGGAATTATTTGTT-TAAC
1 GGTGACATTTTGGGAATTATTT-TTAAAAA
* * *
53154 GGTGATAATTTGGTAATTATTTTTAATAAA
1 GGTGACATTTTGGGAATTATTTTTAA-AAA
*
53184 GGTGATATTTT
1 GGTGACATTTT
53195 TGTAATTTTC
Statistics
Matches: 124, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
27 9 0.07
28 31 0.25
29 67 0.54
30 17 0.14
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (29 bp):
GGTGACATTTTGGGAATTATTTTTAAAAA
Found at i:59509 original size:3 final size:3
Alignment explanation
Indices: 59501--59562 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
59491 TTTTTTGTTT
** *
59501 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
59547 -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
59563 TACAAACAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:59541 original size:13 final size:14
Alignment explanation
Indices: 59505--59561 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
59495 TTGTTTTTAT
*
59505 TATTATTATTAAAA
1 TATTATTATTATAA
59519 TTATTATTATTATTAAA
1 -TATTATTATTA-T-AA
*
59536 TATTATTATTATAT
1 TATTATTATTATAA
*
59550 TATAATTATTAT
1 TATTATTATTAT
59562 TTACAAACAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.32
15 12 0.32
16 11 0.30
17 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTATTATAA
Found at i:59605 original size:26 final size:26
Alignment explanation
Indices: 59569--59623 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
59559 TATTTACAAA
*
59569 CAGTTACAAACAAAACT-GGACCGGCC
1 CAGTTACAAACAAAA-TAGAACCGGCC
59595 CAGTTACAAACAAAATAGAACCGGCC
1 CAGTTACAAACAAAATAGAACCGGCC
59621 CAG
1 CAG
59624 ACCAACCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (26 bp):
CAGTTACAAACAAAATAGAACCGGCC
Found at i:61749 original size:17 final size:18
Alignment explanation
Indices: 61715--61757 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
61705 TTTTCTTTCA
* *
61715 ATTTTTTTATTACTTATT
1 ATTTTTATATTACATATT
61733 ATTTTTATATTA-ATATT
1 ATTTTTATATTACATATT
*
61750 TTTTTTAT
1 ATTTTTAT
61758 TCAGGTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTATATTACATATT
Found at i:68082 original size:93 final size:94
Alignment explanation
Indices: 67932--68128 Score: 326
Period size: 93 Copynumber: 2.1 Consensus size: 94
67922 CAAGATAAGT
*
67932 GTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-AA
1 GTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGAA
* *
67996 -AACCCCATCATTGGATTTGAAAGATGAAA
66 GAA-CCAATCATTGAATTTGAAAGATGAAA
68025 GTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGAA
1 GTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGAA
*
68090 GAACCAATCATTGAATTTGAAAGATGAAT
66 GAACCAATCATTGAATTTGAAAGATGAAA
*
68119 GTGCTTATAG
1 GTGCTCATAG
68129 TACAAATAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
93 61 0.63
94 34 0.35
95 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (94 bp):
GTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGAA
GAACCAATCATTGAATTTGAAAGATGAAA
Found at i:68385 original size:210 final size:209
Alignment explanation
Indices: 67938--68441 Score: 761
Period size: 210 Copynumber: 2.4 Consensus size: 209
67928 AAGTGTGCTC
67938 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-A-AACCC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCACAGAA-CC
* * *
68001 CATCATTGGATTTGAAAGATGAAAGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTG
65 AATCATTGAATTTAAAAGATGAAAGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTG
* * * *
68066 ATCTGGTTTGGTATGAACCCCGAAGAACCAATCATTGAATTTGAAAGATGAATGTGCTTATAGTA
130 ATCTGGTTTGGTATGAACCAC-AAGAACCAACCATTGAATTTGAAAGATGAATGTGATCATAGTA
68131 CAAATAAAGAGACCCA
194 CAAATAAAGAGACCCA
* *
68147 ATAGCATCTTCTGTAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTATGAACCCCGACAGAACC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-ACAGAACC
* * *
68212 AATCATTGAATTTAAAAGATGAATGTGCTCATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTG
65 AATCATTGAATTTAAAAGATGAAAGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTG
68277 ATCTGGTTTGGTATGAAACCAC-AGAACCAACCATTGAATTTGAAAGATGAATGTGATCATAGTA
130 ATCTGGTTTGGTATG-AACCACAAGAACCAACCATTGAATTTGAAAGATGAATGTGATCATAGTA
*
68341 GAAAT-AAGAAGACCCA
194 CAAATAAAG-AGACCCA
* *
68357 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGGAGGAA--CCACAGAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCACAGAACCA
*
68420 ATCATTGGAA-TTAAAAGTTGAA
66 ATCATT-GAATTTAAAAGATGAA
68442 CTGCATGATC
Statistics
Matches: 271, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
207 26 0.10
208 5 0.02
209 57 0.21
210 99 0.37
211 77 0.28
212 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (209 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCACAGAACCA
ATCATTGAATTTAAAAGATGAAAGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGA
TCTGGTTTGGTATGAACCACAAGAACCAACCATTGAATTTGAAAGATGAATGTGATCATAGTACA
AATAAAGAGACCCA
Found at i:69536 original size:76 final size:76
Alignment explanation
Indices: 69388--69564 Score: 198
Period size: 76 Copynumber: 2.3 Consensus size: 76
69378 TAACAAGAAA
* * * * *
69388 CAAATGTTGGGGCATGCTGAAA-ACCCTTGTCAATCAGAATCAGGAATGTTGATGAATCCTGAAT
1 CAAATATTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGAATCCTGAAC
* *
69452 GTTTATATCAG
66 GCTCATATCAG
* * **
69463 CAAA-ATGCTAGGGCATGCTGAAAGCCCCTT-TCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 CAAATAT--TAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGAATCCTGA
69526 ACGCTCATATCAG
64 ACGCTCATATCAG
* *
69539 CAAATATTGGGGCATGCTGAAGGCCC
1 CAAATATTAGGGCATGCTGAAAGCCC
69565 ACAACATCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
74 1 0.01
75 21 0.25
76 56 0.66
77 7 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (76 bp):
CAAATATTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGAATCCTGAAC
GCTCATATCAG
Found at i:70554 original size:59 final size:59
Alignment explanation
Indices: 70442--70594 Score: 206
Period size: 59 Copynumber: 2.6 Consensus size: 59
70432 AGAAATCTTG
* *
70442 GCAGAAGTCACAGAAAAGGATGAA--TG-TGTCAAATGCTTCCTTGACCAATAATCCGA
1 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGA
*
70498 GCAGAAGCCACAGAAAAGGATAAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGA
1 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGA
* * * *
70557 GTAGAAACCATAGGAAAA-GATGAATGTATTGTCAAATG
1 GCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAATG
70595 TTTTACGAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
56 22 0.26
58 2 0.02
59 56 0.66
60 5 0.06
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (59 bp):
GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGA
Found at i:70993 original size:22 final size:22
Alignment explanation
Indices: 70964--71018 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
70954 ATCTACACTC
*
70964 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTATT
*
70986 TTTAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
71008 TTCAAAGATGA
1 TTCAAAGATGA
71019 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTATT
Found at i:71823 original size:76 final size:76
Alignment explanation
Indices: 71697--72195 Score: 860
Period size: 76 Copynumber: 6.6 Consensus size: 76
71687 CTATTTCCCA
* *
71697 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGCTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
71762 AGCCTTAGGGT
66 AGCCTTAGGGT
71773 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
71838 AGCCTTAGGGT
66 AGCCTTAGGGT
*
71849 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
71914 A-CCTTCGGGT
66 AGCCTTAGGGT
71924 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
71989 AGCCTTAGGGT
66 AGCCTTAGGGT
*
72000 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
72065 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
72076 CATCTGTAAGCCCTTCAGTGCATGCTGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
72141 AGCCTTCGGGT
66 AGCCTTAGGGT
* * *
72152 CATCTGTAAGACCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
72196 TCATCCGTAA
Statistics
Matches: 407, Mismatches: 15, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
74 12 0.03
75 73 0.18
76 322 0.79
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:72097 original size:227 final size:228
Alignment explanation
Indices: 71697--72195 Score: 878
Period size: 227 Copynumber: 2.2 Consensus size: 228
71687 CTATTTCCCA
*
71697 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGCTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTTCAA
*
71762 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
*
71827 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
71892 GGGAGTTTTTTGATGTTTTCAAA-CCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
71924 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTTCAA
71989 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
* * *
72054 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGCTGTTTTCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
72119 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* * *
72152 CATCTGTAAGACCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
72196 TCATCCGTAA
Statistics
Matches: 260, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
226 12 0.05
227 210 0.81
228 38 0.15
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (228 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:72182 original size:45 final size:45
Alignment explanation
Indices: 72129--72242 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
72119 GGGAGCTTTT
*
72129 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCT-TCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGACCTGT-AGTGCA
*
72174 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGTAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGACCTGTAGTGCA
* *
72219 GGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
72243 AGCTTTTTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
45 49 0.79
46 1 0.02
47 12 0.19
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGACCTGTAGTGCA
Found at i:72187 original size:121 final size:120
Alignment explanation
Indices: 72053--72306 Score: 411
Period size: 121 Copynumber: 2.1 Consensus size: 120
72043 AGGAGCTTTT
* * * *
72053 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCT-TCAGTGCATGCTGTTTTCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTGT-AGTGCAGGATGTTTCCAAAAAGCCT
*
72117 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTTCAGTGCA
65 TCGGGAGCTTTTTGATGTTTTCAAA-CCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
72174 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGTAGTGCAGGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTGTAGTGCAGGATGTTTCCAAAAAGCCTT
*
72239 CGGGAGCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
72294 TGATGTTTCCAAA
1 TGATGTTTTCAAA
72307 AAGCCTTCGG
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 41 0.33
121 82 0.66
122 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (120 bp):
TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTGTAGTGCAGGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:72299 original size:75 final size:75
Alignment explanation
Indices: 72174--72377 Score: 336
Period size: 75 Copynumber: 2.7 Consensus size: 75
72164 CTTCAGTGCA
* * * *
72174 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGTAGTGCAGGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAA-CCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
72239 CGGGAGCTTTT
65 CGGGAGCTTTT
*
72250 TGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
1 TGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
72315 GGGAGCTTTT
66 GGGAGCTTTT
*
72325 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
1 TGATGTTTTC-AAACCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
72378 TTAAGACCTC
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
75 67 0.56
76 53 0.44
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (75 bp):
TGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTT
Found at i:72353 original size:196 final size:197
Alignment explanation
Indices: 71977--72378 Score: 653
Period size: 196 Copynumber: 2.0 Consensus size: 197
71967 GGGAGCTTTT
* * *
71977 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
* * *
72042 CAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGCTGTTTT
66 CAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
* * *
72107 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTTCAGTG
131 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGACCTGCAGTG
72172 CA
196 CA
* **
72174 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGTAGTGCAGGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
* * *
72239 CGGGAGCTTTTTGATGTTTTCAAA-CCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTC
66 CAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
*
72303 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTG
131 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGACCTGCAGTG
72368 CA
196 CA
72370 TGATGTTTT
1 TGATGTTTT
72379 TAAGACCTCT
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
196 107 0.57
197 82 0.43
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (197 bp):
TGATGTTTTCAAAGCCTTAGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
CAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGACCTGCAGTG
CA
Found at i:72537 original size:3 final size:3
Alignment explanation
Indices: 72531--72601 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
72521 TTTCCATTTT
** *
72531 TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
72577 TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
72602 TACAAACAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:72645 original size:26 final size:26
Alignment explanation
Indices: 72608--72662 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
72598 TATTTACAAA
* * *
72608 CAGTTACTAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
72634 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
72660 CAG
1 CAG
72663 ACCAACTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.31, G:0.18, T:0.11
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:77485 original size:13 final size:13
Alignment explanation
Indices: 77467--77500 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77457 ATCATTATGA
* *
77467 AAAGAAAATGATG
1 AAAGAAAATAAAG
77480 AAAGAAAATAAAG
1 AAAGAAAATAAAG
77493 AAAGAAAA
1 AAAGAAAA
77501 CTGGAGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
AAAGAAAATAAAG
Found at i:83360 original size:20 final size:20
Alignment explanation
Indices: 83337--83386 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
83327 ATAGGTTCCA
83337 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATATGT
*
83357 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
*
83377 AAATCACAAC
1 AAATCGCAAC
83387 ACAGAAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:83408 original size:20 final size:20
Alignment explanation
Indices: 83383--83425 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
83373 TTGTAAATCA
83383 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
83403 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
83423 CAA
1 CAA
83426 AGCGTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.26, G:0.14, T:0.14
Consensus pattern (20 bp):
CAACACAGAAGTCAAATTCG
Found at i:83443 original size:19 final size:19
Alignment explanation
Indices: 83419--83460 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
83409 AGAAGTCAAA
83419 TTCGCAAAGCG-TGTTTATT
1 TTCGCAAAGCGAT-TTTATT
*
83438 TTCGCAACGCGATTTTATT
1 TTCGCAAAGCGATTTTATT
83457 TTCG
1 TTCG
83461 AATTCGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCAAAGCGATTTTATT
Found at i:84029 original size:19 final size:18
Alignment explanation
Indices: 84001--84036 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
83991 CGAAAATGAA
84001 ATTTGCGTTGCGATTTTC
1 ATTTGCGTTGCGATTTTC
84019 ATTTCGCGTTGCGATTTT
1 ATTT-GCGTTGCGATTTT
84037 AAGTTTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
ATTTGCGTTGCGATTTTC
Found at i:85789 original size:21 final size:22
Alignment explanation
Indices: 85699--85860 Score: 81
Period size: 21 Copynumber: 7.7 Consensus size: 22
85689 GTTAGGGGAG
**
85699 TTACGTGATGAGGT-CAATGCT
1 TTACGTGATGAGGTACGGTGCT
* *
85720 TTACGTGAGGAGGT-CGGTACT
1 TTACGTGATGAGGTACGGTGCT
** * *
85741 TTACGTGATGA-CAATGGTGCA
1 TTACGTGATGAGGTACGGTGCT
**
85762 TGGCGTGATGAGGTACGGT-CT
1 TTACGTGATGAGGTACGGTGCT
* *
85783 TTACGTGGTGAGGTA-GAG-GTT
1 TTACGTGATGAGGTACG-GTGCT
** *
85804 TTACGTGATGA-CAATGGTGCT
1 TTACGTGATGAGGTACGGTGCT
* *
85825 TTACGTGGTGAGGTATC--TACT
1 TTACGTGATGAGGTA-CGGTGCT
*
85846 TTACGTGGTGAGGTA
1 TTACGTGATGAGGTA
85861 GCCGCTCTAC
Statistics
Matches: 104, Mismatches: 29, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
20 3 0.03
21 96 0.92
22 5 0.05
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.32
Consensus pattern (22 bp):
TTACGTGATGAGGTACGGTGCT
Found at i:85837 original size:63 final size:63
Alignment explanation
Indices: 85740--85861 Score: 176
Period size: 63 Copynumber: 1.9 Consensus size: 63
85730 AGGTCGGTAC
*
85740 TTTACGTGATGACAATGGTGCATGGCGTGATGAGGTA-CGGT-CTTTACGTGGTGAGGTAGAGGT
1 TTTACGTGATGACAATGGTGCATGACGTGATGAGGTATC--TACTTTACGTGGTGAGGTAGAGGT
* * *
85803 TTTACGTGATGACAATGGTGCTTTACGTGGTGAGGTATCTACTTTACGTGGTGAGGTAG
1 TTTACGTGATGACAATGGTGCATGACGTGATGAGGTATCTACTTTACGTGGTGAGGTAG
85862 CCGCTCTACG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 1 0.02
63 51 0.96
64 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.35, T:0.33
Consensus pattern (63 bp):
TTTACGTGATGACAATGGTGCATGACGTGATGAGGTATCTACTTTACGTGGTGAGGTAGAGGT
Found at i:85871 original size:21 final size:21
Alignment explanation
Indices: 85826--85873 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
85816 AATGGTGCTT
* * *
85826 TACGTGGTGAGGTATCTACTT
1 TACGTGGTGAGGTAGCCACTC
*
85847 TACGTGGTGAGGTAGCCGCTC
1 TACGTGGTGAGGTAGCCACTC
85868 TACGTG
1 TACGTG
85874 AGATTGTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (21 bp):
TACGTGGTGAGGTAGCCACTC
Found at i:86208 original size:42 final size:42
Alignment explanation
Indices: 86156--86274 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
86146 GATTCACCTG
* *
86156 TCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGCCACTA
1 TCATCGTTCAAGAGGCCTCTCCCACCATTCAAGAGGCCACTA
* * * *
86198 TCATCCTTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCTCTCCCACCATTCAAGAGGCCACTA
*
86240 TCATCGTTCAAGAGGTCC-CTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGG-CCTCTCCCACCATTCAAGAG
86275 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 67 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCTCTCCCACCATTCAAGAGGCCACTA
Found at i:86247 original size:21 final size:21
Alignment explanation
Indices: 86157--86274 Score: 119
Period size: 21 Copynumber: 5.6 Consensus size: 21
86147 ATTCACCTGT
*
86157 CATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * * **
86178 TATCATTCAAGAGGCCACTAT
1 CATCGTTCAAGAGGCCCCTCC
* *
86199 CATCCTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
* **
86220 CACCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGCCCCTCC
*
86241 CATCGTTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
86262 CACCGTTCAAGAG
1 CATCGTTCAAGAG
86275 CCCGATTCAC
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.23
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:87987 original size:20 final size:20
Alignment explanation
Indices: 87964--88024 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
87954 ATCAAATTCT
*
87964 CGTTGCGATTTTGACTTTCG
1 CGTTGCGAATTTGACTTTCG
* *
87984 CGTTGTGAATTTGGCTTTCG
1 CGTTGCGAATTTGACTTTCG
* *
88004 TGTTGCGAATTTGTCTTTCG
1 CGTTGCGAATTTGACTTTCG
88024 C
1 C
88025 AACAATCACA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTCG
Found at i:88222 original size:20 final size:20
Alignment explanation
Indices: 88197--88309 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
88187 AAGAAGGTAC
*
88197 ACTTTCGCGTTGTAATTTTG
1 ACTTTCGCGTTGCAATTTTG
* *
88217 ACTTTCACGTTGCGATTTTG
1 ACTTTCGCGTTGCAATTTTG
** *
88237 ACTTTCTTGTTGCGAA-TTTA
1 ACTTTCGCGTTGC-AATTTTG
* *
88257 ATTTTCGCGTTGCGATTTTG
1 ACTTTCGCGTTGCAATTTTG
*
88277 ACTTTCACGTTGCAATTTTG
1 ACTTTCGCGTTGCAATTTTG
*
88297 ATTTTCGCGTTGC
1 ACTTTCGCGTTGC
88310 GAAAGTGTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.01
20 72 0.97
21 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.19, T:0.48
Consensus pattern (20 bp):
ACTTTCGCGTTGCAATTTTG
Found at i:88266 original size:60 final size:60
Alignment explanation
Indices: 88199--88312 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
88189 GAAGGTACAC
* * **
88199 TTTCGCGTTGTAATTTTGACTTTCACGTTGCGATTTTGACTTTCTTGTTGCGAATTTAAT
1 TTTCGCGTTGCAATTTTGACTTTCACGTTGCAATTTTGACTTTCGCGTTGCGAATTTAAT
* *
88259 TTTCGCGTTGCGATTTTGACTTTCACGTTGCAATTTTGATTTTCGCGTTGCGAA
1 TTTCGCGTTGCAATTTTGACTTTCACGTTGCAATTTTGACTTTCGCGTTGCGAA
88313 AGTGTACCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (60 bp):
TTTCGCGTTGCAATTTTGACTTTCACGTTGCAATTTTGACTTTCGCGTTGCGAATTTAAT
Found at i:88268 original size:40 final size:40
Alignment explanation
Indices: 88197--88311 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
88187 AAGAAGGTAC
* * * * *
88197 ACTTTCGCGTTGTAATTTTGACTTTCACGTTGCGATTTTG
1 ACTTTCACGTTGCAATTTTAATTTTCGCGTTGCGATTTTG
**
88237 ACTTTCTTGTTGCGAA-TTTAATTTTCGCGTTGCGATTTTG
1 ACTTTCACGTTGC-AATTTTAATTTTCGCGTTGCGATTTTG
*
88277 ACTTTCACGTTGCAATTTTGATTTTCGCGTTGCGA
1 ACTTTCACGTTGCAATTTTAATTTTCGCGTTGCGA
88312 AAGTGTACCT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 60 0.94
41 2 0.03
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (40 bp):
ACTTTCACGTTGCAATTTTAATTTTCGCGTTGCGATTTTG
Found at i:88634 original size:6 final size:6
Alignment explanation
Indices: 88623--88657 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
88613 TTGTGACTGG
*
88623 GATTTT GATTTT GATTTT GATTGT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
88658 CCTTTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (6 bp):
GATTTT
Found at i:91755 original size:16 final size:15
Alignment explanation
Indices: 91733--91771 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
91723 AGAATCATTG
91733 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
91749 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
91764 AAAAATTA
1 AAAAATTA
91772 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:91953 original size:20 final size:20
Alignment explanation
Indices: 91909--92017 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
91899 CAAAACATTT
* *
91909 GTGTTGCGAAAATAAAAGT-
1 GTGTTGCGAAATTAAAAATC
*
91928 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAAATC
91947 GTGTTGCG-AATTCAAAAATC
1 GTGTTGCGAAATT-AAAAATC
* * * *
91967 GAGTTGCGAAATCAAAATTT
1 GTGTTGCGAAATTAAAAATC
*
91987 GTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAAATC
*
92007 TTGTTGCGAAA
1 GTGTTGCGAAA
92018 AGGAAACTTG
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
18 16 0.23
19 7 0.10
20 43 0.61
21 4 0.06
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAAATC
Found at i:91978 original size:40 final size:40
Alignment explanation
Indices: 91929--92017 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
91919 AATAAAAGTT
*
91929 GTTGCGAAATTAAAATTCGTGTTGCGAATTCA-AAAATCGA
1 GTTGCGAAATCAAAATTCGTGTTGCG-ATTCAGAAAATCGA
* * **
91969 GTTGCGAAATCAAAATTTGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAATCAAAATTCGTGTTGCGATTCAGAAAATCGA
92009 GTTGCGAAA
1 GTTGCGAAA
92018 AGGAAACTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (40 bp):
GTTGCGAAATCAAAATTCGTGTTGCGATTCAGAAAATCGA
Found at i:92205 original size:21 final size:21
Alignment explanation
Indices: 92096--92200 Score: 176
Period size: 21 Copynumber: 5.0 Consensus size: 21
92086 CTATGTTACG
* *
92096 ATTTACAAATTCGCGTTGCGA
1 ATTTAGAAAATCGCGTTGCGA
92117 ATTTAGAAAATCGCGTTGCGA
1 ATTTAGAAAATCGCGTTGCGA
92138 ATTTAGAAAATCGCGTTGCGA
1 ATTTAGAAAATCGCGTTGCGA
92159 ATTTAGAAAATCGCGTTGCGA
1 ATTTAGAAAATCGCGTTGCGA
92180 ATTT-GAAAAATCGCGTTGCGA
1 ATTTAG-AAAATCGCGTTGCGA
92201 TTTTGGAACC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
20 1 0.01
21 80 0.99
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (21 bp):
ATTTAGAAAATCGCGTTGCGA
Found at i:98463 original size:4 final size:4
Alignment explanation
Indices: 98448--99141 Score: 1204
Period size: 4 Copynumber: 174.8 Consensus size: 4
98438 TATGTAACAA
98448 ATAC ATTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
98497 ATAC ATAT ATAT ATAT ATAC ATAC ATAT ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98545 AT-- ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98589 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
98637 ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATGC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
98685 ATAC AT-- ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C
98731 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98779 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98827 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98875 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98923 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98971 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
99019 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
99067 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
99115 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
99142 TATATATCAT
Statistics
Matches: 669, Mismatches: 12, Indels: 18
0.96 0.02 0.03
Matches are distributed among these distances:
2 4 0.01
3 9 0.01
4 649 0.97
5 7 0.01
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:99535 original size:18 final size:18
Alignment explanation
Indices: 99512--99546 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
99502 ACTGAATATT
99512 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
99530 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
99547 GATTGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:99579 original size:20 final size:20
Alignment explanation
Indices: 99510--99587 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
99500 GCACTGAATA
99510 TTTGTCCCGAAGGACCAC--
1 TTTGTCCCGAAGGACCACTG
*
99528 TATGTCCCGAAGGACCACTG
1 TTTGTCCCGAAGGACCACTG
* ***
99548 ATTGTTTTGAAGGACCACTG
1 TTTGTCCCGAAGGACCACTG
*
99568 TTTATCCCGAAGGACCACTG
1 TTTGTCCCGAAGGACCACTG
99588 ATAATCCCTC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
18 17 0.36
20 30 0.64
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (20 bp):
TTTGTCCCGAAGGACCACTG
Found at i:104334 original size:23 final size:23
Alignment explanation
Indices: 104304--104349 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
104294 ATTGATTGAA
104304 TTTCTTTTGTTTG-CTGTTTTAG
1 TTTCTTTTGTTTGACTGTTTTAG
104326 TTTCTTTTTGTTTGATCTGTTTTA
1 TTTC-TTTTGTTTGA-CTGTTTTA
104350 ATTATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
25 8 0.38
ACGTcount: A:0.07, C:0.09, G:0.15, T:0.70
Consensus pattern (23 bp):
TTTCTTTTGTTTGACTGTTTTAG
Found at i:110441 original size:77 final size:76
Alignment explanation
Indices: 110320--110553 Score: 265
Period size: 77 Copynumber: 3.0 Consensus size: 76
110310 CCGGTTGTGT
*
110320 CTAATAATGTCATAGTTCACTAAGAAATAGGTTATGATTTGTAATGTAATATTTTTATTAATAAA
1 CTAATAATGTCATAGTTCACTAAGAAATAGGTTGTGATTTGTAATGTAATATTTTTATTAATAAA
110385 ATAGGTTACAC
66 ATAGGTTACAC
* * * * *
110396 CTAATATTGTTATTGTTCACTAAGAAAATAAGTTGTCATTTGTAATGTAATGTTAATATTTT-TT
1 CTAATAATGTCATAGTTCACTAAG-AAATAGGTTGTGATTTGTAATGTAA---T-AT-TTTTATT
*
110460 AATAAAATAGGTTACGTC
60 AATAAAATAGGTTAC-AC
* * * * *
110478 C-AAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGTTATGTTAATATTCTTATTAATAA
1 CTAATAATGTCATAGTTCACTAAGAAATAGGTTGTGATTTGTAATG-TAATATTTTTATTAATAA
*
110542 AATAGATTACAC
65 AATAGGTTACAC
110554 AAAAAAATTA
Statistics
Matches: 131, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
76 25 0.19
77 40 0.31
78 1 0.01
80 19 0.15
81 40 0.31
82 6 0.05
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (76 bp):
CTAATAATGTCATAGTTCACTAAGAAATAGGTTGTGATTTGTAATGTAATATTTTTATTAATAAA
ATAGGTTACAC
Found at i:110761 original size:73 final size:74
Alignment explanation
Indices: 110563--110771 Score: 194
Period size: 73 Copynumber: 2.9 Consensus size: 74
110553 CAAAAAAATT
* * *
110563 AAATTTTAAATATCGATACTTAATA-TATTAT-TATCGATACTTTTAAATATTGAAAAAGTTGA-
1 AAATTTAAAATATCGATACTTAA-ACGATAATGT-TCGATACTTTTAAATATTGAAAAAGTTGAT
* **
110625 ATATAAGATTG
64 ATAAAAGATCA
* * ** * * * *
110636 AAAGTTAAAATATCGATAATTATGCGGTAATGATT-GGTACTATTAAAAATTGAAAAAGTTGATA
1 AAATTTAAAATATCGATACTTAAACGATAATG-TTCGATACTTTTAAATATTGAAAAAGTTGATA
110700 -AAAAGATCA
65 TAAAAGATCA
* * * *
110709 AAATTTAAAATATCGATACTTAAACGATGATGTTCGATACTTTTAGATATTGAACACGTTGAT
1 AAATTTAAAATATCGATACTTAAACGATAATGTTCGATACTTTTAAATATTGAAAAAGTTGAT
110772 GAATATGACC
Statistics
Matches: 105, Mismatches: 26, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
72 2 0.02
73 100 0.95
74 2 0.02
75 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (74 bp):
AAATTTAAAATATCGATACTTAAACGATAATGTTCGATACTTTTAAATATTGAAAAAGTTGATAT
AAAAGATCA
Found at i:111165 original size:100 final size:99
Alignment explanation
Indices: 111056--111342 Score: 337
Period size: 100 Copynumber: 2.9 Consensus size: 99
111046 GGGTTATAAC
* * * *
111056 TACATTATCATGAAAAACCTATTTTATCTTACTTTTGCATAATATAAATGATTTCATAATTATAA
1 TACATTATCATGAAAAACATGTTTTGTCTTACTTTT-CATAATATAAATGATTTCATACTTATAA
*
111121 CTTAAAAGGTTAACATTAAAAAATGCGCTAGC-TAA
65 CTTAAAAGGTTGACATTAAAAAATGCGCTA-CTTAA
* *
111156 TACATTATCATGAATAACATGTTTTGTCTTACTTTTACATAATTTAAATGATTTCATACTTATAA
1 TACATTATCATGAAAAACATGTTTTGTCTTACTTTT-CATAATATAAATGATTTCATACTTATAA
* * ** *
111221 CTTAAACGGTTGATA-TAAAAAATGTTCTACTTAC
65 CTTAAAAGGTTGACATTAAAAAATGCGCTACTTAA
* * * * *
111255 TACATTATCATGAGAAATATGTTTTGTCTTACTTTTCTATTAA-ATAAAAGGTTTTATACTTATA
1 TACATTATCATGAAAAACATGTTTTGTCTTACTTTTC-A-TAATATAAATGATTTCATACTTATA
**
111319 ACTTAAAATATTGACATTAAAAAA
64 ACTTAAAAGGTTGACATTAAAAAA
111343 ACGTTGACTA
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
98 2 0.01
99 77 0.48
100 80 0.50
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (99 bp):
TACATTATCATGAAAAACATGTTTTGTCTTACTTTTCATAATATAAATGATTTCATACTTATAAC
TTAAAAGGTTGACATTAAAAAATGCGCTACTTAA
Found at i:111542 original size:71 final size:71
Alignment explanation
Indices: 111415--111570 Score: 192
Period size: 71 Copynumber: 2.2 Consensus size: 71
111405 TATTTATAAA
* * * * * *
111415 AAATTCGAAAGTGTCGATATTTATAGAAAAATATTGATACTTTACAGTTTTCTCA-TTTTCTATG
1 AAATTCGAAAGTATCAATATTTATAGAAAAATATTAATAATTTAAAGTCTTCTCATTTTTC-ATG
111479 TTTTCTTT
65 TTTT-TTT
*
111487 AAATTCGAAAGTATCAATATTT-TGGAAAAATATTAATAATTTAAAGTCTTCTCATTTTTCATGT
1 AAATTCGAAAGTATCAATATTTATAGAAAAATATTAATAATTTAAAGTCTTCTCATTTTTCATGT
111551 TTTTTT
66 TTTTTT
* *
111557 -AGTTTGAAAGTATC
1 AAATTCGAAAGTATC
111571 GGTACTTGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
69 12 0.16
70 3 0.04
71 34 0.46
72 25 0.34
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (71 bp):
AAATTCGAAAGTATCAATATTTATAGAAAAATATTAATAATTTAAAGTCTTCTCATTTTTCATGT
TTTTTT
Found at i:111895 original size:77 final size:77
Alignment explanation
Indices: 111762--112346 Score: 638
Period size: 77 Copynumber: 7.6 Consensus size: 77
111752 CAATATTTTG
* * * * * * * *
111762 TAATAAAAATATTAACATTTCATATCGCTACTTACTTTCTCAGTAAACCATAACATTCTTGGGTG
1 TAATAAAAATATTAACATTCCAGATCACAACTTA-TTTCTTAGTGAACCATGACATTCTTGGGCG
111827 CAACCCATTTTAT
65 CAACCCATTTTAT
* * * *
111840 TAATAAAAATATTAATATTCCAGATCACAACATT-TATCTTAGTGAACCATGACATTTTTGGACG
1 TAATAAAAATATTAACATTCCAGATCACAAC-TTATTTCTTAGTGAACCATGACATTCTTGGGCG
* * * *
111904 AAACTCGTTTCAT
65 CAACCCATTTTAT
* * *
111917 TAATAAAATTATTAACATTCTAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTAGGCGC
1 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
**
111982 AACTTATTTTAT
66 AACCCATTTTAT
* * * * * * * *
111994 TAATAAAAATATTAACATCCCATATCATAACTTATTTCTTAATGAACTATGACATTCTCGGGTGT
1 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
112059 AACCCATTTTAT
66 AACCCATTTTAT
* * * *
112071 TAATAAAAATATTAACATTCCAGATCGCAA-TCTATTTCTTAGTGAACCATGCCATTTTTTGGCG
1 TAATAAAAATATTAACATTCCAGATCACAACT-TATTTCTTAGTGAACCATGACATTCTTGGGCG
112135 CAACCCATTTTAT
65 CAACCCATTTTAT
* * * * * *
112148 TCATTAAAATATTAACATTCCATATCACAACTTATTTCTTAGTGAACCATGA-AATCTTGGACAC
1 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
* *
112212 AATCTATTTTAT
66 AACCCATTTTAT
* * * * *
112224 TAATAAAAATATAAACATTTCAGATCATAACATATTTC-TAGTGAACCATGACATTCTTGGGCAC
1 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
112288 AACCCATTTTAT
66 AACCCATTTTAT
* * * ** * *
112300 TAATAAAATTTTTAACATTCTAGATCGTAACTTATTACTTACTGAAC
1 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAAC
112347 TGTGATACTT
Statistics
Matches: 417, Mismatches: 84, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
75 13 0.03
76 101 0.24
77 274 0.66
78 27 0.06
79 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (77 bp):
TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
AACCCATTTTAT
Found at i:112166 original size:231 final size:230
Alignment explanation
Indices: 111762--112326 Score: 723
Period size: 231 Copynumber: 2.5 Consensus size: 230
111752 CAATATTTTG
* * * *
111762 TAATAAAAATATTAACATTTCATATCGCT-ACTTACTTTCTCAGTAAACCATAACATTCTTGGGT
1 TAATAAAAATATTAACATTTCATATC-ATAACTTA-TTTCTTAGTGAACCATGACATTCTTGGGT
* *
111826 GCAACCCATTTTATTAATAAAAATATTAATATTCCAGATCACAACATTTATCTTAGTGAACCATG
64 GCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATTTATCTTAGTGAACCATG
* * *
111891 ACATTTTTGGACGAAACTCGTTTCATTAATAAAATTATTAACATTCTAGATCACAACTTATTTCT
129 ACATTTTTGGACGAAACCCATTTCATTAATAAAATTATTAACATTCCAGATCACAACTTATTTCT
* *
111956 TAGTGAACCATGACATTCTTAGG-CGCAA-CTTATTTTAT
194 TAGTGAACCATGA-AATCTT-GGACACAATC-TATTTTAT
** * * * *
111994 TAATAAAAATATTAACATCCCATATCATAACTTATTTCTTAATGAACTATGACATTCTCGGGTGT
1 TAATAAAAATATTAACATTTCATATCATAACTTATTTCTTAGTGAACCATGACATTCTTGGGTGC
112059 AACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAATC-TATT-TCTTAGTGAACCATG
66 AACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAA-CAT-TTATCTTAGTGAACCATG
* * * * *
112122 CCATTTTTTGG-CGCAACCCATTTTATTCATTAAAA-TATTAACATTCCATATCACAACTTATTT
129 ACA-TTTTTGGACGAAACCCATTTCATT-AATAAAATTATTAACATTCCAGATCACAACTTATTT
112185 CTTAGTGAACCATGAAATCTTGGACACAATCTATTTTAT
192 CTTAGTGAACCATGAAATCTTGGACACAATCTATTTTAT
* * * **
112224 TAATAAAAATATAAACATTTCAGATCATAACATATTTC-TAGTGAACCATGACATTCTTGGGCAC
1 TAATAAAAATATTAACATTTCATATCATAACTTATTTCTTAGTGAACCATGACATTCTTGGGTGC
* * *
112288 AACCCATTTTATTAATAAAATTTTTAACATTCTAGATCG
66 AACCCATTTTATTAATAAAAATATTAACATTCCAGATCG
112327 TAACTTATTA
Statistics
Matches: 290, Mismatches: 36, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
229 58 0.20
230 50 0.17
231 137 0.47
232 45 0.16
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (230 bp):
TAATAAAAATATTAACATTTCATATCATAACTTATTTCTTAGTGAACCATGACATTCTTGGGTGC
AACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATTTATCTTAGTGAACCATGAC
ATTTTTGGACGAAACCCATTTCATTAATAAAATTATTAACATTCCAGATCACAACTTATTTCTTA
GTGAACCATGAAATCTTGGACACAATCTATTTTAT
Found at i:112965 original size:77 final size:77
Alignment explanation
Indices: 112798--112966 Score: 189
Period size: 77 Copynumber: 2.2 Consensus size: 77
112788 AACATAACAT
*****
112798 ATTGCACCTAAAATGTGATAAACGATAAGAAAATAAGTTATGGGTGATAAATGTTATAAATATTA
1 ATTGCACCTAAAATGTGATAAACGATAAGAAAATAAGTTATAAACAATAAATGTTATAAATATTA
112863 TTAACATTTTAG
66 TTAACATTTTAG
* * * * * *
112875 ATTACGCCAAAAATGAT-ATAAACGGTAAGAAAATAAGTTATAAACAATGAATGTTATGAATATT
1 ATTGCACCTAAAATG-TGATAAACGATAAGAAAATAAGTTATAAACAATAAATGTTATAAATATT
112939 ATTAA-AGTTTTAG
65 ATTAACA-TTTTAG
* *
112952 GTTGCATCTAAAATG
1 ATTGCACCTAAAATG
112967 GTACCAGAGT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
76 1 0.01
77 72 0.97
78 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (77 bp):
ATTGCACCTAAAATGTGATAAACGATAAGAAAATAAGTTATAAACAATAAATGTTATAAATATTA
TTAACATTTTAG
Found at i:113287 original size:189 final size:186
Alignment explanation
Indices: 113004--113499 Score: 568
Period size: 189 Copynumber: 2.7 Consensus size: 186
112994 TAGATTTTCA
* * * **
113004 CACAATAACAAAATAAGTTATAAGCTGAAAATGTAATGG-ATATCTATAATAAATACGGTTGTGC
1 CACAATAACAAAATAAGTTAAAAGCTGAAAATATTA-GGAATATCTATAATAAATACGGTTGCAC
* * * *
113068 CCAAGAATATTATGGTTCACTAAGAAAGTAGATTTCAATATGGAATGTTAATATTTTTA-TTAAA
65 CCAAAAATATCATGGTTCACTAACAAAGTAGATTGCAATATGGAATGTTAATATTTTTATTTAAA
* * *
113132 AAATTGAGTTGCGCCTAAAATATTACCAGAGTTTAAACTGATATAGAGCCTTAGATCTTCC
130 AAA-TG-GTTGCACCTAAAATATTACCAGAGTTTAAACTG--ATAGAGCCTCAAATCTTCC
* * *
113193 CA-AGATAACAAAATAAGTTAAAAGCTAAAAATATTAGGAATATCTATAATAAATATGGTTGCAT
1 CACA-ATAACAAAATAAGTTAAAAGCTGAAAATATTAGGAATATCTATAATAAATACGGTTGCAC
* * * * *
113257 CCAAAAATATCATGGTTTACTAACAAAGTAGGTTGCGATCTGGAATGTTAATATTTTTATTTATA
65 CCAAAAATATCATGGTTCACTAACAAAGTAGATTGCAATATGGAATGTTAATATTTTTATTTAAA
* * * * *
113322 AAATGGTTGCACCTAAAATGTTACCAGAGTTTTAGCTGATGGAGCCTCAAATTTTCC
130 AAATGGTTGCACCTAAAATATTACCAGAGTTTAAACTGATAGAGCCTCAAATCTTCC
* * * *
113379 CACAATAATAAAATAAGTTAAAAGCCGAAAATATTATGAATATCTATAATAAATACGG-TGCGCC
1 CACAATAACAAAATAAGTTAAAAGCTGAAAATATTAGGAATATCTATAATAAATACGGTTGCACC
* * ** * * * * *
113443 CAAGAATGTCATAATTCACTAAGATAGTAGATTGCGATTTAGAATGTTAATATTTTT
66 CAAAAATATCATGGTTCACTAACAAAGTAGATTGCAATATGGAATGTTAATATTTTT
113500 CTAAAATTCA
Statistics
Matches: 261, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
185 51 0.20
186 66 0.25
187 1 0.00
188 32 0.12
189 104 0.40
190 7 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (186 bp):
CACAATAACAAAATAAGTTAAAAGCTGAAAATATTAGGAATATCTATAATAAATACGGTTGCACC
CAAAAATATCATGGTTCACTAACAAAGTAGATTGCAATATGGAATGTTAATATTTTTATTTAAAA
AATGGTTGCACCTAAAATATTACCAGAGTTTAAACTGATAGAGCCTCAAATCTTCC
Found at i:114137 original size:100 final size:98
Alignment explanation
Indices: 113860--114444 Score: 584
Period size: 100 Copynumber: 6.0 Consensus size: 98
113850 ACTACTAAAC
*
113860 TGACATAAAAAGAA-ACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTATTTTTTG--T
1 TGACATAAAAA-AACACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTA-CTTTTGCAT
* *
113922 AATATAAATGTTTTCATACTTATAACTTAAAAT-AT
64 AATATAAATGGTTTCATACTTATAA-TTTAAATGAT
* * * * * * **
113957 TGACATAAAAAAGGC-TTAACTA-T-TGCATTATCATGA-AAAAC-ATGTTGTCTTATTTTTATA
1 TGACATAAAAAA-ACACTACCTACTATG--TTATCATGAGAAACCTATTTTGTCTTACTTTTGCA
*
114017 TAATATAAATGGTTTAATACTTATAATTTAAATGAT
63 TAATATAAATGGTTTCATACTTATAATTTAAATGAT
* * * *
114053 TGACATTAAAAAAATCACTATCTAATATGTTATCATGAGCAACCTGTTTTGTCTTACTTTTGCAT
1 TGACA-TAAAAAAA-CACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCAT
* *
114118 AATATAAATGGTTTCATACTTGTAACTTAAATCG-T
64 AATATAAATGGTTTCATACTTATAATTTAAAT-GAT
* * * * * * * * *
114153 TGACATAAAAAAA-GCTACCCACTAAGTTATTAGGAAAAACTTGTTTTGTCTTACTTTTTCATAA
1 TGACATAAAAAAACACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAA
* * * *
114217 TATAAA-CGATTCATACTTATAACTTAAACGAT
66 TATAAATGGTTTCATACTTATAATTTAAATGAT
** * *
114249 TGACATTGAAAAAAGACGTTACCTAGTATGTTATCATGAGCAACCTATTTTGTCTTACTTTTGCA
1 TGACA-T-AAAAAA-ACACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCA
*
114314 TAATATAAACGGTTTCATACTTATAATTTAAACT-AT
63 TAATATAAATGGTTTCATACTTATAATTTAAA-TGAT
* * * * *
114350 TGATATAAAAAAGCACTACATACTATGTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATCA
1 TGACATAAAAAAACACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAA
*
114415 TATAAACGGTTTCATACTTATAATTTAAAT
66 TATAAATGGTTTCATACTTATAATTTAAAT
114445 TACTGATAGT
Statistics
Matches: 405, Mismatches: 61, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
94 5 0.01
95 19 0.05
96 62 0.15
97 81 0.20
98 94 0.23
99 19 0.05
100 99 0.24
101 26 0.06
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (98 bp):
TGACATAAAAAAACACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAA
TATAAATGGTTTCATACTTATAATTTAAATGAT
Found at i:114306 original size:197 final size:195
Alignment explanation
Indices: 113725--114443 Score: 639
Period size: 197 Copynumber: 3.7 Consensus size: 195
113715 TTAATATTTA
* * * * * *
113725 ATAATATAAAT-GATTCATACTTATAACTTAAA-CGACAT-AAAAAAAAAAGATGTTACCTAGTA
1 ATAATATAAATGGTTTCATACTTATAACTTAAATC-A-TTGACATAAAAAA-A-GCTACCTACTA
* * * * * * *
113787 CGTTATCATGAACAATCTAT-TTTGTCTTATTTTTTTAATAATATAATAGGTTTCGTATTTATAA
62 AGTTATCATGAA-AAAC-ATGTTTGTCTTA-CTTTTTCATAATATAA-ACGTTTCATACTTATAA
* * *
113851 CTACTAAAC---TGACA-TAAAAAGAA--ACTACCTACTATGTTATCATGAGAAACCTATTTTGT
123 -T-TTAAACGATTGACATTAAAAA-AATCACTACCTAATATGTTATCATGAGCAACCTATTTTGT
*
113910 CTTATTTTTTG-
185 CTTA-CTTTTGC
* * * * *
113921 -TAATATAAATGTTTTCATACTTATAACTTAAAAT-ATTGACATAAAAAAGGCTTAACTATTGCA
1 ATAATATAAATGGTTTCATACTTATAACTT-AAATCATTGACATAAAAAAAGC-TACCTACT-AA
* * *
113984 -TTATCATGAAAAACATG-TTGTCTTA-TTTTTATATAATATAAATGGTTTAATACTTATAATTT
63 GTTATCATGAAAAACATGTTTGTCTTACTTTTT-CATAATATAAA-CGTTTCATACTTATAATTT
* * *
114046 AAATGATTGACATTAAAAAAATCACTATCTAATATGTTATCATGAGCAACCTGTTTTGTCTTACT
126 AAACGATTGACATTAAAAAAATCACTACCTAATATGTTATCATGAGCAACCTATTTTGTCTTACT
114111 TTTGC
191 TTTGC
* * *
114116 ATAATATAAATGGTTTCATACTTGTAACTTAAATCGTTGACATAAAAAAAGCTACCCACTAAGTT
1 ATAATATAAATGGTTTCATACTTATAACTTAAATCATTGACATAAAAAAAGCTACCTACTAAGTT
* * * * *
114181 ATTAGGAAAAACTTGTTTTGTCTTACTTTTTCATAATATAAACGATTCATACTTATAACTTAAAC
66 ATCATGAAAAACATG-TTTGTCTTACTTTTTCATAATATAAACGTTTCATACTTATAATTTAAAC
** *
114246 GATTGACATTGAAAAAAGA-CGTTACCTAGTATGTTATCATGAGCAACCTATTTTGTCTTACTTT
130 GATTGACATT-AAAAAA-ATCACTACCTAATATGTTATCATGAGCAACCTATTTTGTCTTACTTT
114310 TGC
193 TGC
* * * * *
114313 ATAATATAAACGGTTTCATACTTATAATTTAAA-CTATTGATAT-AAAAAAGCACTACATACTAT
1 ATAATATAAATGGTTTCATACTTATAACTTAAATC-ATTGACATAAAAAAAG--CTACCTACTAA
* * * * *
114376 GTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATCATATAAACGGTTTCATACTTATAATTT
63 GTTATCATGAAAAACAT-GTTTGTCTTACTTTTTCATAATATAAAC-GTTTCATACTTATAATTT
114441 AAA
126 AAA
114444 TTACTGATAG
Statistics
Matches: 432, Mismatches: 62, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
190 4 0.01
191 7 0.02
192 22 0.05
193 17 0.04
194 16 0.04
195 86 0.20
196 103 0.24
197 106 0.25
198 52 0.12
199 19 0.04
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (195 bp):
ATAATATAAATGGTTTCATACTTATAACTTAAATCATTGACATAAAAAAAGCTACCTACTAAGTT
ATCATGAAAAACATGTTTGTCTTACTTTTTCATAATATAAACGTTTCATACTTATAATTTAAACG
ATTGACATTAAAAAAATCACTACCTAATATGTTATCATGAGCAACCTATTTTGTCTTACTTTTGC
Found at i:114420 original size:295 final size:292
Alignment explanation
Indices: 113788--114444 Score: 717
Period size: 295 Copynumber: 2.2 Consensus size: 292
113778 TACCTAGTAC
* * * ** * *
113788 GTTATCATGA-ACAATCTATTTTGTCTTATTTTTTTAATAATATAATA-GGTTTCGTATTTATAA
1 GTTATCATGAGA-AACCTACTTTGTCTTA-CTTTTGCATAATATAA-ACGGTTTCATACTTATAA
* * * *
113851 CTACTAAA-C--TGACATAAAAAGAAACTACCTACTATGTTATCATGAGAAACCTATTTTGTCTT
63 CT--TAAATCGTTGACATAAAAAGAAACTACCCACTAAGTTATCAGGAAAAACCTATTTTGTCTT
** * * * *
113913 ATTTTTTGTAATATAAATGTTTTCATACTTATAACTTAAAATATTGACATAAAAAAGGCTTAACT
126 ATTTTTCATAATATAAACGTATTCATACTTATAACTTAAAAGATTGACATAAAAAAGACTTAACT
* * *
113978 ATTGCATTATCATGAAAAACATGTTGTCTTATTTTTATATAATATAAATGGTTTAATACTTATAA
191 ATTG-ATTATCATGAAAAACATGTTGTCTTACTTTTACATAATATAAACGGTTTAATACTTATAA
*
114043 TTTAAATGATTGACATTAAAAAAATCACTATCTAATAT
255 TTTAAATGATTGACATTAAAAAAAGCACTATCTAATAT
* ** * *
114081 GTTATCATGAGCAACCTGTTTTGTCTTACTTTTGCATAATATAAATGGTTTCATACTTGTAACTT
1 GTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATAATATAAACGGTTTCATACTTATAACTT
* * * *
114146 AAATCGTTGACATAAAAA-AAGCTACCCACTAAGTTATTAGGAAAAACTTGTTTTGTCTTACTTT
66 AAATCGTTGACATAAAAAGAAACTACCCACTAAGTTATCAGGAAAAACCTATTTTGTCTTA-TTT
* *
114210 TTCATAATATAAACG-ATTCATACTTATAACTTAAACGATTGACATTGAAAAAAGACGTTACCTA
130 TTCATAATATAAACGTATTCATACTTATAACTTAAAAGATTGACA-T-AAAAAAGAC-TTAACTA
* * * * *
114274 GTATG-TTATCATGAGCAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCATACTTAT
192 -T-TGATTATCATGA-AAAAC-ATGTTGTCTTACTTTTACATAATATAAACGGTTTAATACTTAT
* *
114338 AATTTAAACT-ATTGATA-T-AAAAAAGCACTA-CATACTAT
253 AATTTAAA-TGATTGACATTAAAAAAAGCACTATC-TAATAT
* *
114376 GTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATCATATAAACGGTTTCATACTTATAATTT
1 GTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATAATATAAACGGTTTCATACTTATAACTT
114441 AAAT
66 AAAT
114445 TACTGATAGT
Statistics
Matches: 306, Mismatches: 43, Indels: 28
0.81 0.11 0.07
Matches are distributed among these distances:
290 4 0.01
291 2 0.01
292 88 0.29
293 51 0.17
294 9 0.03
295 93 0.30
296 5 0.02
297 53 0.17
298 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (292 bp):
GTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATAATATAAACGGTTTCATACTTATAACTT
AAATCGTTGACATAAAAAGAAACTACCCACTAAGTTATCAGGAAAAACCTATTTTGTCTTATTTT
TCATAATATAAACGTATTCATACTTATAACTTAAAAGATTGACATAAAAAAGACTTAACTATTGA
TTATCATGAAAAACATGTTGTCTTACTTTTACATAATATAAACGGTTTAATACTTATAATTTAAA
TGATTGACATTAAAAAAAGCACTATCTAATAT
Found at i:114452 original size:98 final size:98
Alignment explanation
Indices: 113778--114479 Score: 594
Period size: 98 Copynumber: 7.2 Consensus size: 98
113768 AAAAAGATGT
* * * * **
113778 TACCTAGTACGTTATCATGA-ACAATCTATTTTGTCTTATTTTTTTAATAATATAATA-GGTTTC
1 TACCTACTATGTTATCATGAGA-AACCTATTTTGTCTTA-CTTTTGCATAATATAA-ACGGTTTC
* * * *
113841 GTATTTATAAC-TACTAA--ACTGACA-TAAAAAGAAAC
63 ATACTTATAACTTA--AATTATTGACATTAAAAA-AGAC
* * *
113876 TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTATTTTTTG--TAATATAAATGTTTTCAT
1 TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTA-CTTTTGCATAATATAAACGGTTTCAT
* *
113939 ACTTATAACTTAAAATATTGACA-TAAAAAAGGC
65 ACTTATAACTTAAATTATTGACATTAAAAAAGAC
* * * * ** * *
113972 TTAACTA-T-TGCATTATCATGA-AAAAC-ATGTTGTCTTATTTTTATATAATATAAATGGTTTA
1 -TACCTACTATG--TTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTC
* * *
114033 ATACTTATAATTTAAATGATTGACATTAAAAAAATCAC
63 ATACTTATAACTTAAATTATTGACATT-AAAAAA-GAC
* * * * *
114071 TATCTAATATGTTATCATGAGCAACCTGTTTTGTCTTACTTTTGCATAATATAAATGGTTTCATA
1 TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCATA
* ** *
114136 CTTGTAACTTAAATCGTTGACATAAAAAAAG-C
66 CTTATAACTTAAATTATTGACATTAAAAAAGAC
* * * * * * * * *
114168 TACCCACTAAGTTATTAGGAAAAACTTGTTTTGTCTTACTTTTTCATAATATAAAC-GATTCATA
1 TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCATA
**
114232 CTTATAACTTAAACGATTGACATTGAAAAAAGAC
66 CTTATAACTTAAATTATTGACATT-AAAAAAGAC
* *
114266 GTTACCTAGTATGTTATCATGAGCAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCA
1 --TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCA
* * *
114331 TACTTATAATTTAAACTATTGATA-TAAAAAAGCAC
64 TACTTATAACTTAAATTATTGACATTAAAAAAG-AC
* * *
114366 TACATACTATGTTATCATGAGAAACCTACTTTGTCTTACTTTTGCATCATATAAACGGTTTCATA
1 TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCATA
* * * *
114431 CTTATAATTTAAATTACTGATAGTAAAAAA-A-
66 CTTATAACTTAAATTATTGACATTAAAAAAGAC
* *
114462 TACCTATTACGTTATCAT
1 TACCTACTATGTTATCAT
114480 CAGCATAACA
Statistics
Matches: 503, Mismatches: 77, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
94 5 0.01
95 15 0.03
96 106 0.21
97 83 0.17
98 140 0.28
99 26 0.05
100 102 0.20
101 26 0.05
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (98 bp):
TACCTACTATGTTATCATGAGAAACCTATTTTGTCTTACTTTTGCATAATATAAACGGTTTCATA
CTTATAACTTAAATTATTGACATTAAAAAAGAC
Found at i:114698 original size:70 final size:70
Alignment explanation
Indices: 114569--114702 Score: 162
Period size: 70 Copynumber: 1.9 Consensus size: 70
114559 ATATTGCTAC
* * * * *
114569 TTTGTAGCCTTCTCATTTTTCATATTTTTTAAATTCGAAAGTATCGATACTTGTAGAAAAGTATC
1 TTTGCAGCCTTCACATTTTCCATATTTTTTAAATTCGAAAGTATAGATACTTATAGAAAAGTATC
114634 AATAT
66 AATAT
* * * * *
114639 TTTGCAGCCTTCACATTTTCCATGTTTTTTTTAATT-GAAAGTATATATATTTATGGAAAAGTAT
1 TTTGCAGCCTTCACATTTTCCAT-ATTTTTTAAATTCGAAAGTATAGATACTTATAGAAAAGTAT
114703 TGATACTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 43 0.81
71 10 0.19
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (70 bp):
TTTGCAGCCTTCACATTTTCCATATTTTTTAAATTCGAAAGTATAGATACTTATAGAAAAGTATC
AATAT
Found at i:117721 original size:13 final size:13
Alignment explanation
Indices: 117703--117729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117693 ATGAAAATAT
117703 TTAACTTAGTGAC
1 TTAACTTAGTGAC
117716 TTAACTTAGTGAC
1 TTAACTTAGTGAC
117729 T
1 T
117730 AAATTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAACTTAGTGAC
Found at i:118891 original size:3 final size:3
Alignment explanation
Indices: 118883--118939 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
118873 TTATTTATTA
* *
118883 AAT AAT AAT -AT AAT ATT AAT ATT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
118928 AAT AAT AAT AAT
1 AAT AAT AAT AAT
118940 CAAATGAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:118899 original size:22 final size:21
Alignment explanation
Indices: 118874--118938 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
118864 GTTTTGTAAT
118874 TATTTATTAAATAATAATATAA
1 TATTTATTAAATAATAATA-AA
118896 TATTAATATT-AATAATAATAAA
1 TATT--TATTAAATAATAATAAA
* * *
118918 TAATAATAATAATAATAATAA
1 TATTTATTA-AATAATAATAA
118939 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.06
22 20 0.56
23 10 0.28
24 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTTATTAAATAATAATAAA
Found at i:118920 original size:25 final size:25
Alignment explanation
Indices: 118883--118944 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
118873 TTATTTATTA
* *
118883 AATAATAATATAATATTAATATTAAT
1 AATAATAA-ATAATAATAATAATAAT
118909 AATAATAAATAATAATAATAATAAT
1 AATAATAAATAATAATAATAATAAT
118934 AATAATCAAAT
1 AATAAT-AAAT
118945 GAATCAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATAAATAATAATAATAATAAT
Found at i:119617 original size:108 final size:104
Alignment explanation
Indices: 119344--119730 Score: 406
Period size: 108 Copynumber: 3.6 Consensus size: 104
119334 AGTCAGTAAA
* *
119344 TTGAACAAACTCTTCTCATTATGAACTTCTTTTCCTTCTTCAGATAAATTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTC--TTCCTTCTTCAGAT-GATTCTTCTCATTATGAAC
* * * *
119409 TTTCTCTGGAAAAGCTGATCCATCAAGATGGATTTGCAAAGG
63 TTACTCTGGAAAAGCTGATCCATCAAGATGAATTAGCAAAAG
*
119451 TTGAACAAATTCTTCTCATTATGAATTTCTCCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGA-TTCTTCTCATTATGAA
*
119516 CTCTAC-CTGGTAATA-CTGAAT-CATCGAATGATGAATTCAAGCGAAAAG
62 CT-TACTCTGG-AAAAGCTG-ATCCATC-AA-GATGAATT--AGC-AAAAG
* *
119564 TTGAACAAGTTCTTCTCATTATGAACTTCTT-CTTCTTCAGATGATTTTTCTCATTATGAACTT-
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCCTTCTTCAGATGATTCTTCTCATTATGAACTTA
* * *
119627 TTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGCAAAAGG
66 CTCTGGAAAAGCTGATCCATCAA--GATGAATTAGCAAAA-G
* *
119669 TTGAACAAATTCTTCTCATTATGAATTTCTCCTTCCTTCTTCAGATGAGTTCTTCTTATTAT
1 TTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGA-TTCTTCTCATTAT
119731 TGGACTTCTT
Statistics
Matches: 239, Mismatches: 19, Indels: 41
0.80 0.06 0.14
Matches are distributed among these distances:
104 4 0.02
105 27 0.11
106 7 0.03
107 45 0.19
108 65 0.27
109 35 0.15
110 26 0.11
112 2 0.01
113 28 0.12
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (104 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCCTTCTTCAGATGATTCTTCTCATTATGAACTTA
CTCTGGAAAAGCTGATCCATCAAGATGAATTAGCAAAAG
Found at i:119989 original size:40 final size:40
Alignment explanation
Indices: 119927--120028 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
119917 AAGGTTGAAC
119927 AAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
* * * *
119967 GAGTTCTTCTCATTATGGACTTCTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
120007 AAATTCTTCTCATTATGAACTT
1 AAATTCTTCTCATTATGAACTT
120029 TTTCTGGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.47
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT
Found at i:120495 original size:22 final size:22
Alignment explanation
Indices: 120470--120524 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
120460 CCATAAAGTT
*
120470 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
120492 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
120514 TCATCTTTGAA
1 TCATCTTTGAA
120525 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:123270 original size:112 final size:113
Alignment explanation
Indices: 123073--123289 Score: 339
Period size: 112 Copynumber: 1.9 Consensus size: 113
123063 GATCATGCAG
* * * *
123073 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGCTCAATAACTCAAAGAA
1 TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAATCAGATCAATAACTCAAAGAA
123138 CACTTCCAGAAGATGCTATTGGGTC-CCTTATTTCTACTATGAGCAAA
66 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
123185 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAATCAGATCA-ATAACTCAAAGA
*
123250 ACACTTCCAG-AGATGCTATTGGGTCTCTTTATTTCTACTA
65 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
123290 CGAGAACATG
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
112 60 0.63
113 35 0.37
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAATCAGATCAATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:132218 original size:3 final size:3
Alignment explanation
Indices: 132210--132271 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
132200 TTATTTATTA
* *
132210 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
132257 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
132272 CAAATGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:132240 original size:22 final size:21
Alignment explanation
Indices: 132205--132271 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 21
132195 TGTAATTATT
132205 TATTAAATAATAATAATATATAA
1 TATT-AATAATAATAATA-ATAA
*
132228 TATTAATATTAATAATAAATAA
1 TATTAATAATAATAAT-AATAA
*
132250 TAATAATAATAATAATAATAA
1 TATTAATAATAATAATAATAA
132271 T
1 T
132272 CAAATGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.15
22 29 0.73
23 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATTAATAATAATAATAATAA
Found at i:136989 original size:2 final size:2
Alignment explanation
Indices: 136982--137014 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
136972 CTGCGATTAA
*
136982 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
137015 AATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:145520 original size:19 final size:19
Alignment explanation
Indices: 145488--145524 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
145478 ATGACCAACA
*
145488 AAATCACAATGCGATCTCT
1 AAATCACAACGCGATCTCT
*
145507 AAATCGCAACGCGATCTC
1 AAATCACAACGCGATCTC
145525 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCACAACGCGATCTCT
Found at i:145635 original size:20 final size:20
Alignment explanation
Indices: 145610--145662 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
145600 GATTTTAGAT
*
145610 AATCGCAATGTGAATATGTA
1 AATCGCAATGCGAATATGTA
145630 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
145650 AATCGCAACGCGA
1 AATCGCAATGCGA
145663 TAACACGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:145719 original size:61 final size:61
Alignment explanation
Indices: 145651--145765 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
145641 GAATATGTAA
*
145651 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCACAACACGATTCAGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACTATCACAACACGATTCAGACT
* * *
145712 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCAGACTATCGCAACGCGAT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACTATCACAACACGAT
145766 AATACGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (61 bp):
ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACTATCACAACACGATTCAGACT
Found at i:145754 original size:41 final size:41
Alignment explanation
Indices: 145692--145802 Score: 195
Period size: 41 Copynumber: 2.7 Consensus size: 41
145682 GATTCTGACT
*
145692 ATCACAACACGATTCAGACTATCGCAACGCGATAATACGTG
1 ATCACAACGCGATTCAGACTATCGCAACGCGATAATACGTG
*
145733 ATCGCAACGCGATTCAGACTATCGCAACGCGATAATACGTG
1 ATCACAACGCGATTCAGACTATCGCAACGCGATAATACGTG
*
145774 ATCACAACGCGATTCTGACTATCGCAACG
1 ATCACAACGCGATTCAGACTATCGCAACG
145803 AGATTCTGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCACAACGCGATTCAGACTATCGCAACGCGATAATACGTG
Found at i:145798 original size:61 final size:60
Alignment explanation
Indices: 145672--145880 Score: 260
Period size: 61 Copynumber: 3.4 Consensus size: 60
145662 ATAACACGTG
* * * * **
145672 ATCGCAACGCGATTCTGACTATCACAACACGATTCAGACT-ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGACTATCGCAACGCGA-TAATACTGATCGCAACGCGATTCTGAC-T
* *
145732 GATCGCAACGCGATTCAGACTATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACTATCGCAACGCGATAATAC-TGATCGCAACGCGATTCTGACT
*
145794 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACATGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATAC-TGATCGCAACGCGATTCTGACT
* *
145855 ATCACAACGCGATTCTGACTAACGCA
1 ATCGCAACGCGATTCTGACTATCGCA
145881 TCACTGAATT
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
60 4 0.03
61 110 0.85
62 14 0.11
63 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (60 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACTGATCGCAACGCGATTCTGACT
Found at i:145808 original size:102 final size:102
Alignment explanation
Indices: 145651--145867 Score: 355
Period size: 102 Copynumber: 2.1 Consensus size: 102
145641 GAATATGTAA
*
145651 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCACAACACGATTCAGACTATCG
1 ATCGCAACGCGATAACACGTGATCACAACGCGATTCTGACTATCACAACACGATTCAGACTATCG
*
145716 CAACGCGATAATACGTGATCGCAACGCGATTCAGACT
66 CAACGCGATAATACATGATCGCAACGCGATTCAGACT
* * *
145753 ATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACTATCGCAACGA-GATTCTGACTATC
1 ATCGCAACGCGATAACACGTGATCACAACGCGATTCTGACTATCACAAC-ACGATTCAGACTATC
*
145817 GCAACGCGATAATACATGATCGCAACGCGATTCTGACT
65 GCAACGCGATAATACATGATCGCAACGCGATTCAGACT
*
145855 ATCACAACGCGAT
1 ATCGCAACGCGAT
145868 TCTGACTAAC
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 106 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (102 bp):
ATCGCAACGCGATAACACGTGATCACAACGCGATTCTGACTATCACAACACGATTCAGACTATCG
CAACGCGATAATACATGATCGCAACGCGATTCAGACT
Found at i:145839 original size:41 final size:39
Alignment explanation
Indices: 145655--145867 Score: 187
Period size: 41 Copynumber: 5.2 Consensus size: 39
145645 ATGTAAATCG
*
145655 CAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCA
1 CAACGCGATAAGAC-T-ATCGCAACGCGATTCTGACTATCA
* * ** *
145696 CAACACGATTCAGACTATCGCAACGCGATAAT-ACGTGATCG
1 CAACGCGA-TAAGACTATCGCAACGCGATTCTGAC-T-ATCA
* **
145737 CAACGCGATTCAGACTATCGCAACGCGATAAT-ACGTGATCA
1 CAACGCGA-TAAGACTATCGCAACGCGATTCTGAC-T-ATCA
** * *
145778 CAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCG
1 CAACGCGA-TAAGACTATCGCAACGCGATTCTGACTATCA
*
145818 CAACGCGATAATACATGATCGCAACGCGATTCTGACTATCA
1 CAACGCGATAAGAC-T-ATCGCAACGCGATTCTGACTATCA
145859 CAACGCGAT
1 CAACGCGAT
145868 TCTGACTAAC
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.03
40 27 0.18
41 110 0.74
42 6 0.04
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (39 bp):
CAACGCGATAAGACTATCGCAACGCGATTCTGACTATCA
Found at i:146734 original size:24 final size:24
Alignment explanation
Indices: 146702--146755 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
146692 TATTCAAAAA
146702 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
146726 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
146750 TTTGAT
1 TTTGAT
146756 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:149030 original size:18 final size:18
Alignment explanation
Indices: 149007--149041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
148997 ATATGGTGTC
*
149007 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
149025 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
149042 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:149241 original size:20 final size:20
Alignment explanation
Indices: 149216--149440 Score: 190
Period size: 20 Copynumber: 11.8 Consensus size: 20
149206 TTACACATTC
*
149216 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
149236 ATTTGAATATCGCAACG-GG
1 ATTTGACTATCGCAACGCGA
*
149255 A--T-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
** *
149270 AAATGACTATCGCAAAGCGA
1 ATTTGACTATCGCAACGCGA
149290 ATTTGACTATCGCAACAG-G-
1 ATTTGACTATCGCAAC-GCGA
* *
149309 A--T-A--ATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
**
149324 AAATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
**
149344 AAATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
149364 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
**
149384 ATTTGACTATTACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
149404 ATTTGATTATCGCAACAG-GA
1 ATTTGACTATCGCAAC-GCGA
149424 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
149441 AGAAAATCGC
Statistics
Matches: 171, Mismatches: 19, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
13 1 0.01
14 16 0.09
15 3 0.02
16 2 0.01
17 4 0.02
18 2 0.01
19 4 0.02
20 137 0.80
21 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:149283 original size:54 final size:54
Alignment explanation
Indices: 149219--149419 Score: 222
Period size: 54 Copynumber: 3.6 Consensus size: 54
149209 CACATTCATT
* *
149219 TGACTATCGCAACGTGAATTTGAATATCGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
* * *
149273 TGACTATCGCAAAGCGAATTTGACTATCGCAACAGGATAATCGCAATGTGAAAA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
** * * **
149327 TGACTATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAACG-GGA--T-A--ATCGCAATGCGAAAA
** *
149387 TGACTATTACAACGCGAATTTGATTATCGCAAC
1 TGACTATCGCAACGCGAATTTGACTATCGCAAC
149420 AGGAATTTGA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
54 79 0.65
55 2 0.02
57 1 0.01
58 1 0.01
60 39 0.32
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (54 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
Found at i:149615 original size:36 final size:34
Alignment explanation
Indices: 149575--149654 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
149565 TCAACTTTTA
*
149575 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
149611 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
149641 ATCAATTAAACAAA
1 ATCAATTAAACAAA
149655 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:149625 original size:30 final size:30
Alignment explanation
Indices: 149590--149655 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
149580 TTAAACAAGC
*
149590 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
149620 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
149650 ACAAAT
1 ACAAAT
149656 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:151135 original size:42 final size:42
Alignment explanation
Indices: 151030--151135 Score: 97
Period size: 42 Copynumber: 2.5 Consensus size: 42
151020 TAGAATATTG
* * * * *
151030 GGAGAGACCTCTTCAACGATGATAGTGGCCACTTGAACAGTG
1 GGAGAGGCCTCTTGAACGATGATAGGGGCCACTTAAACAGTA
* ** ** *
151072 GGAGGGGAGTCTTGAGGGATGATAGGGGCCTCTTAAAC-GATA
1 GGAGAGGCCTCTTGAACGATGATAGGGGCCACTTAAACAG-TA
151114 GGAGAGGCCTCTTGAACGATGA
1 GGAGAGGCCTCTTGAACGATGA
151136 CAGGTGAGTC
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (42 bp):
GGAGAGGCCTCTTGAACGATGATAGGGGCCACTTAAACAGTA
Found at i:151641 original size:20 final size:20
Alignment explanation
Indices: 151616--151659 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
151606 AATAGTTTCT
151616 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
151636 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
151656 GAAA
1 GAAA
151660 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:151669 original size:20 final size:20
Alignment explanation
Indices: 151646--151718 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
151636 GAAACTTAAA
* *
151646 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
151666 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
151686 ATCGCAACGCG-AAATGACT
1 ATCGCAACGCGAAAATGACT
*
151705 ATCGTAACGCGAAA
1 ATCGCAACGCGAAA
151719 CTAAATTCGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:151753 original size:20 final size:20
Alignment explanation
Indices: 151724--151810 Score: 60
Period size: 20 Copynumber: 4.7 Consensus size: 20
151714 CGAAACTAAA
*
151724 TTCGCGTTGCGATAGTCATT
1 TTCGCATTGCGATAGTCATT
151744 TTCGCATTGC---A---ATT
1 TTCGCATTGCGATAGTCATT
* * *
151758 ATCCCGTTGCGATAGTCATT
1 TTCGCATTGCGATAGTCATT
* * *
151778 TCCGCTTTGCGATAGTCGTT
1 TTCGCATTGCGATAGTCATT
*
151798 TTCACATTGCGAT
1 TTCGCATTGCGAT
151811 TATCCCGTTG
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
14 10 0.20
17 2 0.04
20 37 0.76
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCATT
Found at i:151842 original size:54 final size:54
Alignment explanation
Indices: 151724--151843 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
151714 CGAAACTAAA
* * *
151724 TTCGCGTTGCGATAGTCATTTTCGCATTGCAATTATCCCGTTGCGATAGTCATT
1 TTCGTGTTGCGATAGTCATTTTCACATTGCAATTATCCCGTTGCGATAATCATT
* * *
151778 TCCGCT-TTGCGATAGTCGTTTTCACATTGCGATTATCCCGTTGCGATAATCATT
1 TTCG-TGTTGCGATAGTCATTTTCACATTGCAATTATCCCGTTGCGATAATCATT
151832 TTCGTGTTGCGA
1 TTCGTGTTGCGA
151844 CTATTCTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
TTCGTGTTGCGATAGTCATTTTCACATTGCAATTATCCCGTTGCGATAATCATT
Found at i:152624 original size:20 final size:20
Alignment explanation
Indices: 152599--152684 Score: 93
Period size: 20 Copynumber: 4.2 Consensus size: 20
152589 TTATCGCAAC
*
152599 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
152619 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
* **
152639 ACGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
* *
152660 GTGATAGTTAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
152680 GCGAT
1 GCGAT
152685 CACGTGTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.04
20 37 0.69
21 13 0.24
22 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:152657 original size:21 final size:21
Alignment explanation
Indices: 152631--152705 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
152621 GATAGTCAGA
*
152631 ATCGCGTTACGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
* **
152652 ATCGCGTTGTGAT-A-GTTAGA
1 ATCGCGTTGCGATCACG-TATT
*
152672 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
152693 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
152706 TTACATATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.35
21 26 0.60
22 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:152660 original size:41 final size:41
Alignment explanation
Indices: 152615--152705 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
152605 GTCAGAATCT
152615 CGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCG
* * * *
152656 CGTTGTGATAGTTAGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCG
152697 CGTTGCGAT
1 CGTTGCGAT
152706 TTACATATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCG
Found at i:152722 original size:20 final size:20
Alignment explanation
Indices: 152694--152746 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
152684 TCACGTGTTA
*
152694 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
152714 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
152734 TCACATTGCGATT
1 TCGCATTGCGATT
152747 ATCTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:152723 original size:41 final size:40
Alignment explanation
Indices: 152615--152725 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 40
152605 GTCAGAATCT
* * * *
152615 CGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCG
1 CGTTGCGATA-TTACAATCGCATTGCGATCACGTATTATCG
* * * *
152656 CGTTGTGATAGTTAGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATA-TTACAATCGCATTGCGATCACGTATTATCG
152697 CGTTGCGAT-TTACATATTCGCATTGCGAT
1 CGTTGCGATATTACA-A-TCGCATTGCGAT
152726 TTACATATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 4 0.07
40 1 0.02
41 56 0.92
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
CGTTGCGATATTACAATCGCATTGCGATCACGTATTATCG
Done.