Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 20
Found at i:3836215 original size:261 final size:261
Alignment explanation
Indices: 3835751--3836260 Score: 975
Period size: 261 Copynumber: 2.0 Consensus size: 261
3835741 TTAGTTGACA
*
3835751 AACACTACCCTACTATTTAAAGCTTTGCTAAGCTTCACTCTTAACTTTTAATATTTTTTCACTCT
1 AACACTACACTACTATTTAAAGCTTTGCTAAGCTTCACTCTTAACTTTTAATATTTTTTCACTCT
3835816 ATATATATTTATAGGAAAATTAAACCTTCATATATGTTGTAATCTTTGACCTTGTTTTGTCGTCT
66 ATATATATTTATAGGAAAATTAAACCTTCATATATGTTGTAATCTTTGACCTTGTTTTGTCGTCT
* *
3835881 CAGTTAAGCTTAATAATTAAGTATTTTCAAGTGTTGTTCCTGTCATGTTTCCATCAAATTCTTTC
131 CAGTTAAACTTAATAATTAAGTATTTCCAAGTGTTGTTCCTGTCATGTTTCCATCAAATTCTTTC
*
3835946 ATGGTTAATTTGCTTAATTTTGACACATGTATTTAGTGACTCCATTCTAGAAATCTTTAAAGCTT
196 ATGGTTAATTTACTTAATTTTGACACATGTATTTAGTGACTCCATTCTAGAAATCTTTAAAGCTT
3836011 T
261 T
3836012 AACACTACACTACTATTTAAAGCTTTGCTAAGCTTCACTCTTAACTTTTAATATTTTTTCACTCT
1 AACACTACACTACTATTTAAAGCTTTGCTAAGCTTCACTCTTAACTTTTAATATTTTTTCACTCT
3836077 ATATATATTTATAGGAAAATTAAACCTTCATATATGTTGTAATCTTTGACCTTGTTTTGTCGTCT
66 ATATATATTTATAGGAAAATTAAACCTTCATATATGTTGTAATCTTTGACCTTGTTTTGTCGTCT
3836142 CAGTTAAACTTAATAATTAAGTATTTCCAAGTGTTGTTCCTGTCATGTTTCCATCAAATTCTTTC
131 CAGTTAAACTTAATAATTAAGTATTTCCAAGTGTTGTTCCTGTCATGTTTCCATCAAATTCTTTC
*
3836207 ATGGTTAATTTACTTAATTTTGACACATGTATTTAGTGCCTCCATTCTAGAAAT
196 ATGGTTAATTTACTTAATTTTGACACATGTATTTAGTGACTCCATTCTAGAAAT
3836261 AAATAATTTA
Statistics
Matches: 244, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 244 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.44
Consensus pattern (261 bp):
AACACTACACTACTATTTAAAGCTTTGCTAAGCTTCACTCTTAACTTTTAATATTTTTTCACTCT
ATATATATTTATAGGAAAATTAAACCTTCATATATGTTGTAATCTTTGACCTTGTTTTGTCGTCT
CAGTTAAACTTAATAATTAAGTATTTCCAAGTGTTGTTCCTGTCATGTTTCCATCAAATTCTTTC
ATGGTTAATTTACTTAATTTTGACACATGTATTTAGTGACTCCATTCTAGAAATCTTTAAAGCTT
T
Found at i:3837556 original size:11 final size:11
Alignment explanation
Indices: 3837548--3837591 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
3837538 TAAAGCTCGT
*
3837548 ATCAAGCTCGA
1 ATCAAGCTCAA
*
3837559 ATCAAGCTCAT
1 ATCAAGCTCAA
3837570 ATCAAGCTCAA
1 ATCAAGCTCAA
3837581 ATCAAGCTCAA
1 ATCAAGCTCAA
3837592 GTGCTCACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.20
Consensus pattern (11 bp):
ATCAAGCTCAA
Found at i:3837565 original size:22 final size:22
Alignment explanation
Indices: 3837540--3837590 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3837530 AACTTGATTA
* *
3837540 AAGCTCGTATCAAGCTCGAATC
1 AAGCTCATATCAAGCTCAAATC
3837562 AAGCTCATATCAAGCTCAAATC
1 AAGCTCATATCAAGCTCAAATC
3837584 AAGCTCA
1 AAGCTCA
3837591 AGTGCTCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (22 bp):
AAGCTCATATCAAGCTCAAATC
Found at i:3839820 original size:7 final size:7
Alignment explanation
Indices: 3839808--3839908 Score: 51
Period size: 7 Copynumber: 14.6 Consensus size: 7
3839798 AATCGAATTA
3839808 AGGGTTT
1 AGGGTTT
3839815 AGGGTTT
1 AGGGTTT
**
3839822 AATGTTT
1 AGGGTTT
3839829 AGGGTTT
1 AGGGTTT
*
3839836 AAGGTTT
1 AGGGTTT
*
3839843 AGCGTTT
1 AGGGTTT
***
3839850 AATATTT
1 AGGGTTT
*
3839857 ATGGTTT
1 AGGGTTT
* * *
3839864 ATGATAT
1 AGGGTTT
*
3839871 AGGATTT
1 AGGGTTT
*
3839878 AGGATTT
1 AGGGTTT
*
3839885 A-GGTAT
1 AGGGTTT
*
3839891 AAGGTTT
1 AGGGTTT
*
3839898 AAGGTTT
1 AGGGTTT
3839905 AGGG
1 AGGG
3839909 CTTATTGCAA
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
6 4 0.06
7 68 0.94
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:3839830 original size:14 final size:14
Alignment explanation
Indices: 3839811--3839864 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
3839801 CGAATTAAGG
3839811 GTTTAGGGTTTAAT
1 GTTTAGGGTTTAAT
*
3839825 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAT
*
3839839 GTTTAGCGTTTAAT
1 GTTTAGGGTTTAAT
* *
3839853 ATTTATGGTTTA
1 GTTTAGGGTTTA
3839865 TGATATAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTTTAAT
Found at i:3839849 original size:21 final size:21
Alignment explanation
Indices: 3839808--3839850 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3839798 AATCGAATTA
* *
3839808 AGGGTTTAGGGTTTAATGTTT
1 AGGGTTTAAGGTTTAACGTTT
*
3839829 AGGGTTTAAGGTTTAGCGTTT
1 AGGGTTTAAGGTTTAACGTTT
3839850 A
1 A
3839851 ATATTTATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (21 bp):
AGGGTTTAAGGTTTAACGTTT
Found at i:3840475 original size:14 final size:14
Alignment explanation
Indices: 3840429--3840485 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
3840419 TATAATTATC
3840429 AATAATGTATTTTT
1 AATAATGTATTTTT
* **
3840443 TATATAT-TA-TTAA
1 AATA-ATGTATTTTT
3840456 AATAATGTATTTTT
1 AATAATGTATTTTT
*
3840470 AATAATGTAATTTT
1 AATAATGTATTTTT
3840484 AA
1 AA
3840486 AAAATCTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
12 2 0.06
13 7 0.21
14 22 0.67
15 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:3846150 original size:62 final size:62
Alignment explanation
Indices: 3846053--3846176 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
3846043 CGTGTTTTAT
3846053 GCTTAGTTGGATACACGTGGCTATAGCACGACCCCTGGGGTGCACCTTACTCCACGTAAGGC
1 GCTTAGTTGGATACACGTGGCTATAGCACGACCCCTGGGGTGCACCTTACTCCACGTAAGGC
3846115 GCTTAGTTGGATACACGTGGCTATAGCACGACCCCTGGGGTGCACCTTACTCCACGTAAGGC
1 GCTTAGTTGGATACACGTGGCTATAGCACGACCCCTGGGGTGCACCTTACTCCACGTAAGGC
3846177 TATAGCGCGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (62 bp):
GCTTAGTTGGATACACGTGGCTATAGCACGACCCCTGGGGTGCACCTTACTCCACGTAAGGC
Found at i:3849992 original size:24 final size:22
Alignment explanation
Indices: 3849952--3850030 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 22
3849942 GAATATAATT
3849952 AGTGCATCGATG--C-ATAAGG
1 AGTGCATCGATGCACTATAAGG
3849971 AGTGCATCGATGCACATGATAAGG
1 AGTGCATCGATGCAC-T-ATAAGG
*
3849995 -GATGCATTGATGCACTAT-A-G
1 AG-TGCATCGATGCACTATAAGG
*
3850015 AATGCATCGATGCACT
1 AGTGCATCGATGCACT
3850031 TCAAGGGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
19 12 0.24
20 14 0.28
21 2 0.04
22 2 0.04
23 2 0.04
24 18 0.36
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (22 bp):
AGTGCATCGATGCACTATAAGG
Found at i:3852339 original size:35 final size:36
Alignment explanation
Indices: 3852285--3852367 Score: 104
Period size: 38 Copynumber: 2.4 Consensus size: 36
3852275 AATATAAATT
3852285 TAAATATAACAAACTTACAATAA-G-TATTAAATGG
1 TAAATATAACAAACTTACAATAACGATATTAAATGG
3852319 TAAATGATAAACAAA-TTACAATAACTGATATTAAATGG
1 TAAAT-AT-AACAAACTTACAATAAC-GATATTAAATGG
3852357 TAAA-A-AACAAA
1 TAAATATAACAAA
3852368 ATTAACCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
34 11 0.25
35 11 0.25
36 7 0.16
37 1 0.02
38 14 0.32
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (36 bp):
TAAATATAACAAACTTACAATAACGATATTAAATGG
Found at i:3852370 original size:35 final size:34
Alignment explanation
Indices: 3852285--3852371 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
3852275 AATATAAATT
* *
3852285 TAAATATAACAAACTTACAATAAGTATTAAATGG
1 TAAAGATAACAAAATTACAATAAGTATTAAATGG
3852319 TAAATGATAA-ACAAATTACAATAACTGATATTAAATGG
1 TAAA-GATAACA-AAATTACAATAA--G-TATTAAATGG
3852357 TAAA-A-AACAAAATTA
1 TAAAGATAACAAAATTA
3852372 ACCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 5 0.11
35 23 0.51
36 2 0.04
37 1 0.02
38 14 0.31
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAAGATAACAAAATTACAATAAGTATTAAATGG
Found at i:3854766 original size:18 final size:19
Alignment explanation
Indices: 3854745--3854787 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
3854735 ATTAATTAAA
3854745 TAAAATA-TTAAAAAAATT
1 TAAAATACTTAAAAAAATT
*
3854763 T-AAATACTTAAATAAATT
1 TAAAATACTTAAAAAAATT
*
3854781 AAAAATA
1 TAAAATA
3854788 AAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTTAAAAAAATT
Found at i:3855793 original size:43 final size:43
Alignment explanation
Indices: 3855699--3855794 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
3855689 TACAGTAACT
* *
3855699 TTAGACGCAATTGAAAATATGATAAAAAGTATAACATTTTAGG
1 TTAGACGCAATCGAAAATATAATAAAAAGTATAACATTTTAGG
* *
3855742 TTAAACGCAATCGAAAATGTAATAAAAA-TCATAACATTTTAGG
1 TTAGACGCAATCGAAAATATAATAAAAAGT-ATAACATTTTAGG
*
3855785 TTGGACGCAA
1 TTAGACGCAA
3855795 CTTAAAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (43 bp):
TTAGACGCAATCGAAAATATAATAAAAAGTATAACATTTTAGG
Found at i:3862428 original size:6 final size:6
Alignment explanation
Indices: 3862417--3862502 Score: 127
Period size: 6 Copynumber: 14.3 Consensus size: 6
3862407 GACACGTATT
* * *
3862417 ACCACG ACCACG ACCACG ATCACG ACCATG ACCATG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* *
3862465 ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
3862503 GTACCGAACC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (6 bp):
ACCACG
Found at i:3868466 original size:18 final size:20
Alignment explanation
Indices: 3868443--3868482 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
3868433 TATCAATGAA
*
3868443 TTCTTTGG-ATTGTT-AATC
1 TTCTTTGGTATTCTTAAATC
3868461 TTCTTTGGTATTCTTAAATC
1 TTCTTTGGTATTCTTAAATC
3868481 TT
1 TT
3868483 TGAGGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (20 bp):
TTCTTTGGTATTCTTAAATC
Found at i:3884515 original size:14 final size:14
Alignment explanation
Indices: 3884498--3884542 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3884488 GATGCTTTTG
3884498 CTCATGCAACATTT
1 CTCATGCAACATTT
3884512 CTCAT-C-A-ATTT
1 CTCATGCAACATTT
3884523 GCTCATGCAACATTT
1 -CTCATGCAACATTT
3884538 CTCAT
1 CTCAT
3884543 CAATAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 2 0.07
14 11 0.41
15 4 0.15
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.38
Consensus pattern (14 bp):
CTCATGCAACATTT
Found at i:3884530 original size:26 final size:26
Alignment explanation
Indices: 3884494--3884546 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3884484 GAACGATGCT
3884494 TTTGCTCATGCAACATTTCTCATCAA
1 TTTGCTCATGCAACATTTCTCATCAA
3884520 TTTGCTCATGCAACATTTCTCATCAA
1 TTTGCTCATGCAACATTTCTCATCAA
3884546 T
1 T
3884547 AGGTTATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.40
Consensus pattern (26 bp):
TTTGCTCATGCAACATTTCTCATCAA
Found at i:3885489 original size:30 final size:30
Alignment explanation
Indices: 3885453--3885704 Score: 294
Period size: 30 Copynumber: 8.5 Consensus size: 30
3885443 CATATTAGAT
* *
3885453 TTAAAGGACCAAAATAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* *
3885483 TTAAAGGACTAAAATAGTAAAAATAAAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* * * *
3885513 TCAAGGGACTAAAATAGTAAAAATAGAAAT
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* *
3885543 TTAAGGGACTAAAATAGCAAAAATAAAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* * *
3885573 ATAAGGGACTAAAATAGAAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
*
3885603 TTAAAGGGCT-AAATAGCAAAAAATAGAAAC
1 TTAAAGGACTAAAATAGC-AAAAATAGAAAC
* *
3885633 TTAAAGTACTAAAGTAGCAAAAATA-AAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* * *
3885662 TTAAAGGGCT-AAACAGTAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
*
3885691 TTGAAGGACTAAAA
1 TTAAAGGACTAAAA
3885705 CAATAATTAC
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
28 11 0.06
29 30 0.16
30 142 0.75
31 6 0.03
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.17
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAGAAAC
Found at i:3886519 original size:28 final size:26
Alignment explanation
Indices: 3886475--3886538 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 26
3886465 TGCTCTGTGT
* * *
3886475 TCTTTTTTTTCTTTGAAAGTTCTCTA
1 TCTTTTTTTTCTCTGAAACTGCTCTA
3886501 TCTTTTTTCTCTCTCTGAAACTGCTCTA
1 TCTTTTTT-T-TCTCTGAAACTGCTCTA
3886529 TCTTTTTTTT
1 TCTTTTTTTT
3886539 TCTCCCATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.27
27 2 0.06
28 22 0.67
ACGTcount: A:0.12, C:0.20, G:0.06, T:0.61
Consensus pattern (26 bp):
TCTTTTTTTTCTCTGAAACTGCTCTA
Found at i:3887044 original size:3 final size:3
Alignment explanation
Indices: 3887036--3887062 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3887026 AATGTATTAA
3887036 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
3887063 GTTTTTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3887495 original size:111 final size:111
Alignment explanation
Indices: 3887301--3887519 Score: 314
Period size: 111 Copynumber: 2.0 Consensus size: 111
3887291 TTGGTGGATG
* * * * * * *
3887301 ACACAGTTCTTACTTGATGAGGACGATTGGTTATCTAGGGGTGACATGACTCCTATGTGATGAGG
1 ACACAATTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGG
3887366 AGGTCTGGTCGGTGGATGACACT-GTTCCTAAGTGATGAGGATGATA
66 AGGTCTGGTCGGTGGATGACA-TGGTTCCTAAGTGATGAGGATGATA
* * * *
3887412 ACACAATTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGATGAGG
1 ACACAATTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGG
*
3887477 AGGTCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGATG
66 AGGTCTGGTCGGTGGATGACATGGTTCCTAAGTGATGAGGATG
3887520 GTATGCCATC
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 1 0.01
111 94 0.99
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.28
Consensus pattern (111 bp):
ACACAATTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGG
AGGTCTGGTCGGTGGATGACATGGTTCCTAAGTGATGAGGATGATA
Found at i:3887566 original size:131 final size:131
Alignment explanation
Indices: 3887404--3887648 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
3887394 TAAGTGATGA
* * *
3887404 GGATGATAACACAATTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACG
1 GGATGATAACACAATTCCTACGTGATGAGGATGGATGGTTATATAAGGGTGACACGGCTCCTACG
* * * *
3887469 TGATGAGGAGG-TCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGATGGTATGCCATCTTT
66 TGATGAGGAGGCT-TGATCGGAGGATGACACGGTTCCTACGCGATGAGGATGGTATGCCATCTTT
3887533 AG
130 AG
** * * * *
3887535 GGATGATAACACGGTTCCTACGTGGTGAGGATGGATGGTTATATAGGGGTGACACTGCTCTTACG
1 GGATGATAACACAATTCCTACGTGATGAGGATGGATGGTTATATAAGGGTGACACGGCTCCTACG
*
3887600 TGATGAGGAGGCTTGATCGGAGGATGACACGGTTCCTATGCGATGAGGA
66 TGATGAGGAGGCTTGATCGGAGGATGACACGGTTCCTACGCGATGAGGA
3887649 CGACTGACCG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 98 0.99
132 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (131 bp):
GGATGATAACACAATTCCTACGTGATGAGGATGGATGGTTATATAAGGGTGACACGGCTCCTACG
TGATGAGGAGGCTTGATCGGAGGATGACACGGTTCCTACGCGATGAGGATGGTATGCCATCTTTA
G
Found at i:3887912 original size:133 final size:132
Alignment explanation
Indices: 3887671--3887987 Score: 422
Period size: 133 Copynumber: 2.4 Consensus size: 132
3887661 TTTTGGGATT
** *
3887671 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-ATAAACTTCATTTCAAGGGAAATGATCTCAAAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACA-AAA-TTTGTTTCAAGGGAAACGATCTCAAAGAT
* ** * *
3887735 TGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAATATTCT-ACAAG
64 GGGTGTTTCAAGAGAAACCATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACAATCTCA-AAG
3887799 ATTGG
128 ATTGG
* * *
3887804 TGTTTCAAGAGAAGCCGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACGTTCTCAAAGATG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACGATCTCAAAGATG
* * *
3887869 GGTGTTTCAAGAGAAACCATCTCGAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGTT
65 GGTGTTTCAAGAGAAACCATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGAT
3887934 TGG
130 TGG
* * * *
3887937 TGTTTCACGAGAAAATATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
3887988 AAACCCAAAG
Statistics
Matches: 161, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
132 16 0.10
133 143 0.89
134 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (132 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATGG
GTGTTTCAAGAGAAACCATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATT
GG
Found at i:3887989 original size:66 final size:66
Alignment explanation
Indices: 3887671--3887998 Score: 408
Period size: 66 Copynumber: 4.9 Consensus size: 66
3887661 TTTTGGGATT
** **
3887671 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-ATAAACTTCATTTCAAGGGAAATGATCTCAAAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACA-AAA-TTTGTTTCAAGGGAAACAATCTCAAAGAT
3887735 TGG
64 TGG
* * *
3887738 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAATATTCT-ACAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCA-AAGATT
3887802 GG
65 GG
* * ** *
3887804 TGTTTCAAGAGAAGCCGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACGTTCTCAAAGATG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATT
3887869 GG
65 GG
** * *
3887871 TGTTTCAAGAGAAACCATCTCGAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGTTTG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTG
3887936 G
66 G
* * * * * *
3887937 TGTTTCACGAGAAAATATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAAACCCAAAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGA
3887999 GGATTTTTGT
Statistics
Matches: 233, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.00
66 141 0.61
67 89 0.38
68 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTG
G
Found at i:3888141 original size:36 final size:36
Alignment explanation
Indices: 3888044--3888165 Score: 104
Period size: 37 Copynumber: 3.3 Consensus size: 36
3888034 AATTTTTTTC
* * *
3888044 TTTTAAAGAAAAATGTCTCAAGTGAGACGGA-ATTTG
1 TTTTAAAGAAAACTGTCTCAAGCGAGAC-AACATTTG
* **
3888080 TTTTGAGAGAAAACTAACTCAAGCGAGACAACATTTG
1 TTTT-AAAGAAAACTGTCTCAAGCGAGACAACATTTG
* * * *
3888117 TTTTTAAGAAAACTGTCTCTAGCGAAACAACACATT-
1 TTTTAAAGAAAACTGTCTCAAGCGAGACAACA-TTTG
3888153 TTTTAGAAGAAAA
1 TTTTA-AAGAAAA
3888166 TCTTAAGAGC
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
36 31 0.46
37 37 0.54
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (36 bp):
TTTTAAAGAAAACTGTCTCAAGCGAGACAACATTTG
Found at i:3888505 original size:16 final size:16
Alignment explanation
Indices: 3888484--3888541 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
3888474 TTCATGTATC
* *
3888484 ATGTATGTATGTGTTG
1 ATGTATGTTTGTATTG
3888500 ATGTATGTTTGTATTG
1 ATGTATGTTTGTATTG
3888516 ATGTATGTTTGTATTG
1 ATGTATGTTTGTATTG
3888532 ATGTATGTTT
1 ATGTATGTTT
3888542 TCTCAATCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (16 bp):
ATGTATGTTTGTATTG
Found at i:3892323 original size:32 final size:32
Alignment explanation
Indices: 3892287--3892349 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
3892277 AATGAAAAAT
3892287 TACACAAACAAAAGAAAAGAAATAAGTTAGTG
1 TACACAAACAAAAGAAAAGAAATAAGTTAGTG
** *
3892319 TACACAAACAAAAGAAGTGAAATTAGTTAGT
1 TACACAAACAAAAGAAAAGAAATAAGTTAGT
3892350 ACATGTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.16, T:0.19
Consensus pattern (32 bp):
TACACAAACAAAAGAAAAGAAATAAGTTAGTG
Found at i:3894123 original size:30 final size:30
Alignment explanation
Indices: 3894088--3894330 Score: 203
Period size: 30 Copynumber: 8.1 Consensus size: 30
3894078 TAAATGACCA
3894088 AAAATAACAAAAATAGAAACTTAAAGGACT
1 AAAATAACAAAAATAGAAACTTAAAGGACT
** *
3894118 AAAATAGTAAAAATAGAAACTTAAGGGACT
1 AAAATAACAAAAATAGAAACTTAAAGGACT
* * * *
3894148 AAAAT-AGAAAAACAAAAACTTAAGGGACT
1 AAAATAACAAAAATAGAAACTTAAAGGACT
* * *
3894177 AAAATAGCAAAAACAAAAACTT-AAGAGACT
1 AAAATAACAAAAATAGAAACTTAAAG-GACT
* * * *
3894207 GAAATAACAAAAGAAAAAAACTTAAAGGGCT
1 AAAATAACAAAA-ATAGAAACTTAAAGGACT
*
3894238 AAACA-ATA-AAAAATAGAAACTTAAAGTACT
1 AAA-ATA-ACAAAAATAGAAACTTAAAGGACT
* * *
3894268 AAAATAGCAAAAACAGAAACTTCAAGGGA-T
1 AAAATAACAAAAATAGAAACTT-AAAGGACT
* *
3894298 -AAACAACAAAAACT-GAAAATTAAAGGACT
1 AAAATAACAAAAA-TAGAAACTTAAAGGACT
3894327 AAAA
1 AAAA
3894331 CAGTAATTAC
Statistics
Matches: 173, Mismatches: 28, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
28 5 0.03
29 45 0.26
30 95 0.55
31 23 0.13
32 5 0.03
ACGTcount: A:0.62, C:0.11, G:0.12, T:0.15
Consensus pattern (30 bp):
AAAATAACAAAAATAGAAACTTAAAGGACT
Found at i:3894167 original size:59 final size:59
Alignment explanation
Indices: 3894104--3894294 Score: 206
Period size: 61 Copynumber: 3.2 Consensus size: 59
3894094 ACAAAAATAG
3894104 AAACTTAAAGGACTAAAATAGTAAAAATAGAAACTTAAGGGACTAAAATAGAAAAACAA
1 AAACTTAAAGGACTAAAATAGTAAAAATAGAAACTTAAGGGACTAAAATAGAAAAACAA
* * * * * * * *
3894163 AAACTTAAGGGACTAAAATAGCAAAAACAAAAACTTAAGAGACTGAAATAACAAAAGAAAA
1 AAACTTAAAGGACTAAAATAGTAAAAATAGAAACTTAAGGGACTAAAAT-AGAAAA-ACAA
* * * *
3894224 AAACTTAAAGGGCTAAACA-A-TAAAAAATAGAAACTTAAAGTACTAAAATAGCAAAAACAG
1 AAACTTAAAGGACTAAA-ATAGT-AAAAATAGAAACTTAAGGGACTAAAATAG-AAAAACAA
*
3894284 AAACTTCAAGG
1 AAACTTAAAGG
3894295 GATAAACAAC
Statistics
Matches: 106, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
59 43 0.41
60 18 0.17
61 44 0.42
62 1 0.01
ACGTcount: A:0.60, C:0.11, G:0.13, T:0.16
Consensus pattern (59 bp):
AAACTTAAAGGACTAAAATAGTAAAAATAGAAACTTAAGGGACTAAAATAGAAAAACAA
Found at i:3894349 original size:91 final size:90
Alignment explanation
Indices: 3894134--3894329 Score: 215
Period size: 91 Copynumber: 2.2 Consensus size: 90
3894124 GTAAAAATAG
* * *
3894134 AAACTTAAGGGACT-AA-AATAGAAAAACAAAAACTTAAGGGACTAAAATAGCAAAAACAAAAAC
1 AAACTTAAAGGACTAAACAATA-AAAAA-TAAAACTTAAAGGACTAAAATAGCAAAAACAAAAAC
*
3894197 TTAAGAGACTGAAATAACAAAAGAAAA
64 TTAAGAGACTGAAACAACAAAAGAAAA
* * *
3894224 AAACTTAAAGGGCTAAACAATAAAAAATAGAAACTTAAAGTACTAAAATAGCAAAAACAGAAACT
1 AAACTTAAAGGACTAAACAATAAAAAATA-AAACTTAAAGGACTAAAATAGCAAAAACAAAAACT
* **
3894289 TCAAGGGA-T-AAACAACAAAA-ACTGA
65 T-AAGAGACTGAAACAACAAAAGA-AAA
3894314 AAA-TTAAAGGACTAAA
1 AAACTTAAAGGACTAAA
3894330 ACAGTAATTA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
89 13 0.14
90 27 0.30
91 41 0.46
92 9 0.10
ACGTcount: A:0.61, C:0.12, G:0.13, T:0.15
Consensus pattern (90 bp):
AAACTTAAAGGACTAAACAATAAAAAATAAAACTTAAAGGACTAAAATAGCAAAAACAAAAACTT
AAGAGACTGAAACAACAAAAGAAAA
Found at i:3894353 original size:120 final size:120
Alignment explanation
Indices: 3894104--3894332 Score: 274
Period size: 120 Copynumber: 1.9 Consensus size: 120
3894094 ACAAAAATAG
* *
3894104 AAACTTAAAGGACT-AA-AATAGTAAAAATAGAAACTTAAGGGACTAAAATAGAAAAACAAAAAC
1 AAACTTAAAGGGCTAAACAATA--AAAAATAGAAACTTAAAGGACTAAAATAGAAAAACAAAAAC
* * *
3894167 TTAAGGGACTAAAATAGCAAAAACAAAAACTTAAGAGACTGAAATAACAAAAGAAAA
64 TTAAGGGACTAAAATAGCAAAAACAAAAACTTAAGAGACTAAAACAACAAAACAAAA
* *
3894224 AAACTTAAAGGGCTAAACAATAAAAAATAGAAACTTAAAGTACTAAAATAGCAAAAACAGAAACT
1 AAACTTAAAGGGCTAAACAATAAAAAATAGAAACTTAAAGGACTAAAATAG-AAAAACAAAAACT
*
3894289 TCAAGGGA-TAAACA-A-CAAAAACTGAAAA-TTAA-AGGACTAAAACA
65 T-AAGGGACTAAA-ATAGCAAAAAC-AAAAACTTAAGA-GACTAAAACA
3894333 GTAATTACAA
Statistics
Matches: 95, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
119 1 0.01
120 59 0.62
121 24 0.25
122 11 0.12
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.15
Consensus pattern (120 bp):
AAACTTAAAGGGCTAAACAATAAAAAATAGAAACTTAAAGGACTAAAATAGAAAAACAAAAACTT
AAGGGACTAAAATAGCAAAAACAAAAACTTAAGAGACTAAAACAACAAAACAAAA
Found at i:3895674 original size:3 final size:3
Alignment explanation
Indices: 3895660--3895698 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
3895650 CAAAATGTAT
*
3895660 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3895699 GTTTTTTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3899433 original size:26 final size:26
Alignment explanation
Indices: 3899395--3899447 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3899385 GTTCTAAAAA
*
3899395 TGAATATAAACAATTTTTTTTTATGT
1 TGAATATAAACAAATTTTTTTTATGT
*
3899421 TGAATATACACAAATTTTTTTTATGT
1 TGAATATAAACAAATTTTTTTTATGT
3899447 T
1 T
3899448 TCTATACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (26 bp):
TGAATATAAACAAATTTTTTTTATGT
Found at i:3903053 original size:3 final size:3
Alignment explanation
Indices: 3903045--3903070 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3903035 TGAGCAAATT
3903045 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3903071 ACAATATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3903600 original size:26 final size:26
Alignment explanation
Indices: 3903541--3903607 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
3903531 ATGATATAAT
*
3903541 AATGTAAATTTATAAAATTTTAGATTG
1 AATGAAAATTTATAAAATTTTAGA-TG
3903568 -A-GAAAAATTTATAAAATTTTATGA-G
1 AATG-AAAATTTATAAAATTTTA-GATG
*
3903593 AATGAAAATATATAA
1 AATGAAAATTTATAA
3903608 TAATATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.06
26 29 0.85
27 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.37
Consensus pattern (26 bp):
AATGAAAATTTATAAAATTTTAGATG
Found at i:3903629 original size:18 final size:17
Alignment explanation
Indices: 3903597--3903653 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
3903587 TATGAGAATG
*
3903597 AAAATATATAATAATAT
1 AAAATATAAAATAATAT
3903614 AAAATATAAAAATAATAT
1 AAAATAT-AAAATAATAT
* * * *
3903632 AGATTATAAGATAATTT
1 AAAATATAAAATAATAT
3903649 AAAAT
1 AAAAT
3903654 TTGTAAGGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAAAATAATAT
Found at i:3904909 original size:218 final size:220
Alignment explanation
Indices: 3904518--3904964 Score: 853
Period size: 218 Copynumber: 2.0 Consensus size: 220
3904508 TTTAATACAT
3904518 AAAATTATTTAAAAATGAATTAAATTATTTATTATTATTTAAAATAGTCAAAGATGATTATAAGT
1 AAAATT-TTTAAAAATGAATTAAATTATTTATTATTATTTAAAATAGTCAAAGATGATTATAAGT
3904583 TAATATTTATTTTGAATTTTTCATAACCATTAACTACATGCACCATGCAAAAACAATTGTACGAA
65 TAATATTTATTTTGAATTTTTCATAACCATTAACTACATGCACCATGCAAAAACAATTGTACGAA
3904648 CTTAGAACTAAAGAAAATGATATTTCTTTTAACCACTGAAATCATTTAACAAATTCGATTAGTTT
130 CTTAGAACTAAAGAAAATGATATTTCTTTTAACCACTGAAATCATTTAACAAATTCGATTAGTTT
3904713 TTAAATCGAGTTTTGAAAAACAAAAC
195 TTAAATCGAGTTTTGAAAAACAAAAC
*
3904739 AAAATTTTTCAAAATGAATTAAATTATTTATTATTATTT-AAATAGTCAAAGATGATTATAA-TT
1 AAAATTTTTAAAAATGAATTAAATTATTTATTATTATTTAAAATAGTCAAAGATGATTATAAGTT
*
3904802 AATATTTATTTTGAATTTTTCATAACCATTAACTACATGCCCCATGCAAAAACAATTGTACGAAC
66 AATATTTATTTTGAATTTTTCATAACCATTAACTACATGCACCATGCAAAAACAATTGTACGAAC
3904867 TTAGAACTAAAGAAAATGATATTTCTTTTAACCACTGAAATCATTTAACAAATTCGATTAGTTTT
131 TTAGAACTAAAGAAAATGATATTTCTTTTAACCACTGAAATCATTTAACAAATTCGATTAGTTTT
3904932 TAAATCGAGTTTTGAAAAACAAAAC
196 TAAATCGAGTTTTGAAAAACAAAAC
3904957 AAAATTTT
1 AAAATTTT
3904965 CATAATCAAA
Statistics
Matches: 224, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
218 164 0.73
219 22 0.10
220 32 0.14
221 6 0.03
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.37
Consensus pattern (220 bp):
AAAATTTTTAAAAATGAATTAAATTATTTATTATTATTTAAAATAGTCAAAGATGATTATAAGTT
AATATTTATTTTGAATTTTTCATAACCATTAACTACATGCACCATGCAAAAACAATTGTACGAAC
TTAGAACTAAAGAAAATGATATTTCTTTTAACCACTGAAATCATTTAACAAATTCGATTAGTTTT
TAAATCGAGTTTTGAAAAACAAAAC
Found at i:3910905 original size:9 final size:9
Alignment explanation
Indices: 3910891--3910915 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3910881 CCAACTTTAC
3910891 AAGCAACAT
1 AAGCAACAT
3910900 AAGCAACAT
1 AAGCAACAT
3910909 AAGCAAC
1 AAGCAAC
3910916 CTATAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.08
Consensus pattern (9 bp):
AAGCAACAT
Found at i:3911851 original size:4 final size:4
Alignment explanation
Indices: 3911842--3912352 Score: 205
Period size: 4 Copynumber: 132.2 Consensus size: 4
3911832 ATTTCAGTTT
* * * * * * *
3911842 GAGA GAGA GAGA G-GG GAGA GAAA GAGA GAGA GAGG GATA AATA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
3911889 GAGA GAGA GAGG GGGA GAGA GAGG GGGA GAGA G-GG GGGA G-GA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
3911935 GAGG GAG- GAGA GGGA GGGA GGGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* *
3911982 GAGA GAGA GAGA GATG- GAGA GAGA GGGA GAGA GA-A G-GA GAGA GAGG
1 GAGA GAGA GAGA GA-GA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
3912028 GAGA GGGA G-GA GAGG GAGA GAGG GAGA GAG- GATA GGGA GGGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
3912074 GGGA GAGG GAGA GAGA GGGA GAGA GATA GGGA G-GA GAGA GAGG GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
3912121 GAGG GTGA GAGA GA-A G-GG GAGA GAG- GGGA GAGG GGGA GAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * *
3912166 GGGA GGGA GGGA G-GG GA-A GGGA GGGA GGGA GGGA G-GG GAG- GAG-
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
3912209 GGGA GGGA GGGA GAGA GAGG GGGA GAGG GAGA GGGA GAGC GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * * *
3912257 GGGA GAAA GAG- GGGG GATA GAGA GAGA GAGG GGGA TAGA GAGG GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
3912304 TAGA GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
3912352 G
1 G
3912353 TGGATGATCA
Statistics
Matches: 381, Mismatches: 107, Indels: 38
0.72 0.20 0.07
Matches are distributed among these distances:
3 40 0.10
4 340 0.89
5 1 0.00
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:3911899 original size:12 final size:12
Alignment explanation
Indices: 3911844--3912352 Score: 311
Period size: 12 Copynumber: 43.4 Consensus size: 12
3911834 TTCAGTTTGA
3911844 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
3911856 G-GAGAGA-A-A
1 GAGAGAGAGAGG
3911865 GAGAGAGAGAGG
1 GAGAGAGAGAGG
* * *
3911877 GATAAATAGAGG
1 GAGAGAGAGAGG
3911889 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
3911901 GGGAGAGAGAGG
1 GAGAGAGAGAGG
* *
3911913 GGGAGAGAGGGGG
1 GAGAGAGA-GAGG
3911926 GAGGAGAGAGAGG
1 GA-GAGAGAGAGG
*
3911939 GAGGAGAGGGAGG
1 GA-GAGAGAGAGG
*
3911952 GAG-G-GAGAGA
1 GAGAGAGAGAGG
*
3911962 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
3911974 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
3911986 GAGAGAGAGA-T
1 GAGAGAGAGAGG
3911997 G-GAGAGAGAGG
1 GAGAGAGAGAGG
3912008 GAGAGAGA-A-G
1 GAGAGAGAGAGG
3912018 GAGAGAGAG-GG
1 GAGAGAGAGAGG
*
3912029 AGAGGGAGGAGAGG
1 -GAGAGA-GAGAGG
* *
3912043 GAGAGAGGGAGA
1 GAGAGAGAGAGG
* *
3912055 GAGGATAGGGAGG
1 GA-GAGAGAGAGG
* *
3912068 GAGAGGGGGAGAG
1 GAGAGAGAGAG-G
3912081 G-GAGAGAGAGG
1 GAGAGAGAGAGG
*
3912092 GAGAGAGATAGG
1 GAGAGAGAGAGG
3912104 GAGGAGAGAGAGG
1 GA-GAGAGAGAGG
3912117 G-G-GAGAG-GG
1 GAGAGAGAGAGG
3912126 TGAGAGAGA-AGGG
1 -GAGAGAGAGA-GG
3912139 GAGAGAGGGGAGAGG
1 GAGAGA---GAGAGG
*
3912154 GGGAGAGAGAGG
1 GAGAGAGAGAGG
*
3912166 G-G-GAGGGAGG
1 GAGAGAGAGAGG
*
3912176 GAG-GGGA-AGG
1 GAGAGAGAGAGG
* *
3912186 GAGGGAGGGAGG
1 GAGAGAGAGAGG
*
3912198 GAG-GGGAGGAGG
1 GAGAGAGA-GAGG
3912210 G-GAG-G-GAGG
1 GAGAGAGAGAGG
*
3912219 GAGAGAGAGGGG
1 GAGAGAGAGAGG
*
3912231 GAGAGGGAGAGG
1 GAGAGAGAGAGG
3912243 GAGAGCGAGAGAGAG
1 GAGA--GAGAGAG-G
*
3912258 G-GAGAAAGAGG
1 GAGAGAGAGAGG
*
3912269 G-G-G-GATA--
1 GAGAGAGAGAGG
3912276 GAGAGAGAGAGG
1 GAGAGAGAGAGG
* *
3912288 GGGATAGAGAGG
1 GAGAGAGAGAGG
* *
3912300 GGGATAGAGAGG
1 GAGAGAGAGAGG
* *
3912312 GAGGGAGGGAGG
1 GAGAGAGAGAGG
* *
3912324 GAGGGAGGGAGG
1 GAGAGAGAGAGG
*
3912336 GAGAGAGAGAGA
1 GAGAGAGAGAGG
3912348 GAGAG
1 GAGAG
3912353 TGGATGATCA
Statistics
Matches: 400, Mismatches: 54, Indels: 86
0.74 0.10 0.16
Matches are distributed among these distances:
7 1 0.00
8 1 0.00
9 11 0.03
10 58 0.14
11 31 0.08
12 217 0.54
13 53 0.13
14 16 0.04
15 11 0.03
16 1 0.00
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:3912262 original size:8 final size:8
Alignment explanation
Indices: 3911893--3912350 Score: 277
Period size: 8 Copynumber: 56.9 Consensus size: 8
3911883 TAGAGGGAGA
3911893 GAGAGAGG
1 GAGAGAGG
*
3911901 G-G-GAGA
1 GAGAGAGG
*
3911907 GAGAGGGG
1 GAGAGAGG
3911915 GAGAGAGG
1 GAGAGAGG
*
3911923 G-GGGAGG
1 GAGAGAGG
3911930 AGAGAGAGG
1 -GAGAGAGG
3911939 GAGGAGAGG
1 GA-GAGAGG
*
3911948 GAGGGAGG
1 GAGAGAGG
3911956 GAGAGAGAG
1 GAGAGAG-G
*
3911965 AGAGAGAGA
1 -GAGAGAGG
*
3911974 GAGAGAGA
1 GAGAGAGG
*
3911982 GAGAGAGA
1 GAGAGAGG
3911990 GAGAGATGG
1 GAGAGA-GG
3911999 AGAGAGAGG
1 -GAGAGAGG
3912008 GAGAGAGAAG
1 GAGAGAG--G
3912018 GAGAGAGAG
1 GAGAGAG-G
3912027 G-GAGAGG
1 GAGAGAGG
3912034 GAGGAGAGG
1 GA-GAGAGG
3912043 GAGAGAGG
1 GAGAGAGG
3912051 GAGAGAGG
1 GAGAGAGG
* *
3912059 ATAGGGAGG
1 -GAGAGAGG
*
3912068 GAGAGGGG
1 GAGAGAGG
3912076 GAGAG-GG
1 GAGAGAGG
3912083 AGAGAGAGG
1 -GAGAGAGG
*
3912092 GAGAGAGA
1 GAGAGAGG
* *
3912100 TAGGGAGG
1 GAGAGAGG
3912108 AGAGAGAGG
1 -GAGAGAGG
*
3912117 GGGAGAGG
1 GAGAGAGG
* *
3912125 GTGAGAGA
1 GAGAGAGG
3912133 GA-AG-GG
1 GAGAGAGG
3912139 GAGAGAGGG
1 GAGAGA-GG
*
3912148 GAGAGGGG
1 GAGAGAGG
3912156 GAGAGAGAG
1 GAGAGAG-G
*
3912165 G-GGGAGG
1 GAGAGAGG
*
3912172 GAGGGAGG
1 GAGAGAGG
3912180 G-GA-AGG
1 GAGAGAGG
*
3912186 GAGGGAGG
1 GAGAGAGG
*
3912194 GAGGGAGG
1 GAGAGAGG
3912202 G-GAGGAGGG
1 GAGA-GA-GG
*
3912211 GAGGGAGG
1 GAGAGAGG
3912219 GAGAGAGAG
1 GAGAGAG-G
*
3912228 G-GGGAGAG
1 GAGAGAG-G
3912236 G-GAGAGG
1 GAGAGAGG
* *
3912243 GAGAGCGA
1 GAGAGAGG
3912251 GAGAGAGG
1 GAGAGAGG
*
3912259 GAGA-A-A
1 GAGAGAGG
*
3912265 GAG-GGGG
1 GAGAGAGG
* *
3912272 GATAGAGA
1 GAGAGAGG
3912280 GAGAGAGG
1 GAGAGAGG
**
3912288 G-G-GATA
1 GAGAGAGG
*
3912294 GAGAGGGG
1 GAGAGAGG
3912302 GATAGAGAGG
1 G--AGAGAGG
*
3912312 GAGGGAGG
1 GAGAGAGG
*
3912320 GAGGGAGG
1 GAGAGAGG
*
3912328 GAGGGAGG
1 GAGAGAGG
*
3912336 GAGAGAGA
1 GAGAGAGG
3912344 GAGAGAG
1 GAGAGAG
3912351 AGTGGATGAT
Statistics
Matches: 357, Mismatches: 57, Indels: 72
0.73 0.12 0.15
Matches are distributed among these distances:
6 17 0.05
7 27 0.08
8 226 0.63
9 58 0.16
10 29 0.08
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (8 bp):
GAGAGAGG
Found at i:3913330 original size:32 final size:32
Alignment explanation
Indices: 3913289--3913356 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
3913279 ATGACTTTAC
* *
3913289 TGTGTATTATCTGAATGTC-ATATTAACTCTGT
1 TGTGGATTATCTGAAT-ACAATATTAACTCTGT
*
3913321 TGTGGATTATCTGAATACAATATTGACTCTGT
1 TGTGGATTATCTGAATACAATATTAACTCTGT
3913353 TGTG
1 TGTG
3913357 ACTCATACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (32 bp):
TGTGGATTATCTGAATACAATATTAACTCTGT
Found at i:3914468 original size:21 final size:20
Alignment explanation
Indices: 3914416--3914469 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
3914406 TCTGGGGTGA
*
3914416 GTAGTATCGGTACTCTAGTT
1 GTAGTATCGATACTCTAGTT
*
3914436 GTAGTATTGATACTCTAG-T
1 GTAGTATCGATACTCTAGTT
3914455 GTCAAGTATCGATAC
1 GT--AGTATCGATAC
3914470 ACATATGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 10 0.34
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (20 bp):
GTAGTATCGATACTCTAGTT
Found at i:3916091 original size:20 final size:22
Alignment explanation
Indices: 3916068--3916119 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
3916058 ACGCCCATAG
3916068 TATCGATACTCAT-TGAAC-AA
1 TATCGATACTCATATGAACGAA
* **
3916088 TATCAATACT-ATATGAACGTG
1 TATCGATACTCATATGAACGAA
3916109 TATCGATACTC
1 TATCGATACTC
3916120 CCAACATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 14 0.56
21 9 0.36
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
TATCGATACTCATATGAACGAA
Found at i:3917046 original size:47 final size:47
Alignment explanation
Indices: 3916937--3917085 Score: 257
Period size: 46 Copynumber: 3.2 Consensus size: 47
3916927 CCTCATTCAT
* *
3916937 GCCCAATTCAAGGATATCCTTTTTAAACCATAATAGGCTC-ACCCAA
1 GCCCAAATCAAGGATATCATTTTTAAACCATAATAGGCTCAACCCAA
*
3916983 GCCCAAATCAAGGATATCTTTTTTAAACCATAATAGGCTCAACCCAA
1 GCCCAAATCAAGGATATCATTTTTAAACCATAATAGGCTCAACCCAA
3917030 GCCCAAATCAAGGATAT-ATTTTTAAACCATAATAGGCTCAACCCAA
1 GCCCAAATCAAGGATATCATTTTTAAACCATAATAGGCTCAACCCAA
3917076 GCCCAAATCA
1 GCCCAAATCA
3917086 CTCTATAATT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 76 0.77
47 23 0.23
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (47 bp):
GCCCAAATCAAGGATATCATTTTTAAACCATAATAGGCTCAACCCAA
Found at i:3919010 original size:44 final size:44
Alignment explanation
Indices: 3918960--3919043 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
3918950 ATAACAAAAG
3918960 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
3919004 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
3919044 TTTGCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (44 bp):
CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
Found at i:3920004 original size:44 final size:44
Alignment explanation
Indices: 3919954--3920037 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
3919944 ATAAAAAAAG
3919954 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
3919998 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
3920038 TTTGCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (44 bp):
CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
Found at i:3920477 original size:993 final size:996
Alignment explanation
Indices: 3918536--3920517 Score: 3612
Period size: 993 Copynumber: 2.0 Consensus size: 996
3918526 TTTGAAATTT
3918536 TAAAAATAAAAATAAATAAATTACATAACATAAATTTTATACTATTTATATATCAAACAATGTAC
1 TAAAAAT-AAAATAAATAAATTACATAACATAAATTTTATACTATTTATATATCAAACAATGTAC
3918601 AAAACTAATTTTATATGGTGGAAATGGTAATGTAATGCTTAGAAAAGGTTTGGTATGATATCTGA
65 AAAACTAATTTTATATGGTGGAAATGGTAATGTAATGCTTAGAAAAGGTTTGGTATGATATCTGA
*
3918666 TAGGTAGGGTGTTCTACTACAGTTGACAGTGCTCTGATGGGTGTGATTTGCTAAGCACACGTTCC
130 TAAGTAGGGTGTTCTACTACAGTTGACAGTGCTCTGATGGGTGTGATTTGCTAAGCACACGTTCC
* *
3918731 ACTGATATGAGTTAGGGGTGTTCGCAGCCGGTTTGGATCGGTTTTTGGCTAAAATTTCATCCGAT
195 ACTGATATGAGTTAGGGGTGTTCGCAGCCGGTTTGGATCAGTTTTTGGCTAAAAATTCATCCGAT
3918796 CTGAAAGTATAAATGTTTGCGGTTTGGATGTTTCTAAAACAAATCCGATCCGATCCAATTAAGTG
260 CTGAAAGTATAAATGTTTGCGGTTTGGATGTTTCTAAAACAAATCCGATCCG----AATTAAGTG
* *
3918861 CGGTTGGATTCGGTTTGGATTTGTGCATTTTTTGGATTCTAATTTTTCAAAATAATTCTTGAATT
321 CGGCTGGATTCGGTTTGGATTTGTGCATTTTTTGGATTCTAATTTTTCAAAATAATTCTTGAATG
*
3918926 TTTTTCATAAAAAACAACATATGTATAACAAAAGCAAAGAGAATATATATTTTAACAAATGCAAG
386 TTTTTCATAAAAAACAACATATGTATAAAAAAAGCAAAGAGAATATATATTTTAACAAATGCAAG
3918991 CTTGTGAAGCTTACAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGTTTGCTCACATT
451 CTTGTGAAGCTTACAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGTTTGCTCACATT
* *
3919056 AATAGTTCAGCAACAGTTTGTAGATAGAACCAAGATTTTTCATCTTTGGGCATAGATGAGTTCAT
516 AATAGTTCAACAACAGTTTGTAGATAGAACCAAGATTTTTCATCTTTAGGCATAGATGAGTTCAT
*
3919121 TTCTTTCCTTTTTGTAAATTCAATATTGCCAAGATGCAAAATTGCAGCAACCACTCGAAATATTG
581 TTCTTTCCTTTTTGTAAATTCAATATTGCCAAGATGCAAAATTACAGCAACCACTCGAAATATTG
* *
3919186 CTTCCTGGACAGTGGTGGGGGATAAAATATCAAAGCATAGAAGCACAACGTGCCTTCCATTTGGT
646 CTTCCTAGACAGTAGTGGGGGATAAAATATCAAAGCATAGAAGCACAACGTGCCTTCCATTTGGT
* *
3919251 CTATCCATATGTCATTCTTTTTCAACCAAATACACAAAAGACATAGAAACCACCCAAAGCTAAAG
711 CTATCCATATGTCATTCTTTATCAACCAAATACACAAAAGACAGAGAAACCACCCAAAGCTAAAG
* *
3919316 ATAAAATGAGGGCACCCTATAAAGATAGAGAAACCACATTCTAAAAAACAAAATTTGCACAATAT
776 ACAAAATGAGGGCACCCTATAAAGACAGAGAAACCACATTCTAAAAAACAAAATTTGCACAATAT
* *
3919381 AAAGTGCAATCAAATTAAGTCAATAAGTCCTGAAATTGTTCTAGTTATAACTTCATAGAAACTAC
841 AAAGTGCAATCAAATTAAGTCAATAAGTCCTAAAATTGTTCTAGTTATAACTTCATAGAAAATAC
*
3919446 AAAAAGTTGTGCAATTGTTCAAATTCAAAGCATTCCAGAACAACGACCCAAGTCATAAGCATCCA
906 AAAAAGTTGTGCAATTGTTCAAATTCAAAGCATTCCAGAACAACGACCCAAGTCACAAGCATCCA
3919511 TATTGCAACAAATCTAATTTTAAAAA
971 TATTGCAACAAATCTAATTTTAAAAA
3919537 TAAAAAT-AAATAAATAAATTACATAACATAAATTTTATACTATTTATATATCAAACAATGTACA
1 TAAAAATAAAATAAATAAATTACATAACATAAATTTTATACTATTTATATATCAAACAATGTACA
*
3919601 AAACTAATTTTATATGGTGGAAATGGTAATGTATTGCTTAGAAAAGGTTTGGTATGATATCTGAT
66 AAACTAATTTTATATGGTGGAAATGGTAATGTAATGCTTAGAAAAGGTTTGGTATGATATCTGAT
*
3919666 AAGTAGGGTGTTCTACTACAGTTGCCAGTGCTCTGAT-GGTGTGATTTGCTAAGCACACGTTCCA
131 AAGTAGGGTGTTCTACTACAGTTGACAGTGCTCTGATGGGTGTGATTTGCTAAGCACACGTTCCA
* * *
3919730 CTGATATGAGTTAGGGGTGTTCGCGGTCGGTTTGGATCAGTTTTTGGCTAAAAATTCATCCGATT
196 CTGATATGAGTTAGGGGTGTTCGCAGCCGGTTTGGATCAGTTTTTGGCTAAAAATTCATCCGATC
3919795 TGAAAGTATAAATGTTTGCGGTTTGGATGTTTCTAAAACAAATCCGATCCG-ATTAAGTGCGGCT
261 TGAAAGTATAAATGTTTGCGGTTTGGATGTTTCTAAAACAAATCCGATCCGAATTAAGTGCGGCT
3919859 GGATTCGGTTTGGATTTGTGCATTTTTTGGATTCTAATTTTTCAAAATAATTCTTGAATGTTTTT
326 GGATTCGGTTTGGATTTGTGCATTTTTTGGATTCTAATTTTTCAAAATAATTCTTGAATGTTTTT
3919924 CATAAAGAAACAACATATGTATAAAAAAAGCAAAGAGAATATATATTTTAACAAATGCAAGCTTG
391 CATAAA-AAACAACATATGTATAAAAAAAGCAAAGAGAATATATATTTTAACAAATGCAAGCTTG
3919989 TGAAGCTTACAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGTTTGCTCACATTAATA
455 TGAAGCTTACAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGTTTGCTCACATTAATA
3920054 GTTCAACAACAGTTTGTAGATAGAACCAAGATTTTTCATCTTTAGGCATAGATGAGTTCATTTCT
520 GTTCAACAACAGTTTGTAGATAGAACCAAGATTTTTCATCTTTAGGCATAGATGAGTTCATTTCT
*
3920119 TTCCTTTTTGTAAATTCAATATTGCCAAGATGCAAAATTACAGCAACCACTCGAAATATTTCTTC
585 TTCCTTTTTGTAAATTCAATATTGCCAAGATGCAAAATTACAGCAACCACTCGAAATATTGCTTC
* *
3920184 CTAGACAGTAGTGGGGGATAAAATATCAAAGCATAGAAGCACAATGTGCCTT-CATTTGGTCTGT
650 CTAGACAGTAGTGGGGGATAAAATATCAAAGCATAGAAGCACAACGTGCCTTCCATTTGGTCTAT
* *
3920248 CCATATGTCATTCTTTATCAACCAAATGCACAAAAGATAGAGAAACCACCCAAAGCTAAAGACAA
715 CCATATGTCATTCTTTATCAACCAAATACACAAAAGACAGAGAAACCACCCAAAGCTAAAGACAA
* *
3920313 AATGAGGGCACCCTATAAAGACAGAGAAACCACATTCTAAAAAATAGAATTTGCACAATATAAAG
780 AATGAGGGCACCCTATAAAGACAGAGAAACCACATTCTAAAAAACAAAATTTGCACAATATAAAG
3920378 TGCAATCAAATTAAGTCAATAAGTCCTAAAATTGTTCTAGTTATAACTTCATAGAAAATACAAAA
845 TGCAATCAAATTAAGTCAATAAGTCCTAAAATTGTTCTAGTTATAACTTCATAGAAAATACAAAA
3920443 AGTTGTGCAATTGTTCAAATTCAAAGCATTCCAGAACAACGACCCAAGTCACAAGCATCCATATT
910 AGTTGTGCAATTGTTCAAATTCAAAGCATTCCAGAACAACGACCCAAGTCACAAGCATCCATATT
3920508 GCAACAAATC
975 GCAACAAATC
3920518 ACAGTTTAGA
Statistics
Matches: 950, Mismatches: 30, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
993 352 0.37
994 297 0.31
998 138 0.15
999 156 0.16
1001 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (996 bp):
TAAAAATAAAATAAATAAATTACATAACATAAATTTTATACTATTTATATATCAAACAATGTACA
AAACTAATTTTATATGGTGGAAATGGTAATGTAATGCTTAGAAAAGGTTTGGTATGATATCTGAT
AAGTAGGGTGTTCTACTACAGTTGACAGTGCTCTGATGGGTGTGATTTGCTAAGCACACGTTCCA
CTGATATGAGTTAGGGGTGTTCGCAGCCGGTTTGGATCAGTTTTTGGCTAAAAATTCATCCGATC
TGAAAGTATAAATGTTTGCGGTTTGGATGTTTCTAAAACAAATCCGATCCGAATTAAGTGCGGCT
GGATTCGGTTTGGATTTGTGCATTTTTTGGATTCTAATTTTTCAAAATAATTCTTGAATGTTTTT
CATAAAAAACAACATATGTATAAAAAAAGCAAAGAGAATATATATTTTAACAAATGCAAGCTTGT
GAAGCTTACAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGTTTGCTCACATTAATAG
TTCAACAACAGTTTGTAGATAGAACCAAGATTTTTCATCTTTAGGCATAGATGAGTTCATTTCTT
TCCTTTTTGTAAATTCAATATTGCCAAGATGCAAAATTACAGCAACCACTCGAAATATTGCTTCC
TAGACAGTAGTGGGGGATAAAATATCAAAGCATAGAAGCACAACGTGCCTTCCATTTGGTCTATC
CATATGTCATTCTTTATCAACCAAATACACAAAAGACAGAGAAACCACCCAAAGCTAAAGACAAA
ATGAGGGCACCCTATAAAGACAGAGAAACCACATTCTAAAAAACAAAATTTGCACAATATAAAGT
GCAATCAAATTAAGTCAATAAGTCCTAAAATTGTTCTAGTTATAACTTCATAGAAAATACAAAAA
GTTGTGCAATTGTTCAAATTCAAAGCATTCCAGAACAACGACCCAAGTCACAAGCATCCATATTG
CAACAAATCTAATTTTAAAAA
Found at i:3923583 original size:47 final size:47
Alignment explanation
Indices: 3923505--3923838 Score: 499
Period size: 47 Copynumber: 7.1 Consensus size: 47
3923495 TAAATCGAGT
3923505 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
* * *
3923552 CCATAACTAAAAATGCATGCAATGATACATTAAGGAATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
* *
3923599 TCATAACTAAAAATACATGCAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
3923646 CCATAACT-AAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
* * * * * *
3923692 TCATAACTAAAAATGCAAGAAATGATGCATTAAGGAATGAAAGAATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
* * * *
3923739 CCATAACTAAAAATGCATGAAATGATGTATTAAGGTATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
* *
3923786 CCATAAGTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
*
3923833 TCATAA
1 CCATAA
3923839 ATGAAATTAA
Statistics
Matches: 260, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 44 0.17
47 216 0.83
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (47 bp):
CCATAACTAAAAATGCATGCAAGGATGCATTAAGGCATGAAAGGATG
Found at i:3923642 original size:20 final size:20
Alignment explanation
Indices: 3923614--3923832 Score: 78
Period size: 20 Copynumber: 9.6 Consensus size: 20
3923604 ACTAAAAATA
*
3923614 CATGCAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
*
3923634 CATGAAAGGATGCCATAACTAAAATG
1 CATGAAAGGATG-CAT---T--AAGG
*
3923660 CATGCAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
*
3923680 CATGAAAGGATGTCATAACTAAAAATG
1 CATGAAAGGATG-CAT---T---AAGG
* *
3923707 CAAGAAATGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
* * *
3923727 AATGAAAGAATGCCATAACTAAAAATG
1 CATGAAAGGATG-CAT---T---AAGG
* *
3923754 CATGAAATGATGTATTAAGG
1 CATGAAAGGATGCATTAAGG
* *
3923774 TATGAAAGGATGCCATAAGTAAAAATG
1 CATGAAAGGATG-CAT---T---AAGG
3923801 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
3923821 CATGAAAGGATG
1 CATGAAAGGATG
3923833 TCATAAATGA
Statistics
Matches: 147, Mismatches: 25, Indels: 54
0.65 0.11 0.24
Matches are distributed among these distances:
20 64 0.44
21 11 0.07
22 1 0.01
23 3 0.02
24 4 0.03
25 3 0.02
26 22 0.15
27 39 0.27
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGG
Found at i:3929352 original size:21 final size:21
Alignment explanation
Indices: 3929301--3929354 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
3929291 AATTGTTCTG
*
3929301 AAGGACCTCATATATGTCCCA
1 AAGGACCTCGTATATGTCCCA
*
3929322 AAGGACCTCGTATATGTCTCA
1 AAGGACCTCGTATATGTCCCA
3929343 AAGGACCTCGTA
1 AAGGACCTCGTA
3929355 GAACCCTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (21 bp):
AAGGACCTCGTATATGTCCCA
Found at i:3934471 original size:6 final size:6
Alignment explanation
Indices: 3934460--3934492 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
3934450 CTGATTTCTT
3934460 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCT
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCT
3934493 TATTCTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTCTA
Found at i:3940792 original size:2 final size:2
Alignment explanation
Indices: 3940785--3940896 Score: 181
Period size: 2 Copynumber: 56.5 Consensus size: 2
3940775 GTCAATCTAC
3940785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
3940827 AT AT -T AT AT AT AT AT AT TT AT AT TT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3940868 TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3940897 ATTTCCGAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
1 1 0.01
2 100 0.99
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3941042 original size:85 final size:85
Alignment explanation
Indices: 3940944--3941166 Score: 349
Period size: 85 Copynumber: 2.6 Consensus size: 85
3940934 GTCTTTTTAA
* * * *
3940944 ATGACGTGTGCTTCAATGACACGCAATGTAAGTCATATATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
3941009 AATGTATGTCAAGCAT-ATTT
66 AATGTATGTC-AGCATAATTT
*
3941029 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* * *
3941094 AATGTGTGTCATCTTAATTT
66 AATGTATGTCAGCATAATTT
*
3941114 ATGACGGGGGCTTCAATGACGCACAATGTAAGTCATACATGCGTGTCATAAAT
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
3941167 CACGCATAAA
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
84 3 0.02
85 125 0.98
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTATGTCAGCATAATTT
Found at i:3941239 original size:96 final size:96
Alignment explanation
Indices: 3941075--3941371 Score: 558
Period size: 96 Copynumber: 3.1 Consensus size: 96
3941065 ACATGCGTGT
3941075 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
1 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
3941140 TGTAAGTCATACATGCGTGTCATAAATCACG
66 TGTAAGTCATACATGCGTGTCATAAATCACG
3941171 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
1 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
3941236 TGTAAGTCATACATGCGTGTCATAAATCACG
66 TGTAAGTCATACATGCGTGTCATAAATCACG
*
3941267 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAAGGACGCACAA
1 CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
*
3941332 TGTAAGTCATACATGCGCGTCATAAATGCACG
66 TGTAAGTCATACATGCGTGTCATAAAT-CACG
3941364 TCATAAAT
1 -CATAAAT
3941372 GTGCGTCATA
Statistics
Matches: 197, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
96 186 0.94
97 4 0.02
98 7 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (96 bp):
CATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCACAA
TGTAAGTCATACATGCGTGTCATAAATCACG
Found at i:3941355 original size:13 final size:13
Alignment explanation
Indices: 3941337--3941381 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
3941327 CACAATGTAA
*
3941337 GTCATACATGCGC
1 GTCATAAATGCGC
*
3941350 GTCATAAATGCAC
1 GTCATAAATGCGC
*
3941363 GTCATAAATGTGC
1 GTCATAAATGCGC
3941376 GTCATA
1 GTCATA
3941382 GATTTATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:3942797 original size:16 final size:15
Alignment explanation
Indices: 3942776--3942815 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3942766 AAACATTACC
*
3942776 ATCATATCACTATTCA
1 ATCATATCA-TATACA
3942792 ATCATATCATATACA
1 ATCATATCATATACA
3942807 ATCA-ATCAT
1 ATCATATCAT
3942816 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
ATCATATCATATACA
Found at i:3952521 original size:15 final size:16
Alignment explanation
Indices: 3952503--3952533 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3952493 TTCATAGTTC
3952503 ATAAAT-AGTAAACCA
1 ATAAATGAGTAAACCA
3952518 ATAAATGAGTAAACCA
1 ATAAATGAGTAAACCA
3952534 TAATATCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (16 bp):
ATAAATGAGTAAACCA
Found at i:3952536 original size:15 final size:14
Alignment explanation
Indices: 3952502--3952536 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
3952492 TTTCATAGTT
3952502 CATAAATAGTAAAC
1 CATAAATAGTAAAC
3952516 CAATAAATGAGTAAAC
1 C-ATAAAT-AGTAAAC
3952532 CATAA
1 CATAA
3952537 TATCGAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 10 0.53
16 8 0.42
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (14 bp):
CATAAATAGTAAAC
Found at i:3954016 original size:28 final size:28
Alignment explanation
Indices: 3953984--3954040 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
3953974 ATGCATAAGG
3953984 TAGTAATGTATTACCTCGATTTTTGAGC
1 TAGTAATGTATTACCTCGATTTTTGAGC
3954012 TAGTAATGTATTACCTCGATTTTTGAGC
1 TAGTAATGTATTACCTCGATTTTTGAGC
3954040 T
1 T
3954041 CCACCGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (28 bp):
TAGTAATGTATTACCTCGATTTTTGAGC
Found at i:3968178 original size:19 final size:19
Alignment explanation
Indices: 3968129--3968178 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3968119 AGAACTTTTC
*
3968129 TTTTATTTTATTTTTTTAAT
1 TTTTAATTT-TTTTTTTAAT
*
3968149 TTTTGGA-TTTTTTTTTAAT
1 TTTT-AATTTTTTTTTTAAT
3968168 TTTTAATTTTT
1 TTTTAATTTTT
3968179 ACTTTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTAATTTTTTTTTTAAT
Found at i:3976561 original size:12 final size:11
Alignment explanation
Indices: 3976542--3976594 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
3976532 TTTTGACCTG
3976542 AAAATAAAATA
1 AAAATAAAATA
3976553 AATAATAAAAATA
1 AA-AAT-AAAATA
*
3976566 AAAATAAAACA
1 AAAATAAAATA
*
3976577 AAAAGTAATATA
1 AAAA-TAAAATA
*
3976589 ATAATA
1 AAAATA
3976595 TATATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 13 0.37
12 14 0.40
13 8 0.23
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:3976567 original size:6 final size:6
Alignment explanation
Indices: 3976542--3976574 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
3976532 TTTTGACCTG
3976542 AAAAT- AAAATA AATAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AA-AATA AAAATA AAAATA AAA
3976575 CAAAAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:3978190 original size:20 final size:21
Alignment explanation
Indices: 3978165--3978205 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3978155 GTACCTACCT
3978165 TATACACT-AAGTGTCTTGTA
1 TATACACTCAAGTGTCTTGTA
*
3978185 TATACACTCTAGTGTCTTGTA
1 TATACACTCAAGTGTCTTGTA
3978206 CTGTGTGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
TATACACTCAAGTGTCTTGTA
Found at i:3980818 original size:71 final size:71
Alignment explanation
Indices: 3980691--3981148 Score: 494
Period size: 71 Copynumber: 6.5 Consensus size: 71
3980681 TGGAATTTAA
* * * * *
3980691 AAAAAATCTCAAGTGAGAAGAAATTTTGTTTCTAGCGAAA-TGTATCAAGTGGGACAAAAAATTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGAC-GAAAATTT
3980755 TCAATGGG
65 TCAA-GGG
* * * * * *
3980763 -AAATATCTCAAGTGAGATGAAATTTTG-TTCGAGTGAAACTTTCTCGAGTGAGACAAAAAATTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
3980826 CAAGGG
66 CAAGGG
* * * * *
3980832 AAAATATCTCCAGTGAGGT-AAATTTTGTTTCGAGTGAAACTGTATCAAGTGAAATGAAAATTTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
3980896 CAAGGG
66 CAAGGG
** * * * * *
3980902 AAAATATCTCTCGTGAGATAAAATTTTGTTTAGAGCGAAAGTGTCTCAAGTGAGACGAAAGTTTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
3980967 CAAGGG
66 CAAGGG
* * * * *
3980973 AAAATATATCCAGTGAGATGAAATTTTGTTTTGGGTGAAACTGTATCAAGTGAGACGAAAATTTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
3981038 CAAGGG
66 CAAGGG
* ** * * * * * **
3981044 -AAATACCTTTAGTGAGATGAAATTTTGTTTTGAGCGAAAGTATCTCAAGTGAGACTAATTTTTT
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
3981108 CAAGGG
66 CAAGGG
* * *
3981114 AAAATATCTTAAGTGAGGTGAAATTTTATTTCGAG
1 AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAG
3981149 AGAATTTGCC
Statistics
Matches: 326, Mismatches: 55, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
69 11 0.03
70 145 0.44
71 170 0.52
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (71 bp):
AAAATATCTCAAGTGAGATGAAATTTTGTTTCGAGCGAAACTGTATCAAGTGAGACGAAAATTTT
CAAGGG
Found at i:3980989 original size:34 final size:34
Alignment explanation
Indices: 3980728--3981046 Score: 106
Period size: 34 Copynumber: 9.1 Consensus size: 34
3980718 GTTTCTAGCG
* * *
3980728 AAATGTATCAAGTGGGACAAAAAATTTTCAATGGG-
1 AAATATATCAAGTGAGAC-GAAAATTTTCAA-GGGA
* * * * *
3980763 AAATATCTCAAGTGAGATGAAATTTTGTTCGAGTGA
1 AAATATATCAAGTGAGACGAAA-ATT-TTCAAGGGA
* * * * * *
3980799 AACTTTCTCGAGTGAGACAAAAAATTTCAAGGGA
1 AAATATATCAAGTGAGACGAAAATTTTCAAGGGA
* * * * *
3980833 AAATATCTCCAGTGAG--GTAAATTTTGTTTCGAGTGA
1 AAATATATCAAGTGAGACG-AAA--AT-TTTCAAGGGA
* * * *
3980869 AACTGTATCAAGTGAAATGAAAATTTTCAAGGGA
1 AAATATATCAAGTGAGACGAAAATTTTCAAGGGA
* ** * * *
3980903 AAATATCTCTCGTGAGA-TAAAATTTTGTTTAGAGCGA
1 AAATATATCAAGTGAGACGAAAA--TT-TTCA-AGGGA
* * * *
3980940 AAGTGTCTCAAGTGAGACGAAAGTTTTCAAGGGA
1 AAATATATCAAGTGAGACGAAAATTTTCAAGGGA
* * * ***
3980974 AAATATATCCAGTGAGATGAAATTTTGTTTTGGGTGA
1 AAATATATCAAGTGAGACGAAA-ATT-TTCAAGG-GA
* *
3981011 AACTGTATCAAGTGAGACGAAAATTTTCAAGGGA
1 AAATATATCAAGTGAGACGAAAATTTTCAAGGGA
3981045 AA
1 AA
3981047 TACCTTTAGT
Statistics
Matches: 200, Mismatches: 67, Indels: 35
0.66 0.22 0.12
Matches are distributed among these distances:
33 7 0.04
34 67 0.34
35 31 0.16
36 51 0.25
37 40 0.20
38 4 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (34 bp):
AAATATATCAAGTGAGACGAAAATTTTCAAGGGA
Found at i:3981167 original size:141 final size:141
Alignment explanation
Indices: 3980691--3981148 Score: 553
Period size: 141 Copynumber: 3.2 Consensus size: 141
3980681 TGGAATTTAA
* * ** * * * *
3980691 AAAAAATCTCAAGTGAGAAGAAATTTTGTTTCTAGCGAAA-TGTATCAAGTGGGACAAAAAATTT
1 AAAATATCTCCAGTGAGGTGAAATTTTGTTTCGAGTGAAACTGTATCAAGTGAGAC-GAAAATTT
* * * * * *
3980755 TCAATGGGAAATATCTCAAGTGAGATGAAATTTTG-TTCGAGTGAAACTTTCTCGAGTGAGACAA
65 TCAA-GGGAAATATCTCTAGTGAGATGAAATTTTGTTTAGAGCGAAAGTATCTCAAGTGAGACAA
*
3980819 AAAATTTCAAGGG
129 AAATTTTCAAGGG
* *
3980832 AAAATATCTCCAGTGAGGT-AAATTTTGTTTCGAGTGAAACTGTATCAAGTGAAATGAAAATTTT
1 AAAATATCTCCAGTGAGGTGAAATTTTGTTTCGAGTGAAACTGTATCAAGTGAGACGAAAATTTT
* * * *
3980896 CAAGGGAAAATATCTCTCGTGAGATAAAATTTTGTTTAGAGCGAAAGTGTCTCAAGTGAGACGAA
66 CAAGGG-AAATATCTCTAGTGAGATGAAATTTTGTTTAGAGCGAAAGTATCTCAAGTGAGACAAA
*
3980961 AGTTTTCAAGGG
130 AATTTTCAAGGG
* * * *
3980973 AAAATATATCCAGTGAGATGAAATTTTGTTTTGGGTGAAACTGTATCAAGTGAGACGAAAATTTT
1 AAAATATCTCCAGTGAGGTGAAATTTTGTTTCGAGTGAAACTGTATCAAGTGAGACGAAAATTTT
* * * * *
3981038 CAAGGGAAATACCTTTAGTGAGATGAAATTTTGTTTTGAGCGAAAGTATCTCAAGTGAGACTAAT
66 CAAGGGAAATATCTCTAGTGAGATGAAATTTTGTTTAGAGCGAAAGTATCTCAAGTGAGACAAAA
*
3981103 TTTTTCAAGGG
131 ATTTTCAAGGG
** *
3981114 AAAATATCTTAAGTGAGGTGAAATTTTATTTCGAG
1 AAAATATCTCCAGTGAGGTGAAATTTTGTTTCGAG
3981149 AGAATTTGCC
Statistics
Matches: 270, Mismatches: 43, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
139 3 0.01
140 53 0.20
141 167 0.62
142 47 0.17
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (141 bp):
AAAATATCTCCAGTGAGGTGAAATTTTGTTTCGAGTGAAACTGTATCAAGTGAGACGAAAATTTT
CAAGGGAAATATCTCTAGTGAGATGAAATTTTGTTTAGAGCGAAAGTATCTCAAGTGAGACAAAA
ATTTTCAAGGG
Found at i:3981262 original size:19 final size:19
Alignment explanation
Indices: 3981238--3981296 Score: 77
Period size: 18 Copynumber: 3.2 Consensus size: 19
3981228 CAAGTGAGAT
* *
3981238 AAATTTTTTGTTTCAAGGG
1 AAATTTTATGTTTAAAGGG
3981257 AAA-TTTATGTTTAAAGGG
1 AAATTTTATGTTTAAAGGG
*
3981275 AAA-TTTATGTTTAAAGGA
1 AAATTTTATGTTTAAAGGG
3981293 AAAT
1 AAAT
3981297 AATCTTAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 33 0.92
19 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.41
Consensus pattern (19 bp):
AAATTTTATGTTTAAAGGG
Found at i:3981273 original size:18 final size:18
Alignment explanation
Indices: 3981246--3981296 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
3981236 ATAAATTTTT
*
3981246 TGTTTCAAGGGAAATTTA
1 TGTTTAAAGGGAAATTTA
3981264 TGTTTAAAGGGAAATTTA
1 TGTTTAAAGGGAAATTTA
*
3981282 TGTTTAAAGGAAAAT
1 TGTTTAAAGGGAAAT
3981297 AATCTTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (18 bp):
TGTTTAAAGGGAAATTTA
Found at i:3990451 original size:2 final size:2
Alignment explanation
Indices: 3990440--3990488 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
3990430 TTTGTCAATC
3990440 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3990481 TA TA TA TA
1 TA TA TA TA
3990489 ATTTACGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3995228 original size:14 final size:14
Alignment explanation
Indices: 3995209--3995238 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3995199 GGTACTCGGG
3995209 ACAATATCCATACC
1 ACAATATCCATACC
3995223 ACAATATCCATACC
1 ACAATATCCATACC
3995237 AC
1 AC
3995239 CAGTTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
ACAATATCCATACC
Found at i:3998291 original size:19 final size:19
Alignment explanation
Indices: 3998252--3998291 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3998242 CTAACCTAAA
* **
3998252 ATTTTCCTTAAAATATTTC
1 ATTTTCCATAAAATAAATC
3998271 ATTTTCCATAAAATAAATC
1 ATTTTCCATAAAATAAATC
3998290 AT
1 AT
3998292 CCCATAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTCCATAAAATAAATC
Found at i:4005872 original size:25 final size:23
Alignment explanation
Indices: 4005823--4005898 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
4005813 CTTTCTAAAC
4005823 TATATTTTAAAAACTATATACTA
1 TATATTTTAAAAACTATATACTA
*
4005846 TATATTTTAAAAACTATATATATTA
1 TATATTTTAAAAAC--TATATACTA
4005871 TATATTTTTTAAAAAC-A-A-ACTA
1 TATA--TTTTAAAAACTATATACTA
4005893 TATATT
1 TATATT
4005899 ATCCAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
20 2 0.04
22 7 0.15
23 15 0.32
24 1 0.02
25 12 0.26
27 10 0.21
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (23 bp):
TATATTTTAAAAACTATATACTA
Found at i:4013394 original size:33 final size:34
Alignment explanation
Indices: 4013329--4013394 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
4013319 CCCATGTGCA
*
4013329 AAGTTAGCCACATACCAAAGCTTAATTTTCCAAT
1 AAGTTAGCCACATACCAAAGCTGAATTTTCCAAT
*
4013363 AAGTTGGCCACCA-ACCAAAG-TGAATTTTCCAA
1 AAGTTAGCCA-CATACCAAAGCTGAATTTTCCAA
4013395 CTTGCCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 11 0.38
34 16 0.55
35 2 0.07
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (34 bp):
AAGTTAGCCACATACCAAAGCTGAATTTTCCAAT
Found at i:4019946 original size:34 final size:34
Alignment explanation
Indices: 4019904--4020002 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 34
4019894 CCCATGTGCA
* *
4019904 AAGTTGGCCACCTACCAAAGATTAATTTTCCAAT
1 AAGTTGGCCACCAACCAAAGATAAATTTTCCAAT
*
4019938 AAGTTGGCCACCAACCAAA-ATAAAATTTCCAAT
1 AAGTTGGCCACCAACCAAAGATAAATTTTCCAAT
*
4019971 AAGTTGGCCACCAACC-AAGATGAATTTTCCAA
1 AAGTTGGCCACCAACCAAAGATAAATTTTCCAA
4020003 CTTGCCAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 2 0.03
33 39 0.66
34 18 0.31
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (34 bp):
AAGTTGGCCACCAACCAAAGATAAATTTTCCAAT
Found at i:4028169 original size:70 final size:69
Alignment explanation
Indices: 4027965--4028284 Score: 264
Period size: 70 Copynumber: 4.6 Consensus size: 69
4027955 ATCACATTGG
* * * * * * *
4027965 GGCTCTCGTACGAGTCGCCCATAATTGATCATGATTAGGTGTTCTCTTACGAGTCAATCTAATCC
1 GGCTCTCGTACGAGTCACCCAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCC
*
4028030 TTCGA
66 TT-AA
* * * * * **** * *
4028035 GGCTCCCGTACGAGTCACTCGAAAATTTATTATGATTAGATGCACAAAAACAAGTCACTTTAATC
1 GGCTCTCGTACGAGTCAC-CCAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATC
4028100 CTTAAA
65 CTT-AA
* *
4028106 GGCTATCGTACGAGTCACCTAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCC
1 GGCTCTCGTACGAGTCACCCAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCC
**
4028171 TTTC
66 TTAA
* * * * *
4028175 GGACTCTCGTACAAGTCACCCGAAAGTAATTATGATTAGGTACTCT-GTACGAGTCACTCTAAAC
1 GG-CTCTCGTACGAGTCACCCAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATC
**
4028239 CTTTGG
65 C-TTAA
* * * * * *
4028245 GGATGTTGTACAAGTCACCCAAAATTTATTATAATTAGGT
1 GGCTCTCGTACGAGTCACCCAAAATTAATTATGATTAGGT
4028285 ATCTTTGCAT
Statistics
Matches: 199, Mismatches: 48, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
69 51 0.26
70 96 0.48
71 52 0.26
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (69 bp):
GGCTCTCGTACGAGTCACCCAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCC
TTAA
Found at i:4028256 original size:69 final size:70
Alignment explanation
Indices: 4028111--4028285 Score: 228
Period size: 69 Copynumber: 2.5 Consensus size: 70
4028101 TTAAAGGCTA
* * * *
4028111 TCGTACGAGTCACCTAAAATTAATTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTTCG
1 TCGTACAAGTCACCCAAAATTAATTATGATTAGGTACTCTCGTACGAGTCACTCTAAACCTTTCG
4028176 GACTC
66 GACTC
* * *
4028181 TCGTACAAGTCACCCGAAAGTAATTATGATTAGGTACTCT-GTACGAGTCACTCTAAACCTTTGG
1 TCGTACAAGTCACCCAAAATTAATTATGATTAGGTACTCTCGTACGAGTCACTCTAAACCTTT-C
*
4028245 GGA-TG
65 GGACTC
* * *
4028250 TTGTACAAGTCACCCAAAATTTATTATAATTAGGTA
1 TCGTACAAGTCACCCAAAATTAATTATGATTAGGTA
4028286 TCTTTGCATA
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 53 0.58
70 38 0.42
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (70 bp):
TCGTACAAGTCACCCAAAATTAATTATGATTAGGTACTCTCGTACGAGTCACTCTAAACCTTTCG
GACTC
Found at i:4028446 original size:51 final size:51
Alignment explanation
Indices: 4028364--4028589 Score: 220
Period size: 51 Copynumber: 4.4 Consensus size: 51
4028354 GCTTATCACA
* * * *
4028364 TAATTTCACTAGTGAAACTTAAAATGTACTTACATCAATGAAATTAACACT
1 TAATTCCAGTAGTGAAACTTAAAATATACTTACACCAATGAAATTAACACT
* * **
4028415 TAATTCCAGTAGTAAAACTTAAAATAAACTTACACTGATGAAATTAACACT
1 TAATTCCAGTAGTGAAACTTAAAATATACTTACACCAATGAAATTAACACT
* * * * * **
4028466 TAATTCTAGTAGTGAAACTCAACATAGATTTACACCGGTGAAATTAACACT
1 TAATTCCAGTAGTGAAACTTAAAATATACTTACACCAATGAAATTAACACT
* ** * * * * *
4028517 TAATTCTAGTTTTAAAACTTAACATATACTTATACCAGTGAAATTAACACA
1 TAATTCCAGTAGTGAAACTTAAAATATACTTACACCAATGAAATTAACACT
*
4028568 TAATTTCA-TCAGTGAAACTTAA
1 TAATTCCAGT-AGTGAAACTTAA
4028590 GATTTTGCCT
Statistics
Matches: 144, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
50 1 0.01
51 143 0.99
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (51 bp):
TAATTCCAGTAGTGAAACTTAAAATATACTTACACCAATGAAATTAACACT
Found at i:4028481 original size:25 final size:24
Alignment explanation
Indices: 4028402--4028482 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 24
4028392 CTTACATCAA
4028402 TGAAATTAACACTTAATTCCAGTAG
1 TGAAATTAACACTTAATT-CAGTAG
* * * *
4028427 TAAAACTTAA-AATAAACTTACACT-G
1 TGAAA-TTAACACTTAA-TT-CAGTAG
4028452 ATGAAATTAACACTTAATTCTAGTAG
1 -TGAAATTAACACTTAATTC-AGTAG
4028478 TGAAA
1 TGAAA
4028483 CTCAACATAG
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 1 0.02
25 22 0.54
26 18 0.44
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (24 bp):
TGAAATTAACACTTAATTCAGTAG
Found at i:4028920 original size:18 final size:18
Alignment explanation
Indices: 4028897--4028935 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4028887 GTTAATCTCT
*
4028897 CAATCAACTCTTCACAGA
1 CAATCAACTCTTCACACA
4028915 CAATCAACTCTTCACACA
1 CAATCAACTCTTCACACA
4028933 CAA
1 CAA
4028936 AGGTTCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.21
Consensus pattern (18 bp):
CAATCAACTCTTCACACA
Found at i:4031722 original size:42 final size:42
Alignment explanation
Indices: 4031663--4031747 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
4031653 GTTGTACATT
4031663 ATTTAAATGTGATACTGAAATTGTTATGCATTATCTGAATGC
1 ATTTAAATGTGATACTGAAATTGTTATGCATTATCTGAATGC
4031705 ATTTAAATGTGATACTGAAATTGTTATGCATTATCTGAATGC
1 ATTTAAATGTGATACTGAAATTGTTATGCATTATCTGAATGC
4031747 A
1 A
4031748 ACACTAACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (42 bp):
ATTTAAATGTGATACTGAAATTGTTATGCATTATCTGAATGC
Found at i:4039866 original size:25 final size:25
Alignment explanation
Indices: 4039585--4039873 Score: 78
Period size: 25 Copynumber: 11.5 Consensus size: 25
4039575 GTACTTACAC
* *
4039585 TAGTGAAACTAACACTTAATTCCAG
1 TAGTGAAATTAACACTTAATTCCAA
** * *
4039610 TAGTGAAACTTAACACAGACTTAC-A
1 TAGTGAAA-TTAACACTTAATTCCAA
* * * * *
4039635 TCAATGAAATTAACATTTGATTCTAG
1 T-AGTGAAATTAACACTTAATTCCAA
* *
4039661 TAGTGAAACTTAACA--TAGACTTACAC
1 TAGTGAAA-TTAACACTTA-A-TTCCAA
*
4039687 TAGGGAAATTAACACTTAATTCCAA
1 TAGTGAAATTAACACTTAATTCCAA
* * *
4039712 CAGT-AAACTCAACA--TAGACTTAC-A
1 TAGTGAAA-TTAACACTTA-A-TTCCAA
** *
4039736 CCGATGAAATTAACACTTAATTTCAA
1 TAG-TGAAATTAACACTTAATTCCAA
* ****
4039762 TAGTGAAACTTAACA-TATACTTGTGC
1 TAGTGAAA-TTAACACT-TAATTCCAA
* *
4039788 TAATGAGA-TAACACTTAATTCCAA
1 TAGTGAAATTAACACTTAATTCCAA
* * * * *
4039812 CAGTGAACTTAACA--TAGACCTACAC
1 TAGTGAAATTAACACTTA-A-TTCCAA
*
4039837 CAGTGAAATTAACACTTAATTCCAA
1 TAGTGAAATTAACACTTAATTCCAA
*
4039862 TAGTGAACTTAA
1 TAGTGAAATTAA
4039874 ATAGACTTAC
Statistics
Matches: 183, Mismatches: 57, Indels: 48
0.64 0.20 0.17
Matches are distributed among these distances:
23 4 0.02
24 22 0.12
25 94 0.51
26 57 0.31
27 6 0.03
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (25 bp):
TAGTGAAATTAACACTTAATTCCAA
Found at i:4039922 original size:50 final size:51
Alignment explanation
Indices: 4039560--4039909 Score: 399
Period size: 51 Copynumber: 7.0 Consensus size: 51
4039550 TTCCTCCACC
* * * *
4039560 AGTGAAACTAAACAT-GTACTTACACTAGTGAAACTAACACTTAATTCCAGT
1 AGTGAAACTTAACATAG-ACTTACACCAGTGAAATTAACACTTAATTCCAAT
* * * * * * *
4039611 AGTGAAACTTAACACAGACTTACATCAATGAAATTAACATTTGATTCTAGT
1 AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCAAT
* * *
4039662 AGTGAAACTTAACATAGACTTACACTAGGGAAATTAACACTTAATTCCAAC
1 AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCAAT
* *
4039713 AGT-AAACTCAACATAGACTTACACC-GATGAAATTAACACTTAATTTCAAT
1 AGTGAAACTTAACATAGACTTACACCAG-TGAAATTAACACTTAATTCCAAT
* *** * * * *
4039763 AGTGAAACTTAACATATACTTGTGCTAATGAGA-TAACACTTAATTCCAAC
1 AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCAAT
*
4039813 AGTG-AACTTAACATAGACCTACACCAGTGAAATTAACACTTAATTCCAAT
1 AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCAAT
*
4039863 AGTG-AACTTAA-ATAGACTTACACCGGTGAAATTAACACTTAATTCCA
1 AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCA
4039910 GCACTGAAAC
Statistics
Matches: 249, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
49 55 0.22
50 89 0.36
51 104 0.42
52 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (51 bp):
AGTGAAACTTAACATAGACTTACACCAGTGAAATTAACACTTAATTCCAAT
Found at i:4039932 original size:26 final size:26
Alignment explanation
Indices: 4039889--4039949 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
4039879 CTTACACCGG
* * *
4039889 TGAAA-TTAACACTTAATTCCAGCAC
1 TGAAACTTAACACATAATTCCACCAA
*
4039914 TGAAACTTAGCACATAATTCCACCAA
1 TGAAACTTAACACATAATTCCACCAA
4039940 TGAAACTTAA
1 TGAAACTTAA
4039950 ATATTTCTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (26 bp):
TGAAACTTAACACATAATTCCACCAA
Found at i:4039938 original size:100 final size:102
Alignment explanation
Indices: 4039560--4039949 Score: 445
Period size: 100 Copynumber: 3.9 Consensus size: 102
4039550 TTCCTCCACC
* * **
4039560 AGTGAAACTAAACAT-GTACTTACACTAGTGAAACTAACACTTAATTCCAGTAGTGAAACTTAAC
1 AGTGAAACTTAACATAG-ACTTACACTAGTGAAATTAACACTTAATTCCAACAGTGAAACTTAAC
* * * * * *
4039624 ACAGACTTACATCAATGAAATTAACATTTGATTCTAGT
65 ATAGACTTACACCAATGAAATTAACACTTAATTCCAAT
* *
4039662 AGTGAAACTTAACATAGACTTACACTAGGGAAATTAACACTTAATTCCAACAGT-AAACTCAACA
1 AGTGAAACTTAACATAGACTTACACTAGTGAAATTAACACTTAATTCCAACAGTGAAACTTAACA
* *
4039726 TAGACTTACACCGATGAAATTAACACTTAATTTCAAT
66 TAGACTTACACCAATGAAATTAACACTTAATTCCAAT
* *** * *
4039763 AGTGAAACTTAACATATACTTGTGCTAATGAGA-TAACACTTAATTCCAACAGTG-AACTTAACA
1 AGTGAAACTTAACATAGACTTACACTAGTGAAATTAACACTTAATTCCAACAGTGAAACTTAACA
* *
4039826 TAGACCTACACCAGTGAAATTAACACTTAATTCCAAT
66 TAGACTTACACCAATGAAATTAACACTTAATTCCAAT
** * *
4039863 AGTG-AACTTAA-ATAGACTTACACCGGTGAAATTAACACTTAATTCCAGCACTGAAACTTAGCA
1 AGTGAAACTTAACATAGACTTACACTAGTGAAATTAACACTTAATTCCAACAGTGAAACTTA--A
*
4039926 CATA-A-TTCCACCAATGAAACTTAA
64 CATAGACTTACACCAATGAAA-TTAA
4039950 ATATTTCTCC
Statistics
Matches: 242, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
98 12 0.05
99 26 0.11
100 82 0.34
101 69 0.29
102 52 0.21
103 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (102 bp):
AGTGAAACTTAACATAGACTTACACTAGTGAAATTAACACTTAATTCCAACAGTGAAACTTAACA
TAGACTTACACCAATGAAATTAACACTTAATTCCAAT
Found at i:4053806 original size:15 final size:16
Alignment explanation
Indices: 4053786--4053815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4053776 CCCTTTCATC
4053786 TAGAGT-ATGGGATGG
1 TAGAGTGATGGGATGG
4053801 TAGAGTGATGGGATG
1 TAGAGTGATGGGATG
4053816 ACTCTCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (16 bp):
TAGAGTGATGGGATGG
Found at i:4064140 original size:13 final size:13
Alignment explanation
Indices: 4064122--4064147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4064112 ATTTAAAATG
4064122 TGAGGATTTATTT
1 TGAGGATTTATTT
4064135 TGAGGATTTATTT
1 TGAGGATTTATTT
4064148 GATTAAATGA
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:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
TGAGGATTTATTT
Found at i:4065565 original size:81 final size:81
Alignment explanation
Indices: 4065428--4066003 Score: 745
Period size: 81 Copynumber: 7.2 Consensus size: 81
4065418 ATATTTTTAA
** * * *
4065428 AGTAAAAGATTAATAGTCTATATGTGCATTTGACATAAAGGTGCCAATTATGCCAGTTAGATTAA
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
4065493 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
4065509 AGTAAAAGATTAATAGTCTAGCTGTGCAATTGATAGAAAGGTGTCAATTATTCCAGTAAGACGAA
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
4065574 AGGTTAAATACC-TTG
66 AGGTTAAATACCTTTG
* *
4065589 AGT-AAAGATTAATAGCCTAACTGTGCATTTGACAGAAA-GTGTCAATTATGCC-GTTAGATG-A
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
4065650 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
4065666 AGTAAAAGATTAATAGAT-TAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGATAGATGA
1 AGTAAAAGATTAATAG-TCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
4065730 AATGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
** *
4065747 AGTAAAAGATTAATAGTCTAGCTGTGCA-TTGACAGAAATATGTCAACTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
4065811 AGGTTTAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * *
4065827 TGTAAAATATTAATAGCCTAGTTGTGCATATGACAGAAAGGTGTAAATTATGACAGTTAGATGAA
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
4065892 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * ** * * *
4065908 AGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAGATGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
4065973 AGGCTAAATGCCTTTG
66 AGGTTAAATACCTTTG
*
4065989 -GTAAAAGAATAATAG
1 AGTAAAAGATTAATAG
4066004 ATTTATACTG
Statistics
Matches: 428, Mismatches: 59, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
76 13 0.03
77 12 0.03
78 43 0.10
79 45 0.11
80 98 0.23
81 217 0.51
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:4065878 original size:161 final size:161
Alignment explanation
Indices: 4065428--4066004 Score: 756
Period size: 161 Copynumber: 3.6 Consensus size: 161
4065418 ATATTTTTAA
* ** * * * *
4065428 AGTAAAAGATTAATAGTCTATATGTGCATTTGACATAAAGGTGCCAATTATGCCAGTTAGATTAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
* * *
4065493 AGGTTAAATACCTTTGAGTAAAAGATTAATAGTCTAGCTGTGCA-ATTGATAGAAAGGTGTCAAT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGACTAGTTGTGCATA-TGACAGAAAGGTGTCAAT
* * *
4065557 TATTCCAGTAAGACGAAAGGTTAAATACC-TTG
130 TATGCCAGT-AGATGAAATGTTAAATACCTTTG
*
4065589 AGT-AAAGATTAATAGCCTAACTGTGCATTTGACAGAAAG-TGTCAATTATGCC-GTTAGATG-A
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
* * *
4065650 AGGTTAAATACCTTTGAGTAAAAGATTAATAGATTAGTTATGCATTTGACAGAAAGGTGTCAATT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGACTAGTTGTGCATATGACAGAAAGGTGTCAATT
4065715 ATGCCAGATAGATGAAATGTTAAATACCTTTG
131 ATGCCAG-TAGATGAAATGTTAAATACCTTTG
* * *
4065747 AGTAAAAGATTAATAGTCTAGCTGTGCA-TTGACAGAAATATGTCAACTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
* * * * *
4065811 AGGTTTAATACCTTTGTGTAAAATATTAATAGCCTAGTTGTGCATATGACAGAAAGGTGTAAATT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGACTAGTTGTGCATATGACAGAAAGGTGTCAATT
*
4065876 ATGACAGTTAGATGAAATGTTAAATACCTTTG
131 ATGCCAG-TAGATGAAATGTTAAATACCTTTG
* ** * *
4065908 AGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAGATGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
* * *
4065973 AGGCTAAATGCCTTTG-GTAAAAGAATAATAGA
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGA
4066005 TTTATACTGC
Statistics
Matches: 365, Mismatches: 43, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
157 82 0.22
158 24 0.07
159 46 0.13
160 40 0.11
161 130 0.36
162 43 0.12
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (161 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTGAGTAAAAGATTAATAGACTAGTTGTGCATATGACAGAAAGGTGTCAATT
ATGCCAGTAGATGAAATGTTAAATACCTTTG
Found at i:4066133 original size:44 final size:45
Alignment explanation
Indices: 4066065--4066154 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 45
4066055 CATATATAGG
*
4066065 TGTACAATAATGCATAATTGGTATGAAAGGATACAATAAATGAAAA
1 TGTACAATAATGCATAAGTGGTATGAAAGGATACAAT-AATGAAAA
* * * *
4066111 TGTA-AATAGTGCATAAGT-GTATGAGAGGATGCTATAATGAAAA
1 TGTACAATAATGCATAAGTGGTATGAAAGGATACAATAATGAAAA
4066154 T
1 T
4066155 ACAAACGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 9 0.23
44 14 0.36
45 12 0.31
46 4 0.10
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (45 bp):
TGTACAATAATGCATAAGTGGTATGAAAGGATACAATAATGAAAA
Found at i:4067301 original size:18 final size:18
Alignment explanation
Indices: 4067278--4067312 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4067268 CGGGGAGAAT
4067278 AGGGTGAAGGTCTTATGG
1 AGGGTGAAGGTCTTATGG
4067296 AGGGTGAAGGTCTTATG
1 AGGGTGAAGGTCTTATG
4067313 AAAGCCGACT
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:0.23, C:0.06, G:0.43, T:0.29
Consensus pattern (18 bp):
AGGGTGAAGGTCTTATGG
Done.