Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
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 169 of 438
Found at i:51778464 original size:115 final size:115
Alignment explanation
Indices: 51778262--51778492 Score: 435
Period size: 115 Copynumber: 2.0 Consensus size: 115
51778252 CAAGGTGGAA
51778262 TATGTAAATCCTTGATTTCAACACTATAGCAAAGGCCAACAAATGAAATTGGTGTGGAATGACCA
1 TATGTAAATCCTTGATTTCAACACTATAGCAAAGGCCAACAAATGAAATTGGTGTGGAATGACCA
*
51778327 TCATTCAAGGTGGATCATCCATGGGAAAGAGCAGTACTGTGATCAGCTCT
66 TCATTCAAGGTGGATCATCCATGGGAAAGAGCAGTACCGTGATCAGCTCT
* *
51778377 TATGTGAATCCTTGATTTCAACACTATAGCAAAGGCCAACAAATGAAATTGGTGTGGAATGACTA
1 TATGTAAATCCTTGATTTCAACACTATAGCAAAGGCCAACAAATGAAATTGGTGTGGAATGACCA
51778442 TCATTCAAGGTGGATCATCCATGGGAAAGAGCAGTACCGTGATCAGCTCT
66 TCATTCAAGGTGGATCATCCATGGGAAAGAGCAGTACCGTGATCAGCTCT
51778492 T
1 T
51778493 TCCTATCAGT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (115 bp):
TATGTAAATCCTTGATTTCAACACTATAGCAAAGGCCAACAAATGAAATTGGTGTGGAATGACCA
TCATTCAAGGTGGATCATCCATGGGAAAGAGCAGTACCGTGATCAGCTCT
Found at i:51784123 original size:40 final size:40
Alignment explanation
Indices: 51784015--51784224 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51784005 CGGGATTTAA
* * * * *
51784015 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
51784055 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51784095 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51784135 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51784175 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51784215 CCGGATATAT
1 CCGGATATAT
51784225 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:51792258 original size:40 final size:40
Alignment explanation
Indices: 51792150--51792359 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51792140 CGGGATTTAA
* * * * *
51792150 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
51792190 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51792230 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51792270 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51792310 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51792350 CCGGATATAT
1 CCGGATATAT
51792360 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:51810588 original size:40 final size:40
Alignment explanation
Indices: 51810534--51810767 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
51810524 AATATAGCTT
*
51810534 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
51810574 CTCGCACAATTGCCTTTGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
51810614 CTAGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
51810654 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
51810694 CTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
51810734 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
51810768 CAATCCGAAT
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 12 0.07
40 169 0.93
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:51816938 original size:8 final size:9
Alignment explanation
Indices: 51816910--51816938 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51816900 GTGAGGGACT
51816910 AAATTGTAA
1 AAATTGTAA
51816919 AAATTGTAA
1 AAATTGTAA
51816928 AAATTGTAA
1 AAATTGTAA
51816937 AA
1 AA
51816939 GTTGAGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (9 bp):
AAATTGTAA
Found at i:51818014 original size:12 final size:12
Alignment explanation
Indices: 51817993--51818022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51817983 TTGACTTATG
*
51817993 TCACATAGTCAA
1 TCACACAGTCAA
51818005 TCACACAGTCAA
1 TCACACAGTCAA
51818017 TCACAC
1 TCACAC
51818023 GCCCATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (12 bp):
TCACACAGTCAA
Found at i:51821350 original size:40 final size:39
Alignment explanation
Indices: 51821305--51821433 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
51821295 CGGAATACAA
51821305 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
51821345 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * * *
51821385 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCAGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
51821425 CC-GATATAA
1 CCGGATATAA
51821434 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 8 0.11
40 67 0.89
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:51835658 original size:28 final size:29
Alignment explanation
Indices: 51835591--51835691 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
51835581 ATAGTGAATC
*
51835591 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
51835620 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
51835648 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
51835678 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51835692 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:51842382 original size:28 final size:29
Alignment explanation
Indices: 51842315--51842415 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
51842305 ATAGTGAATC
*
51842315 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
51842344 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
51842372 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
51842402 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51842416 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:51844925 original size:26 final size:26
Alignment explanation
Indices: 51844868--51844919 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
51844858 TAAAATTGAT
*
51844868 AAATGACTATTATGCCCTATGAGGTA
1 AAATGACTATTATGCCCTATGAGATA
51844894 AAATGACTATTATGCCCTTATGAGAT
1 AAATGACTATTATGCCC-TATGAGAT
51844920 GTATGATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (26 bp):
AAATGACTATTATGCCCTATGAGATA
Found at i:51851709 original size:43 final size:42
Alignment explanation
Indices: 51851661--51851767 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
51851651 TCGATGCCAC
* * *
51851661 TGTCCCAGACAGGGTCTTACACGAAATCGATTAAT-GATACCAA
1 TGTCCCAGACATGGTCTTACACGAAATC-A-CAATAAATACCAA
*
51851704 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATACCAA
1 TGTCCCAGACATGGTCTTACACGAAATCACAATA-AATACCAA
51851747 TGTCCCAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
51851768 TGTAATCGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 3 0.05
42 1 0.02
43 54 0.93
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAAATCACAATAAATACCAA
Found at i:51856262 original size:4 final size:4
Alignment explanation
Indices: 51856253--51856292 Score: 64
Period size: 4 Copynumber: 10.0 Consensus size: 4
51856243 TTCTTAAAAA
51856253 AATT AATT AATT AATT AATT -ATT AAATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT -AATT AATT AATT AATT
51856293 TCTAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 28 0.82
5 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:51856282 original size:20 final size:20
Alignment explanation
Indices: 51856257--51856302 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
51856247 TAAAAAAATT
51856257 AATTAATTAATTAATTAT-TA
1 AATTAATTAATTAATT-TCTA
51856277 AATTAATTAATTAATTTCTA
1 AATTAATTAATTAATTTCTA
51856297 AATTAA
1 AATTAA
51856303 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTAATTAATTAATTTCTA
Found at i:51864333 original size:9 final size:9
Alignment explanation
Indices: 51864287--51864340 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
51864277 TGTTACTTTA
51864287 TTTT-TAAT
1 TTTTATAAT
51864295 TTTTATCAA-
1 TTTTAT-AAT
51864304 TTTTATATAT
1 TTTTATA-AT
51864314 CTTTT-TAAT
1 -TTTTATAAT
51864323 TTTTATAAT
1 TTTTATAAT
51864332 TTTTA-AAT
1 TTTTATAAT
51864340 T
1 T
51864341 ATTTTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 13 0.32
9 19 0.47
10 4 0.10
11 4 0.10
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51864335 original size:28 final size:28
Alignment explanation
Indices: 51864287--51864350 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
51864277 TGTTACTTTA
*
51864287 TTTTTAATTTTTATCAATTTTATA-TAT
1 TTTTTAATTTTTATCAATTTTAAATTAT
51864314 CTTTTTAATTTTTAT-AATTTTTAAATTAT
1 -TTTTTAATTTTTATCAA-TTTTAAATTAT
51864343 TTTTTAAT
1 TTTTTAAT
51864351 GTGATGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 2 0.06
28 28 0.85
29 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTAATTTTTATCAATTTTAAATTAT
Found at i:51864526 original size:26 final size:29
Alignment explanation
Indices: 51864471--51864532 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
51864461 AACTTTTTTT
*
51864471 TAAAAAATAATAGTTAAATTTAACTCAAA
1 TAAAAAATAATAGTCAAATTTAACTCAAA
51864500 TAAAAAATAAGTA-TCAAA-TTAA-T-AAA
1 TAAAAAATAA-TAGTCAAATTTAACTCAAA
51864526 TAAAAAA
1 TAAAAAA
51864533 ATTAAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 10 0.32
27 1 0.03
28 4 0.13
29 14 0.45
30 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (29 bp):
TAAAAAATAATAGTCAAATTTAACTCAAA
Found at i:51870825 original size:10 final size:10
Alignment explanation
Indices: 51870810--51870836 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
51870800 TCATAAATGA
51870810 TTAATTAAGC
1 TTAATTAAGC
51870820 TTAATTAAGC
1 TTAATTAAGC
51870830 TTAATTA
1 TTAATTA
51870837 GGATTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (10 bp):
TTAATTAAGC
Found at i:51877670 original size:28 final size:28
Alignment explanation
Indices: 51877605--51877671 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
51877595 CTTTTCAAAT
*
51877605 GGGTT-GCCACAAGGGCTACTCCTTTCA
1 GGGTTCGCCACAAGGGCCACTCCTTTCA
* *
51877632 GGGTTCACCACAAGGGCCATTCCTTTC-
1 GGGTTCGCCACAAGGGCCACTCCTTTCA
*
51877659 GAGTTTCGCCACA
1 G-GGTTCGCCACA
51877672 GAGGCTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.25
Consensus pattern (28 bp):
GGGTTCGCCACAAGGGCCACTCCTTTCA
Found at i:51882494 original size:18 final size:18
Alignment explanation
Indices: 51882471--51882521 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
51882461 TAATTATTTT
51882471 ATGATTATTTGATGATCC
1 ATGATTATTTGATGATCC
51882489 ATGATT-TTT--T--T--
1 ATGATTATTTGATGATCC
51882500 ATGATTATTTGATGATCC
1 ATGATTATTTGATGATCC
51882518 ATGA
1 ATGA
51882522 AAAAGTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
11 6 0.23
12 3 0.12
13 1 0.04
14 1 0.04
15 1 0.04
16 1 0.04
17 3 0.12
18 10 0.38
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (18 bp):
ATGATTATTTGATGATCC
Found at i:51884253 original size:50 final size:50
Alignment explanation
Indices: 51884135--51884512 Score: 298
Period size: 50 Copynumber: 7.5 Consensus size: 50
51884125 ATTGTGAGAA
* * * ** *
51884135 CACATGTGTAGTACTATGTGCAGGCTACCATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAA-ATAG--TTAGGT
* * *
51884187 TACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
* * * * * *
51884237 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACA-ACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AAATAGTT-AGGT
* * * *
51884288 CACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
* * * * * * *
51884338 CACGTGTATAGTACTAAGTGTACGCTACTACATCTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
* * * * *
51884388 CACATTTGTAGTACTAAGTGTAGGCTACTATGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
** * * ** * *
51884438 CATGTGTGTAGTACTAA-TGCAGGCTGCTACGTGTATCGGAT-TTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
* *
51884486 CGCATGTGTAGTACTAGGTGCAGGCTA
1 CACATGTGTAGTACTAAGTGCAGGCTA
51884513 TTATGCGTAC
Statistics
Matches: 257, Mismatches: 62, Indels: 17
0.76 0.18 0.05
Matches are distributed among these distances:
48 18 0.07
49 30 0.12
50 135 0.53
51 37 0.14
52 35 0.14
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
Found at i:51884314 original size:101 final size:99
Alignment explanation
Indices: 51884188--51884462 Score: 331
Period size: 101 Copynumber: 2.8 Consensus size: 99
51884178 GTTTTAGGTT
* * * *
51884188 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTA
*
51884253 AGTGCAGGCTACT-ATGCGTACCCGACAACTTCA-ATC
66 AGTGCAGGCTACTAAT-C-TACCAGA-AACTT-AGATC
* * *
51884289 ACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATCAAATGGTTAGGTCACGTGTATAGTACTA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTA
* * * * *
51884354 AGTGTACGCTACTACATCTACCAGATAGTTAGGTC
66 AGTGCAGGCTACTA-ATCTACCAGAAACTTAGATC
* * * *
51884389 ACATTTGTAGTACTAAGTGTAGGCTACTATGTGTATCAAATGGTTAGGTCATGTGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTA
51884454 A-TGCAGGCT
66 AGTGCAGGCT
51884463 GCTACGTGTA
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
99 7 0.05
100 64 0.43
101 75 0.50
102 1 0.01
103 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (99 bp):
ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTAATCTACCAGAAACTTAGATC
Found at i:51884415 original size:151 final size:152
Alignment explanation
Indices: 51884139--51884419 Score: 422
Period size: 151 Copynumber: 1.8 Consensus size: 152
51884129 TGAGAACACA
* * * * *
51884139 TGTGTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGGTTACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACCACGTGTTCAAGATGG-TTTAGGTCACGTGTATAGTACTAA
* * * *
51884204 GTGTAGGCTACTACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTGTACGCTACTACATCTACCAAATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
51884269 CGTACCCGACAACTTCAATCACG
130 CGTACCCGACAACTTCAATCACG
51884292 TGTGTAGTACTAAGTGCAGGCTACCACGTGTATCAA-ATGG-TTAGGTCACGTGTATAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACCACGTGT-TCAAGATGGTTTAGGTCACGTGTATAGTACTAA
* * *
51884355 GTGTACGCTACTACATCTACCAGATAGTTAGGTCACATTTGTAGTACTAAGTGTAGGCTACTATG
65 GTGTACGCTACTACATCTACCAAATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
51884420 TGTATCAAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
151 79 0.69
153 33 0.29
154 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGGCTACCACGTGTTCAAGATGGTTTAGGTCACGTGTATAGTACTAAG
TGTACGCTACTACATCTACCAAATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCCGACAACTTCAATCACG
Found at i:51890945 original size:26 final size:26
Alignment explanation
Indices: 51890916--51891000 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
51890906 GTGAGAACAC
51890916 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* ** **
51890942 ATGTGT-TTAAGATGGTTTTAGG-TCAC-
1 ATGTGTAGTACTAT-G-TGCAGGCT-ACT
*
51890968 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
51890994 ATGTGTA
1 ATGTGTA
51891001 CCAGATAGTT
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 10 0.24
26 23 0.55
27 9 0.21
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:51891034 original size:50 final size:50
Alignment explanation
Indices: 51890913--51891297 Score: 380
Period size: 50 Copynumber: 7.6 Consensus size: 50
51890903 ATTGTGAGAA
* *** *
51890913 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
51890965 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
** * * * ** * * * *
51891015 CGTATGTGTAGTACAAAGTGTAAGCTACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * *
51891066 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
51891116 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
51891166 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
** * * *
51891217 CACGCGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
51891266 CGCATGTGCAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
51891298 CGGACTAGAT
Statistics
Matches: 269, Mismatches: 58, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
49 28 0.10
50 128 0.48
51 72 0.27
52 41 0.15
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:51891092 original size:101 final size:100
Alignment explanation
Indices: 51890959--51891297 Score: 288
Period size: 101 Copynumber: 3.4 Consensus size: 100
51890949 TAAGATGGTT
* **
51890959 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGTATGTGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTGT
* * *
51891024 AGTACAAAGTGTAAGCTACTATGCATACCCGACAAC
66 AGTACAAAGTGCAAGCTACTACGCATACCAGA-AAC
* * * * *
51891060 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTG
1 TT-AGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTG
* * ** * *
51891124 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
65 TAGTACAAAGTGCAAGCTACTACGCATACCAGAAAC
* * * * * * * **
51891160 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTCA-ATCACGCGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGTCACATGT
* * * ** ***
51891224 GTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
64 GTAGTACAAAGTGCAAGCTACTACGCATACCAGAAAC
* * *
51891261 TT-GGTCGCATGTGCAGTACTAAGTGCAGGCTACTATG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATG
51891298 CGGACTAGAT
Statistics
Matches: 202, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
99 1 0.00
100 73 0.36
101 126 0.62
102 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTGT
AGTACAAAGTGCAAGCTACTACGCATACCAGAAAC
Found at i:51891193 original size:151 final size:151
Alignment explanation
Indices: 51890917--51891295 Score: 571
Period size: 151 Copynumber: 2.5 Consensus size: 151
51890907 TGAGAACACA
* * * *
51890917 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACATGTGTAGTACTAA
* * *
51890982 GTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGTATGTGTAGTACAAAGTGTAAGCTACTATG
64 GTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACAAAGTGCAAGCTACTATG
51891047 CATACCCGACAACTTCAATCACG
129 CATACCCGACAACTTCAATCACG
*
51891070 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
* * *
51891135 GCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACAAAGTGCAAGCTACTATGCA
*
51891200 TACCTGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
* * * * * *
51891221 CGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGCAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
51891285 GCAGGCTACTA
66 GCAGGCTACTA
51891296 TGCGGACTAG
Statistics
Matches: 207, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
150 30 0.14
151 141 0.68
153 36 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACAAAGTGCAAGCTACTATGCA
TACCCGACAACTTCAATCACG
Found at i:51891279 original size:100 final size:101
Alignment explanation
Indices: 51891115--51891299 Score: 327
Period size: 101 Copynumber: 1.8 Consensus size: 101
51891105 GATGGTTAGG
* *
51891115 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGCAGTAC
51891180 TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
* *
51891216 TCACGCGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGCAGTAC
1 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGCAGTAC
51891280 TAAGTGCAGGCTACTATGCG
66 TAAGTGCAGGCTACTATGCG
51891300 GACTAGATAG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 36 0.45
101 44 0.55
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGCAGTAC
TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
Found at i:51891338 original size:151 final size:151
Alignment explanation
Indices: 51890918--51891341 Score: 474
Period size: 151 Copynumber: 2.8 Consensus size: 151
51890908 GAGAACACAT
* * *** *
51890918 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTACTAAG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGTCACATGTGCAGTACTAAG
* * * ** * * * *
51890983 TGCAGGCTACTATGTGTACCAGATAGTTAGGTCGTATGTGTAGTACA-AAGTGTAAGCTACTATG
64 TGCAGGCTACTACGCGGACCAGATAGTTAGGTCACAAGGGTAGTA-ATAAGTGCAGGCTACTATG
*
51891047 CATACCCGACAACTTCAATCACGT
128 CATACCCGACAACTTCAATCACGC
* * *
51891071 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTACTAAGTG
* * * * * * *
51891136 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
66 CAGGCTACTACGCGGACCAGATAGTTAGGTCACAAGGGTAGTAATAAGTGCAGGCTACTATGCAT
*
51891201 ACCTGACAACTTCAATCACGC
131 ACCCGACAACTTCAATCACGC
* * *
51891222 GTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGCAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTACTAAGTG
* * * * * *
51891286 CAGGCTACTATGCGGACTAGATAGCTTCGGTTACAAGGGTGGTAATATGTGCAGGC
66 CAGGCTACTACGCGGACCAGATAG-TTAGGTCACAAGGGTAGTAATAAGTGCAGGC
51891342 AACCGTGTAT
Statistics
Matches: 238, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
150 40 0.17
151 163 0.68
153 35 0.15
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (151 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTACTAAGTG
CAGGCTACTACGCGGACCAGATAGTTAGGTCACAAGGGTAGTAATAAGTGCAGGCTACTATGCAT
ACCCGACAACTTCAATCACGC
Found at i:51904664 original size:50 final size:48
Alignment explanation
Indices: 51904586--51904835 Score: 150
Period size: 49 Copynumber: 5.3 Consensus size: 48
51904576 AACCCTATAC
* * *
51904586 CCCTGAAGTTGCAGTGG-GATGGATTGAAGTTATCATGGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGA--GATTGAAGTTAGCAT-ACAAATCTTATCT
* ** *
51904636 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGATACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-AGATTGAAGTTAGCATACAAATCTTATCT
* *
51904685 CCCTGAAGTTGCAGTGGAGTAGATTGAAG-T----TACAAGTCTTATTT
1 CCCTGAAGTTGCAGTGGAG-AGATTGAAGTTAGCATACAAATCTTATCT
* * * *
51904729 CCCTGAAGTTACAGTGGAACAGATTAAAGCTA-CAAATTACAAATC-T-TCT
1 CCCTGAAGTTGCAGTGG-AGAGATTGAAGTTAGC--A-TACAAATCTTATCT
* * *
51904778 CCCTAAAGTTGTAGTGGAGTAGA-TCAA---AG-ATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-AGATTGAAGTTAGCATA-CAAATCTTATCT
*
51904823 CTCTGAAGTTGCA
1 CCCTGAAGTTGCA
51904836 ATAGAGCATA
Statistics
Matches: 160, Mismatches: 25, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.01
43 7 0.04
44 37 0.23
45 16 0.10
48 4 0.03
49 57 0.36
50 28 0.17
51 8 0.05
52 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
CCCTGAAGTTGCAGTGGAGAGATTGAAGTTAGCATACAAATCTTATCT
Found at i:51904734 original size:44 final size:44
Alignment explanation
Indices: 51904626--51905008 Score: 291
Period size: 44 Copynumber: 8.7 Consensus size: 44
51904616 TATCATGGCG
*
51904626 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C----TACA
* *
51904675 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
51904719 AGTCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * ** *
51904763 AATTACAAATCT-TCTCCCTAAAGTTGTAGTGGAGTAGATCAAAGATAGCA
1 AA-T-C---T-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
51904813 AATCTTATCTCTCTGAAGTTGCAATAGAGC--A-T--A--T-TA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
51904849 AATCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
51904893 AGTCTTATCTCCCTGATGTTGCAATGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
51904937 AATCTCATTTCCCTGAAGTTACAGTGGAGCATATAGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
51904981 AGTCTTATCTCCCTAAAGTT-CAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
51905009 TGGATCAAAG
Statistics
Matches: 263, Mismatches: 55, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
36 26 0.10
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
43 10 0.04
44 131 0.50
45 19 0.07
46 1 0.00
48 1 0.00
49 66 0.25
50 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:51904779 original size:93 final size:93
Alignment explanation
Indices: 51904628--51905007 Score: 264
Period size: 93 Copynumber: 4.3 Consensus size: 93
51904618 TCATGGCGAA
* * * * * *
51904628 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGATACAAATCTTATCTCCCTGAAG
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGACAGAATACAAATCTTATCTCCCTAAAG
51904693 TTGCAGTGGAGTAGATTGAAGTTACAAG
66 TTGCAGTGGAGTAGATTGAAGTTACAAG
*
51904721 TCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACA-AATTACAAATC-T-TCTCCCTA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAG--ACAGAA-TACAAATCTTATCTCCCTA
* ** * *
51904783 AAGTTGTAGTGGAGTAGATCAAAGATAGCAAA
63 AAGTTGCAGTGGAGTAGATTGAAGTTA-CAAG
* * * *
51904815 TCTTATCTCTCTGAAG-T----T-G--CA-A-TAGAG-CA-TAT-TAAATCTTATCTCCCTAAAG
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGACAGAATACAAATCTTATCTCCCTAAAG
* * *
51904867 TTGCAGCGGAGCAGGTTGAAGTTACAAG
66 TTGCAGTGGAGTAGATTGAAGTTACAAG
* * * * ** * * *
51904895 TCTTATCTCCCTGATGTTGCAATGGAGCAGATT---GA-AG-CCACAAATCTCATTTCCCTGAAG
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGACAGAATACAAATCTTATCTCCCTAAAG
* * * * *
51904955 TTACAGTGGAGCATATAGAAGCTACAAG
66 TTGCAGTGGAGTAGATTGAAGTTACAAG
*
51904983 TCTTATCTCCCTAAAGTT-CAGTGGA
1 TCTTATCTCCCTGAAGTTACAGTGGA
51905008 GTGGATCAAA
Statistics
Matches: 226, Mismatches: 42, Indels: 44
0.72 0.13 0.14
Matches are distributed among these distances:
79 5 0.02
80 19 0.08
81 32 0.14
84 4 0.02
85 2 0.01
86 3 0.01
87 8 0.04
88 57 0.25
89 2 0.01
90 1 0.00
93 63 0.28
94 19 0.08
95 11 0.05
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (93 bp):
TCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGACAGAATACAAATCTTATCTCCCTAAAG
TTGCAGTGGAGTAGATTGAAGTTACAAG
Found at i:51907912 original size:11 final size:11
Alignment explanation
Indices: 51907896--51907920 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51907886 TAGCAGGTAG
51907896 TTAGTTACATT
1 TTAGTTACATT
51907907 TTAGTTACATT
1 TTAGTTACATT
51907918 TTA
1 TTA
51907921 ATCATACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (11 bp):
TTAGTTACATT
Found at i:51910236 original size:23 final size:23
Alignment explanation
Indices: 51910188--51910252 Score: 112
Period size: 23 Copynumber: 2.7 Consensus size: 23
51910178 TATCAACTAG
51910188 TCATTTTGGGTATAATTAGTAAAAA
1 TCATTTT-GGTATAATT-GTAAAAA
51910213 TCATTTTGGTATAATTGTAAAAA
1 TCATTTTGGTATAATTGTAAAAA
51910236 TCATTTTGGTATAATTG
1 TCATTTTGGTATAATTG
51910253 CATTATAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 24 0.60
24 9 0.22
25 7 0.17
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (23 bp):
TCATTTTGGTATAATTGTAAAAA
Found at i:51915683 original size:40 final size:40
Alignment explanation
Indices: 51915653--51915791 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
51915643 GTTATAATAG
*
51915653 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
* *
51915693 CTCGCACAATTGCCTTCAGGAATTAACCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
* * *
51915733 CTCGTACAAATGCCTTCGGGAATTAACCCGGATTTAGTCA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
* *
51915773 CTTAGCACAAAAGCCTTCG
1 C-TCGCACAAATGCCTTCG
51915792 AGGCTTAGCC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 73 0.84
41 14 0.16
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
Found at i:51923793 original size:40 final size:40
Alignment explanation
Indices: 51923737--51923918 Score: 172
Period size: 40 Copynumber: 4.5 Consensus size: 40
51923727 GGATATGGCG
* * * **
51923737 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TGGTA
* *
51923777 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTGGTA
* *
51923817 ACTCGCACAATTGCCTTCAGGA-ATTAACCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTGGTA
** * *
51923857 ACTCGCACAAATGCCTTCAAGA-ATTAACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTGGTA
* *
51923897 ACTTAGCACAAAAGCCTTCGGG
1 AC-TCGCACAAATGCCTTCGGG
51923919 GCTTAGCTCG
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
40 103 0.86
41 17 0.14
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTGGTA
Found at i:51926250 original size:27 final size:27
Alignment explanation
Indices: 51926214--51926433 Score: 282
Period size: 27 Copynumber: 8.1 Consensus size: 27
51926204 GGGACGAAAT
*
51926214 AATGACCGAAATACCCCTATAGGGTAT
1 AATGACCGAAATACCCCTATAGGGTAA
51926241 AATGACCGAAATA-CCCTCATAGGGTAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
* * * *
51926268 AATTACCAAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCTATAGGGTAA
* *
51926295 AATGACCGAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* *
51926322 AATGACCGAAATACCCCCATAGGGTGA
1 AATGACCGAAATACCCCTATAGGGTAA
*
51926349 AATGACCAAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
51926376 AATGACCGAAATA-CCCTCATAGGGTAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
* * * *
51926403 AATGACTGTAATACCCCTGTAAGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
51926430 AATG
1 AATG
51926434 GTTGTTTTGC
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 8 0.05
27 155 0.91
28 7 0.04
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCTATAGGGTAA
Found at i:51926357 original size:81 final size:81
Alignment explanation
Indices: 51926214--51926433 Score: 314
Period size: 81 Copynumber: 2.7 Consensus size: 81
51926204 GGGACGAAAT
* * * *
51926214 AATGACCGAAATACCCCTATAGGGTATAATGACCGAAATACCCTCATAGGGTAAAATTACCAAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAA
51926279 TACCCCCATAGGATAA
66 TACCCCCATAGGATAA
* *
51926295 AATGACCGAAATACCCCCATAAGGTAAAATGACCGAAATACCCCCATAGGGTGAAATGACCAAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAA
* *
51926360 TACCCCTATAGGGTAA
66 TACCCCCATAGGATAA
* * * ** *
51926376 AATGACCGAAATACCCTCATAGGGTAAAATGACTGTAATACCCCTGTAAGGTAAAATG
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
51926434 GTTGTTTTGC
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 123 1.00
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (81 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAA
TACCCCCATAGGATAA
Found at i:51926457 original size:27 final size:27
Alignment explanation
Indices: 51926425--51926612 Score: 184
Period size: 27 Copynumber: 7.0 Consensus size: 27
51926415 ACCCCTGTAA
**
51926425 GGTAAAATGGTTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
51926452 GTTAAAATGA-TGGTTTTTCCTTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATGT
* * *
51926479 AGCAAAACGACTGTTTTGCCC-T-TGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
51926504 GTTAAATTGACAGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
51926531 GGTAAAATGACAGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
51926558 GGTAAAATGGCTATTTTGCCCTTTTGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
51926585 GGTAAGATGACTGTTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
51926612 G
1 G
51926613 ATATATGTTT
Statistics
Matches: 128, Mismatches: 29, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
25 18 0.14
26 3 0.02
27 106 0.83
28 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:51926520 original size:52 final size:52
Alignment explanation
Indices: 51926436--51926553 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 52
51926426 GTAAAATGGT
** * *
51926436 TGTTTTGCCCTTATGTGTTAAAATGATGGTTTTTCCTTTATGTAGCAAAACGAC
1 TGTTTTGCCC-T-TGTGTTAAAATGACAGTTTTGCCCTTATGTAGCAAAACGAC
* * * *
51926490 TGTTTTGCCCTTGTGTTAAATTGACAGTTTTGCCCTTATGTGGTAAAATGAC
1 TGTTTTGCCCTTGTGTTAAAATGACAGTTTTGCCCTTATGTAGCAAAACGAC
*
51926542 AGTTTTGCCCTT
1 TGTTTTGCCCTT
51926554 ATGAGGTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 44 0.80
53 1 0.02
54 10 0.18
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (52 bp):
TGTTTTGCCCTTGTGTTAAAATGACAGTTTTGCCCTTATGTAGCAAAACGAC
Found at i:51926575 original size:79 final size:80
Alignment explanation
Indices: 51926437--51926612 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 80
51926427 TAAAATGGTT
* ** * * *
51926437 GTTTTGCCCTTATGTGTTAAAATGATGGTTTTTCCTTTATGTAGCAAAACGACTGTTTTGCCC-T
1 GTTTTGCCCTTATGTGGTAAAATGACAGTTTTGCCCTTATGTAGCAAAACGACTATTTTGCCCTT
*
51926501 TGTGTTAA-ATTGACA
66 TGTGGTAAGA-TGACA
* * *
51926516 GTTTTGCCCTTATGTGGTAAAATGACAGTTTTGCCCTTATG-AGGTAAAATGGCTATTTTGCCCT
1 GTTTTGCCCTTATGTGGTAAAATGACAGTTTTGCCCTTATGTA-GCAAAACGACTATTTTGCCC-
*
51926580 TTTGTGGTAAGATGACT
64 TTTGTGGTAAGATGACA
*
51926597 GTTTTGCCCCTATGTG
1 GTTTTGCCCTTATGTG
51926613 ATATATGTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 52 0.64
81 27 0.33
82 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (80 bp):
GTTTTGCCCTTATGTGGTAAAATGACAGTTTTGCCCTTATGTAGCAAAACGACTATTTTGCCCTT
TGTGGTAAGATGACA
Found at i:51926966 original size:18 final size:18
Alignment explanation
Indices: 51926936--51927008 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
51926926 GGACTTGCAT
* *
51926936 ACTGCTTACTGTTAGTGC
1 ACTGTTTACTGTTACTGC
* *
51926954 ACTGTTTAATGTTACTAC
1 ACTGTTTACTGTTACTGC
* *
51926972 ACTGATTACTGCTACTGC
1 ACTGTTTACTGTTACTGC
*
51926990 ACTGTTTACTGTTATTGC
1 ACTGTTTACTGTTACTGC
51927008 A
1 A
51927009 ATGGGCCAAG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:51933283 original size:29 final size:28
Alignment explanation
Indices: 51933229--51933283 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
51933219 CTACCAAAAC
* *
51933229 TACCCAAATCCCCCAAAACACTTCCAGT
1 TACCCAAATCCCCAAAAACACGTCCAGT
51933257 TACCTCAAATGCCCCAAAAAC-CGTCCA
1 TACC-CAAAT-CCCCAAAAACACGTCCA
51933284 CCACACTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 10 0.43
30 9 0.39
ACGTcount: A:0.36, C:0.42, G:0.05, T:0.16
Consensus pattern (28 bp):
TACCCAAATCCCCAAAAACACGTCCAGT
Found at i:51935994 original size:40 final size:40
Alignment explanation
Indices: 51935950--51936059 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
51935940 TTCACAATTT
* *
51935950 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51935990 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51936030 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
51936060 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:51939586 original size:29 final size:29
Alignment explanation
Indices: 51939553--51939683 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
51939543 GTGACGAGAT
51939553 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
51939582 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
51939611 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
51939640 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
51939669 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
51939684 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:51947394 original size:29 final size:29
Alignment explanation
Indices: 51947361--51947491 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
51947351 GTGACGAGAT
51947361 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
51947390 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
51947419 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
51947448 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
51947477 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
51947492 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:51951641 original size:93 final size:93
Alignment explanation
Indices: 51951529--51951700 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
51951519 GCCCATAAGT
* *
51951529 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
51951594 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
51951622 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
51951687 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51951701 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51951696 original size:46 final size:46
Alignment explanation
Indices: 51951521--51951696 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
51951511 TGTAACCCGC
* * *
51951521 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
51951567 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
51951617 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
51951660 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51951697 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:51957902 original size:40 final size:40
Alignment explanation
Indices: 51957858--51957967 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
51957848 TTCACAATTT
* *
51957858 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51957898 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51957938 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
51957968 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:51961502 original size:14 final size:14
Alignment explanation
Indices: 51961483--51961519 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
51961473 TCAAAGTGTG
51961483 AAAATGTAAGGGCT
1 AAAATGTAAGGGCT
51961497 AAAATGTAAGGGCT
1 AAAATGTAAGGGCT
51961511 AAAATGTAA
1 AAAATGTAA
51961520 AGTGCCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.24, T:0.22
Consensus pattern (14 bp):
AAAATGTAAGGGCT
Found at i:51969325 original size:42 final size:42
Alignment explanation
Indices: 51969223--51969342 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
51969213 GTCTGATACA
* *
51969223 TCGTATAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACATAGGCATCGATTGAGATT
* *
51969265 TATGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-A-ATT
1 T-CGTATAAGACCATGTCTGGGACATAGGCATCG-AT-TGAGATT
* * * *
51969308 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGAT
1 TCGTATAAGACCATGTCTGGGACATAGGCATCGAT
51969343 ATTGAATTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 32 0.49
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATAGGCATCGATTGAGATT
Found at i:51975741 original size:19 final size:20
Alignment explanation
Indices: 51975700--51975747 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
51975690 GACCTCTAAG
*
51975700 AAATTTTTACGACATTTTAA
1 AAATTTTCACGACATTTTAA
51975720 AAATTTTCACGACATTTTAA
1 AAATTTTCACGACATTTTAA
51975740 AAATTTTC
1 AAATTTTC
51975748 CAATGTAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (20 bp):
AAATTTTCACGACATTTTAA
Found at i:51977118 original size:23 final size:23
Alignment explanation
Indices: 51977088--51977133 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
51977078 ACCAATCCAG
51977088 GCTAAACCCTAATCATAACGTAT
1 GCTAAACCCTAATCATAACGTAT
51977111 GCTAAACCCTAATCATAACGTAT
1 GCTAAACCCTAATCATAACGTAT
51977134 ACTCGAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (23 bp):
GCTAAACCCTAATCATAACGTAT
Found at i:51977466 original size:34 final size:34
Alignment explanation
Indices: 51977423--51977488 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
51977413 TTTACATGCC
51977423 GGATTAAGTTACACAAACTTACCTCGACACTTCT
1 GGATTAAGTTACACAAACTTACCTCGACACTTCT
51977457 GGATTAAGTTACACAAACTTACCTCGACACTT
1 GGATTAAGTTACACAAACTTACCTCGACACTT
51977489 GTTCGCGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (34 bp):
GGATTAAGTTACACAAACTTACCTCGACACTTCT
Found at i:51983114 original size:39 final size:39
Alignment explanation
Indices: 51982975--51983159 Score: 219
Period size: 40 Copynumber: 4.7 Consensus size: 39
51982965 GCGGATGATA
* * **
51982975 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-AT
* * *
51983015 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* * *
51983054 ATCCGAGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
51983094 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
51983133 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
51983160 AGCTAGTGGC
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.28
40 87 0.70
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:51983192 original size:79 final size:80
Alignment explanation
Indices: 51982972--51983182 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 80
51982962 TGTGCGGATG
51982972 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
* *
51983035 CATTCGTGCGAGCTACT
64 CATTCGTGCAAGCTACC
* * * * * ***
51983052 ATATCCGAGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
51983116 TTTGTGCAAGTTACC
66 TTCGTGCAAGCTACC
51983131 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
51983183 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 73 0.68
80 32 0.30
81 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACC
Found at i:51991641 original size:46 final size:46
Alignment explanation
Indices: 51991591--51991765 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
51991581 TGGTTGAGCA
51991591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51991637 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51991681 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51991729 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51991766 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 7 0.06
46 76 0.70
47 7 0.06
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51991745 original size:92 final size:93
Alignment explanation
Indices: 51991588--51991758 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
51991578 GGATGGTTGA
* *
51991588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51991653 TGAGT-CGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51991680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51991745 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51991759 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.89
93 8 0.11
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51993257 original size:12 final size:12
Alignment explanation
Indices: 51993240--51993264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51993230 CACATCTAAC
51993240 ATATTTTTTAGG
1 ATATTTTTTAGG
51993252 ATATTTTTTAGG
1 ATATTTTTTAGG
51993264 A
1 A
51993265 ATCTTAAGTG
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (12 bp):
ATATTTTTTAGG
Found at i:52001405 original size:37 final size:37
Alignment explanation
Indices: 52001342--52001430 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
52001332 CATCCCGACC
* * * **
52001342 CACAGATTGTGTGAGCACTTACAGATATGGTTACAAT
1 CACAGCTTGTGTGAGAACTGACAGATACAGTTACAAT
* *
52001379 CACATCTTGTGTGAGAACTGATAGATACAGTTACAAT
1 CACAGCTTGTGTGAGAACTGACAGATACAGTTACAAT
52001416 CACAGCTTGTGTGAG
1 CACAGCTTGTGTGAG
52001431 TATTGTTCCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (37 bp):
CACAGCTTGTGTGAGAACTGACAGATACAGTTACAAT
Found at i:52001636 original size:13 final size:13
Alignment explanation
Indices: 52001602--52001645 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
52001592 AAATGTGTAA
* *
52001602 ATGAAATGTTTAG
1 ATGAAATGGTTAT
52001615 ATGAAATGGTTAT
1 ATGAAATGGTTAT
52001628 ATGAAATGGTTAT
1 ATGAAATGGTTAT
52001641 ATGAA
1 ATGAA
52001646 TTAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:52004601 original size:22 final size:22
Alignment explanation
Indices: 52004573--52004627 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
52004563 CTATACCCAC
52004573 AAGAGGATATCGAAATGCTCAT
1 AAGAGGATATCGAAATGCTCAT
*
52004595 AAGAGGATATCGCAATGCTCAT
1 AAGAGGATATCGAAATGCTCAT
*
52004617 AAGAAGATATC
1 AAGAGGATATC
52004628 ACGATACCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGAGGATATCGAAATGCTCAT
Found at i:52004751 original size:71 final size:71
Alignment explanation
Indices: 52004672--52004829 Score: 210
Period size: 71 Copynumber: 2.2 Consensus size: 71
52004662 TCTTGGAAAG
* ** * *
52004672 GTGGATATCGCGATACCATTGAAGGGTGTTTTCATTCGTCAATA-TTGTTAGAGGTATCACGATT
1 GTGGATATCACGATACCATTGAAGGGTGCCTCCATTCGTCAATACTT-TTAAAGGTATCACGATT
*
52004736 CTAAGGT
65 CCAAGGT
* **
52004743 GTGGATATCACGATACCATTGAAGGGTGCCTCCATTCTTCAATACTTTTAAAGGTATCGTGATTC
1 GTGGATATCACGATACCATTGAAGGGTGCCTCCATTCGTCAATACTTTTAAAGGTATCACGATTC
52004808 CAAGGT
66 CAAGGT
*
52004814 GTGGATATCACAATAC
1 GTGGATATCACGATAC
52004830 TCTTTCTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
71 74 0.97
72 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (71 bp):
GTGGATATCACGATACCATTGAAGGGTGCCTCCATTCGTCAATACTTTTAAAGGTATCACGATTC
CAAGGT
Found at i:52006944 original size:29 final size:30
Alignment explanation
Indices: 52006879--52006948 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
52006869 CTTCTCCTAG
** *
52006879 ATTGGTACTTATGGGTTTTTTTTTTTGTCTTAG
1 ATTGGTACTTATGGG---TTTTTTTTGTCCCAA
52006912 ATTGGTACTTATGGG-TTTTTTTGTCCCAA
1 ATTGGTACTTATGGGTTTTTTTTGTCCCAA
52006941 ATTGGTAC
1 ATTGGTAC
52006949 CCAAACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 19 0.56
33 15 0.44
ACGTcount: A:0.16, C:0.10, G:0.21, T:0.53
Consensus pattern (30 bp):
ATTGGTACTTATGGGTTTTTTTTGTCCCAA
Found at i:52007150 original size:3 final size:3
Alignment explanation
Indices: 52007144--52007173 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52007134 TTTTTTTTTC
52007144 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
52007174 GTAAAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:52008577 original size:16 final size:16
Alignment explanation
Indices: 52008556--52008589 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52008546 TTTGGTTCAC
52008556 TGTAATAGAATAAAGT
1 TGTAATAGAATAAAGT
* *
52008572 TGTAATGGAATAGAGT
1 TGTAATAGAATAAAGT
52008588 TG
1 TG
52008590 CAATTAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
TGTAATAGAATAAAGT
Found at i:52008910 original size:29 final size:29
Alignment explanation
Indices: 52008853--52008933 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
52008843 TTAATAAAAA
* * *
52008853 TAAAATA-TATAATTT-AATAATATT-GT
1 TAAAATATTATATTTTAAATTATATTAAT
* *
52008879 TAATATAATTAT-TTTTATATTATATTAAT
1 TAAAAT-ATTATATTTTAAATTATATTAAT
*
52008908 TAAAATATTTTATTTTAAATTATATT
1 TAAAATATTATATTTTAAATTATATT
52008934 TTGAAATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.12
27 4 0.10
28 14 0.33
29 19 0.45
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TAAAATATTATATTTTAAATTATATTAAT
Found at i:52013096 original size:20 final size:20
Alignment explanation
Indices: 52013058--52013096 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52013048 TGGCTCCATA
*
52013058 AAAAATTAAAATAAGCAAAG
1 AAAAATTAAAATAACCAAAG
52013078 AAAAA-TAAAATAAACCAAA
1 AAAAATTAAAAT-AACCAAA
52013097 CTTCAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAATTAAAATAACCAAAG
Found at i:52019865 original size:24 final size:24
Alignment explanation
Indices: 52019829--52019986 Score: 88
Period size: 24 Copynumber: 6.6 Consensus size: 24
52019819 GAGCCAACAT
* *
52019829 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
52019853 TGGCACTATGTGTACGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
52019877 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
52019901 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
52019926 -AGCACTATGTGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
52019949 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
52019973 TAGCACTATGTGTG
1 TGGCACTATGTGTG
52019987 TGAAATCGGT
Statistics
Matches: 92, Mismatches: 37, Indels: 10
0.66 0.27 0.07
Matches are distributed among these distances:
23 5 0.05
24 81 0.88
25 6 0.07
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:52028340 original size:29 final size:28
Alignment explanation
Indices: 52028308--52028410 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52028298 GTGACGAGAT
* *
52028308 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
52028337 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
52028366 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52028395 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52028411 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52028577 original size:48 final size:48
Alignment explanation
Indices: 52028521--52028616 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
52028511 AAGAGTAAGT
52028521 ACCTTGAGTTCATGGCTAATAGATGCTATGTTCATGCTCGGGGTGGAG
1 ACCTTGAGTTCATGGCTAATAGATGCTATGTTCATGCTCGGGGTGGAG
52028569 ACCTTGAGTTCATGGCTAATAGATGCTATGTTCATGCTCGGGGTGGAG
1 ACCTTGAGTTCATGGCTAATAGATGCTATGTTCATGCTCGGGGTGGAG
52028617 TTGGTAAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (48 bp):
ACCTTGAGTTCATGGCTAATAGATGCTATGTTCATGCTCGGGGTGGAG
Found at i:52040682 original size:28 final size:29
Alignment explanation
Indices: 52040641--52040700 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
52040631 GATTTTGAGT
* * *
52040641 AAAAATGTATATT-AGGGGTTTAATTGTG
1 AAAAATGTAAATTAAGGGGTTGAAATGTG
*
52040669 AAAAGTGTAAATTAAGGGGTTGAAATGTG
1 AAAAATGTAAATTAAGGGGTTGAAATGTG
52040698 AAA
1 AAA
52040701 TAAATGAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAAATGTAAATTAAGGGGTTGAAATGTG
Found at i:52041225 original size:43 final size:43
Alignment explanation
Indices: 52041177--52041340 Score: 169
Period size: 43 Copynumber: 3.8 Consensus size: 43
52041167 TAACGAGATG
52041177 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATTATA
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATTATA
* *
52041220 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATTATA
* * * *
52041263 TGATT-TCATGTAAGACCATAGT-TGGGATATCGGCATCGA-TATG
1 TGATTAT-GTGTAAGACCAT-GTCTGGGACATTGGCATC-ATTATA
* *
52041306 TGA-TA-GCATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTATG--TGTAAGACCATGTCTGGGACATTGGCAT
52041341 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
42 8 0.08
43 94 0.90
44 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATTATA
Found at i:52069996 original size:29 final size:28
Alignment explanation
Indices: 52069906--52070007 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
52069896 ACTCAATCAC
** **
52069906 GCACACTTAGTGCCATGTGATTCAAGCCC
1 GCACACTTAGTGCCAT-ACATTCAAGCTT
* * * *
52069935 GCACACATAGTGCCATATAGTCCAA-ATT
1 GCACACTTAGTGCCATACA-TTCAAGCTT
52069963 CGCACACTTAGTGCCATACATTACAAGCTT
1 -GCACACTTAGTGCCATACATT-CAAGCTT
*
52069993 GCACACTCAGTGCCA
1 GCACACTTAGTGCCA
52070008 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
28 2 0.04
29 53 0.93
30 2 0.04
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
GCACACTTAGTGCCATACATTCAAGCTT
Found at i:52074556 original size:49 final size:48
Alignment explanation
Indices: 52074493--52074614 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 48
52074483 GATGCCATAC
*
52074493 CCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCGACGTCATGT
1 CCCAGACATAGTCTTACACTGACTCA-CAAAATCG-GGCCGACGTCATGT
* * * * *
52074542 CCCAGACATAGTCTTACACTAGTTCTCACATATTCGTGCCGATGTCATGT
1 CCCAGACATAGTCTTACACT-G-ACTCACAAAATCGGGCCGACGTCATGT
52074592 CCCAGACATAGTCTTACACTGAC
1 CCCAGACATAGTCTTACACTGAC
52074615 ACATCTCATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.02
49 20 0.32
50 33 0.52
51 8 0.13
52 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CCCAGACATAGTCTTACACTGACTCACAAAATCGGGCCGACGTCATGT
Found at i:52074665 original size:46 final size:44
Alignment explanation
Indices: 52074493--52074701 Score: 154
Period size: 46 Copynumber: 4.4 Consensus size: 44
52074483 GATGCCATAC
** * *
52074493 CCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCGACGTCATGT
1 CCCAGACAT-GTCTTACACTGAC-A-C-ATCTCGAAGCCGATG-CATGT
* * *
52074542 CCCAGACATAGTCTTACACTAGTTCTCACATATTCG-TGCCGATGTCATGT
1 CCCAGACAT-GTCTTACACT-G---ACACAT-CTCGAAGCCGATG-CATGT
*
52074592 CCCAGACATAGTCTTACACTGACACATCTC-ATAGCCGATGCATAT
1 CCCAGACAT-GTCTTACACTGACACATCTCGA-AGCCGATGCATGT
* *
52074637 CCCAGA-AGTGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGT
1 CCCAGACA-TGTCTTACACTGAC--ACATCTCGAAGCCGATGCATGT
52074683 CCCAGACATGTCTTACACT
1 CCCAGACATGTCTTACACT
52074702 AGCTCTTATA
Statistics
Matches: 135, Mismatches: 13, Indels: 27
0.77 0.07 0.15
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 47 0.35
47 2 0.01
49 20 0.15
50 34 0.25
51 4 0.03
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
CCCAGACATGTCTTACACTGACACATCTCGAAGCCGATGCATGT
Found at i:52074724 original size:46 final size:48
Alignment explanation
Indices: 52074478--52074729 Score: 150
Period size: 46 Copynumber: 5.3 Consensus size: 48
52074468 ATAGGGTATA
** * * * *
52074478 ATGCCGATGCCATACCCCAGACATGGTCTTACACT-GACTATCAAAATC
1 ATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGTCTCTC-ATATC
* * * *
52074526 GAGGCCGACGTCATGTCCCAGACATAGTCTTACACTAGTTCTCACATATTC
1 -ATGCCGATGCCATGTCCCAGACATAGTCTTACACTAG-TCTCTCATA-TC
* * * * *
52074577 GTGCCGATGTCATGTCCCAGACATAGTCTTACACT-G--ACACATCTC
1 ATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGTCTCTCATATC
* * *
52074622 ATAGCCGATG-CATATCCCAGA-AGT-GTCTTACACT-GGCT-TACATCTC
1 AT-GCCGATGCCATGTCCCAGACA-TAGTCTTACACTAGTCTCT-CATATC
* *
52074668 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTTATATC
1 -ATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGTCTCTCATATC
*
52074714 AATGCTGATGCCATGT
1 -ATGCCGATGCCATGT
52074730 GTAACACCCC
Statistics
Matches: 164, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.07
45 14 0.09
46 59 0.36
47 9 0.05
49 30 0.18
50 35 0.21
51 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGTCTCTCATATC
Found at i:52076196 original size:29 final size:29
Alignment explanation
Indices: 52076160--52076322 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 29
52076150 AATAAACGAT
***
52076160 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
52076189 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* * *
52076218 TTTGCACAGTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
52076247 TTCGCACACTTAGTGCCATATGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* * ** *
52076276 TTTGCACACTTAGTGCCATA-CCTTCCAAG
1 CTCGCACACTTAGTGCCATATAATT-TAAG
*
52076305 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
52076323 ACCTTGTCAC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:52076236 original size:58 final size:58
Alignment explanation
Indices: 52076163--52076322 Score: 205
Period size: 58 Copynumber: 2.8 Consensus size: 58
52076153 AAACGATCTC
* *
52076163 GCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTT
1 GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTT
* * * * *
52076221 GCACAGTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATGATTTAAGTTT
1 GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTT
* * * *
52076279 GCACACTTAGTGCCATAC-CTTCCAAGCCCGCACACTTAGTGCCA
1 GCACACTTAGTGCCATACAATT-TAAGCTCGCACACATAGTGCCA
52076323 ACCTTGTCAC
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
57 2 0.02
58 86 0.98
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (58 bp):
GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTT
Found at i:52076312 original size:87 final size:87
Alignment explanation
Indices: 52076161--52076322 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
52076151 ATAAACGATC
* * ***
52076161 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACA
1 TCGCACACTTAGTGCCATACGATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCCCGCACA
*
52076226 GTTAGTGCCATATAATTTAAGT
66 CTTAGTGCCATATAATTTAAGT
* * * * **
52076248 TCGCACACTTAGTGCCATATGATTTAAGTTTGCACACTTAGTGCCATA-CCTTCCAAGCCCGCAC
1 TCGCACACTTAGTGCCATACGATTTAAGCTCGCACACATAGTGCCATATAATT-CAAGCCCGCAC
52076312 ACTTAGTGCCA
65 ACTTAGTGCCA
52076323 ACCTTGTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
86 2 0.03
87 60 0.97
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATACGATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCCCGCACA
CTTAGTGCCATATAATTTAAGT
Found at i:52078684 original size:13 final size:13
Alignment explanation
Indices: 52078666--52078692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52078656 CTAAAAGTAC
52078666 AAAAATCATCAAG
1 AAAAATCATCAAG
52078679 AAAAATCATCAAG
1 AAAAATCATCAAG
52078692 A
1 A
52078693 TCACTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:52080642 original size:22 final size:22
Alignment explanation
Indices: 52080602--52080681 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 22
52080592 TTTAGCTCAT
*
52080602 TAGAGCTTACTGATTCAGCTTG-
1 TAGAGCTTACT-ATTCAGCTCGA
52080624 TATGAGCTTACTATTCAGCTCGA
1 TA-GAGCTTACTATTCAGCTCGA
* *
52080647 TAGAGCTTACCATTTCAGCTCAA
1 TAGAGCTTACTA-TTCAGCTCGA
52080670 TAGAGCTTACTA
1 TAGAGCTTACTA
52080682 ATTATTACCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
22 20 0.39
23 31 0.61
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (22 bp):
TAGAGCTTACTATTCAGCTCGA
Found at i:52080873 original size:20 final size:20
Alignment explanation
Indices: 52080836--52080893 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
52080826 TACCGATCAT
52080836 ATGAAT-AAGTTA-TGTTGAA
1 ATGAATGAA-TTACTGTTGAA
*
52080855 ATGGATGAATTACTGTTGAA
1 ATGAATGAATTACTGTTGAA
52080875 ATGAATGAATTACTGTTGA
1 ATGAATGAATTACTGTTGA
52080894 TACGGACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (20 bp):
ATGAATGAATTACTGTTGAA
Found at i:52080942 original size:20 final size:20
Alignment explanation
Indices: 52080919--52080960 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
52080909 ATTATTACTG
**
52080919 ATGAATTATTGGTTATATGA
1 ATGAATTACAGGTTATATGA
*
52080939 ATGAATTACAGTTTATATGA
1 ATGAATTACAGGTTATATGA
52080959 AT
1 AT
52080961 AAAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (20 bp):
ATGAATTACAGGTTATATGA
Found at i:52089745 original size:25 final size:25
Alignment explanation
Indices: 52089717--52089764 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52089707 CACTAACTGT
* *
52089717 CTAACCACTTAATCCATACATTAGC
1 CTAACCACCTAATCCACACATTAGC
52089742 CTAACCACCTAATCCACACATTA
1 CTAACCACCTAATCCACACATTA
52089765 ATCACATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.25
Consensus pattern (25 bp):
CTAACCACCTAATCCACACATTAGC
Found at i:52093132 original size:37 final size:38
Alignment explanation
Indices: 52093063--52093138 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
52093053 TTTCAGTTAG
52093063 TGCCTTTATTTGGATTTTGAAATCATCATACAAACATA
1 TGCCTTTATTTGGATTTTGAAATCATCATACAAACATA
* *
52093101 TGCCTTTATTTGGA-TTTGAAATTATCGTACAAACATA
1 TGCCTTTATTTGGATTTTGAAATCATCATACAAACATA
52093138 T
1 T
52093139 TCGGTGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (38 bp):
TGCCTTTATTTGGATTTTGAAATCATCATACAAACATA
Found at i:52094157 original size:3 final size:3
Alignment explanation
Indices: 52094149--52094221 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
52094139 TAAAAAGGAC
52094149 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52094197 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
52094222 AGTGATCATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52094800 original size:29 final size:30
Alignment explanation
Indices: 52094758--52094818 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
52094748 CACATAGTCA
*
52094758 TAATAGAATTCCT-AAAATTGTGCATTGAT
1 TAATAGAATTCCTAAAAACTGTGCATTGAT
52094787 TAATAGAATTCCTAAAAACTGTGCATTGAT
1 TAATAGAATTCCTAAAAACTGTGCATTGAT
52094817 TA
1 TA
52094819 GTGTTGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (30 bp):
TAATAGAATTCCTAAAAACTGTGCATTGAT
Found at i:52098020 original size:21 final size:20
Alignment explanation
Indices: 52097987--52098030 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
52097977 TTAATTTTTT
*
52097987 AAAATTATAAAAAATTATAA
1 AAAAATATAAAAAATTATAA
52098007 AAAAATATATAAAAATTATAA
1 AAAAATATA-AAAAATTATAA
52098028 AAA
1 AAA
52098031 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATATAAAAAATTATAA
Found at i:52098033 original size:9 final size:10
Alignment explanation
Indices: 52097987--52098030 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
52097977 TTAATTTTTT
52097987 AAAATTATAA
1 AAAATTATAA
52097997 AAAATTATAA
1 AAAATTATAA
*
52098007 AAAAATATATA
1 AAAATTATA-A
52098018 AAAATTATAA
1 AAAATTATAA
52098028 AAA
1 AAA
52098031 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:52101294 original size:96 final size:96
Alignment explanation
Indices: 52101170--52101408 Score: 388
Period size: 96 Copynumber: 2.5 Consensus size: 96
52101160 ATTTTCCCTA
* *
52101170 TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGTTCCTTTGTTTCACAGCCAGAAAGCCT
1 TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGTTCCTTTGTTTCACAACCAGAAAGCCC
52101235 CACGTCAAGCCTGGTCTCAGAATCTTCCATG
66 CACGTCAAGCCTGGTCTCAGAATCTTCCATG
* *
52101266 TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGCTCCTTTGTTTCACAACCAGGAAGCCC
1 TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGTTCCTTTGTTTCACAACCAGAAAGCCC
**
52101331 CACGTCAAGCCTGGTCTCAGAATCTTCGGTG
66 CACGTCAAGCCTGGTCTCAGAATCTTCCATG
* * * *
52101362 TATTCATAGGACACTTCATTAAGAGAACAGTATTGGGGTTCCGTTGT
1 TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGTTCCTTTGT
52101409 AGGACAAGGC
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 132 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (96 bp):
TATTCATAGGACACTTCATTAAGAGAACAATACTGAGGTTCCTTTGTTTCACAACCAGAAAGCCC
CACGTCAAGCCTGGTCTCAGAATCTTCCATG
Found at i:52102794 original size:10 final size:9
Alignment explanation
Indices: 52102752--52102906 Score: 61
Period size: 9 Copynumber: 17.0 Consensus size: 9
52102742 CTCACATGTG
52102752 ATAAAAATT
1 ATAAAAATT
* *
52102761 ACAAAAA-A
1 ATAAAAATT
* *
52102769 ATAATAATCA
1 ATAAAAAT-T
52102779 ATAAAAATT
1 ATAAAAATT
52102788 ATAAAAATT
1 ATAAAAATT
**
52102797 ATTAAACTTT
1 A-TAAAAATT
52102807 AATAAAAA-T
1 -ATAAAAATT
*
52102816 ATAAAAA-A
1 ATAAAAATT
52102824 ATTAAAAATT
1 A-TAAAAATT
* *
52102834 A-GAATA-T
1 ATAAAAATT
* *
52102841 ATATATATAT
1 ATAAAAAT-T
*
52102851 ATATAAA-T
1 ATAAAAATT
52102859 AGTAAAAATAT
1 A-TAAAAAT-T
52102870 ATAAAAATT
1 ATAAAAATT
* *
52102879 GTATAAATTT
1 ATA-AAAATT
*
52102889 ATAAAAATC
1 ATAAAAATT
52102898 ATAAAAATT
1 ATAAAAATT
52102907 TATAGAATGC
Statistics
Matches: 109, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
7 2 0.02
8 21 0.19
9 43 0.39
10 40 0.37
11 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:52102871 original size:19 final size:19
Alignment explanation
Indices: 52102847--52102910 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
52102837 ATATATATAT
*
52102847 ATATATATAAATAGTAAAA
1 ATATATAAAAATAGTAAAA
* *
52102866 ATATATAAAAATTGTATAA
1 ATATATAAAAATAGTAAAA
*
52102885 ATTTATAAAAATCA-TAAAA
1 ATATATAAAAAT-AGTAAAA
*
52102904 ATTTATA
1 ATATATA
52102911 GAATGCATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATATAAAAATAGTAAAA
Found at i:52102883 original size:28 final size:26
Alignment explanation
Indices: 52102852--52102910 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
52102842 TATATATATA
*
52102852 TATAAA-TAGTAAAAATATATAAAAATT
1 TATAAATTA-TAAAAAT-CATAAAAATT
52102879 GTATAAATTTATAAAAATCATAAAAATT
1 -TATAAA-TTATAAAAATCATAAAAATT
52102907 TATA
1 TATA
52102911 GAATGCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.14
28 15 0.54
29 7 0.25
30 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (26 bp):
TATAAATTATAAAAATCATAAAAATT
Found at i:52102923 original size:28 final size:28
Alignment explanation
Indices: 52102861--52102924 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
52102851 ATATAAATAG
* **
52102861 TAAAAATATATAAAAATTGTATAAATTTA
1 TAAAAAT-CATAAAAATTGTATAAATGCA
52102890 TAAAAATCATAAAAATT-TATAGAATGCA
1 TAAAAATCATAAAAATTGTATA-AATGCA
52102918 TCAAAAA
1 T-AAAAA
52102925 GACCTTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.13
28 14 0.47
29 12 0.40
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (28 bp):
TAAAAATCATAAAAATTGTATAAATGCA
Found at i:52103106 original size:20 final size:21
Alignment explanation
Indices: 52103081--52103152 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 21
52103071 GTATGATAAT
52103081 TTTTATAATTTTTTTACGA-A
1 TTTTATAATTTTTTTACGACA
* **
52103101 TTTTAT-ATTTCTTTAC-ATT
1 TTTTATAATTTTTTTACGACA
* *
52103120 TTTTATCATTTTCTTACGACA
1 TTTTATAATTTTTTTACGACA
*
52103141 TTATA-AATTTTT
1 TTTTATAATTTTT
52103153 CTATATTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 1 0.03
19 15 0.38
20 19 0.47
21 5 0.12
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTATAATTTTTTTACGACA
Found at i:52103188 original size:18 final size:17
Alignment explanation
Indices: 52103150--52103206 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
52103140 ATTATAAATT
*
52103150 TTTCTATATTTTTCTATA
1 TTTCTATATATTT-TATA
52103168 TTTCTATATATTTTATGA
1 TTTCTATATATTTTAT-A
* *
52103186 TTTTTATAAAATTTTATA
1 TTTCTAT-ATATTTTATA
52103204 TTT
1 TTT
52103207 TTTTACTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.09
18 23 0.68
19 8 0.24
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTCTATATATTTTATA
Found at i:52103199 original size:29 final size:29
Alignment explanation
Indices: 52103167--52103223 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
52103157 ATTTTTCTAT
52103167 ATTTCTATA-TATTTTA-TGATTTTTATAAA
1 ATTT-TATATTATTTTACT-ATTTTTATAAA
*
52103196 ATTTTATATTTTTTTACTATTTTTATAA
1 ATTTTATATTATTTTACTATTTTTATAA
52103224 CTTTTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 20 0.80
30 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTTTATATTATTTTACTATTTTTATAAA
Found at i:52103219 original size:19 final size:20
Alignment explanation
Indices: 52103079--52103237 Score: 75
Period size: 19 Copynumber: 8.2 Consensus size: 20
52103069 TGGTATGATA
*
52103079 ATTTTTATAATTTTTTTACG
1 ATTTTTATAATTTTTTTACT
* *
52103099 AATTTTAT-ATTTCTTTAC-
1 ATTTTTATAATTTTTTTACT
* * *
52103117 ATTTTTTATCATTTTCTTACG
1 A-TTTTTATAATTTTTTTACT
** *
52103138 A-CATTATAAATTTTTCTA-T
1 ATTTTTAT-AATTTTTTTACT
* * *
52103157 ATTTTTCT-ATATTTCTA-T
1 ATTTTTATAATTTTTTTACT
* * *
52103175 ATATTTTATGATTTTTATA-A
1 AT-TTTTATAATTTTTTTACT
*
52103195 AATTTTAT-ATTTTTTTACT
1 ATTTTTATAATTTTTTTACT
*
52103214 ATTTTTATAACTTTTTT-CT
1 ATTTTTATAATTTTTTTACT
52103233 ATTTT
1 ATTTT
52103238 ATTAAAATTT
Statistics
Matches: 106, Mismatches: 24, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
18 20 0.19
19 45 0.42
20 40 0.38
21 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTACT
Found at i:52103267 original size:19 final size:19
Alignment explanation
Indices: 52103214--52103278 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
52103204 TTTTTTTACT
52103214 ATTTTTATAACTTTT-TTC
1 ATTTTTATAACTTTTATTC
** *
52103232 -TATTTTATTAAAATTTAATC
1 AT-TTTTA-TAACTTTTATTC
*
52103252 ATTTTTATAACTTTTATTG
1 ATTTTTATAACTTTTATTC
52103271 ATTTTTAT
1 ATTTTTAT
52103279 TTTTTATCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 22 0.61
20 7 0.19
21 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTATAACTTTTATTC
Found at i:52108143 original size:65 final size:65
Alignment explanation
Indices: 52108069--52108201 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
52108059 TGCATTGATT
52108069 AAGTTTTATTATTTATTTATTTATTTCAAATTTTGGATATTTTAAGTTATTTAGAATTTTATATC
1 AAGTTTTATTATTTATTTATTTATTTCAAATTTTGGATATTTTAAGTTATTTAGAATTTTATATC
52108134 AAGTTTTATTATTTATTTATTTATTTCAAATTTTGGATATTTTAAGTTATTTAGAATTTTATATC
1 AAGTTTTATTATTTATTTATTTATTTCAAATTTTGGATATTTTAAGTTATTTAGAATTTTATATC
52108199 AAG
1 AAG
52108202 AAAGTTTAGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (65 bp):
AAGTTTTATTATTTATTTATTTATTTCAAATTTTGGATATTTTAAGTTATTTAGAATTTTATATC
Found at i:52120236 original size:48 final size:48
Alignment explanation
Indices: 52120175--52120494 Score: 318
Period size: 48 Copynumber: 6.7 Consensus size: 48
52120165 TATGTGTGCT
* * ** *
52120175 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * ** *
52120223 AGTGTAAGACCATGTTTTGAACATATCATCAGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * * *
52120271 AGTATAAGACCTTGTTTGGAATATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * *
52120319 AGTGTAAGATCATGT-TTGGAGCATGACATCGACAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGA-CATGGCATCGGCAATGTTATGAGAGCC
* *** *
52120367 AGTGTAAGACCATGTTTATAACATGGCATCGGCAATGTTATCAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
* * * ** ** *
52120415 AGTGTAAGACCATATCTAGGACATGGCATCAGCCTTGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
*
52120463 AGTGTAAGACCATGTCTGAGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
52120495 TAAATTACCC
Statistics
Matches: 222, Mismatches: 48, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
47 3 0.01
48 217 0.98
49 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGAGCC
Found at i:52120381 original size:25 final size:25
Alignment explanation
Indices: 52120305--52120382 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
52120295 GGCATCGGCA
*
52120305 ATGTTATGAGAGCCAGTGTAAGATC
1 ATGTTATGAGAGCCAGTGTAAGACC
*
52120330 ATGTT-TG-GAG-CA-TG-ACATCGACA
1 ATGTTATGAGAGCCAGTGTA-A--GACC
52120353 ATGTTATGAGAGCCAGTGTAAGACC
1 ATGTTATGAGAGCCAGTGTAAGACC
52120378 ATGTT
1 ATGTT
52120383 TATAACATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 2 0.05
23 10 0.24
24 4 0.10
25 16 0.38
26 2 0.05
27 3 0.07
28 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (25 bp):
ATGTTATGAGAGCCAGTGTAAGACC
Found at i:52120493 original size:144 final size:143
Alignment explanation
Indices: 52120166--52120493 Score: 363
Period size: 144 Copynumber: 2.3 Consensus size: 143
52120156 TTTGGGTGAT
* * * * * *
52120166 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGTGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGACAACATTATGAGAGCCAGTGTAAG
* * * * * *
52120231 ACCATGTTTTGAACATATCATCAGCAATGTTATGAGAGCCAGTATAAGACCTTGTTTGGAATATG
65 ACCATGTTTTGAACATAGCATCAGCAATGTTATCAGAGCCAGTATAAGACCATATTAGGAACATG
* **
52120296 GCATCGGCAATGTT
130 GCATCAGCAATGAC
* * * * **
52120310 ATGAGAGCCAGTGTAAGATCATGTTTGGAGCATGACATCGACAATGTTATGAGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTCTGGA-CATGGCATCGACAACATTATGAGAGCCAGTGTAAG
* * *
52120375 ACCATGTTTAT-AACATGGCATCGGCAATGTTATCAGAGCCAGTGTAAGACCATATCTAGG-ACA
65 ACCATGTTT-TGAACATAGCATCAGCAATGTTATCAGAGCCAGTATAAGACCATAT-TAGGAACA
**
52120438 TGGCATCAGCCTTGAC
128 TGGCATCAGCAATGAC
52120454 ATGTGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCG
1 ATGTGAGCCAGTGTAAGACCATGTCTG-GACATGGCATCG
52120494 GTAAATTACC
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
143 3 0.02
144 141 0.94
145 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (143 bp):
ATGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGACAACATTATGAGAGCCAGTGTAAGA
CCATGTTTTGAACATAGCATCAGCAATGTTATCAGAGCCAGTATAAGACCATATTAGGAACATGG
CATCAGCAATGAC
Found at i:52127430 original size:30 final size:31
Alignment explanation
Indices: 52127389--52127446 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
52127379 TTTTCGAGTC
52127389 TAGGGGAAAAATCGTAATTCTGT-AAAGGTT
1 TAGGGGAAAAATCGTAATTCTGTCAAAGGTT
* * *
52127419 TAGGGGCAAAATTGTAATTTTGTCAAAG
1 TAGGGGAAAAATCGTAATTCTGTCAAAG
52127447 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (31 bp):
TAGGGGAAAAATCGTAATTCTGTCAAAGGTT
Found at i:52128213 original size:47 final size:47
Alignment explanation
Indices: 52128152--52128273 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
52128142 GCATTGGCAC
*
52128152 TAAGAC-AGGTATACCATGTAGGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGG-ATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
52128199 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
** *
52128246 TAAGGTAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
52128274 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 67 0.96
48 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:52128305 original size:54 final size:54
Alignment explanation
Indices: 52128246--52128447 Score: 237
Period size: 54 Copynumber: 3.7 Consensus size: 54
52128236 TGGCATTTGG
* * *
52128246 TAAGGTAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTA
* * * *
52128300 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-TTA
* * ** * *
52128355 TAAGGAAAAGG-TCCCATAAAAGACCATGCCAAGGCATGGCATTGGTGAG-TTTA
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTA
* *
52128408 TAAGGTAAGGATACCACGTAAGACCATGTCAAGACATGGC
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGC
52128448 TATGGTAAGT
Statistics
Matches: 123, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 48 0.39
55 37 0.30
56 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTA
Found at i:52128381 original size:55 final size:53
Alignment explanation
Indices: 52128265--52128447 Score: 170
Period size: 55 Copynumber: 3.4 Consensus size: 53
52128255 GATATCATGT
* * * * * * ***
52128265 AAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGTAAGGAAATCATGT
1 AAGACCATGTCAAGACATGGCATTGATGAG-TTTATAAGGAAAGGATACCACAA
* *
52128319 AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCCCATAA
1 AAGACCATGTCAAGACATGGCATTGATGAGTT--TATAAGG-AAAGGATACCACAA
* * * * **
52128374 AAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGTAAGGATACCACGT
1 AAGACCATGTCAAGACATGGCATTGATGAGTTTATAAGGAAAGGATACCACAA
52128427 AAGACCATGTCAAGACATGGC
1 AAGACCATGTCAAGACATGGC
52128448 TATGGTAAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
52 4 0.04
53 32 0.30
54 27 0.25
55 39 0.37
56 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGACCATGTCAAGACATGGCATTGATGAGTTTATAAGGAAAGGATACCACAA
Found at i:52135285 original size:48 final size:48
Alignment explanation
Indices: 52135166--52135484 Score: 388
Period size: 48 Copynumber: 6.6 Consensus size: 48
52135156 TATGTGTGTT
* * * * ***
52135166 AGTGTAAGACCATGTTTGGGACATGACATTGGCCACACTATGAGAG-C
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * *
52135213 AGTGTAAGACCATGTTTTGAAACATGGCATCAGCAATGTTATGAAAGCC
1 AGTGTAAGACCATG-TTTGGAACATGGCATCGGCAATGTTATGAGAGCC
**
52135262 AGTGTAAGACCATGTTTGGAACATGGCATCGATAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* *
52135310 AGTGTAAGACCATGATTGGAACATTGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * * * **
52135358 AATGTAAGACCATGTTTGGATCATGGCATTGGGAATGTTATGAGAGGT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * *
52135406 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGATATTATGAAAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
* * *
52135454 AGTTTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGAACATGGCATCG
52135485 ACCTCGACAT
Statistics
Matches: 231, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
47 14 0.06
48 202 0.87
49 15 0.06
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
Found at i:52135501 original size:144 final size:142
Alignment explanation
Indices: 52135166--52135537 Score: 399
Period size: 144 Copynumber: 2.6 Consensus size: 142
52135156 TATGTGTGTT
* * *
52135166 AGTGTAAGACCATGTTTGGGACATGACATTGGCCAC-ACTATGAGAG-CAGTGTAAGACCATGTT
1 AGTGTAAGACCATG-TTGGGACATGGCATCGGCCTCGAC-ATGAGAGCCAGTGTAAGACCATG-T
* **
52135229 TTGAAACATGGCATCAGCAATGTTATGAAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA
63 TTG-GACATGGCATTGGCAATGTTATGAAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA
* * *
52135294 TAATGTTATGAGAGCC
127 CAATATTATGAAAGCC
* * * ** *
52135310 AGTGTAAGACCATGATTGGAACATTGCATCGGCAAT-GTTATGAGAGCCAATGTAAGACCATGTT
1 AGTGTAAGACCATG-TTGGGACATGGCATCGGC-CTCGACATGAGAGCCAGTGTAAGACCATGTT
* * ** *
52135374 TGGATCATGGCATTGGGAATGTTATGAGAGGTAGTGTAAGACCATGTTTGGAACATGGCATCGGC
64 TGGA-CATGGCATTGGCAATGTTATGAAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC
*
52135439 GATATTATGAAAGCC
128 AATATTATGAAAGCC
* * * * * *
52135454 AGTTTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAAACCATATCT
1 AGTGTAAGACCATGT-TGGGACATGGCATCGGCCTCGACATGAGAGCCAGTGTAAGACCATGTTT
52135519 GAGACATGGCATTGGCAAT
65 G-GACATGGCATTGGCAAT
52135538 TTACCCACTT
Statistics
Matches: 186, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
143 3 0.02
144 167 0.90
145 16 0.09
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (142 bp):
AGTGTAAGACCATGTTGGGACATGGCATCGGCCTCGACATGAGAGCCAGTGTAAGACCATGTTTG
GACATGGCATTGGCAATGTTATGAAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAAT
ATTATGAAAGCC
Found at i:52135506 original size:96 final size:95
Alignment explanation
Indices: 52135166--52135537 Score: 367
Period size: 96 Copynumber: 3.9 Consensus size: 95
52135156 TATGTGTGTT
* * * *
52135166 AGTGTAAGACCATGTTTGGGACATGACATTGGCCA-CACTATGAGAG-CAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGGACATGGCA-TCGACATGAC-ATGAGAGCCAGTGTAAGACCATG-T
* *
52135229 TTGAAACATGGCATCAGCAATGTTATGAAAGCC
63 TTGGAACATGGCATCGGCAATGTTATGAAAGCC
* * ** *
52135262 AGTGTAAGACCATGTTTGGAACATGGCATCGATAATGTTATGAGAGCCAGTGTAAGACCATGATT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CATGACATGAGAGCCAGTGTAAGACCATGTTT
* *
52135327 GGAACATTGCATCGGCAATGTTATGAGAGCC
65 GGAACATGGCATCGGCAATGTTATGAAAGCC
* * ** **
52135358 AATGTAAGACCATGTTT-GGATCATGGCATTGGGA-ATGTTATGAGAGGTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGGA-CATGGCA-T-CGACATGACATGAGAGCCAGTGTAAGACCATGT
* *
52135421 TTGGAACATGGCATCGGCGATATTATGAAAGCC
63 TTGGAACATGGCATCGGCAATGTTATGAAAGCC
* * * * * * *
52135454 AGTTTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAAACCATATCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACAT-GACATGAGAGCCAGTGTAAGACCATGTTT
*
52135519 -GAGACATGGCATTGGCAAT
65 GGA-ACATGGCATCGGCAAT
52135538 TTACCCACTT
Statistics
Matches: 228, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
94 2 0.01
95 8 0.04
96 197 0.86
97 19 0.08
98 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (95 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACATGACATGAGAGCCAGTGTAAGACCATGTTTG
GAACATGGCATCGGCAATGTTATGAAAGCC
Found at i:52136760 original size:20 final size:21
Alignment explanation
Indices: 52136722--52136760 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52136712 TTAAGAAGAC
52136722 ACACGGGCGTGTCGCCCTTTT
1 ACACGGGCGTGTCGCCCTTTT
52136743 ACACGGGCGTGT-GCCCTT
1 ACACGGGCGTGTCGCCCTT
52136761 ATTTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (21 bp):
ACACGGGCGTGTCGCCCTTTT
Found at i:52137688 original size:38 final size:38
Alignment explanation
Indices: 52137635--52137733 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 38
52137625 ACACCATCTT
* * * **
52137635 CATCCAACCCAACACACCATATGGGGATAAAATTGACC
1 CATCCGACCCTACACACCATATGAGGATAAAATCAACC
*
52137673 CA-CCTATCCCTACACACCAAATATGAGGATAAAATCAACC
1 CATCCGA-CCCTACACACC--ATATGAGGATAAAATCAACC
*
52137713 CATCCGACCCTGCACACCATA
1 CATCCGACCCTACACACCATA
52137734 GAGTACCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
37 3 0.06
38 15 0.30
40 29 0.58
41 3 0.06
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.16
Consensus pattern (38 bp):
CATCCGACCCTACACACCATATGAGGATAAAATCAACC
Found at i:52141368 original size:27 final size:28
Alignment explanation
Indices: 52141311--52141380 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
52141301 AAATTTGTAC
**
52141311 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
52141339 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
52141366 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52141381 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:52141389 original size:27 final size:27
Alignment explanation
Indices: 52141311--52141392 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
52141301 AAATTTGTAC
* *
52141311 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
52141339 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
52141366 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
52141393 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:52149287 original size:27 final size:28
Alignment explanation
Indices: 52149230--52149299 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
52149220 AAATTTGTAC
**
52149230 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
52149258 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
52149285 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52149300 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:52149308 original size:27 final size:27
Alignment explanation
Indices: 52149230--52149311 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
52149220 AAATTTGTAC
* *
52149230 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
52149258 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
52149285 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
52149312 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:52154456 original size:16 final size:15
Alignment explanation
Indices: 52154414--52154456 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
52154404 GTAGATTAGC
52154414 AAAAGCTGAAATGCCG
1 AAAAGC-GAAATGCCG
*
52154430 AAAAGTCGAAATGTCG
1 AAAAG-CGAAATGCCG
52154446 AAAAGCAGAAA
1 AAAAGC-GAAA
52154457 GTTTTGCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (15 bp):
AAAAGCGAAATGCCG
Found at i:52154709 original size:29 final size:29
Alignment explanation
Indices: 52154667--52154757 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
52154657 GAAAGCATGA
** *
52154667 ATATGAATTTGATTTGGGCCTACTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
52154696 ATATGAATGCGATTTGGGCCTAATGGGAC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
52154725 ATATGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
52154753 ATATG
1 ATATG
52154758 CATGTATGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
28 18 0.33
29 36 0.67
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:52158857 original size:40 final size:39
Alignment explanation
Indices: 52158770--52158864 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
52158760 ACCATCTCCG
* * *
52158770 TCCAACCCAACACACC-ATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCAATATGGGGATAAAATCAACCCA
** *
52158808 -CCTGTCCCTACACACCAAATATGGGGATAAAATCAATCCA
1 TCC-AACCCTACACACC-AATATGGGGATAAAATCAACCCA
52158848 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
52158865 TAGAGTACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
37 2 0.04
38 10 0.22
39 1 0.02
40 30 0.67
41 2 0.04
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.16
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATGGGGATAAAATCAACCCA
Found at i:52159051 original size:4 final size:4
Alignment explanation
Indices: 52159042--52159115 Score: 148
Period size: 4 Copynumber: 18.5 Consensus size: 4
52159032 AGTTCAGAAA
52159042 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
52159090 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
52159116 CACAATATCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Done.