Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 407 of 425
Found at i:124182406 original size:13 final size:13
Alignment explanation
Indices: 124182388--124182412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124182378 TTTTTAAATA
124182388 ATTAATATTAATT
1 ATTAATATTAATT
124182401 ATTAATATTAAT
1 ATTAATATTAAT
124182413 AGGCCGGTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAATATTAATT
Found at i:124182484 original size:17 final size:18
Alignment explanation
Indices: 124182454--124182488 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
124182444 ATTTTGATCC
*
124182454 TTTAAATTTTTTAAAAAT
1 TTTAAATTTATTAAAAAT
124182472 TTTAAA-TTATTAAAAAT
1 TTTAAATTTATTAAAAAT
124182489 AAAATTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAAATTTATTAAAAAT
Found at i:124193852 original size:27 final size:25
Alignment explanation
Indices: 124193821--124193879 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
124193811 TATTGTTTCA
*
124193821 TTTAATAAAAAAGTTGTTTTTTTATAT
1 TTTAATAAAAAA-TTATTTTTTTAT-T
**
124193848 TTTAATAGTAAATTATTTTTTTATT
1 TTTAATAAAAAATTATTTTTTTATT
124193873 TTATAAT
1 TT-TAAT
124193880 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 15 0.54
27 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (25 bp):
TTTAATAAAAAATTATTTTTTTATT
Found at i:124194009 original size:9 final size:9
Alignment explanation
Indices: 124193995--124194019 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
124193985 GACCTGGGTT
124193995 TCTACACCA
1 TCTACACCA
124194004 TCTACACCA
1 TCTACACCA
124194013 TCTACAC
1 TCTACAC
124194020 AACTTCTGTT
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:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (9 bp):
TCTACACCA
Found at i:124197103 original size:126 final size:127
Alignment explanation
Indices: 124196943--124197310 Score: 564
Period size: 126 Copynumber: 2.9 Consensus size: 127
124196933 CTCGTTTATA
* * *
124196943 GTAGAAAAAGAGCATTCACGTGGGAGCTTTTTTCATAAATTTTGTTGACATTGCATCCTGCTTGA
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
*
124197008 AGCGTTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAAG-AACTACT
66 AGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAACTACT
* * * *
124197069 GTAGAAAAAGAACGTCCACATGGGAGCTTTTTTCATAAATTTTGCTGACATTGTATCCTGTTTGA
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
* *
124197134 AGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTC-AGAAACTATT
66 AGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAACTACT
* * *
124197195 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC-TGTATTTTTGCTGACATTGCATCCTGCTTG
1 GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAT-AAATTTTGCTGACATTGCATCCTGCTTG
* *
124197259 AAGCATTTTTGACACTATTTGTTCAGAAACG-CTTCTTAAAATTATTTTTTCA
65 AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
124197311 CGGTAAAAAT
Statistics
Matches: 219, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
125 22 0.10
126 197 0.90
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (127 bp):
GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATCCTGCTTGA
AGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAACTACT
Found at i:124197412 original size:21 final size:22
Alignment explanation
Indices: 124197386--124197433 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
124197376 GAATTACTCT
124197386 ATTTAA-AAAACATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
* *
124197407 ATTTAATAAACCTTAAACCCTA
1 ATTTAATAAAACATAAACCCTA
124197429 ATTTA
1 ATTTA
124197434 GTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCTA
Found at i:124197444 original size:22 final size:22
Alignment explanation
Indices: 124197419--124197472 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
124197409 TTAATAAACC
* *
124197419 TTAAACCCTAATTTAGTTTATT
1 TTAAACCCTAACTTAATTTATT
* *
124197441 TTAAATCTTAACTTAATTTATT
1 TTAAACCCTAACTTAATTTATT
*
124197463 TAAAACCCTA
1 TTAAACCCTA
124197473 GAACCCTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAACCCTAACTTAATTTATT
Found at i:124197598 original size:25 final size:22
Alignment explanation
Indices: 124197540--124197598 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
124197530 ATCTTTAATT
*
124197540 TAATTTATTTAAAACCCGAACT
1 TAATTTATTTAAAACCCGAACC
124197562 TAATTTATTTAAAACCCTAGAACCC
1 TAATTTATTTAAAACCC--GAA-CC
*
124197587 TAATTTACTTAA
1 TAATTTATTTAA
124197599 TCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 17 0.53
24 3 0.09
25 12 0.38
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (22 bp):
TAATTTATTTAAAACCCGAACC
Found at i:124197624 original size:33 final size:34
Alignment explanation
Indices: 124197559--124197626 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
124197549 TAAAACCCGA
* * *
124197559 ACTTAATTTATTTAAAACCCTAGAACCCTAATTT
1 ACTTAATCTATTTAAAAACATAGAACCCTAATTT
124197593 ACTTAATCTATTTAAAAACATA-AACCCTAATTT
1 ACTTAATCTATTTAAAAACATAGAACCCTAATTT
124197626 A
1 A
124197627 ATAAACCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACATAGAACCCTAATTT
Found at i:124197651 original size:107 final size:106
Alignment explanation
Indices: 124197350--124197754 Score: 490
Period size: 108 Copynumber: 3.9 Consensus size: 106
124197340 ACACAATGTT
** * * *
124197350 ATTT-TTTAAAAAACTA-AACCCTAATTGAATTACTCTATTTAAAAAACATAAACCCTAATTTAA
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
* * * *
124197413 TAAACCTTAAACCCTAATTTAGTTTATTTTAAATCTTAACTTA
66 TAAACCCTAAACCTTAATTTAATTTATTTTAAA-C-CAACTTA
* ***
124197456 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAGCCCTAATTCCC
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
* *
124197521 TAAACCC-AAATCTTTAATTTAATTTATTTAAAACCCGAACTTA
66 TAAACCCTAAA-CCTTAATTTAATTTATTTTAAA-CC-AACTTA
124197564 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAAACATAAACCCTAATTTAA
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
*
124197628 TAAACCCTAAACCTTAATTTAATTTATTTTAAA-C-ACTAA
66 TAAACCCTAAACCTTAATTTAATTTATTTTAAACCAACTTA
* * *
124197667 ATTTATTTAAAATCCTAGAACCCTAATTTACTTAATCTATTT--AAAACCTAAGCCCTAATTTAT
1 ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTA-
*
124197730 TTAAAACCCT-AA-CTTAATTT-ATTTA
65 AT-AAACCCTAAACCTTAATTTAATTTA
124197755 AAAATAATTA
Statistics
Matches: 265, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
101 5 0.02
102 26 0.10
103 48 0.18
104 7 0.03
105 1 0.00
106 4 0.02
107 58 0.22
108 116 0.44
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (106 bp):
ATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTAA
TAAACCCTAAACCTTAATTTAATTTATTTTAAACCAACTTA
Found at i:124197727 original size:32 final size:34
Alignment explanation
Indices: 124197670--124197733 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
124197660 ACACTAAATT
124197670 TATTTAAAATCCTAGAACCCTAATTTACTTAATC
1 TATTTAAAATCCTAGAACCCTAATTTACTTAATC
* *
124197704 TATTTAAAA-CCTA-AGCCCTAATTTATTTAA
1 TATTTAAAATCCTAGAACCCTAATTTACTTAA
124197734 AACCCTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.54
33 4 0.14
34 9 0.32
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (34 bp):
TATTTAAAATCCTAGAACCCTAATTTACTTAATC
Found at i:124197758 original size:23 final size:21
Alignment explanation
Indices: 124197696--124197757 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 21
124197686 ACCCTAATTT
*
124197696 ACTTAATCTATTTAAAACCTA
1 ACTTAATTTATTTAAAACCTA
*
124197717 AGCCCTAATTTATTTAAAACCCTA
1 A--CTTAATTTATTTAAAA-CCTA
124197741 ACTTAATTTATTTAAAA
1 ACTTAATTTATTTAAAA
124197758 ATAATTAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 15 0.43
23 14 0.40
24 5 0.14
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (21 bp):
ACTTAATTTATTTAAAACCTA
Found at i:124199167 original size:18 final size:17
Alignment explanation
Indices: 124199114--124199167 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
124199104 TTCATAACAC
124199114 TTTTTATAAATAATATATT
1 TTTTTATAAATAAT-TA-T
*
124199133 TTTTTGTCAAA-AATTAT
1 TTTTTAT-AAATAATTAT
124199150 TTTTTATAAATAAGTTAT
1 TTTTTATAAATAA-TTAT
124199168 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 3 0.10
17 9 0.30
18 6 0.20
19 9 0.30
20 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTTTATAAATAATTAT
Found at i:124200251 original size:13 final size:13
Alignment explanation
Indices: 124200235--124200259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124200225 TTTCTCTTCG
124200235 TTTTTATTTTTTA
1 TTTTTATTTTTTA
124200248 TTTTTATTTTTT
1 TTTTTATTTTTT
124200260 TGAAATTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:124200687 original size:21 final size:22
Alignment explanation
Indices: 124200645--124200688 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
124200635 TCACATTAAT
124200645 AAATAATTTAAAAATTATAAAA
1 AAATAATTTAAAAATTATAAAA
*
124200667 AAATAA-TTATAAATT-TAAAA
1 AAATAATTTAAAAATTATAAAA
124200687 AA
1 AA
124200689 TCATAAACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATAATTTAAAAATTATAAAA
Found at i:124205779 original size:12 final size:12
Alignment explanation
Indices: 124205762--124205786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
124205752 AAAAACTTCT
124205762 TCGGAGTCATCC
1 TCGGAGTCATCC
124205774 TCGGAGTCATCC
1 TCGGAGTCATCC
124205786 T
1 T
124205787 GAAAACCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (12 bp):
TCGGAGTCATCC
Found at i:124210625 original size:30 final size:30
Alignment explanation
Indices: 124210589--124210650 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
124210579 TCTATTAACG
124210589 CACTATAGGTAACAACATCAGGCTCAATGC
1 CACTATAGGTAACAACATCAGGCTCAATGC
124210619 CACTATAGGTAACAACATCAGGCTCAATGC
1 CACTATAGGTAACAACATCAGGCTCAATGC
124210649 CA
1 CA
124210651 TGCTTTCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.19
Consensus pattern (30 bp):
CACTATAGGTAACAACATCAGGCTCAATGC
Found at i:124219865 original size:40 final size:40
Alignment explanation
Indices: 124219810--124219892 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
124219800 TTGATGAATG
124219810 CTTGTATATATAAATTCAAAACAAAATTATTTTATGGACC
1 CTTGTATATATAAATTCAAAACAAAATTATTTTATGGACC
124219850 CTTGTATATATAAATTCAAAACAAAATTATTTTATGGACC
1 CTTGTATATATAAATTCAAAACAAAATTATTTTATGGACC
124219890 CTT
1 CTT
124219893 CTCATTACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (40 bp):
CTTGTATATATAAATTCAAAACAAAATTATTTTATGGACC
Found at i:124221746 original size:15 final size:14
Alignment explanation
Indices: 124221726--124221773 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
124221716 TTTTAAATTC
124221726 TAAAAATATAATAAT
1 TAAAAATATAA-AAT
124221741 TAAAAATAATAAAAT
1 TAAAAAT-ATAAAAT
124221756 T-AAAATATAAATAT
1 TAAAAATATAAA-AT
124221770 TAAA
1 TAAA
124221774 TCTATAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.17
14 8 0.27
15 13 0.43
16 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATATAAAAT
Found at i:124221765 original size:13 final size:13
Alignment explanation
Indices: 124221728--124221773 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 13
124221718 TTAAATTCTA
124221728 AAAATATAATAATT
1 AAAATATAA-AATT
124221742 AAAAATAATAAAATT
1 -AAAAT-ATAAAATT
124221757 AAAATATAAATATT
1 AAAATATAAA-ATT
124221771 AAA
1 AAA
124221774 TCTATAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 9 0.31
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATATAAAATT
Found at i:124232335 original size:105 final size:105
Alignment explanation
Indices: 124232226--124232426 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 105
124232216 TATAGGTAAC
* **
124232226 AACATCAGGCTCAATGCCTTGCTTTATCATTGTGTCAACAATATCTTTAGCTT-TAGAAAGCATC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCT-GAAAGCATC
* * *
124232290 CCTTCTTTGTAACATGCATCGATGC-ATATATTGTACGTGAT
65 CCCTCCTTGCAACATGCATCGAT-CAATATATTGTACGTGAT
* * * * *
124232331 AACATTAGGCTCAATGCCATGCTTTCTCATTGTGTCAACGATTTCTACAGCTTCTGAAATCATCC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCTGAAAGCATCC
*
124232396 CCTCCTTGCAACGTGCATCGATCAATATATT
66 CCTCCTTGCAACATGCATCGATCAATATATT
124232427 ATATGTGTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
104 1 0.01
105 80 0.98
106 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (105 bp):
AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCTGAAAGCATCC
CCTCCTTGCAACATGCATCGATCAATATATTGTACGTGAT
Found at i:124236255 original size:15 final size:17
Alignment explanation
Indices: 124236229--124236260 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
124236219 TTCTATATTT
124236229 TTTTATATAATT-AATA
1 TTTTATATAATTCAATA
124236245 TTTTA-ATAATTCAATA
1 TTTTATATAATTCAATA
124236261 ATTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTATATAATTCAATA
Found at i:124242317 original size:60 final size:60
Alignment explanation
Indices: 124242249--124242411 Score: 308
Period size: 60 Copynumber: 2.7 Consensus size: 60
124242239 GGACAATCAT
124242249 CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTAGAAACTATAGTCTTCAC
1 CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTAGAAACTATAGTCTTCAC
*
124242309 CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTAGAAACTATAGTCTTCGC
1 CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTAGAAACTATAGTCTTCAC
*
124242369 CAAATGCACCACACCATAAGAACCTTCATCCTAGCTATTTTTA
1 CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTA
124242412 TCTCCAACCT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 101 1.00
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.29
Consensus pattern (60 bp):
CAAATGCACCACACCATAAGTACCTTCATCCTAGCTATTTTTAGAAACTATAGTCTTCAC
Found at i:124255391 original size:26 final size:24
Alignment explanation
Indices: 124255347--124255396 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
124255337 ATTTGTTTTA
* *
124255347 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTAAAAT
124255371 ATATTTGATTTATTATATTTTAAAAT
1 ATATTTG-TTT-TTATATTTTAAAAT
124255397 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTAAAAT
Found at i:124256438 original size:21 final size:20
Alignment explanation
Indices: 124256400--124256439 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
124256390 AATATAAGAT
**
124256400 TAACTCATATATCCTTATAG
1 TAACTCATATATAATTATAG
124256420 TAACTCTATATATAATTATA
1 TAACTC-ATATATAATTATA
124256440 TATAGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (20 bp):
TAACTCATATATAATTATAG
Found at i:124257696 original size:2 final size:2
Alignment explanation
Indices: 124257689--124257725 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
124257679 ACATGTGCAA
*
124257689 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124257726 GTACATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:124257825 original size:2 final size:2
Alignment explanation
Indices: 124257818--124257856 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
124257808 TGGATTTAAA
*
124257818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124257857 ATAGTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:124259490 original size:91 final size:92
Alignment explanation
Indices: 124259309--124259660 Score: 279
Period size: 91 Copynumber: 3.9 Consensus size: 92
124259299 AAAAAAAATC
* * *
124259309 ATTGAAAATACCTCGGGCGTGTAACCTGAGACTCAACTCACCTCTCGCAATATGAGTTG-TTTTT
1 ATTGAAAATACCTC-AGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* * ***
124259373 TTT-ACAAACATAAATTGAAAAAAAAAAAGAA
64 TTTGAAAAACAGAAATT---TTGAAAAAAGAA
* *
124259404 ATTG-AAATACCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 ATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTT
124259467 TTGGAAAAACA-AAATTTTGAAAAACAGAA
65 TT-GAAAAACAGAAATTTTGAAAAA-AGAA
* * * *
124259496 TTTTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCA--ACTCGCAATATGAGCTGA-TTT
1 -ATTGAAAATACCTCAGCGTGT-ACCT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
*
124259557 TTTTGAAAACACAGAAA--TTGAAGAACAGAA
63 TTTTGAAAA-ACAGAAATTTTGAA-AAAAGAA
** * * *
124259587 A-TGAAAGCACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTC-CAATATGACCTGA-TTTTTT
1 ATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
*
124259646 TGAAAGACAGAAATT
66 TGAAAAACAGAAATT
124259661 GAAAATACCT
Statistics
Matches: 216, Mismatches: 23, Indels: 44
0.76 0.08 0.16
Matches are distributed among these distances:
85 18 0.08
86 24 0.11
87 5 0.02
89 13 0.06
91 52 0.24
92 16 0.07
93 20 0.09
94 46 0.21
95 11 0.05
96 11 0.05
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (92 bp):
ATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
TGAAAAACAGAAATTTTGAAAAAAGAA
Found at i:124259504 original size:14 final size:15
Alignment explanation
Indices: 124259465--124259504 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
124259455 GTTGATTTTT
124259465 TTTTGGAAAAACAAAA
1 TTTT-GAAAAACAAAA
*
124259481 TTTTGAAAAACAGAA
1 TTTTGAAAAACAAAA
124259496 TTTTGAAAA
1 TTTTGAAAA
124259505 TACCTCAGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (15 bp):
TTTTGAAAAACAAAA
Found at i:124259899 original size:247 final size:246
Alignment explanation
Indices: 124259400--124259984 Score: 606
Period size: 247 Copynumber: 2.3 Consensus size: 246
124259390 AAAAAAAAAA
** * *
124259400 AGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAATGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---T
* * *
124259464 TTTTTGGAAAAACAAAATTTTGAAAAACAGAATTTTGAAAATACCTCAGCGTGTGAGTCAAGGCT
63 TTTTT-G--AAACAAAATCTTGAAAAACAGAATTTTGAAAATACCTCAGCATGTGACTCAAGGCT
*
124259529 CAACTCAACTCGCAATATGAGCTGATTTTTTTGAAAACACAGAAATTGAAGAACAGAAATGAAAG
125 CAACTCAACTCGCAATATGAGCTGA-TTTTTTGAAAACACAGAAATTGAAGAACAGAAA-GAAAA
* * *
124259594 CACCTCAGCGTCTTGAGGTTCAACTCACCTCTCCAATATGACCTGATTTTTTTGAAAGAC
188 CACCTCAGCGTATTGAAGCTCAACTCACCTCTCCAATATGACCTGA-TTTTTTGAAAGAC
*
124259654 AGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG-TGA-TTT
1 AGAAATTGAAAATACCTCAATGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** **
124259717 TTGAAACTTAA-CTTGAAAAGACAG-ATTTTGAAAATACCTCGATTATGTGACTCAAGGCTCAAC
66 TTGAAACAAAATCTTGAAAA-ACAGAATTTTGAAAATACCTC-AGCATGTGACTCAAGGCTCAAC
* * * * *
124259780 TCACCTCTCGCCAATATGAGTTGA-TTTTTG-AAACAATATAAATTGAAGTAA-A-AAA-AAAAT
129 TCA--ACTCG-CAATATGAGCTGATTTTTTGAAAAC-ACAGAAATTGAAG-AACAGAAAGAAAAC
* **
124259840 ACCTCAGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTGA-TTTTTGAAAGAC
189 ACCTCAGCGT-AT-TGAAGCTCAACTCACCTCTC-CAATATGA-CCTGATTTTTTGAAAGAC
* * *
124259901 AGAAATT-AAAATACCTCAGCATGTG-AAAGAGGCTCAACTCA-CTCTCGCAATATAAGTTGATT
1 AGAAATTGAAAATACCTCA--ATGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
124259963 TTTTGAAAACAAAA-ATTGAAAA
64 TTTTG-AAACAAAATCTTGAAAA
124259985 TACCTCACGT
Statistics
Matches: 284, Mismatches: 30, Indels: 39
0.80 0.08 0.11
Matches are distributed among these distances:
245 12 0.04
246 49 0.17
247 91 0.32
248 37 0.13
249 23 0.08
250 17 0.06
254 11 0.04
255 44 0.15
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (246 bp):
AGAAATTGAAAATACCTCAATGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAACAAAATCTTGAAAAACAGAATTTTGAAAATACCTCAGCATGTGACTCAAGGCTCAACTC
AACTCGCAATATGAGCTGATTTTTTGAAAACACAGAAATTGAAGAACAGAAAGAAAACACCTCAG
CGTATTGAAGCTCAACTCACCTCTCCAATATGACCTGATTTTTTGAAAGAC
Found at i:124260072 original size:71 final size:72
Alignment explanation
Indices: 124259858--124260267 Score: 416
Period size: 71 Copynumber: 5.7 Consensus size: 72
124259848 GTGATCTGAA
* * *
124259858 GCTCAACTCACCTCTCGCAATATGAGTTTGATTTTTGAAAGACAGAAATT-AAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTGAAA-ACAGAAATTGAAATTACCTCAACG
***
124259922 TGTGAAAGAG
64 TGT-CTCGAG
* * *
124259932 GCTCAACTCA-CTCTCGCAATATAAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTC-ACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAACGT
*
124259995 GTCTTGAG
65 GTCTCGAG
**
124260003 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAACGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
124260067 TCTTGAG
66 TCTCGAG
* **
124260074 GTTCAACTCATTTCTCGCAATAT-AGTTGA-TTTTG-AAACAG--ATTGAAATTACCTC-A-GTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGT-
124260132 GT-TCCGAG
65 GTCT-CGAG
* *
124260140 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAGAAAATTAAAATTAGCTCAGCAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG-AAATTGAAATTACCTCA--AC
* *
124260204 GTGAGC-CAAG
63 GTG-TCTCGAG
* *
124260214 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGGCAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAAATTGAAA
124260268 AACGGAAATT
Statistics
Matches: 293, Mismatches: 23, Indels: 38
0.83 0.06 0.11
Matches are distributed among these distances:
65 3 0.01
66 26 0.09
67 20 0.07
68 11 0.04
69 6 0.02
70 37 0.13
71 59 0.20
72 33 0.11
73 33 0.11
74 44 0.15
75 8 0.03
76 10 0.03
77 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
TCTCGAG
Found at i:124260156 original size:137 final size:140
Alignment explanation
Indices: 124259835--124260268 Score: 445
Period size: 137 Copynumber: 3.0 Consensus size: 140
124259825 AAGTAAAAAA
*
124259835 AAAATACCTCAGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTGATTTTTGAAAGA
1 AAAATACCTCAGTG-G-TCTGAGGCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTGAAA-A
* *
124259900 CAGAAATTAAAATACCTCAGCATGTGAAAGAGGCTCAACTCACTCTCGCAATATAAGTTGATTTT
62 CAGAAATTAAATTACCTCAACATGTGAAAGAGGCTCAACTCACTCTCGCAATATAAGTTGA-TTT
124259965 TTGAAAACAAAAATTG
126 TTGAAAAC-AAAATTG
**
124259981 AAAATACCTCACGT-GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACA
1 AAAATACCTCA-GTGGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
* *** * *
124260044 GAAATTGAAATTACCTCAACGTGT-CTTGAGGTTCAACTCATTTCTCGCAATAT-AGTTGA-TTT
64 GAAATT-AAATTACCTCAACATGTGAAAGAGGCTCAACTCA-CTCTCGCAATATAAGTTGATTTT
*
124260106 TG-AAAC-AGATTG
127 TGAAAACAAAATTG
* *
124260118 AAATTACCTCAGTGGTTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAG
1 AAAATACCTCAGTGG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG
* * * * * *
124260182 AAAATTAAAATTAGCTCAGCACGTGAGCCA-AGGCTCAACTCACCTCTCGCAATATGAGTCGATT
65 -AAATT-AAATTACCTCAACATGTGA--AAGAGGCTCAACTCA-CTCTCGCAATATAAGTTGA-T
*
124260246 TTTTGAAAGGCAGAAATTG
124 TTTTGAAA-ACA-AAATTG
124260265 AAAA
1 AAAA
124260269 ACGGAAATTG
Statistics
Matches: 239, Mismatches: 31, Indels: 35
0.78 0.10 0.11
Matches are distributed among these distances:
136 2 0.01
137 53 0.22
138 25 0.10
139 4 0.02
140 27 0.11
141 5 0.02
142 27 0.11
143 38 0.16
144 8 0.03
145 29 0.12
146 11 0.05
147 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (140 bp):
AAAATACCTCAGTGGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGA
AATTAAATTACCTCAACATGTGAAAGAGGCTCAACTCACTCTCGCAATATAAGTTGATTTTTGAA
AACAAAATTG
Found at i:124260225 original size:74 final size:73
Alignment explanation
Indices: 124259858--124260638 Score: 429
Period size: 74 Copynumber: 10.5 Consensus size: 73
124259848 GTGATCTGAA
124259858 GCTCAACTCACCTCTCGCAATATGAGTTTGATTTTTGAAAGACAGAAATTAAAA-TACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTGAAA-ACAGAAATTAAAATTACCTCAGCA
* ***
124259922 TGTGAAAGAG
64 CGTGTCCGAG
* *
124259932 GCTCAACTCA-CTCTCGCAATATAAGTTGATTTTTTGAAAACAAAAATTGAAAA-TACCT---CA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATT-AAAATTACCTCAGCA
*
124259992 CGTGTCTTGAG
64 CGTGTC-CGAG
** *
124260003 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCA--ACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTACCTCAGCACG
*
124260065 TGTCTTGAG
66 TGTC-CGAG
* ** * **
124260074 GTTCAACTCATTTCTCGCAATAT-AGTTGA-TTTTG-AAACAG--ATTGAAATTACCTCAG-TGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTACCTCAGCACG
124260133 T-TCCGAG
66 TGTCCGAG
*
124260140 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAGAAAATTAAAATTAGCTCAGCAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG-AAATTAAAATTACCTCAGCAC
* *
124260204 GTGAGCCAAG
65 GTG-TCCGAG
* *
124260214 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAAATT-----A---AAATT-
** ** *
124260279 AAAATACCTCGGCGTGT--GA-
55 -ACCT-CAGC-ACGTGTCCGAG
* * * * * *
124260298 CCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG-TTTTTGACAAACAGAAATT-GAA-TAGCT
1 GCTCA-ACTC-A----CCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTAAAATTACCT
* * *
124260360 CAGCGCGTGAGCCAAG
59 CAGCACGTG-TCCGAG
* *
124260376 GCTCAACTCACCTCTCGCAATATGA-TTTA-TTTTGAAACTTAACTTGAAAAGATTGAAAA-TAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AA---AAC---AGAA-ATT-AAAATTAC
* * * *
124260438 CTC-GATATGTGACTCAAG
57 CTCAG-CACGTGTC-CGAG
* *
124260456 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTGAAAAAAATA-CTCAGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT---AAAATTACCTCAGC
*** * *
124260518 GTATGATCTGAA
63 ACGTG-TCCGAG
* *
124260530 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAGACAGAAATTGAAAA-TAGCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAGAAATT-AAAATTACCTCAGCA
* *
124260593 CGTGAGCCAAG
64 CGTG-TCCGAG
124260604 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
124260639 TTTTTTGAAA
Statistics
Matches: 567, Mismatches: 73, Indels: 133
0.73 0.09 0.17
Matches are distributed among these distances:
66 23 0.04
67 23 0.04
68 13 0.02
69 9 0.02
70 37 0.07
71 69 0.12
72 49 0.09
73 40 0.07
74 142 0.25
75 19 0.03
76 15 0.03
77 13 0.02
78 7 0.01
79 4 0.01
80 41 0.07
81 4 0.01
82 4 0.01
84 8 0.01
85 4 0.01
86 3 0.01
87 2 0.00
88 19 0.03
89 2 0.00
90 17 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTACCTCAGCACG
TGTCCGAG
Found at i:124260470 original size:152 final size:158
Alignment explanation
Indices: 124260138--124260582 Score: 461
Period size: 152 Copynumber: 2.8 Consensus size: 158
124260128 AGTGGTTCCG
*
124260138 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAGAAAATTAAAATTAGCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG-AAATT-GAATTAGCTCAGC
124260202 ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGGCAGAAATTGAA
64 ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT--ATTTTTTGAAA-GCAGAAATTGAA
* * *
124260267 AAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
126 AAAC-G-AATTGAAAATACCTCGACATGTGACCTA
* * *
124260302 AGGCTCAACTCGCCTCTCGCAATACGAGTTG-TTTTTGACAAACAGAAATTGAA-TAGCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAATTAGCTCAGCA
** *
124260365 CGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA-T-TTATTTTGAAA-CTTAACTTG-AAAA
65 CGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTATT-TTTTGAAAGCAGAAATTGAAAAA
*
124260426 -G-ATTGAAAATACCTCGATATGTGA-CTCA
129 CGAATTGAAAATACCTCGACATGTGACCT-A
*
124260454 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTGAAAAAAATA-CTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG----AATTAGCTCA
**** * * *
124260516 GTGTATGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGT-TGATTTTGAAAGACAGAAATTG
62 GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTAT-TTTTTGAAAG-CAGAAATTG
124260579 AAAA
124 AAAA
124260583 TAGCTCAGCG
Statistics
Matches: 243, Mismatches: 22, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
150 6 0.02
151 7 0.03
152 50 0.21
153 5 0.02
154 38 0.16
155 14 0.06
156 4 0.02
157 12 0.05
158 5 0.02
159 8 0.03
161 1 0.00
162 45 0.19
163 8 0.03
164 34 0.14
165 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (158 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAATTAGCTCAGCAC
GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTATTTTTTGAAAGCAGAAATTGAAAAACG
AATTGAAAATACCTCGACATGTGACCTA
Found at i:124260703 original size:95 final size:95
Alignment explanation
Indices: 124260562--124260734 Score: 249
Period size: 95 Copynumber: 1.8 Consensus size: 95
124260552 TGAGTTGATT
* * * *
124260562 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGACCCAAGGCTCAACTCACCTCTCACAATAC
124260627 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
* * * * *
124260657 TTGAAA-ACGGAAATTGAAAATACCTCGGCGTGTGACCCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGACCC-AAGGCTCAACTCACCTCTCACAATA
124260721 CGAGTTGATTTTTT
65 CGAGTTGATTTTTT
124260735 GACAACAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 27 0.40
95 41 0.60
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (95 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGACCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
Found at i:124260847 original size:73 final size:74
Alignment explanation
Indices: 124260667--124260946 Score: 317
Period size: 72 Copynumber: 3.8 Consensus size: 74
124260657 TTGAAAACGG
** * * *
124260667 AAATTGAAAATACCTCGGCGTGTGACCCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTT
1 AAATTGAAAATACCTCAACGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
124260732 TTT----GACAA
63 TTTAAAAGACAA
* *
124260740 CAAATTGAAATATA-CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAGTATGAG-TGATTTT
1 -AAATTGAAA-ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
124260802 TTAAAAGACAA
64 TTAAAAGACAA
* * * *
124260813 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
124260877 AAAA-ACAG
66 AAAAGACAA
* * *
124260885 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
124260947 CCCTTGAAAA
Statistics
Matches: 182, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
69 9 0.05
70 28 0.15
71 3 0.02
72 71 0.39
73 51 0.28
74 17 0.09
75 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
AAAAGACAA
Found at i:124260931 original size:145 final size:145
Alignment explanation
Indices: 124260667--124260946 Score: 345
Period size: 145 Copynumber: 1.9 Consensus size: 145
124260657 TTGAAAACGG
** * *
124260667 AAATTGAAAATACCTCGGCGTGTGACCCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTT
1 AAATTGAAAATACCTCAACGTGT-A-CCTGAGGCTCAACTCGACTCTCACAATACGAGTTGATAT
* * *
124260732 TTTGACAACAAATTGAAATATACTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAGTATGAG-T
64 TTTGAAAACAAATTGAAATATACTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
124260796 GATTTTTTAAAAGACAA
129 GATTTTTTAAAAGACAA
* * * *
124260813 AAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTC-ATTCTCGCAATATGAGTTGA-ATTT
1 AAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCGACTCTCACAATACGAGTTGATATTT
* *
124260875 TGAAAAACAGAAATTGAAAT-TACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGA
66 TG-AAAAC--AAATTGAAATATA-CTCAACGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGA
124260939 GTTGATTT
126 GTTGATTT
124260947 CCCTTGAAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
141 5 0.04
142 20 0.17
143 16 0.14
144 18 0.16
145 29 0.25
146 27 0.23
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (145 bp):
AAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCGACTCTCACAATACGAGTTGATATTT
TGAAAACAAATTGAAATATACTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTAAAAGACAA
Found at i:124270487 original size:12 final size:12
Alignment explanation
Indices: 124270465--124270500 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
124270455 TGGGATATGC
*
124270465 AATGAATGAATG
1 AATGCATGAATG
*
124270477 GATGCATGAATG
1 AATGCATGAATG
124270489 AATGCATGAATG
1 AATGCATGAATG
124270501 TCAGTCATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:124270487 original size:16 final size:17
Alignment explanation
Indices: 124270461--124270492 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
124270451 AGTATGGGAT
124270461 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
124270478 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
124270493 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:124272333 original size:2 final size:2
Alignment explanation
Indices: 124272326--124272355 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
124272316 ATATGTGCAA
*
124272326 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124272356 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:124273946 original size:6 final size:6
Alignment explanation
Indices: 124273936--124273968 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
124273926 AAAAGAAAAA
*
124273936 GTGTGG CTGTGG GTGTGG GTGTGG GTGTGG GTG
1 GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTG
124273969 GCATCGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.03, G:0.64, T:0.33
Consensus pattern (6 bp):
GTGTGG
Found at i:124277066 original size:22 final size:22
Alignment explanation
Indices: 124277041--124277109 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
124277031 AGCCGTTCAG
124277041 CCACCTGCTCTCTGTCCCATCA
1 CCACCTGCTCTCTGTCCCATCA
* *
124277063 CCACTTG--CACTG--CCATGCTA
1 CCACCTGCTCTCTGTCCCAT-C-A
124277083 GCCACCTGCTCTCTGTCCCATCA
1 -CCACCTGCTCTCTGTCCCATCA
124277106 CCAC
1 CCAC
124277110 TTGCACTGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 5 0.14
21 6 0.17
22 10 0.28
23 5 0.14
24 1 0.03
25 4 0.11
ACGTcount: A:0.16, C:0.48, G:0.12, T:0.25
Consensus pattern (22 bp):
CCACCTGCTCTCTGTCCCATCA
Found at i:124277100 original size:43 final size:43
Alignment explanation
Indices: 124277039--124277128 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
124277029 CTAGCCGTTC
124277039 AGCCACCTGCTCTCTGTCCCATCACCACTTGCACTGCCATGCT
1 AGCCACCTGCTCTCTGTCCCATCACCACTTGCACTGCCATGCT
124277082 AGCCACCTGCTCTCTGTCCCATCACCACTTGCACTGCCATGCT
1 AGCCACCTGCTCTCTGTCCCATCACCACTTGCACTGCCATGCT
124277125 AGCC
1 AGCC
124277129 TTCTGACACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.17, C:0.44, G:0.14, T:0.24
Consensus pattern (43 bp):
AGCCACCTGCTCTCTGTCCCATCACCACTTGCACTGCCATGCT
Found at i:124278122 original size:3 final size:3
Alignment explanation
Indices: 124278114--124278175 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
124278104 ATCTACTCAC
124278114 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
124278162 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
124278176 ATTTTCTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:124278771 original size:17 final size:18
Alignment explanation
Indices: 124278726--124278771 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
124278716 ATTACTCATC
124278726 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
124278743 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
124278761 TA-TTATATTTT
1 TATTTATATTTT
124278772 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:124278861 original size:18 final size:18
Alignment explanation
Indices: 124278840--124278882 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
124278830 TTTTTCATAC
*
124278840 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
124278858 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
124278876 TTTTATT
1 TATTATT
124278883 GCTATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:124278933 original size:23 final size:22
Alignment explanation
Indices: 124278900--124278948 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
124278890 TTTAATATAT
*
124278900 TATTTTTTATTACTATCATTGC
1 TATTTTTTATTACTATCATTAC
* *
124278922 TATTTTTATATTGCTATTATTAC
1 TATTTTT-TATTACTATCATTAC
124278945 TATT
1 TATT
124278949 ATATTATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTTTATTACTATCATTAC
Found at i:124284072 original size:2 final size:2
Alignment explanation
Indices: 124284065--124284094 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
124284055 CCTAAAAACA
124284065 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
124284095 CAAATTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124285151 original size:15 final size:16
Alignment explanation
Indices: 124285131--124285176 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
124285121 TTTTTTTTCA
124285131 ATTTTAATATTTTATT
1 ATTTTAATATTTTATT
* *
124285147 A-TTTAATGTTTTTTT
1 ATTTTAATATTTTATT
124285162 ATTTTTAATATTTTA
1 A-TTTTAATATTTTA
124285177 ATAATTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
17 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
ATTTTAATATTTTATT
Found at i:124292542 original size:16 final size:17
Alignment explanation
Indices: 124292507--124292586 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 17
124292497 TATTCATATG
*
124292507 TTTA-AATTTCATTTTA
1 TTTATAATTTAATTTTA
124292523 TTTATAATTTAATTTT-
1 TTTATAATTTAATTTTA
* *
124292539 TTTAT-TTTTAATATTA
1 TTTATAATTTAATTTTA
* * *
124292555 TATAT-ATTTTATGTTA
1 TTTATAATTTAATTTTA
124292571 -TTATTAA-TTAATTTTA
1 TTTA-TAATTTAATTTTA
124292587 AATCATATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
15 10 0.20
16 29 0.58
17 11 0.22
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (17 bp):
TTTATAATTTAATTTTA
Found at i:124292623 original size:37 final size:38
Alignment explanation
Indices: 124292540--124292624 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 38
124292530 TTTAATTTTT
*
124292540 TTATTTTTAATATTATATATATTTTATGTTATTATTAA
1 TTATTTTTAATATCATATATATTTTATGTTATTATTAA
* * *
124292578 TTAATTTTAA-ATCATATATTTTATTAT-TTATTA-TATG
1 TTATTTTTAATATCATATATATT-TTATGTTATTATTA-A
124292615 TTATTTTTAA
1 TTATTTTTAA
124292625 GCACAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 2 0.05
37 25 0.62
38 13 0.32
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (38 bp):
TTATTTTTAATATCATATATATTTTATGTTATTATTAA
Found at i:124296027 original size:14 final size:14
Alignment explanation
Indices: 124296008--124296034 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
124295998 AAAATTGAAA
124296008 TTTAATTTTTATAC
1 TTTAATTTTTATAC
124296022 TTTAATTTTTATA
1 TTTAATTTTTATA
124296035 TGATTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTTTTATAC
Found at i:124298266 original size:18 final size:19
Alignment explanation
Indices: 124298240--124298277 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
124298230 CACATATGTC
*
124298240 AGTTAATAAATA-ATTTAA
1 AGTTAATAAAAATATTTAA
*
124298258 AGTTTATAAAAATATTTAA
1 AGTTAATAAAAATATTTAA
124298277 A
1 A
124298278 AAAGTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AGTTAATAAAAATATTTAA
Found at i:124300272 original size:44 final size:46
Alignment explanation
Indices: 124300221--124300312 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 46
124300211 TACAACATTT
124300221 ATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
* *
124300265 ATTCCATTCAACCAAACAATTGAATTATTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
124300311 AT
1 AT
124300313 CACAACTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 1 0.02
46 18 0.42
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:124300323 original size:16 final size:16
Alignment explanation
Indices: 124300295--124300365 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
124300285 TGAATTATTG
124300295 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
124300311 ATCACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
124300327 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
124300343 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
124300359 ATTACAG
1 ATTACAG
124300366 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:124301632 original size:7 final size:7
Alignment explanation
Indices: 124301613--124301659 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
124301603 TTAGAGGAAT
*
124301613 TAAAGTA
1 TAAATTA
124301620 TAAATT-
1 TAAATTA
124301626 TATAATTA
1 TA-AATTA
*
124301634 TTAATTTA
1 -TAAATTA
124301642 TAAATTA
1 TAAATTA
124301649 TAAATTA
1 TAAATTA
124301656 TAAA
1 TAAA
124301660 AAAAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 2 0.06
7 26 0.76
8 4 0.12
9 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TAAATTA
Found at i:124301636 original size:22 final size:22
Alignment explanation
Indices: 124301611--124301656 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
124301601 TTTTAGAGGA
124301611 ATTAAAGTATAAATT-TATAATT
1 ATTAAAGTATAAATTATA-AATT
**
124301633 ATTAATTTATAAATTATAAATT
1 ATTAAAGTATAAATTATAAATT
124301655 AT
1 AT
124301657 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAAAGTATAAATTATAAATT
Found at i:124303993 original size:20 final size:22
Alignment explanation
Indices: 124303962--124304015 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
124303952 ATATGCTACT
124303962 TGACA-AATTTATTCA-AA-ATG
1 TGACATAA-TTATTCACAATATG
*
124303982 TGACATAATTA-TCACTAATTTG
1 TGACATAATTATTCAC-AATATG
124304004 TGACATAATTAT
1 TGACATAATTAT
124304016 CGCTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 3 0.11
20 8 0.29
21 4 0.14
22 13 0.46
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
TGACATAATTATTCACAATATG
Found at i:124304006 original size:22 final size:22
Alignment explanation
Indices: 124303980--124304021 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
124303970 TTATTCAAAA
124303980 TGTGACATAATTATCACTAATT
1 TGTGACATAATTATCACTAATT
*
124304002 TGTGACATAATTATCGCTAA
1 TGTGACATAATTATCACTAA
124304022 AAATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (22 bp):
TGTGACATAATTATCACTAATT
Found at i:124304288 original size:2 final size:2
Alignment explanation
Indices: 124304283--124304317 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
124304273 TTTTAAAGCA
124304283 AT AT AT AT 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 AT AT AT A
124304318 AAAGACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:124305701 original size:20 final size:19
Alignment explanation
Indices: 124305656--124305695 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
124305646 TATAAAAGCT
124305656 TTCATTAAAAATTGTAATA
1 TTCATTAAAAATTGTAATA
*
124305675 TTCATTAAAAATTTTAATA
1 TTCATTAAAAATTGTAATA
124305694 TT
1 TT
124305696 TGATTAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
TTCATTAAAAATTGTAATA
Found at i:124307116 original size:25 final size:27
Alignment explanation
Indices: 124307083--124307145 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
124307073 AAAATTTACA
* *
124307083 ACAATAATATAAAATA-AT-GATATGT
1 ACAAAAATATAAAATATATACATATGT
*
124307108 ACAAAAATAT-ATATATATACATATGT
1 ACAAAAATATAAAATATATACATATGT
124307134 ACATAAAATATA
1 ACA-AAAATATA
124307146 CACTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 11 0.35
26 9 0.29
27 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (27 bp):
ACAAAAATATAAAATATATACATATGT
Found at i:124307278 original size:2 final size:2
Alignment explanation
Indices: 124307227--124307259 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
124307217 GGTATTTAAA
*
124307227 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124307260 ATAGTATTTA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124307833 original size:19 final size:19
Alignment explanation
Indices: 124307809--124307856 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
124307799 AGGGTTTCTT
124307809 GGTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTGGGGGGTTA
****
124307828 GGTTTTTTTTTTTTGGTTA
1 GGTTTTTTTTGGGGGGTTA
124307847 GGTTTTTTTT
1 GGTTTTTTTT
124307857 TGGGAGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.04, C:0.00, G:0.29, T:0.67
Consensus pattern (19 bp):
GGTTTTTTTTGGGGGGTTA
Found at i:124307898 original size:13 final size:13
Alignment explanation
Indices: 124307882--124307915 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
124307872 GGCTTTTGAA
124307882 TTGGGTTTAATAT
1 TTGGGTTTAATAT
124307895 TTGGGTTTAATAT
1 TTGGGTTTAATAT
124307908 TTGGGTTT
1 TTGGGTTT
124307916 TGTAATGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (13 bp):
TTGGGTTTAATAT
Found at i:124308729 original size:30 final size:30
Alignment explanation
Indices: 124308693--124308754 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
124308683 TTTTGAAAAA
124308693 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
124308723 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
124308753 CA
1 CA
124308755 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:124308992 original size:78 final size:78
Alignment explanation
Indices: 124308903--124309117 Score: 299
Period size: 78 Copynumber: 2.8 Consensus size: 78
124308893 ATGTGACCCG
* * * *
124308903 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAATACCTC
* * * *
124308968 AGTGTGTGATCTGA
66 AGCGCGTGAGC-CA
* *
124308982 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAATACCTC
124309045 AGCGCGTGAGCCA
66 AGCGCGTGAGCCA
*
124309058 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGTAGAAATTGAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGATAGAAATTGAAAAA
124309118 CGGAAATTGA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
76 2 0.02
77 47 0.39
78 67 0.55
79 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAATACCTC
AGCGCGTGAGCCA
Found at i:124309187 original size:247 final size:243
Alignment explanation
Indices: 124308525--124309289 Score: 884
Period size: 253 Copynumber: 3.1 Consensus size: 243
124308515 TACAGACATT
*
124308525 AAAAACAGAAATTGAAAATAGCTCAGCGCGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
124308590 TTGATTTTTTGAAACT-TAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGT
66 TTGATTTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACTCGAGGC
* * *
124308654 TTAACTCACCTTTCACAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAA
131 TCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA-A-T-ACCTC-A
* * * *
124308717 CTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 GTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * * *
124308775 AAAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACTTCTCGCAATAT
1 ---AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
* *
124308840 GAGTTGA-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCCG
63 GAGTTGATTTTTTGAAAATAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGATATGTGACTCG
* * * * *
124308903 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCTC
127 AGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATACCTC
124308968 AGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 AGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
124309021 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * *** *
124309086 TTGATTTTTTTTGAAAGGTAGAAATTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACTTGA
66 TTGA--TTTTTTGAAA-ATAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACTCGA
* * * * *
124309151 GGCTCAACTCGCCTCTCACAATACGAGTTAATTTTTTG-ACAACAGAAATTG-AAATTACCTCAG
128 GGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
* * * *
124309214 CGTGT--CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTG
193 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
124309263 AAAAACAGAAATTGAAAATACCTCAGC
1 AAAAACAGAAATTGAAAATAGCTCAGC
124309290 ATGTCTTGAG
Statistics
Matches: 444, Mismatches: 57, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
242 66 0.15
243 64 0.14
244 15 0.03
245 10 0.02
246 25 0.06
247 89 0.20
248 5 0.01
249 1 0.00
250 1 0.00
251 1 0.00
252 14 0.03
253 130 0.29
254 1 0.00
255 18 0.04
256 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (243 bp):
AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACTCGAGGC
TCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGTGT
GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:124309338 original size:242 final size:243
Alignment explanation
Indices: 124308525--124309459 Score: 761
Period size: 253 Copynumber: 3.9 Consensus size: 243
124308515 TACAGACATT
** *
124308525 AAAAACAGAAATTGAAAATAGCTCAGCGCGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCATG-AA-CCAAGGCTCAACTCACTTCTCGCAATATGAG
** * ** * **
124308590 TTGA--TTTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGA
64 TTGATTTTTTTTGAAAACAGAATC-TGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGA
* * * * * *
124308651 GGTTTAACTCACCTTTCACAATATGAGTTG-A-TTTTTGAAAAACAGAAATT-AAAAGACTCAAC
128 GGCTCAACTCACATCTCACAATACGAGTTGAATTTTTTGAAAAACAGAAATTGAAAA-A-T-ACC
* * * ** *
124308713 TCAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
190 TC-A---GCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
124308775 AAAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACTTCTCGCAATAT
1 ---AAAAACAGAAATTGAAAATAGCTCAGCA--TGAACCAAGGCTCAACTCACTTCTCGCAATAT
** *
124308840 GAGTTGA---TTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCC
61 GAGTTGATTTTTTTTGAAAACAGAATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCC
* ** * * *
124308902 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCT
126 GAGGCTCAACTCACATCTCACAATACGAGTTGAATTTTTTGAAAAACAGAAATTGAAAAATACCT
* *
124308967 CAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 CAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
124309021 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCA--GCATGAACCAAGGCTCAACTCACTTCTCGCAATATGAG
** * * * * **
124309086 TTGATTTTTTTTGAAAGGTAGAAAT-TGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACTTG
64 TTGATTTTTTTTGAAA-ACAG-AATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCG
* * * *
124309150 AGGCTCAACTCGCCTCTCACAATACGAGTT-AATTTTTTG-ACAACAGAAATTG-AAATTACCTC
127 AGGCTCAACTCACATCTCACAATACGAGTTGAATTTTTTGAAAAACAGAAATTGAAAAATACCTC
* *
124309212 AGCGTGT-CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTG
192 AGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** * *
124309263 AAAAACAGAAATTGAAAATACCTCAGCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAAACAGAAATTGAAAATAGCTCAGCATGAAC-CAAGGCTCAACTCACTTCTCGCAATATGAGT
* **
124309327 TGATTTTTTTT----------TTTGAAAAACA-AAATTGAAAATACCTC-AGCATGT--CTTGAG
65 TGATTTTTTTTGAAAACAGAATCTGAAAAACAGAAATTGAAAATACCTCGA-CATGTGACCCGAG
* ** * * *
124309378 GCTCAACTAATTTCTCGCAATATGAGTTGAA--TTTTG-AAAACAGAAATTG-AAATTACCTCAG
129 GCTCAACTCACATCTCACAATACGAGTTGAATTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
* *
124309439 CGTGT-CTTGAGGCTCAACTCA
194 CGTGTACCTGAAGCTCAACTCA
124309460 TTTTGAATAG
Statistics
Matches: 586, Mismatches: 77, Indels: 66
0.80 0.11 0.09
Matches are distributed among these distances:
225 49 0.08
226 28 0.05
227 2 0.00
228 20 0.03
229 8 0.01
239 1 0.00
240 41 0.07
242 64 0.11
243 60 0.10
244 15 0.03
245 12 0.02
246 26 0.04
247 88 0.15
248 4 0.01
249 3 0.01
252 7 0.01
253 131 0.22
254 4 0.01
255 19 0.03
256 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (243 bp):
AAAAACAGAAATTGAAAATAGCTCAGCATGAACCAAGGCTCAACTCACTTCTCGCAATATGAGTT
GATTTTTTTTGAAAACAGAATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGC
TCAACTCACATCTCACAATACGAGTTGAATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
TGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:124309375 original size:78 final size:75
Alignment explanation
Indices: 124309110--124309462 Score: 421
Period size: 75 Copynumber: 4.7 Consensus size: 75
124309100 AAGGTAGAAA
* ** *** *
124309110 TTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACTTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
*
124309175 GAGTT-AATTTT
64 GAGTTGATTTTT
* * * ** **
124309186 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
124309250 GTTGATTTTT
66 GTTGATTTTT
*
124309260 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
124309325 GTTGATTTTTTTTT
66 GTTGA----TTTTT
* * *
124309339 TTGAAAAACA-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
124309403 GTTGA--ATT
66 GTTGATTTTT
*
124309411 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
124309463 TGAATAGAAA
Statistics
Matches: 245, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
71 6 0.02
72 44 0.18
73 29 0.12
74 8 0.03
75 83 0.34
76 3 0.01
78 57 0.23
79 15 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:124309561 original size:118 final size:119
Alignment explanation
Indices: 124309349--124309580 Score: 394
Period size: 118 Copynumber: 1.9 Consensus size: 119
124309339 TTGAAAAACA
*
124309349 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCT--CAATATGAGTTGAATTTTG
*
124309414 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTGAATAG
64 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGAATAG
* * *
124309470 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT-AATATGAGTTGAATTTTGAA
1 AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCAATATGAGTTGAATTTTGAA
124309534 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
124309581 CTCGCAATAT
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
118 66 0.62
121 40 0.38
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (119 bp):
AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCAATATGAGTTGAATTTTGAA
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGAATAG
Found at i:124309622 original size:79 final size:76
Alignment explanation
Indices: 124309468--124309682 Score: 250
Period size: 69 Copynumber: 2.9 Consensus size: 76
124309458 CATTTTGAAT
124309468 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT---AATATGAGTTGAA---
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
124309527 -TTTTGAAAAC
66 TTTTTGAAAAC
124309537 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA--T
124309602 TTTTTTTGAAAGAC
64 TTTTTTTGAAA-AC
* * * * ** *
124309616 AGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGCTG-A
1 AGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
124309679 TTTT
63 TTTT
124309683 GAAAAAGTAG
Statistics
Matches: 126, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
69 46 0.37
72 13 0.10
78 12 0.10
79 20 0.16
80 1 0.01
81 33 0.26
82 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (76 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TTTTTGAAAAC
Found at i:124309667 original size:81 final size:77
Alignment explanation
Indices: 124309527--124309682 Score: 197
Period size: 81 Copynumber: 2.0 Consensus size: 77
124309517 ATGAGTTGAA
* * * **
124309527 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATG
*
124309592 AGTTGAATTTTTT
66 AGCTG-ATTTTTT
*
124309605 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-ACTCGAGGCTCAACTCACCTCTCGCAA
124309669 TATGAGCTGATTTT
62 TATGAGCTGATTTT
124309683 GAAAAAGTAG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 8 0.12
79 20 0.30
80 5 0.07
81 33 0.49
82 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (77 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATG
AGCTGATTTTTT
Found at i:124309751 original size:54 final size:55
Alignment explanation
Indices: 124309651--124309756 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
124309641 GAACCGAGGC
* * *
124309651 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
124309705 TCAACCCACCTCTCACAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
124309757 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:124309763 original size:13 final size:13
Alignment explanation
Indices: 124309736--124309769 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
124309726 GAGTTGATTC
*
124309736 TTGAACAACATAAA
1 TTGAA-AACAGAAA
124309750 TTGAAAACAGAAA
1 TTGAAAACAGAAA
124309763 TTGAAAA
1 TTGAAAA
124309770 TACCTTAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:124309817 original size:140 final size:140
Alignment explanation
Indices: 124309607--124309954 Score: 608
Period size: 140 Copynumber: 2.5 Consensus size: 140
124309597 AATTTTTTTT
124309607 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
124309671 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAATATGAGTTGATTC
124309736 TTGAACAACATAAA
127 TTGAACAACATAAA
*
124309750 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
124309815 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAATATGAGTTGATTCTTGA
*
124309880 ACAACGTAAA
131 ACAACATAAA
* *
124309890 TTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
124309955 TTGAAATTAA
Statistics
Matches: 198, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
139 3 0.02
140 167 0.84
142 22 0.11
143 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAATATGAGTTGATTCTTGA
ACAACATAAA
Found at i:124309891 original size:54 final size:54
Alignment explanation
Indices: 124309791--124309896 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
124309781 GACCTGAGGC
*
124309791 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
124309845 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
124309897 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:124310021 original size:72 final size:71
Alignment explanation
Indices: 124309887--124310052 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
124309877 TGAACAACGT
* * * * *
124309887 AAATTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTATCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATAT
124309952 GAGTTG
66 GAGTTG
* *
124309958 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATA
124310023 TGAGTTG
65 TGAGTTG
**
124310030 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
124310053 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATAGCAATAT
GAGTTG
Found at i:124310147 original size:122 final size:124
Alignment explanation
Indices: 124309927--124310173 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
124309917 GTGTGACCTG
* * *
124309927 AGGCTCAACTCACCTATCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTATAGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
124309992 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * * *
124310052 AGGCTTAACTCACCTCTAGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTATAGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
124310114 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
124310173 A
1 A
124310174 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.14
122 63 0.56
123 7 0.06
124 1 0.01
125 25 0.22
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTATAGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:124310195 original size:71 final size:70
Alignment explanation
Indices: 124310052--124310226 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
124310042 AAAAATTAAA
* * * * * * *
124310052 AGGCTTAACTCACCTCTAGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
124310116 CCCCG
66 CCCCG
*
124310121 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
124310186 GTCTTG
65 GCCCCG
124310192 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
124310227 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 61 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:124318516 original size:12 final size:12
Alignment explanation
Indices: 124318494--124318529 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
124318484 TGGGATATGC
*
124318494 AATGAATGAATG
1 AATGCATGAATG
*
124318506 GATGCATGAATG
1 AATGCATGAATG
124318518 AATGCATGAATG
1 AATGCATGAATG
124318530 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:124318516 original size:16 final size:17
Alignment explanation
Indices: 124318490--124318521 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
124318480 AGTATGGGAT
124318490 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
124318507 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
124318522 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:124320553 original size:35 final size:35
Alignment explanation
Indices: 124320489--124320556 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
124320479 ACACAATATG
* *
124320489 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
124320524 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
124320557 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:124320592 original size:39 final size:37
Alignment explanation
Indices: 124320495--124320592 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
124320485 TATGGTATTT
* * * *
124320495 AAAATATATATAT-ATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
124320531 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
124320570 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
124320593 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:124320796 original size:13 final size:13
Alignment explanation
Indices: 124320758--124320802 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
124320748 ATGTATATAT
124320758 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
* *
124320771 AAACAACACAAAAA
1 AAAGAA-AGAAAAA
124320785 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
124320798 AAAGA
1 AAAGA
124320803 TTCGAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:124321108 original size:24 final size:23
Alignment explanation
Indices: 124321071--124321130 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
124321061 AGGTGGCTAG
124321071 GGTTTTTTGGTTTTTTTGGGGGTTA
1 GGTTTTTT--TTTTTTTGGGGGTTA
***
124321096 GGTTTTTCTTTTTTTTTTTGGTTA
1 GGTTTTT-TTTTTTTTGGGGGTTA
124321120 GGTTTTTTTTT
1 GGTTTTTTTTT
124321131 GGGAGGGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 19 0.61
25 7 0.23
26 1 0.03
ACGTcount: A:0.03, C:0.02, G:0.25, T:0.70
Consensus pattern (23 bp):
GGTTTTTTTTTTTTTGGGGGTTA
Found at i:124326194 original size:21 final size:18
Alignment explanation
Indices: 124326156--124326207 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
124326146 GAATATATTA
*
124326156 TTTA-TGTTAAATTTTTT
1 TTTATTGTTAAAATTTTT
124326173 TTTATTGTTAAAATTTAATT
1 TTTATTGTTAAAATTT--TT
124326193 TTTATATGTTAAAAT
1 TTTAT-TGTTAAAAT
124326208 AAAATGCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
20 7 0.23
21 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTATTGTTAAAATTTTT
Found at i:124326679 original size:25 final size:26
Alignment explanation
Indices: 124326621--124326681 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 26
124326611 AATGAAAATG
*
124326621 ATTAATAAATAAT-TTTTTATCTATAA
1 ATTAATAAA-AATATTTTTATATATAA
124326647 A--AAT-AAAATATTTTTATATA-AA
1 ATTAATAAAAATATTTTTATATATAA
124326669 ATTAATAAAAATA
1 ATTAATAAAAATA
124326682 CATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
22 6 0.20
23 11 0.37
24 6 0.20
25 6 0.20
26 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAATAAAAATATTTTTATATATAA
Found at i:124329732 original size:16 final size:16
Alignment explanation
Indices: 124329711--124329742 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
124329701 CAAAACTCTC
124329711 TTTTTTTTCTTCTTTT
1 TTTTTTTTCTTCTTTT
*
124329727 TTTTTTTTTTTCTTTT
1 TTTTTTTTCTTCTTTT
124329743 CGCTTGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTTTCTTCTTTT
Found at i:124331287 original size:17 final size:17
Alignment explanation
Indices: 124331265--124331299 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
124331255 ACTAAACCGA
124331265 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
124331282 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
124331299 C
1 C
124331300 TACTTGCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:124331345 original size:40 final size:41
Alignment explanation
Indices: 124331265--124331347 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 41
124331255 ACTAAACCGA
* *
124331265 CCACTAACTCCATCACCCCACTAACTCCATCACCCTACTTG
1 CCACTAACTCCATCACCCCACTAACCCCATCACCCCACTTG
* *
124331306 CCACTAATTCCATCA-CCCACTAACCCCATTACCCCACTTG
1 CCACTAACTCCATCACCCCACTAACCCCATCACCCCACTTG
124331346 CC
1 CC
124331348 TAGGAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
40 24 0.63
41 14 0.37
ACGTcount: A:0.27, C:0.49, G:0.02, T:0.22
Consensus pattern (41 bp):
CCACTAACTCCATCACCCCACTAACCCCATCACCCCACTTG
Found at i:124331888 original size:13 final size:12
Alignment explanation
Indices: 124331864--124331896 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
124331854 TTTTTAAGTA
124331864 TTATATTATTAT
1 TTATATTATTAT
124331876 TTATATATATTAT
1 TTATAT-TATTAT
124331889 TTATATTA
1 TTATATTA
124331897 AGCTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:124332413 original size:21 final size:19
Alignment explanation
Indices: 124332389--124332435 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 19
124332379 TCTGCACCTT
124332389 TGTAATATCGTTGATAAATGG
1 TGTAATAT--TTGATAAATGG
124332410 TGTAATA-TTGATAAATGG
1 TGTAATATTTGATAAATGG
124332428 TGTAATAT
1 TGTAATAT
124332436 ATTAACTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 18 0.72
21 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (19 bp):
TGTAATATTTGATAAATGG
Found at i:124332422 original size:18 final size:18
Alignment explanation
Indices: 124332399--124332435 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
124332389 TGTAATATCG
124332399 TTGATAAATGGTGTAATA
1 TTGATAAATGGTGTAATA
124332417 TTGATAAATGGTGTAATA
1 TTGATAAATGGTGTAATA
124332435 T
1 T
124332436 ATTAACTATG
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:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (18 bp):
TTGATAAATGGTGTAATA
Found at i:124336155 original size:41 final size:40
Alignment explanation
Indices: 124336098--124336196 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
124336088 TTCGGTTTAA
* * * * *
124336098 CTGATGAGATATTGGGTGTCAATTTACTACTTTGGATTTAT
1 CTGATGAGACACTGGGTGTCAATTTACT-CCTTCGAATTAT
124336139 -TCGATGAGACACTGGGTGTCAATTTACTCCTTCGAATTAT
1 CT-GATGAGACACTGGGTGTCAATTTACTCCTTCGAATTAT
*
124336179 CTGATGAGGCACTGGGTG
1 CTGATGAGACACTGGGTG
124336197 CCAAACTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 25 0.50
41 25 0.50
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (40 bp):
CTGATGAGACACTGGGTGTCAATTTACTCCTTCGAATTAT
Found at i:124336196 original size:40 final size:41
Alignment explanation
Indices: 124336100--124336196 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
124336090 CGGTTTAACT
* * * * *
124336100 GATGAGATATTGGGTGTCAATTTACTACTTTGGATTTATTC
1 GATGAGACACTGGGTGTCAATTTACTACCTTCGAATTATTC
124336141 GATGAGACACTGGGTGTCAATTTACT-CCTTCGAATTA-TC
1 GATGAGACACTGGGTGTCAATTTACTACCTTCGAATTATTC
*
124336180 TGATGAGGCACTGGGTG
1 -GATGAGACACTGGGTG
124336197 CCAAACTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
39 2 0.04
40 23 0.47
41 24 0.49
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (41 bp):
GATGAGACACTGGGTGTCAATTTACTACCTTCGAATTATTC
Found at i:124338198 original size:39 final size:38
Alignment explanation
Indices: 124338131--124338265 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
124338121 ACCAATATGG
* *
124338131 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAATTGA
* * *
124338170 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAATTGA
* * * * * * *
124338208 TACCCAGTACCTTATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATA-ATTGA
*
124338249 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
124338266 ACTCGAGGTC
Statistics
Matches: 72, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
38 17 0.24
39 36 0.50
40 4 0.06
41 15 0.21
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAATTGA
Found at i:124339889 original size:13 final size:13
Alignment explanation
Indices: 124339849--124339882 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
124339839 ACATATATGT
* *
124339849 ATAATATTATTTA
1 ATAATAATAGTTA
124339862 ATAATAATAGTTA
1 ATAATAATAGTTA
124339875 ATAATAAT
1 ATAATAAT
124339883 TTATAATTTA
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:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:124344404 original size:24 final size:23
Alignment explanation
Indices: 124344366--124344415 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
124344356 TTAATATATG
* *
124344366 AAATATAAATTTTAAATATTTTT
1 AAATATAAATATTAAATATTTAT
*
124344389 AAATAATAAATATTAATTATTTAT
1 AAAT-ATAAATATTAAATATTTAT
124344413 AAA
1 AAA
124344416 ATTTAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATAAATATTAAATATTTAT
Found at i:124347864 original size:25 final size:25
Alignment explanation
Indices: 124347836--124347886 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
124347826 TATAAAATTT
** *
124347836 TAAATTAAATTAATAATGATAAAAA
1 TAAATTAAACCAAAAATGATAAAAA
*
124347861 TAAATTAACCCAAAAATGATAAAAA
1 TAAATTAAACCAAAAATGATAAAAA
124347886 T
1 T
124347887 CTAAAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAATTAAACCAAAAATGATAAAAA
Found at i:124350733 original size:2 final size:2
Alignment explanation
Indices: 124350726--124350758 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
124350716 TCATACATAC
124350726 AT AT AT 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 AT AT A
124350759 CACATAGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124356460 original size:3 final size:3
Alignment explanation
Indices: 124356445--124356492 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
124356435 TGTTAAAATA
*
124356445 TAT TAT TA- GAT TAT TAT TAT TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
124356488 TAT TA
1 TAT TA
124356493 AATAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 9 0.24
3 29 0.76
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:124356473 original size:5 final size:5
Alignment explanation
Indices: 124356448--124356490 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
124356438 TAAAATATAT
*
124356448 TATTA GATTA TTATTA TTATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA T
124356491 TAAATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:124356491 original size:8 final size:8
Alignment explanation
Indices: 124356443--124356492 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
124356433 CTTGTTAAAA
124356443 TATATTAT
1 TATATTAT
*
124356451 TAGATTAT
1 TATATTAT
124356459 TATTATTAT
1 TA-TATTAT
124356468 TATATTA-
1 TATATTAT
124356475 TAT-TATAT
1 TATAT-TAT
124356483 TATATTAT
1 TATATTAT
124356491 TA
1 TA
124356493 AATAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 22 0.61
9 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:124357443 original size:18 final size:19
Alignment explanation
Indices: 124357408--124357446 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
124357398 TGAGTATTGA
124357408 TATTGAATTGAATGAAAATG
1 TATTGAATTG-ATGAAAATG
124357428 TATTGAATTG-TGAAAATG
1 TATTGAATTGATGAAAATG
124357446 T
1 T
124357447 GTGAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
TATTGAATTGATGAAAATG
Found at i:124360938 original size:15 final size:15
Alignment explanation
Indices: 124360918--124360974 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
124360908 CGATGAATTT
124360918 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
124360933 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
124360948 ATTGAATTTATATTG
1 ATTGAATTTATATTG
124360963 ATTGAA-TTATAT
1 ATTGAATTTATAT
124360975 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:124361429 original size:21 final size:21
Alignment explanation
Indices: 124361359--124361440 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
124361349 AGGCACTTTA
124361359 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTA--TTAGGCACCTCG
* *
124361382 TGTGTAGTATCAGGCACCTCG
1 TGTGTCGTATTAGGCACCTCG
124361403 TGTGTCGTATTAGGCACCTCG
1 TGTGTCGTATTAGGCACCTCG
*
124361424 TGTGTCGTCTTAGGCAC
1 TGTGTCGTATTAGGCAC
124361441 TTTATATGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 46 0.85
23 8 0.15
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATTAGGCACCTCG
Found at i:124361451 original size:42 final size:42
Alignment explanation
Indices: 124361346--124361454 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
124361336 GGCTTTACCA
124361346 ATTAGGCACTTTATGTGTCGTATTTTAGGCACCTCGTGTGTAGT
1 ATTAGGCACTTTATGTGTCGTA--TTAGGCACCTCGTGTGTAGT
* * ** *
124361390 ATCAGGCACCTCGTGTGTCGTATTAGGCACCTCGTGTGTCGT
1 ATTAGGCACTTTATGTGTCGTATTAGGCACCTCGTGTGTAGT
* *
124361432 CTTAGGCACTTTATATGTCGTAT
1 ATTAGGCACTTTATGTGTCGTAT
124361455 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (42 bp):
ATTAGGCACTTTATGTGTCGTATTAGGCACCTCGTGTGTAGT
Found at i:124363854 original size:3 final size:3
Alignment explanation
Indices: 124363846--124363876 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
124363836 TTTTAGTCCT
*
124363846 TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
124363877 CTGTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:124371075 original size:20 final size:20
Alignment explanation
Indices: 124371050--124371088 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
124371040 CCACATATAA
124371050 ATATCTTAAAAATAAAATAT
1 ATATCTTAAAAATAAAATAT
*
124371070 ATATCTTAAAATTAAAATA
1 ATATCTTAAAAATAAAATA
124371089 CAACTATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATCTTAAAAATAAAATAT
Found at i:124376416 original size:25 final size:21
Alignment explanation
Indices: 124376364--124376417 Score: 54
Period size: 25 Copynumber: 2.4 Consensus size: 21
124376354 ATCATTGTTT
124376364 AAAAATTTTTAAAATTGTATA
1 AAAAATTTTTAAAATTGTATA
* *
124376385 GATAATTTCTTATAAATTCTGTATA
1 AAAAATTT-TTA-AAA-T-TGTATA
124376410 AAAAATTT
1 AAAAATTT
124376418 AAAACTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
23 3 0.12
24 1 0.04
25 12 0.48
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
AAAAATTTTTAAAATTGTATA
Found at i:124383040 original size:21 final size:21
Alignment explanation
Indices: 124383014--124383056 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
124383004 GGTGAAGAAA
124383014 GCATATCACCAGGATTAGTTG
1 GCATATCACCAGGATTAGTTG
*
124383035 GCATATCACCTGGATTAGTTG
1 GCATATCACCAGGATTAGTTG
124383056 G
1 G
124383057 ACCCATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (21 bp):
GCATATCACCAGGATTAGTTG
Found at i:124386603 original size:11 final size:11
Alignment explanation
Indices: 124386569--124386609 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
124386559 TTATAATTAC
124386569 TTATTTTAAAA
1 TTATTTTAAAA
124386580 TT-TTATATAAAA
1 TTATT-T-TAAAA
124386592 TTATTTTAAAA
1 TTATTTTAAAA
124386603 TTATTTT
1 TTATTTT
124386610 TTTACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 8 0.30
13 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:124386720 original size:42 final size:40
Alignment explanation
Indices: 124386657--124386738 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 40
124386647 AAAAATAATT
*
124386657 GACATATTCTAAGAATGCTATGTATGAGCAGTCAAAACATGC
1 GACATATTCTAAGAATACTATGTA--AGCAGTCAAAACATGC
* *
124386699 GACATATTCTAATAATACTATGTAATCAGTCAAAACATGC
1 GACATATTCTAAGAATACTATGTAAGCAGTCAAAACATGC
124386739 TAGGTGACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.41
42 22 0.59
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (40 bp):
GACATATTCTAAGAATACTATGTAAGCAGTCAAAACATGC
Found at i:124405992 original size:33 final size:32
Alignment explanation
Indices: 124405955--124406034 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
124405945 CCCCATTTGG
124405955 CCCATTTGACCCATATTGTAACCCATCTGACCA
1 CCCATTTGACCCATATT-TAACCCATCTGACCA
* ** * *
124405988 CCCATCTGACCACCCATTTGACCCATCTGACGA
1 CCCATTTGACC-CATATTTAACCCATCTGACCA
*
124406021 CCCATTTGGCCCAT
1 CCCATTTGACCCAT
124406035 CTGCCCCATA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 1 0.03
33 32 0.86
34 4 0.11
ACGTcount: A:0.24, C:0.40, G:0.11, T:0.25
Consensus pattern (32 bp):
CCCATTTGACCCATATTTAACCCATCTGACCA
Found at i:124406013 original size:21 final size:21
Alignment explanation
Indices: 124405987--124406037 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
124405977 CCATCTGACC
124405987 ACCCATCTGACCACCCATTTG
1 ACCCATCTGACCACCCATTTG
*
124406008 ACCCATCTGACGACCCATTTG
1 ACCCATCTGACCACCCATTTG
*
124406029 GCCCATCTG
1 ACCCATCTG
124406038 CCCCATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (21 bp):
ACCCATCTGACCACCCATTTG
Found at i:124406025 original size:12 final size:12
Alignment explanation
Indices: 124405975--124406010 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
124405965 CCATATTGTA
124405975 ACCCATCTGACC
1 ACCCATCTGACC
124405987 ACCCATCTGACC
1 ACCCATCTGACC
*
124405999 ACCCATTTGACC
1 ACCCATCTGACC
124406011 CATCTGACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.25, C:0.47, G:0.08, T:0.19
Consensus pattern (12 bp):
ACCCATCTGACC
Found at i:124406066 original size:6 final size:6
Alignment explanation
Indices: 124406055--124406101 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
124406045 TTCTTACTGC
*
124406055 CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG TACCA
1 CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCA
124406102 CCTCCCCCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.34, C:0.49, G:0.15, T:0.02
Consensus pattern (6 bp):
CACCAG
Found at i:124406708 original size:12 final size:12
Alignment explanation
Indices: 124406693--124406746 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
124406683 TTCATCATCA
*
124406693 TCATCATCGAAC
1 TCATCATCAAAC
*
124406705 TCATCATCAAAT
1 TCATCATCAAAC
*
124406717 TCATCATCGAAC
1 TCATCATCAAAC
*
124406729 TCATCACCAAAC
1 TCATCATCAAAC
124406741 TCATCA
1 TCATCA
124406747 AAATCACAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.26
Consensus pattern (12 bp):
TCATCATCAAAC
Found at i:124406720 original size:24 final size:24
Alignment explanation
Indices: 124406693--124406746 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
124406683 TTCATCATCA
* *
124406693 TCATCATCGAACTCATCATCAAAT
1 TCATCATCGAACTCATCACCAAAC
124406717 TCATCATCGAACTCATCACCAAAC
1 TCATCATCGAACTCATCACCAAAC
124406741 TCATCA
1 TCATCA
124406747 AAATCACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.26
Consensus pattern (24 bp):
TCATCATCGAACTCATCACCAAAC
Done.