Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 180 of 410
Found at i:55020619 original size:43 final size:42
Alignment explanation
Indices: 55020571--55020708 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 42
55020561 TCTCAGACGT
* ***
55020571 GGTCTTACATGTAATCACAAATCGATGCCACTGTCCTAGGTAG
1 GGTCTTACATGTAATCACAAATCGATGCCA-TGTCCCACACAG
* * *
55020614 GGTCTTACATG-AA-CTCATATACGATGCCGATGTCCCACACAT
1 GGTCTTACATGTAATCACAAAT-CGATGCC-ATGTCCCACACAG
* *
55020656 GGTCTTACACGTAAATCACAAATCGATGCCAATGTCCCAGAC-G
1 GGTCTTACATGT-AATCACAAATCGATGCC-ATGTCCCACACAG
55020699 TGGTCTTACA
1 -GGTCTTACA
55020709 CAAATCTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
41 5 0.07
42 26 0.34
43 12 0.16
44 28 0.37
45 5 0.07
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCACAAATCGATGCCATGTCCCACACAG
Found at i:55020691 original size:44 final size:44
Alignment explanation
Indices: 55020553--55020709 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 44
55020543 GCTCGTACAT
* * *
55020553 TGCCAATGTCTCAGACGTGGTCTTACATGT-AATCACAAATCGA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
* * ** * * * * *
55020596 TGCCACTGTCCTAGGTAGGGTCTTACATG-AACTCATATA-CGA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
* *
55020638 TGCCGATGTCCCACACATGGTCTTACACGTAAATCACAAATCGA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
*
55020682 TGCCAATGTCCCAGACGTGGTCTTACAC
1 TGCCAATGTCCCAGACATGGTCTTACAC
55020710 AAATCTTATA
Statistics
Matches: 87, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
42 24 0.28
43 35 0.40
44 28 0.32
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
Found at i:55023322 original size:13 final size:13
Alignment explanation
Indices: 55023304--55023328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55023294 AAGTAATAGC
55023304 ACACGGGCGTGTG
1 ACACGGGCGTGTG
55023317 ACACGGGCGTGT
1 ACACGGGCGTGT
55023329 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.44, T:0.16
Consensus pattern (13 bp):
ACACGGGCGTGTG
Found at i:55028660 original size:30 final size:31
Alignment explanation
Indices: 55028603--55028661 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
55028593 TGAAATAAAG
* ***
55028603 AACGAGCTGAAAGTAAGCTCGGTTGAGCTCA
1 AACGAGCTGAAAGCAAGCTCAAATGAGCTCA
55028634 AACGAGCTGAAA-CAAGCTCAAATGAGCT
1 AACGAGCTGAAAGCAAGCTCAAATGAGCT
55028662 GAATTGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.17
Consensus pattern (31 bp):
AACGAGCTGAAAGCAAGCTCAAATGAGCTCA
Found at i:55028671 original size:20 final size:20
Alignment explanation
Indices: 55028625--55028671 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
55028615 GTAAGCTCGG
55028625 TTGAGCTCAAACGAGCTGAA
1 TTGAGCTCAAACGAGCTGAA
*** *
55028645 ACAAGCTCAAATGAGCTGAA
1 TTGAGCTCAAACGAGCTGAA
55028665 TTGAGCT
1 TTGAGCT
55028672 GGACAGAGCT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (20 bp):
TTGAGCTCAAACGAGCTGAA
Found at i:55034366 original size:42 final size:42
Alignment explanation
Indices: 55034307--55034388 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
55034297 GTCATCCCAG
*
55034307 GCATTAACTTAATACCAAACTCTACTTCCTGAATAGGTGGCA
1 GCATTAACTCAATACCAAACTCTACTTCCTGAATAGGTGGCA
55034349 GCATTAACTCAATACCAAACTCTACTTCCTGAATAGGTGG
1 GCATTAACTCAATACCAAACTCTACTTCCTGAATAGGTGG
55034389 TAGACTTGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
GCATTAACTCAATACCAAACTCTACTTCCTGAATAGGTGGCA
Found at i:55037035 original size:43 final size:43
Alignment explanation
Indices: 55036978--55037066 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
55036968 ATATATCGTA
** **
55036978 CAATGCCAACGTCCCAGACGTGGTCTTACAT-GTAGCCACATAT
1 CAATGCCAACGTCCCAGACAAGGTCTTAC-TCGTAAACACATAT
55037021 CAATGCC-ACTGTCCCAGACAAGGTCTTACTCGTAAACACATAT
1 CAATGCCAAC-GTCCCAGACAAGGTCTTACTCGTAAACACATAT
55037064 CAA
1 CAA
55037067 AATCACAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 3 0.08
43 37 0.93
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAAGGTCTTACTCGTAAACACATAT
Found at i:55039602 original size:46 final size:45
Alignment explanation
Indices: 55039552--55039727 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
55039542 TGGTTGAGCA
*
55039552 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
*** * ** *
55039598 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT-AGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGAAACG
55039645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * *
55039691 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55039728 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 68 0.64
47 34 0.32
48 1 0.01
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:55039708 original size:93 final size:93
Alignment explanation
Indices: 55039549--55039720 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
55039539 GGATGGTTGA
* *
55039549 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55039614 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
55039642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA-AACGCCCGAACTCGTTGAG
55039706 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
55039721 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:55045118 original size:40 final size:40
Alignment explanation
Indices: 55045045--55045252 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
55045035 CAATTGAATG
* * * ** *
55045045 ATATCTGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
55045085 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
55045125 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
55045165 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
55045205 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
55045245 ATATCCGG
1 ATATCCGG
55045253 TTGTATTTCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:55045187 original size:80 final size:80
Alignment explanation
Indices: 55045089--55045252 Score: 215
Period size: 80 Copynumber: 2.0 Consensus size: 80
55045079 GTAATTATAC
* *
55045089 CCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGT-GACCACATCCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCGACC-CATCCGGGCTAAGACCCGAAGGCATT
*
55045152 CGTGCAAGTTGTTAAAT
64 CGTGCAAGTGGTTAAAT
* ** *
55045169 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATTCG
* *
55045234 TGCATGTGGTTATAT
66 TGCAAGTGGTTAAAT
55045249 CCGG
1 CCGG
55045253 TTGTATTTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 2 0.03
80 69 0.95
81 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTGGTTAAAT
Found at i:55046968 original size:30 final size:30
Alignment explanation
Indices: 55046953--55047139 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
55046943 AACCAAAATG
*
55046953 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
55046983 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
55047013 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
55047038 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
55047068 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
55047098 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
55047129 AGAACCAGAAT
1 AGAATCAGAAT
55047140 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 7, Indels: 19
0.84 0.04 0.11
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.65
31 23 0.16
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:55047053 original size:85 final size:85
Alignment explanation
Indices: 55046953--55047139 Score: 347
Period size: 85 Copynumber: 2.2 Consensus size: 85
55046943 AACCAAAATG
55046953 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
55047018 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
55047038 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
55047103 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
*
55047123 AGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
55047140 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:55047132 original size:6 final size:6
Alignment explanation
Indices: 55046953--55047114 Score: 174
Period size: 6 Copynumber: 26.8 Consensus size: 6
55046943 AACCAAAATG
*
55046953 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
55047001 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
55047050 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
55047098 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
55047115 TACGTGACAG
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:55047313 original size:27 final size:26
Alignment explanation
Indices: 55047271--55047372 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
55047261 GCTCAGTTAT
* *
55047271 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
55047298 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
55047324 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
55047352 CATATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
55047373 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:55047558 original size:22 final size:22
Alignment explanation
Indices: 55047530--55047594 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
55047520 GCAAATACTT
*
55047530 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
55047552 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
55047574 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
55047595 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:55048077 original size:27 final size:27
Alignment explanation
Indices: 55048019--55048322 Score: 378
Period size: 27 Copynumber: 11.3 Consensus size: 27
55048009 AAGGGCAAAA
* * * *
55048019 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
55048045 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
55048072 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
55048099 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
55048126 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
55048153 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
55048180 CT-GTATTTCTACCCTACAGGGGTATTT
1 -TGGTAATTCTACCCTACAGGGGTATTT
* *
55048207 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
55048234 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
55048261 CGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* **
55048288 CGGTAATTCTACCCTGTAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
55048315 TGGTAATT
1 TGGTAATT
55048323 TTATTGATCG
Statistics
Matches: 245, Mismatches: 30, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
26 15 0.06
27 230 0.94
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:55048337 original size:27 final size:27
Alignment explanation
Indices: 55048307--55048656 Score: 164
Period size: 27 Copynumber: 13.1 Consensus size: 27
55048297 TACCCTGTAG
* **
55048307 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* **
55048334 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTATAAATC-GA
*
55048361 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
55048388 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
55048414 GGGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
55048441 -GGTATTTTAGTAATTTCAT-AATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
55048466 GGGTAAAAT-GGTAATTTTGTAAA-CTGA
1 GGGT-ATTTCGGTAATTTTATAAATC-GA
*** * * *
55048493 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
*** * * *
55048520 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
55048547 GGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** *
55048574 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** * *
55048601 GGGTGA-AACGGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
* *
55048628 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
55048655 GG
1 GG
55048657 ACATTTTAGT
Statistics
Matches: 264, Mismatches: 44, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
25 7 0.03
26 47 0.18
27 205 0.78
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:55048643 original size:81 final size:81
Alignment explanation
Indices: 55048460--55048632 Score: 267
Period size: 81 Copynumber: 2.1 Consensus size: 81
55048450 GTAATTTCAT
* *
55048460 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
55048525 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
** *
55048541 AATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGT
* *
55048605 GAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
55048622 AATCGAGGGTA
1 AATCGAGGGTA
55048633 CTTTGGTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:55048645 original size:54 final size:54
Alignment explanation
Indices: 55048460--55048632 Score: 267
Period size: 54 Copynumber: 3.2 Consensus size: 54
55048450 GTAATTTCAT
*
55048460 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTGTA
** * * *
55048514 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
*
55048568 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
55048622 AATCGAGGGTA
1 AATCGAGGGTA
55048633 CTTTGGTAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 105 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
Found at i:55048669 original size:81 final size:81
Alignment explanation
Indices: 55048460--55048677 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 81
55048450 GTAATTTCAT
* ** ** * *
55048460 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGAGGGT
55048524 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* ** * *
55048541 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
*
55048606 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
*** * * *** *
55048622 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAA
55048678 CTAAAGTATT
Statistics
Matches: 116, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
81 115 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:55051775 original size:47 final size:47
Alignment explanation
Indices: 55051706--55051861 Score: 183
Period size: 47 Copynumber: 3.3 Consensus size: 47
55051696 AGCTTAAGAT
55051706 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*** *
55051753 CGAATGGCCAATGTGATGAATGTGAAAGTACATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
55051800 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
* *
55051845 TGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
55051862 AAAGTGTGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
45 20 0.22
46 6 0.07
47 65 0.71
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:55051987 original size:39 final size:40
Alignment explanation
Indices: 55051932--55052016 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
55051922 AAATGAATTG
* * * *
55051932 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
55051971 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
55052011 TGCTGG
1 TGCTGG
55052017 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:55054030 original size:30 final size:29
Alignment explanation
Indices: 55053985--55054062 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
55053975 CATAGTATCG
*
55053985 TATCTTGCG-TTTCTTTATCCTGGATCTCTT
1 TATCTTG-GATTTCTTTAT-CTGGATCTCTC
* *
55054015 TAT-TCTGGATTTCTTTAATCTGGGTTTCTC
1 TATCT-TGGATTTCTTT-ATCTGGATCTCTC
55054045 TATCTTGGATTTCTTTAT
1 TATCTTGGATTTCTTTAT
55054063 TCGGTTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 4 0.10
30 34 0.83
31 3 0.07
ACGTcount: A:0.13, C:0.18, G:0.14, T:0.55
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATCTGGATCTCTC
Found at i:55054073 original size:14 final size:15
Alignment explanation
Indices: 55053994--55054073 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55053984 GTATCTTGCG
*
55053994 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55054009 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
55054024 TTTCTTTAATCTGGG
1 TTTCTTTATTCTGGA
*
55054039 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55054054 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55054068 TTTCTT
1 TTTCTT
55054074 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55056502 original size:46 final size:46
Alignment explanation
Indices: 55056452--55056627 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
55056442 TGGTTGAGCA
*
55056452 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
55056498 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
55056545 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * **
55056591 CCCGAGCTTGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55056628 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55056608 original size:93 final size:93
Alignment explanation
Indices: 55056449--55056618 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
55056439 GGATGGTTGA
* *
55056449 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55056514 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
55056542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55056607 TGAGTCCGAGTT
66 TGAGTCCGAGTT
55056619 TGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:55062496 original size:2 final size:2
Alignment explanation
Indices: 55062489--55062515 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55062479 TCATGACATG
55062489 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
55062516 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55063772 original size:11 final size:11
Alignment explanation
Indices: 55063752--55063787 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
55063742 CTCCCATGCT
55063752 AGGAAACTTCA
1 AGGAAACTTCA
*
55063763 AGGAACCTTCA
1 AGGAAACTTCA
*
55063774 AGGAAGCTTCA
1 AGGAAACTTCA
55063785 AGG
1 AGG
55063788 GATGTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (11 bp):
AGGAAACTTCA
Found at i:55063799 original size:22 final size:22
Alignment explanation
Indices: 55063750--55063801 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
55063740 GTCTCCCATG
*
55063750 CTAGGAAACTTCAAGGAACCTT
1 CTAGGAAGCTTCAAGGAACCTT
* * **
55063772 CAAGGAAGCTTCAAGGGATGTT
1 CTAGGAAGCTTCAAGGAACCTT
55063794 CTAGGAAG
1 CTAGGAAG
55063802 TTGCCAAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (22 bp):
CTAGGAAGCTTCAAGGAACCTT
Found at i:55066517 original size:12 final size:12
Alignment explanation
Indices: 55066500--55066524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55066490 GAGATTGTTG
55066500 CTAAGTTACCTA
1 CTAAGTTACCTA
55066512 CTAAGTTACCTA
1 CTAAGTTACCTA
55066524 C
1 C
55066525 AAAGCCCATG
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CTAAGTTACCTA
Found at i:55067108 original size:16 final size:16
Alignment explanation
Indices: 55067067--55067109 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
55067057 AAATAAGAAT
*
55067067 TATATATGCTGA-AATG
1 TATATATG-TGATAATA
55067083 TATA-ATGTGATAATA
1 TATATATGTGATAATA
55067098 TATATATGTGAT
1 TATATATGTGAT
55067110 CGAATGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 11 0.46
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (16 bp):
TATATATGTGATAATA
Found at i:55067347 original size:56 final size:56
Alignment explanation
Indices: 55067259--55067650 Score: 586
Period size: 56 Copynumber: 7.0 Consensus size: 56
55067249 GACCATGGCA
* *
55067259 TCGATATATGTGTGTGAGTAAGATCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
55067315 TCGATATATGTGTACGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * *
55067371 TCAATATATATGTGCGAGTAAAACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * ** *
55067427 CCAATATATGTGTATGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * * * *
55067483 TTGATATATATGTACGAGTAAGACCACCTTTAATATGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * *
55067539 TCGATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGCAACGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
55067595 CCAATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
55067651 ACATGTAAGA
Statistics
Matches: 303, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 303 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:55067540 original size:168 final size:168
Alignment explanation
Indices: 55067262--55067650 Score: 679
Period size: 168 Copynumber: 2.3 Consensus size: 168
55067252 CATGGCATCG
* *
55067262 ATATATGTGTGTGAGTAAGATCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATATGTG
1 ATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATATATG
55067327 TACGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGATTTCAATATATATGTGCGAGTAA
66 TACGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGATTTCAATATATATGTGCGAGTAA
*
55067392 AACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
131 AACCACGTTTAATACGTTGGCAACGATATGTGATTCCA
* * *
55067430 ATATATGTGTATGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTTGATATATATG
1 ATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATATATG
* * *
55067495 TACGAGTAAGACCACCTTTAATATGTTGGCATCGATATGTGATTTCGATATATATGTGTGAGTAA
66 TACGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGATTTCAATATATATGTGCGAGTAA
*
55067560 GACCACGTTTAATACGTTGGCAACGATATGTGATTCCA
131 AACCACGTTTAATACGTTGGCAACGATATGTGATTCCA
*
55067598 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 ATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
55067651 ACATGTAAGA
Statistics
Matches: 208, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 208 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (168 bp):
ATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATATATG
TACGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGATTTCAATATATATGTGCGAGTAA
AACCACGTTTAATACGTTGGCAACGATATGTGATTCCA
Found at i:55072456 original size:18 final size:19
Alignment explanation
Indices: 55072433--55072471 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
55072423 TTTATCTTAA
*
55072433 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
55072451 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
55072470 TT
1 TT
55072472 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:55072538 original size:12 final size:12
Alignment explanation
Indices: 55072507--55072531 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55072497 GTTTTCAATC
55072507 TCATTTTCTTTT
1 TCATTTTCTTTT
55072519 TCATTTTCTTTT
1 TCATTTTCTTTT
55072531 T
1 T
55072532 GTTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:55072549 original size:13 final size:12
Alignment explanation
Indices: 55072533--55072564 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
55072523 TTTCTTTTTG
55072533 TTTTTCAAAGGC
1 TTTTTCAAAGGC
55072545 TTTTTCAAAGGC
1 TTTTTCAAAGGC
55072557 TTTTTCAA
1 TTTTTCAA
55072565 GTTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:55072622 original size:5 final size:5
Alignment explanation
Indices: 55072612--55072668 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
55072602 CTTTTGCCTC
*
55072612 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
55072659 TCTTT TCTTT
1 TCTTT TCTTT
55072669 GTTTTCTCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:55072652 original size:15 final size:14
Alignment explanation
Indices: 55072612--55072668 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
55072602 CTTTTGCCTC
*
55072612 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
55072627 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
55072642 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
55072659 TCTTTTCTTT
1 TCTTTTCTTT
55072669 GTTTTCTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:55072669 original size:21 final size:21
Alignment explanation
Indices: 55072612--55072673 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
55072602 CTTTTGCCTC
* *
55072612 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
55072633 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
55072654 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
55072674 CTCATTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 7 0.21
21 22 0.65
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:55076618 original size:24 final size:24
Alignment explanation
Indices: 55076585--55076632 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
55076575 AAGACTAAAT
*
55076585 TAAAATATCAAATTTTCACACATG
1 TAAAACATCAAATTTTCACACATG
55076609 TAAAACATCAAATTTTCACACATG
1 TAAAACATCAAATTTTCACACATG
55076633 CACTATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (24 bp):
TAAAACATCAAATTTTCACACATG
Found at i:55076640 original size:22 final size:23
Alignment explanation
Indices: 55076590--55076640 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
55076580 TAAATTAAAA
55076590 TATCAAATTTTCACACATGTAAAAC
1 TATCAAATTTTCACACATG--AAAC
*
55076615 -ATCAAATTTTCACACATG-CAC
1 TATCAAATTTTCACACATGAAAC
55076636 TATCA
1 TATCA
55076641 CACATAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.08
22 4 0.17
24 18 0.75
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (23 bp):
TATCAAATTTTCACACATGAAAC
Found at i:55078155 original size:46 final size:45
Alignment explanation
Indices: 55078080--55078254 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
55078070 TGTAACCCGC
*
55078080 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * *
55078126 CCATGAGTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * * *
55078176 -C-TCAG-GCACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
55078219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55078255 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 59 0.55
47 25 0.23
48 4 0.04
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:55078249 original size:93 final size:93
Alignment explanation
Indices: 55078090--55078259 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
55078080 CCATAAGTGA
* * * *
55078090 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTAAACG
1 ACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAACG
55078155 AGTTCGGATGCCTAGTTACATCTCAGGC
66 AGTTCGGATGCCTAGTTACATCTCAGGC
* * *
55078183 ACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAACG
55078248 AGTTCGGATGCC
66 AGTTCGGATGCC
55078260 CAAATATCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAACG
AGTTCGGATGCCTAGTTACATCTCAGGC
Found at i:55078274 original size:46 final size:46
Alignment explanation
Indices: 55078131--55078274 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
55078121 CGCATCCATG
* * * *
55078131 AGTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * * *
55078179 AG-GCACTCGGACTCAACTCAACGAGTTC--A-G-ACATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
55078224 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
55078270 AGTGA
1 AGTGA
55078275 CATGTCACTC
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
44 1 0.01
45 3 0.04
46 30 0.41
47 24 0.32
48 7 0.09
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:55080212 original size:30 final size:30
Alignment explanation
Indices: 55080168--55080256 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
55080158 CAAAGATAAC
55080168 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
55080197 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
55080227 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
55080257 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:55080216 original size:15 final size:15
Alignment explanation
Indices: 55080168--55080247 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
55080158 CAAAGATAAC
*
55080168 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55080182 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55080197 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
55080212 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55080227 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55080242 AAGAAA
1 AAGAAA
55080248 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55080256 original size:15 final size:15
Alignment explanation
Indices: 55080179--55080256 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55080169 AGAAAACCGA
55080179 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55080194 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55080208 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55080223 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55080239 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55080254 ATA
1 ATA
55080257 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55083321 original size:46 final size:46
Alignment explanation
Indices: 55083161--55083333 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
55083151 TGTAACCCGC
* * * * * *
55083161 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
* * * * *
55083207 CCATGAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
* * *
55083257 -C-TCAG-GAACTTGGACTCAACTCAACGAATTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
55083300 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
55083334 GGATGCCCAA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 4 0.04
46 55 0.54
47 23 0.23
48 4 0.04
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:55086837 original size:30 final size:30
Alignment explanation
Indices: 55086751--55086848 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
55086741 TTAAACTAAA
* * *
55086751 ATGAGTTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
55086781 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
55086811 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
55086841 ATGAGCTA
1 ATGAGCTA
55086849 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:55089636 original size:21 final size:20
Alignment explanation
Indices: 55089602--55089645 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
55089592 ACATTCTTGT
55089602 AAAGAGAAAACAAAGAAAAGA
1 AAAGAGAAAACAAA-AAAAGA
*
55089623 AAAGA-AAAAGCAAAAGAAGA
1 AAAGAGAAAA-CAAAAAAAGA
55089643 AAA
1 AAA
55089646 ATAAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAGAAAACAAAAAAAGA
Found at i:55092810 original size:19 final size:19
Alignment explanation
Indices: 55092786--55092825 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55092776 AGCTCCCATG
55092786 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
55092805 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
55092824 TA
1 TA
55092826 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:55099142 original size:24 final size:24
Alignment explanation
Indices: 55099037--55099146 Score: 76
Period size: 24 Copynumber: 4.5 Consensus size: 24
55099027 TTACTCATTT
* * **
55099037 GCACACATAGTGCCGCGTTTCCTC
1 GCACACATAGTGCCACATAACCTC
* * * *
55099061 GTACACATAGTGCTATATAATCTC
1 GCACACATAGTGCCACATAACCTC
** *** *
55099085 GCACACATAGTGCCATGTAGTTTTT
1 GCACACATAGTGCCACATA-ACCTC
*
55099110 GCACACATAGTGCCGCATAACCTC
1 GCACACATAGTGCCACATAACCTC
55099134 GCACACATAGTGC
1 GCACACATAGTGC
55099147 TGAAATTTCT
Statistics
Matches: 64, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
24 46 0.72
25 18 0.28
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCCACATAACCTC
Found at i:55104786 original size:40 final size:40
Alignment explanation
Indices: 55104731--55104898 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
55104721 TGAATGATAC
* * *
55104731 CCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
55104771 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
55104811 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
55104851 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
55104891 CC-GGCTAA
1 CCGGGCTAA
55104899 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:55106863 original size:45 final size:45
Alignment explanation
Indices: 55106799--55106889 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
55106789 ATCTAAGGAG
55106799 AAATCATCCGTAAATACGCTAAGCATGGGATAAAAATATGTATAA
1 AAATCATCCGTAAATACGCTAAGCATGGGATAAAAATATGTATAA
55106844 AAATCATCCGTAAATACGCTAAGCATGGGATAAAAATATGTATAA
1 AAATCATCCGTAAATACGCTAAGCATGGGATAAAAATATGTATAA
55106889 A
1 A
55106890 TTACGGTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.24
Consensus pattern (45 bp):
AAATCATCCGTAAATACGCTAAGCATGGGATAAAAATATGTATAA
Found at i:55110599 original size:13 final size:13
Alignment explanation
Indices: 55110581--55110605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55110571 TGTGGGTACA
55110581 CACGGTCGTGTCG
1 CACGGTCGTGTCG
55110594 CACGGTCGTGTC
1 CACGGTCGTGTC
55110606 TTGCTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:55117928 original size:22 final size:22
Alignment explanation
Indices: 55117879--55117940 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
55117869 ACCTCGCATG
*
55117879 CTAGGAAACTTCAAAGAACCTT
1 CTAGGAAGCTTCAAAGAACCTT
* * **
55117901 CAAGGAAGCTTCAAGGAATGTT
1 CTAGGAAGCTTCAAAGAACCTT
* *
55117923 CTAGGAAGTTTCCAAGAA
1 CTAGGAAGCTTCAAAGAA
55117941 GTTTCAACTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (22 bp):
CTAGGAAGCTTCAAAGAACCTT
Found at i:55119903 original size:93 final size:93
Alignment explanation
Indices: 55119790--55119961 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55119780 CGCCCATAAG
* *
55119790 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55119855 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55119883 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55119948 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55119962 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55119958 original size:46 final size:46
Alignment explanation
Indices: 55119783--55119958 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55119773 TGTAACCCGC
* * *
55119783 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55119829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55119879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55119922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55119959 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55127462 original size:93 final size:93
Alignment explanation
Indices: 55127350--55127521 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55127340 CGCCCATAAG
* *
55127350 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55127415 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55127443 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55127508 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55127522 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55127518 original size:46 final size:46
Alignment explanation
Indices: 55127343--55127518 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55127333 TGTAACCCGC
* * *
55127343 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55127389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55127439 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55127482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55127519 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55129989 original size:31 final size:31
Alignment explanation
Indices: 55129946--55130122 Score: 302
Period size: 31 Copynumber: 5.7 Consensus size: 31
55129936 TTAGTCTTGA
*
55129946 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
55129976 CATATCACTGGGCCAAAGCTTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
55130007 CATATCACTGGGCCGAAGCCATTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55130038 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
55130069 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55130100 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
55130123 ACTGTAAACA
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.04
31 132 0.96
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:55130193 original size:42 final size:42
Alignment explanation
Indices: 55130146--55130279 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
55130136 TGGCCCTTAG
55130146 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
55130188 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
* *
55130230 GCCCATTTTAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
55130272 GCCCATTT
1 GCCCATTT
55130280 GGGGAGACTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:55130441 original size:24 final size:24
Alignment explanation
Indices: 55130414--55130471 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
55130404 CTGGAGGCCT
*
55130414 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
55130438 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
55130463 AGCCCTTTT
1 AGCCCTTTT
55130472 CGGTAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 18 0.60
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:55130478 original size:25 final size:26
Alignment explanation
Indices: 55130430--55130496 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
55130420 TTTTAATAAT
55130430 TGGGGCAAAGCCC-TTTCTGATAAAC
1 TGGGGCAAAGCCCTTTTCTGATAAAC
*
55130455 TGGGGCAAAGCCCTTTTC-GGTAAAC
1 TGGGGCAAAGCCCTTTTCTGATAAAC
* * *
55130480 TAGGGCAGAGCCATTTT
1 TGGGGCAAAGCCCTTTT
55130497 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TGGGGCAAAGCCCTTTTCTGATAAAC
Found at i:55130733 original size:27 final size:27
Alignment explanation
Indices: 55130697--55130753 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
55130687 GAGCGTATTC
*
55130697 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCATACAAGGGCT-TTACG
* *
55130724 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTTACG
55130751 GTC
1 GTC
55130754 TTTTTTCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGCTTTACG
Found at i:55130845 original size:27 final size:27
Alignment explanation
Indices: 55130815--55131056 Score: 105
Period size: 27 Copynumber: 8.9 Consensus size: 27
55130805 GTAAATCTAC
*
55130815 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
55130842 AAACCAATGGTATTTTTA-TAATTTTTAA
1 AAACCAAGGGTA-TTTCAGTAA-TTTTAT
* *
55130870 AAAGTCAAGGGTATTTCTA-TAATTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* ** *
55130898 AAATC-AGGAGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTAT
*** * * *
55130925 AAATTGAGGGTTTTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
55130952 AAACCAATGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * * ** *
55130979 AAGCTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
55131006 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
55131033 CCTA-CAGGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCAGTAATTT
55131057 CACAATCGAG
Statistics
Matches: 168, Mismatches: 39, Indels: 16
0.75 0.17 0.07
Matches are distributed among these distances:
26 3 0.02
27 129 0.77
28 25 0.15
29 11 0.07
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:55130965 original size:54 final size:54
Alignment explanation
Indices: 55130765--55131061 Score: 165
Period size: 54 Copynumber: 5.5 Consensus size: 54
55130755 TTTTTCCTAT
* * ** * * *
55130765 TAGGGATATTTTAGTCATTTCATCCTA-CAAGGGTGTTTTGGTAAATCTACAAAC
1 TAGGGGTATTTTAGTAATTTCA-CAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * * *** * ** * *
55130819 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTTATAATTTTTAAAAAG
1 TAGGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAA-TTTTACAAAC
* *** *
55130874 TCAAGGGTATTTCTA-TAATTTTGTAAATC-AGGAGTATTTTGGTAATTTTACAAA-
1 T-AGGGGTATTT-TAGTAATTTCACAAACCAAGG-GTATTTTGGTAATTTTACAAAC
* * * *
55130928 TTGAGGGT-TTTTCAGTAATTTCACAAACCAATGGTATTTCGGTAATTTTACAAGC
1 TAG-GGGTATTTT-AGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * * * * **
55130983 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTAC
1 TAGGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTA-CAAAC
*
55131038 -AGGGGTATTTCAGTAATTTCACAA
1 TAGGGGTATTTTAGTAATTTCACAA
55131062 TCGAGGGTAA
Statistics
Matches: 183, Mismatches: 48, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
52 1 0.01
53 5 0.03
54 117 0.64
55 26 0.14
56 33 0.18
57 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAC
Found at i:55131100 original size:27 final size:27
Alignment explanation
Indices: 55131060--55131254 Score: 266
Period size: 27 Copynumber: 7.2 Consensus size: 27
55131050 GTAATTTCAC
*
55131060 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
55131087 AA-CTGACGGTAAAATTGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
55131114 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
55131141 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
55131168 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
55131195 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
55131222 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
55131249 AATCGA
1 AATCGA
55131255 TGGCATTTCA
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:55131179 original size:81 final size:81
Alignment explanation
Indices: 55131060--55131254 Score: 293
Period size: 81 Copynumber: 2.4 Consensus size: 81
55131050 GTAATTTCAC
* * *
55131060 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGACGGTAAAATTGTAATTTTGTAAATCGAAGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GACGGTAAAATGGTAATTTTGTAAATCGAAGGT
*
55131124 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
* * *
55131141 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGACGGTAAAATGGTAATTTTGTAAATCGAAGGTA
*
55131206 AAATGGTAATTCTATA
66 AAACGGTAATTCTATA
*
55131222 AATCGAGGGTAAAATGGTAATTCTACAAATCGA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGA
55131255 TGGCATTTCA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGACGGTAAAATGGTAATTTTGTAAATCGAAGGTA
AAACGGTAATTCTATA
Found at i:55133568 original size:31 final size:31
Alignment explanation
Indices: 55133519--55133633 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
55133509 TTAGTCTTGA
* *
55133519 CATAT-ACTGGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
55133549 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55133580 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
55133611 CATATAACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
55133634 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:55133704 original size:42 final size:42
Alignment explanation
Indices: 55133657--55133790 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
55133647 TGGCCCTTAG
55133657 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
55133699 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
55133741 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
55133783 GCCTATTT
1 GCCCATTT
55133791 GGGGAGACTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:55134980 original size:28 final size:28
Alignment explanation
Indices: 55134933--55135029 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
55134923 ATTTAAACCC
*
55134933 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
55134960 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
55134988 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
55135016 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
55135030 TGATCTATGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:55135680 original size:27 final size:27
Alignment explanation
Indices: 55135650--55135711 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
55135640 GGGCAAAATG
55135650 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
55135677 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
55135704 GTAATTTT
1 GTAATTTT
55135712 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:55135725 original size:54 final size:54
Alignment explanation
Indices: 55135667--55135819 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
55135657 TACCCCACAA
** * * *
55135667 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
55135721 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
55135775 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTTT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTT
55135820 GTAAATTGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 85 0.98
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:55135833 original size:27 final size:27
Alignment explanation
Indices: 55135694--55135824 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
55135684 TACCCTACAG
* *
55135694 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
55135721 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
55135748 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
55135775 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
55135802 GGGTATTTTGGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
55135825 TTGAGGGTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 89 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:55135833 original size:54 final size:54
Alignment explanation
Indices: 55135694--55135819 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
55135684 TACCCTACAG
* *
55135694 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
55135748 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
55135802 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
55135820 GTAAATTGAG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:55135833 original size:81 final size:81
Alignment explanation
Indices: 55135665--55135824 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
55135655 TTTACCCCAC
** *
55135665 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTT
55135730 GGTAATTTTATAAACA
66 GGTAATTTTATAAACA
* * *
55135746 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATT
*
55135809 TTGGTAATTTTGTAAA
64 TTGGTAATTTTATAAA
55135825 TTGAGGGTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 67 0.96
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:55135843 original size:81 final size:81
Alignment explanation
Indices: 55135691--55135844 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
55135681 TTTTACCCTA
* ***
55135691 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTAAAA
*
55135756 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
55135772 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTTTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTAAA
*
55135836 ACGGTAATT
65 ACAGTAATT
55135845 CTGTAAATCG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 59 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:55137072 original size:24 final size:25
Alignment explanation
Indices: 55137045--55137128 Score: 59
Period size: 25 Copynumber: 3.4 Consensus size: 25
55137035 CTGGAGGCCT
* *
55137045 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCCTCTTTTAATAAACTAGGGCAA
*
55137069 AGCC-CTTTCTGATAAACTAGGGCAA
1 AGCCTCTTT-TAATAAACTAGGGCAA
** * *
55137094 AGCCT-TTTTCGGTAAACTGGGGCAG
1 AGCCTCTTTT-AATAAACTAGGGCAA
55137119 AGCC-CTTTTA
1 AGCCTCTTTTA
55137129 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.08
24 8 0.17
25 36 0.75
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTAGGGCAA
Found at i:55137127 original size:25 final size:26
Alignment explanation
Indices: 55137061--55137127 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
55137051 TTTTAATAAT
55137061 TGGGGCAAAGCCC-TTTCTGATAAAC
1 TGGGGCAAAGCCCTTTTCTGATAAAC
* * *
55137086 TAGGGCAAAGCCTTTTTC-GGTAAAC
1 TGGGGCAAAGCCCTTTTCTGATAAAC
*
55137111 TGGGGCAGAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
55137128 AGCACTTCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (26 bp):
TGGGGCAAAGCCCTTTTCTGATAAAC
Found at i:55138087 original size:27 final size:28
Alignment explanation
Indices: 55138055--55138162 Score: 107
Period size: 27 Copynumber: 3.9 Consensus size: 28
55138045 GTAAATCTAC
55138055 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTGT
* * *
55138082 AGACCAATGGTATTTCTA-TAATTTTTAT
1 AAACCAAGGGTATTTCTAGTAA-TTTTGT
*
55138110 AAAGTCAAGGGTATTTCT-GTAATTTTGT
1 AAA-CCAAGGGTATTTCTAGTAATTTTGT
* * *
55138138 AAATCAGGGGTATTT-TGGTAATTTT
1 AAACCAAGGGTATTTCTAGTAATTTT
55138163 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.01
27 35 0.51
28 17 0.25
29 15 0.22
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTGT
Found at i:55138125 original size:29 final size:27
Alignment explanation
Indices: 55138059--55138180 Score: 95
Period size: 27 Copynumber: 4.4 Consensus size: 27
55138049 ATCTACAAAC
* * *
55138059 CAAGGGTATTT-TAGTAATTTTGTAGAC
1 CAAGGGTATTTCTA-TAATTTTATAAAT
*
55138086 CAATGGTATTTCTATAATTTTTATAAAGT
1 CAAGGGTATTTCTATAA-TTTTATAAA-T
* *
55138115 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCTATAATTTTATAAAT
* * *
55138142 CAGGGGTATTT-TGGTAATTTTACAAAT
1 CAAGGGTATTTCT-ATAATTTTATAAAT
**
55138169 TGAGGGTATTTC
1 CAAGGGTATTTC
55138181 GGTAATTTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 44 0.57
28 17 0.22
29 15 0.19
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTATAAAT
Found at i:55138160 original size:56 final size:54
Alignment explanation
Indices: 55138052--55138188 Score: 134
Period size: 56 Copynumber: 2.5 Consensus size: 54
55138042 TTGGTAAATC
* * *
55138052 TACAAACCAAGGGTATTT-TAGTAATTTTGTAGACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTGTAAACCAAGGGTATTTCTATAA-TTT
* * * *
55138107 TATAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
** *
55138162 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
55138189 CACAAACTAG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
54 18 0.26
55 14 0.21
56 35 0.51
57 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:55138168 original size:27 final size:28
Alignment explanation
Indices: 55138118--55138268 Score: 154
Period size: 27 Copynumber: 5.6 Consensus size: 28
55138108 ATAAAGTCAA
**
55138118 GGGTATTTCT-GTAATTTTGTAAATC-AG
1 GGGTATTT-TGGTAATTTTACAAATCTAG
55138145 GGGTATTTTGGTAATTTTACAAAT-T-G
1 GGGTATTTTGGTAATTTTACAAATCTAG
* *
55138171 AGGGTATTTCGGTAATTTCACAAA-CTAG
1 -GGGTATTTTGGTAATTTTACAAATCTAG
* * *
55138199 TGGTATTTCGGTAATTTTAC-AAGCTAG
1 GGGTATTTTGGTAATTTTACAAATCTAG
*
55138226 GGGTATTTTGGTAATTTTAC-AAGCTAG
1 GGGTATTTTGGTAATTTTACAAATCTAG
*
55138253 GTGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
55138269 CTATCCTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
26 4 0.04
27 104 0.95
28 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.42
Consensus pattern (28 bp):
GGGTATTTTGGTAATTTTACAAATCTAG
Found at i:55138204 original size:54 final size:53
Alignment explanation
Indices: 55138145--55138310 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 53
55138135 TGTAAATCAG
*
55138145 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACTA
* * * * *
55138198 GTGGTATTTCGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTACAAGCTA
1 G-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACTA
* ** * * *
55138252 GGTGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAATCGA
1 GG-GTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAAACTA
55138306 GGGTA
1 GGGTA
55138311 AAATGATAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.05
54 84 0.90
55 4 0.04
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACTA
Found at i:55138285 original size:81 final size:80
Alignment explanation
Indices: 55138118--55138301 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 80
55138108 ATAAAGTCAA
* * *
55138118 GGGTATTTCTGTAATTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
1 GGGTATTTCAGTAA-TTT-TACAAGCAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCG
55138182 GTAATTTCACAAACTAG
64 GTAATTTCACAAACTAG
* * * *
55138199 TGGTATTTCGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTACAAGCT-AGGTGTATTTTG
1 GGGTATTTCAGTAATTTTACAAGC-AGGGGTATTTTGGTAATTTTACAAACTGAGG-GTATTTCG
**
55138263 GTAA-TTCTATCCTAC-AG
64 GTAATTTC-A-CAAACTAG
*
55138280 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
55138302 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 2 0.02
80 12 0.14
81 70 0.80
82 3 0.03
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACAAGCAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGT
AATTTCACAAACTAG
Found at i:55138287 original size:27 final size:27
Alignment explanation
Indices: 55138143--55138268 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
55138133 TTTGTAAATC
*
55138143 AGGGGTATTTTGGTAATTTTACAA-AT
1 AGGGGTATTTTGGTAATTTTACAAGCT
* * * *
55138169 TGAGGGTATTTCGGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAGCT
* *
55138197 AGTGGTATTTCGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAGCT
55138224 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAGCT
*
55138251 AGGTGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
55138269 CTATCCTACA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 84 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAGCT
Found at i:55138308 original size:27 final size:27
Alignment explanation
Indices: 55138139--55138308 Score: 127
Period size: 27 Copynumber: 6.3 Consensus size: 27
55138129 TAATTTTGTA
* *
55138139 AATC-AGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
55138165 AAAT-T-GAGGGTATTTCGGTAATTTCAC
1 -AATCTAG-GGGTATTTCGGTAATTTCAC
* * *
55138192 AAACTAGTGGTATTTCGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
* * *
55138219 AAGCTAGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
* * *
55138246 AAGCTAGGTGTATTTTGGTAA-TT--C
1 AATCTAGGGGTATTTCGGTAATTTCAC
* *
55138270 TATCCTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CT--AGGGGTATTTCGGTAATTTCAC
*
55138300 AATCGAGGG
1 AATCTAGGG
55138309 TAAAATGATA
Statistics
Matches: 117, Mismatches: 16, Indels: 20
0.76 0.10 0.13
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 5 0.04
27 101 0.86
28 3 0.03
29 1 0.01
30 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
AATCTAGGGGTATTTCGGTAATTTCAC
Found at i:55138334 original size:27 final size:27
Alignment explanation
Indices: 55138300--55138497 Score: 202
Period size: 27 Copynumber: 7.3 Consensus size: 27
55138290 GTAATTTCAC
55138300 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
55138327 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGATAATTTTGTA
* * *
55138354 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
* * *
55138381 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
55138408 AATCGAGGGTAAAA-CAGTAATTTTGTA
1 AATCGAGGGTAAAATGA-TAATTTTGTA
* * * * *
55138435 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
* * * **
55138462 AATCGAGGATAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGATAATTTTGTA
55138489 AATCGAGGG
1 AATCGAGGG
55138498 CATTTCAGTA
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:55138403 original size:81 final size:81
Alignment explanation
Indices: 55138300--55138497 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
55138290 GTAATTTCAC
* * **
55138300 AATCGAGGGTAAAATGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-GAGGGTAAAACAGTAATTTTGTAAATCGAGGGT
55138364 AAAACGATAATTCTATA
65 AAAACGATAATTCTATA
* *
55138381 AATTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
*
55138446 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* * *
55138462 AATCGAGGATAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGG
55138498 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 104 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:55138482 original size:54 final size:54
Alignment explanation
Indices: 55138300--55138497 Score: 238
Period size: 54 Copynumber: 3.7 Consensus size: 54
55138290 GTAATTTCAC
* * * *
55138300 AATCGAGGGTAAAATGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATAAATC-GAGGGTAAAATGGTAATTTTATA
*
55138354 AATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTATA
* * * * *
55138408 AATCGAGGGTAAAAC-AGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATA
* * * *
55138462 AATCGAGGATAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGG
55138498 CATTTCAGTA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 123 0.99
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTATA
Found at i:55138507 original size:81 final size:81
Alignment explanation
Indices: 55138343--55138517 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
55138333 GGGTAAAATG
* * * *
55138343 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAATGGTAATTTTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
*
55138408 AATCGAGGGTAAAACA
66 AATCGAGGGCAAAACA
* *
55138424 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
***
55138489 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
55138505 GTAATTTGGTAAA
1 GTAATTTTGTAAA
55138518 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:55139592 original size:28 final size:27
Alignment explanation
Indices: 55139531--55139603 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 27
55139521 TAATGCATGC
55139531 TTTTAATATGTCTTAG-TTAATACATA
1 TTTTAATATGTCTTAGCTTAATACATA
** * *
55139557 TCAGTAATTTGTCTTAGCTTATTACATAA
1 T-TTTAATATGTCTTAGCTTAATACAT-A
* *
55139586 TTTTAATGTGTTTTAGCT
1 TTTTAATATGTCTTAGCT
55139604 CCAGCTGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.03
27 12 0.33
28 21 0.58
29 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.51
Consensus pattern (27 bp):
TTTTAATATGTCTTAGCTTAATACATA
Found at i:55139839 original size:43 final size:42
Alignment explanation
Indices: 55139791--55139876 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
55139781 TCAAAGAAAG
*
55139791 CATGCATGGAAC-GACATTAAAGGAGCTGTTGATTTCTCCTTTT
1 CATGCATGGAACTG-CATTAAAGGAGCTGTTGATTCCT-CTTTT
*
55139834 CATGCATGGGACTGCATTAAAGGAGCTGTTGATTCCTCTTTT
1 CATGCATGGAACTGCATTAAAGGAGCTGTTGATTCCTCTTTT
55139876 C
1 C
55139877 CATGTGCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 6 0.15
43 33 0.82
44 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (42 bp):
CATGCATGGAACTGCATTAAAGGAGCTGTTGATTCCTCTTTT
Found at i:55144688 original size:40 final size:40
Alignment explanation
Indices: 55144633--55144723 Score: 182
Period size: 40 Copynumber: 2.3 Consensus size: 40
55144623 ATATATGATT
55144633 AATGTTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGG
1 AATGTTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGG
55144673 AATGTTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGG
1 AATGTTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGG
55144713 AATGTTATCCG
1 AATGTTATCCG
55144724 AGCTAGAGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
AATGTTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGG
Found at i:55148385 original size:8 final size:8
Alignment explanation
Indices: 55148374--55148398 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55148364 CTAAAGTTTT
55148374 AAAATGTG
1 AAAATGTG
55148382 AAAATGTG
1 AAAATGTG
55148390 AAAATGTG
1 AAAATGTG
55148398 A
1 A
55148399 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:55148878 original size:42 final size:43
Alignment explanation
Indices: 55148766--55148878 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 43
55148756 TTCCGTTATG
* *
55148766 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCAACTTA
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATCGGCATCAACTTA
** **
55148809 TGATTTACGTGTAAGACGATGTCTGGGACATCGGCATTGTA-TT-
1 TGATTT-CGTGTAAGACCCTGTCTGGGACATCGGCA-TCAACTTA
*
55148852 TGATTTCGTGTAAGACCCTGTTTGGGA
1 TGATTTCGTGTAAGACCCTGTCTGGGA
55148879 TAATGGCGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
42 18 0.31
43 12 0.21
44 26 0.45
45 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCAACTTA
Found at i:55152191 original size:130 final size:128
Alignment explanation
Indices: 55151956--55152313 Score: 394
Period size: 130 Copynumber: 2.8 Consensus size: 128
55151946 CGAAGACGAA
* * * * *
55151956 ATTTGATGTTCGGCAATTCGCGAAATCGTGCCCTAATGTGTTGGGTTGGAATTTTGCATTTGCTC
1 ATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTC
* * * * *
55152021 AAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCTTAAACAAAGATGGG
66 AAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCTAAAACAAAG--GCG
55152086 ATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTC
1 ATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTC
* * ** * * *
55152151 AAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCCCTAAAACGAAGGCG
66 AAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCTAAAACAAAGGCG
* * * * ** * * * *
55152214 ATATGCGGTATTTGGAAATTCATGGGATCGTGCCCTAACATGTTGGGTAGCAATTTCTCGA-TTG
1 AT-T-TGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGC-ATTTG
* * *
55152278 TTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
63 CTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
55152314 GGCTCTTCTA
Statistics
Matches: 191, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
128 4 0.02
129 1 0.01
130 185 0.97
131 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (128 bp):
ATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTC
AAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCTAAAACAAAGGCG
Found at i:55160571 original size:47 final size:47
Alignment explanation
Indices: 55160517--55160802 Score: 396
Period size: 47 Copynumber: 6.1 Consensus size: 47
55160507 TTAGGATTTT
** *
55160517 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55160564 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
55160611 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55160658 ATGTAATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
55160705 ATGTGATGAATGAGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55160752 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55160797 ATGTGA
1 ATGTGA
55160803 AATATATATA
Statistics
Matches: 212, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 25 0.12
47 187 0.88
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55160619 original size:25 final size:25
Alignment explanation
Indices: 55160544--55160619 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55160534 GTGTATATAT
55160544 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
55160569 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
55160591 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55160616 GTGA
1 GTGA
55160620 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55160699 original size:141 final size:139
Alignment explanation
Indices: 55160538--55160793 Score: 467
Period size: 141 Copynumber: 1.8 Consensus size: 139
55160528 GTGAATGTGT
*
55160538 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAGCATGCATATGTGTGATAAGGCCG
*
55160603 AATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCTATGTAATGAA
66 AATGGCCAATGTGGTGAATATGAACATGC--ATATGTGATAAAGCCGAATGGCCTATGTAATGAA
55160668 TGTGAGCATGC
129 TGTGAGCATGC
55160679 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAGCATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAGCATGCATATGTGTGATAAGGCCG
*
55160744 AATGGCCAATGTGGTGAATATGAACATGCATATGTGGTAAAGCCGAATGG
66 AATGGCCAATGTGGTGAATATGAACATGCATATGTGATAAAGCCGAATGG
55160794 TCAATGTGAA
Statistics
Matches: 112, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
139 19 0.17
141 93 0.83
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (139 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAGCATGCATATGTGTGATAAGGCCG
AATGGCCAATGTGGTGAATATGAACATGCATATGTGATAAAGCCGAATGGCCTATGTAATGAATG
TGAGCATGC
Found at i:55160760 original size:25 final size:25
Alignment explanation
Indices: 55160685--55160760 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
55160675 ATGCATATAT
55160685 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* *
55160710 ATGAATGAGAG-C--AT-G-CATATGT-
1 GTG-ATAAG-GCCGAATGGCCA-ATGTG
55160732 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55160757 GTGA
1 GTGA
55160761 ATATGAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
20 1 0.03
21 5 0.13
22 4 0.11
23 7 0.18
24 7 0.18
25 8 0.21
26 5 0.13
27 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55160843 original size:94 final size:91
Alignment explanation
Indices: 55160539--55160843 Score: 323
Period size: 94 Copynumber: 3.3 Consensus size: 91
55160529 TGAATGTGTA
55160539 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTG-G-TAAGGCCGA
*
55160604 ATGGCCAATGTGGT-GAATATGA-ACATG
64 ATGGCCAATGT-GTATAATATGAGACATG
* * *
55160631 CATATATGTGATAAGGCCGAATGGCCTATGTAATGAATGTGAGCATGCATATATGTGATAAGGCC
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC--ATATGTGGTAAGGCC
*
55160696 GAATGGCCAATGTG-ATGA-ATGAGAGCATG
62 GAATGGCCAATGTGTATAATATGAGA-CATG
* * * * *
55160725 CATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATGTGGTAAAGCCGA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGGTAAGGCCGA
* *
55160790 ATGGTCAATGTGAAATATATATATGAGATATG
64 ATGGCCAATGTG---TATA-ATATGAGACATG
* *
55160822 TATATGTGGTAAAGCCG-ATGGC
1 TATATGTGATAAGGCCGAATGGC
55160844 TAGTGTGAAA
Statistics
Matches: 181, Mismatches: 19, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
92 30 0.17
93 3 0.02
94 115 0.64
95 14 0.08
96 9 0.05
97 4 0.02
98 6 0.03
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (91 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGGTAAGGCCGAAT
GGCCAATGTGTATAATATGAGACATG
Found at i:55161149 original size:36 final size:37
Alignment explanation
Indices: 55161005--55161148 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
55160995 GGAAATATAT
*
55161005 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55161042 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55161079 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55161116 TCC-GGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55161149 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
36 28 0.28
37 73 0.72
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55164706 original size:43 final size:43
Alignment explanation
Indices: 55164546--55164706 Score: 125
Period size: 43 Copynumber: 3.7 Consensus size: 43
55164536 TAGGATTCTG
* *
55164546 ATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGA
1 ATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGCATC-A
* * * * * *
55164590 CT-TATAATTTACGTGTAAGACCATGTCTAGGACA-TCGACATC-
1 ATATTTGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGCATCA
** * *
55164632 ATATTTGATTTTGTGTAAGACC-CTGTTTGGGACAGTGGCGTCA
1 ATATTTGATTACGTGTAAGACCAC-GTCTGGGACAGTGGCATCA
*
55164675 ATATTTGATTACATGTAAGACCACGTCTGGGA
1 ATATTTGATTACGTGTAAGACCACGTCTGGGA
55164707 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 21, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
42 25 0.28
43 34 0.39
44 29 0.33
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
ATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCATCA
Found at i:55165382 original size:27 final size:26
Alignment explanation
Indices: 55165359--55165420 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
55165349 TGAGGAACTG
*
55165359 GTAATATTATGGCATGAGATGGAATGAA
1 GTAA-ATTAAGGCATGAGATGGAATG-A
*
55165387 GTAAATTAAGGCATGAGATGGAGTGAA
1 GTAAATTAAGGCATGAGATGGAATG-A
55165414 GTAAATT
1 GTAAATT
55165421 GAGGTTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.27
Consensus pattern (26 bp):
GTAAATTAAGGCATGAGATGGAATGA
Found at i:55172404 original size:27 final size:27
Alignment explanation
Indices: 55172374--55172430 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
55172364 ATGACACATA
55172374 ATATGATAACCAAAATGAACTCAAACC
1 ATATGATAACCAAAATGAACTCAAACC
* *
55172401 ATATGATAACTAAAATGAACTTAAACC
1 ATATGATAACCAAAATGAACTCAAACC
55172428 ATA
1 ATA
55172431 ATCAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.23
Consensus pattern (27 bp):
ATATGATAACCAAAATGAACTCAAACC
Found at i:55173266 original size:55 final size:55
Alignment explanation
Indices: 55173168--55173355 Score: 259
Period size: 55 Copynumber: 3.4 Consensus size: 55
55173158 TTCCAGACAG
* ** * *
55173168 GGTCTTACTCACACACATTTACCGAAGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATA-TTAAGTCACATATCAATGCCAACGTATAAAACGT
* *
55173224 GGTCTTACTCGCACACATATATTAAGTCACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCACACACATATATTAAGTCACATATCAATGCCAACGTATAAAACGT
** * * *
55173279 GGTCTTACTCGTACATATATATTGAGTCACATATCAATGCCAATGTATAAAACGT
1 GGTCTTACTCACACACATATATTAAGTCACATATCAATGCCAACGTATAAAACGT
55173334 GGTCTTACTCACACACATATAT
1 GGTCTTACTCACACACATATAT
55173356 CGATGCCATG
Statistics
Matches: 117, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 98 0.84
56 19 0.16
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (55 bp):
GGTCTTACTCACACACATATATTAAGTCACATATCAATGCCAACGTATAAAACGT
Found at i:55175421 original size:56 final size:56
Alignment explanation
Indices: 55175359--55175547 Score: 306
Period size: 56 Copynumber: 3.4 Consensus size: 56
55175349 AAACAGGATA
55175359 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACATGGTC
1 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACATGGTC
* * *
55175415 TTACTCGCACACATATATTGAAGTCACATATCGGTGCCAACGTATAAAACATGGTC
1 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACATGGTC
* * * *
55175471 TTACTTGCACATATATATCGAAGTCACATATCGATGCCAACATATAAAACGTGGTG
1 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACATGGTC
*
55175527 TTAATCGCACACATATATCGA
1 TTACTCGCACACATATATCGA
55175548 TGCCATGGTC
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACATGGTC
Found at i:55177113 original size:177 final size:177
Alignment explanation
Indices: 55176817--55177162 Score: 548
Period size: 177 Copynumber: 2.0 Consensus size: 177
55176807 GGTTGTTACA
* * *
55176817 CATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACACATGTTTTGGCGTTCGGGTACTGGTCTC
1 CATTGAGTTATGGTATGAGTTCATGATGTATGTGACACATGTTTTGGCATTCGGGTACTGGTCTC
** * * *
55176882 GTATATTCTATCATTGGATGGGTAGTCTGGCATGTGTTACAAATACCTGACAGCCTATTTGAGTA
66 ACATATTCTACCATTGGATGGGTAGTCTGACATGTGTTACAAATACCTGACAGCCTATTTGAGCA
* * *
55176947 GACCTGTAAGTAGCTCGAAAACGAGCAAGATGTGTTATGGTCTGAAT
131 AACCCGTAAGTAGCTCGAAAACGAGCAACATGTGTTATGGTCTGAAT
55176994 CATTGAGTTATGGTATGAGTTCATGATGTATGTGACACATGTTTTGGCATTCGGGTACTGGTCTC
1 CATTGAGTTATGGTATGAGTTCATGATGTATGTGACACATGTTTTGGCATTCGGGTACTGGTCTC
* * *
55177059 ACATATTCTACCGTTGGCTGGGTAGTCTGACATGTGTTACGAATACCTGACAGCCTATTTGAGCA
66 ACATATTCTACCATTGGATGGGTAGTCTGACATGTGTTACAAATACCTGACAGCCTATTTGAGCA
* *
55177124 AACCCGTGAGTAGCTCGAAAGCGAGCAACATGTGTTATG
131 AACCCGTAAGTAGCTCGAAAACGAGCAACATGTGTTATG
55177163 TAATATGAGT
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 153 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (177 bp):
CATTGAGTTATGGTATGAGTTCATGATGTATGTGACACATGTTTTGGCATTCGGGTACTGGTCTC
ACATATTCTACCATTGGATGGGTAGTCTGACATGTGTTACAAATACCTGACAGCCTATTTGAGCA
AACCCGTAAGTAGCTCGAAAACGAGCAACATGTGTTATGGTCTGAAT
Found at i:55180859 original size:31 final size:31
Alignment explanation
Indices: 55180821--55180884 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
55180811 CCTTTTCATA
55180821 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
55180852 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
55180883 TT
1 TT
55180885 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:55181154 original size:24 final size:24
Alignment explanation
Indices: 55181075--55181191 Score: 177
Period size: 24 Copynumber: 4.9 Consensus size: 24
55181065 GCTTTATCAT
* *
55181075 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
55181100 ATAACTGGGGCA-AAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
55181122 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
55181146 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
55181170 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
55181192 GACTTCCTCC
Statistics
Matches: 88, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
22 12 0.14
23 15 0.17
24 53 0.60
25 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:55181186 original size:48 final size:46
Alignment explanation
Indices: 55181074--55181191 Score: 175
Period size: 47 Copynumber: 2.5 Consensus size: 46
55181064 TGCTTTATCA
*
55181074 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTT
*
55181121 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTT
55181168 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
55181192 GACTTCCTCC
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
46 21 0.32
47 23 0.35
48 22 0.33
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (46 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCCTTT
Found at i:55181268 original size:11 final size:11
Alignment explanation
Indices: 55181238--55181291 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55181228 ATTTATTACC
55181238 TCATGTGCATA
1 TCATGTGCATA
*
55181249 TCA--TACATA
1 TCATGTGCATA
55181258 TCATGTGCATA
1 TCATGTGCATA
*
55181269 TCA--TACAT-
1 TCATGTGCATA
55181277 TCATGTGCATA
1 TCATGTGCATA
55181288 TCAT
1 TCAT
55181292 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55181282 original size:19 final size:20
Alignment explanation
Indices: 55181238--55181296 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
55181228 ATTTATTACC
55181238 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55181258 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
55181277 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55181297 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:55181371 original size:25 final size:25
Alignment explanation
Indices: 55181339--55181386 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55181329 ATACATAAAC
* * *
55181339 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55181364 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55181387 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55185821 original size:31 final size:31
Alignment explanation
Indices: 55185783--55185846 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
55185773 CCTTTTCATA
55185783 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
55185814 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
55185845 TT
1 TT
55185847 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:55186102 original size:24 final size:24
Alignment explanation
Indices: 55186038--55186178 Score: 207
Period size: 24 Copynumber: 5.9 Consensus size: 24
55186028 GCTTTATCAT
*
55186038 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
55186063 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55186086 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55186109 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
55186133 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55186157 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
55186179 GAACTTCCTC
Statistics
Matches: 110, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
23 40 0.36
24 62 0.56
25 8 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55186127 original size:47 final size:48
Alignment explanation
Indices: 55186038--55186178 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
55186028 GCTTTATCAT
*
55186038 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
55186086 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
55186133 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
55186179 GAACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 12 0.14
47 41 0.47
48 34 0.39
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Done.