Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 200 of 250
Found at i:62273238 original size:112 final size:112
Alignment explanation
Indices: 62273102--62273338 Score: 429
Period size: 112 Copynumber: 2.1 Consensus size: 112
62273092 TTGTACTTTG
*
62273102 GCCCCCTTAAAAATAATAAAAATTTGATTTAATCCATTAAAAATTATAAAAATATAGGCTATTCA
1 GCCCCC-TAAAAATAATAAAAATTTGATTTAATCCATTAAAAATTATAAAAATATAAGCTATTCA
*
62273167 AATGGTGAAATTGCATTTTTACTATAGTAAAAATTACAATTTAATTTC
65 AATGGTGAAATTACATTTTTACTATAGTAAAAATTACAATTTAATTTC
62273215 GCCCCCTAAAAATAATAAAAATTTGATTTAATCCATTAAAAATTATAAAAATATAAGCTATTCAA
1 GCCCCCTAAAAATAATAAAAATTTGATTTAATCCATTAAAAATTATAAAAATATAAGCTATTCAA
* *
62273280 ATGGTGAAATTACATTTTTACTGTCGTAAAAATTACAATTTAATTTC
66 ATGGTGAAATTACATTTTTACTATAGTAAAAATTACAATTTAATTTC
62273327 GCCCCCTAAAAA
1 GCCCCCTAAAAA
62273339 AATTTCTAGC
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
112 114 0.95
113 6 0.05
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (112 bp):
GCCCCCTAAAAATAATAAAAATTTGATTTAATCCATTAAAAATTATAAAAATATAAGCTATTCAA
ATGGTGAAATTACATTTTTACTATAGTAAAAATTACAATTTAATTTC
Found at i:62282483 original size:35 final size:35
Alignment explanation
Indices: 62282431--62282513 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
62282421 CCCCAAATCT
*
62282431 TTAAACCA-TGAATCCCAAACTCATAACACGTAAA-C
1 TTAAACCATTGAA-CCCAAACCCATAACAC-TAAACC
*
62282466 TTGAACCATTGAACCCAAACCCATAACACTAAACC
1 TTAAACCATTGAACCCAAACCCATAACACTAAACC
62282501 TTAAACC-TTGAAC
1 TTAAACCATTGAAC
62282514 ACTAAATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 10 0.23
35 29 0.67
36 4 0.09
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.20
Consensus pattern (35 bp):
TTAAACCATTGAACCCAAACCCATAACACTAAACC
Found at i:62282527 original size:21 final size:21
Alignment explanation
Indices: 62282482--62282539 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
62282472 CATTGAACCC
62282482 AAACCCAT-AACACTAAACCTT
1 AAACCC-TGAACACTAAACCTT
* *
62282503 AAACCTTGAACACTAAA-TTT
1 AAACCCTGAACACTAAACCTT
*
62282523 CAAACCCTGAACCCTAA
1 -AAACCCTGAACACTAA
62282540 GCCTCGAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (21 bp):
AAACCCTGAACACTAAACCTT
Found at i:62283053 original size:10 final size:10
Alignment explanation
Indices: 62283017--62283069 Score: 70
Period size: 10 Copynumber: 5.1 Consensus size: 10
62283007 TCTAAATTTT
62283017 ATTTTTTAAA
1 ATTTTTTAAA
62283027 ATATTTTTAGAA
1 AT-TTTTTA-AA
*
62283039 CTTTTTTAAA
1 ATTTTTTAAA
*
62283049 ATTTTTTATA
1 ATTTTTTAAA
62283059 ATTTTTTAAA
1 ATTTTTTAAA
62283069 A
1 A
62283070 ATATAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 22 0.59
11 12 0.32
12 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:62283207 original size:18 final size:19
Alignment explanation
Indices: 62283186--62283225 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
62283176 CACCAATTTT
62283186 TTATTTTAA-TTATTCGAA
1 TTATTTTAAGTTATTCGAA
62283204 TTA-TTTAAGTTATTCGAA
1 TTATTTTAAGTTATTCGAA
62283222 TTAT
1 TTAT
62283226 AAAATTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTATTTTAAGTTATTCGAA
Found at i:62299298 original size:51 final size:51
Alignment explanation
Indices: 62299227--62299336 Score: 177
Period size: 51 Copynumber: 2.2 Consensus size: 51
62299217 CTGATCACAT
*
62299227 TTATCATTTGTCACTGATCAGATAAGTGTAGCT-AGAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAG-GCTACCACTTATCAC
*
62299278 TTATCACTTGTCACTGATCAGGTAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
*
62299329 TTTTCACT
1 TTATCACT
62299337 GATCAGAAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 53 0.96
52 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
Found at i:62306992 original size:51 final size:51
Alignment explanation
Indices: 62306921--62307081 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
62306911 CTGATCACAT
62306921 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
62306972 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * * *
62307023 TTGTCACTTATCACTGATCAGGTAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
62307074 TTGTCACT
1 TTATCACT
62307082 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:62309706 original size:60 final size:59
Alignment explanation
Indices: 62309640--62309794 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 59
62309630 TAATAAGATT
* * *
62309640 ATTATTAAATATAATTTAATAAAAATATTA-ATAAGTAATTAATTATATT-TTAACATAATT
1 ATTATTAAATATAATTTAATAAAAATAATATATAA-T--TTAATAATATTCTTAACATAATA
* * *
62309700 TTTATTAAATACAAATTT-ATAAAAATAATATATAATTTAATAATATTCTTAATATAATA
1 ATTATTAAATA-TAATTTAATAAAAATAATATATAATTTAATAATATTCTTAACATAATA
* *
62309759 ATTATTAAAATATAAATTAATAAAAATTATAATATA
1 ATTATT-AAATATAATTTAATAAAAATAAT-ATATA
62309795 TAATATTAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
58 10 0.13
59 18 0.23
60 37 0.47
61 14 0.18
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTCTTAACATAATA
Found at i:62316931 original size:19 final size:19
Alignment explanation
Indices: 62316909--62316952 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
62316899 ACAAAATATT
62316909 TATAAACATAAATAAAATA
1 TATAAACATAAATAAAATA
*
62316928 TATAAATATAAATAAAATA
1 TATAAACATAAATAAAATA
62316947 TATAAA
1 TATAAA
62316953 AGAACTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAACATAAATAAAATA
Found at i:62317037 original size:8 final size:8
Alignment explanation
Indices: 62317024--62317049 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
62317014 TTGAGGTAAA
62317024 ATTTGTTT
1 ATTTGTTT
62317032 ATTTGTTT
1 ATTTGTTT
62317040 ATTTGTTT
1 ATTTGTTT
62317048 AT
1 AT
62317050 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (8 bp):
ATTTGTTT
Found at i:62317056 original size:16 final size:16
Alignment explanation
Indices: 62317024--62317073 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
62317014 TTGAGGTAAA
62317024 ATTTGTTTAT-TTGTTT
1 ATTTGTTTATATT-TTT
62317040 ATTTGTTTATATTTTT
1 ATTTGTTTATATTTTT
*
62317056 AATTT-TTTAAATTTTT
1 -ATTTGTTTATATTTTT
62317072 AT
1 AT
62317074 ATACTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 2 0.06
16 23 0.74
17 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
ATTTGTTTATATTTTT
Found at i:62317519 original size:40 final size:40
Alignment explanation
Indices: 62317461--62317539 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
62317451 AAGAATAAAC
62317461 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
1 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
*
62317501 TACATATTATGCTTTGTTTGGATAAACAATAATTGAAAG
1 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAG
62317540 AATGTTGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (40 bp):
TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
Found at i:62323291 original size:46 final size:46
Alignment explanation
Indices: 62323239--62323420 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
62323229 AGTGTGCTCT
* *
62323239 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
62323285 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
62323331 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
62323377 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
62323421 TCACGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:62323726 original size:23 final size:25
Alignment explanation
Indices: 62323681--62323727 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62323671 AATAAATATA
*
62323681 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
62323706 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
62323728 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:62330717 original size:12 final size:12
Alignment explanation
Indices: 62330700--62330726 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62330690 ATATGGTTTA
62330700 TTCAAGGATTTG
1 TTCAAGGATTTG
62330712 TTCAAGGATTTG
1 TTCAAGGATTTG
62330724 TTC
1 TTC
62330727 CACAGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (12 bp):
TTCAAGGATTTG
Found at i:62332350 original size:26 final size:26
Alignment explanation
Indices: 62332320--62332373 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
62332310 TTATTGTAGG
62332320 ACACTTTCAACACATAATTTTATTTT
1 ACACTTTCAACACATAATTTTATTTT
62332346 ACACTTTCAACACATAATTTTATTTT
1 ACACTTTCAACACATAATTTTATTTT
62332372 AC
1 AC
62332374 TTTTCTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (26 bp):
ACACTTTCAACACATAATTTTATTTT
Found at i:62333924 original size:12 final size:12
Alignment explanation
Indices: 62333907--62333931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62333897 GATTGAAAAC
62333907 TAACGACTTAGA
1 TAACGACTTAGA
62333919 TAACGACTTAGA
1 TAACGACTTAGA
62333931 T
1 T
62333932 GACTCTGTCT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TAACGACTTAGA
Found at i:62334382 original size:54 final size:54
Alignment explanation
Indices: 62334323--62334433 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
62334313 CAATTTTAAG
62334323 TCTAACAACTTCATTTTTTTTAAAGCTTTTATTTGTTTTTATCAATGGCGATCA
1 TCTAACAACTTCATTTTTTTTAAAGCTTTTATTTGTTTTTATCAATGGCGATCA
62334377 TCTAACAACTTCATTTTTTTTAAAGCTTTTATTTGTTTTTATCAATGGCGATCA
1 TCTAACAACTTCATTTTTTTTAAAGCTTTTATTTGTTTTTATCAATGGCGATCA
62334431 TCT
1 TCT
62334434 CAAGCTAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.50
Consensus pattern (54 bp):
TCTAACAACTTCATTTTTTTTAAAGCTTTTATTTGTTTTTATCAATGGCGATCA
Found at i:62335174 original size:9 final size:9
Alignment explanation
Indices: 62335153--62335203 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
62335143 TTCAAAATAT
62335153 TTATAAAAA
1 TTATAAAAA
62335162 TTATAAAAA
1 TTATAAAAA
**
62335171 TTAT-ATTA
1 TTATAAAAA
62335179 TT-TAAAAA
1 TTATAAAAA
62335187 TTATAAAAA
1 TTATAAAAA
62335196 TT-TAAAAA
1 TTATAAAAA
62335204 AAATTAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 1 0.03
8 14 0.39
9 21 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TTATAAAAA
Found at i:62336910 original size:20 final size:20
Alignment explanation
Indices: 62336873--62336910 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62336863 TGATGGGGAG
*
62336873 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
62336893 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
62336911 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:62338867 original size:46 final size:46
Alignment explanation
Indices: 62338815--62339083 Score: 389
Period size: 46 Copynumber: 5.9 Consensus size: 46
62338805 TGCTCTCTGT
*
62338815 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
62338861 TATGAAATGTGTAAGACCATGGTTGAAAGAT-CCATGGCAACCTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
62338906 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
* **
62338952 TATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
*** * * *
62338998 TATGAAATGAACAAAACCGTGGTTGAAAGATACCATGGCAACATGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
* * * *
62339044 TA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
62339084 TCATGTCAAA
Statistics
Matches: 202, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 45 0.22
46 157 0.78
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
Found at i:62340966 original size:14 final size:14
Alignment explanation
Indices: 62340947--62340976 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62340937 ACCAACTACT
62340947 TATCAGTAGCATTC
1 TATCAGTAGCATTC
62340961 TATCAGTAGCATTC
1 TATCAGTAGCATTC
62340975 TA
1 TA
62340977 CCTTAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
TATCAGTAGCATTC
Found at i:62345231 original size:14 final size:14
Alignment explanation
Indices: 62345212--62345256 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
62345202 AATAAATTTT
62345212 TTAAAAATAAGAAA
1 TTAAAAATAAGAAA
*
62345226 TTAAAAATAAAAATTA
1 TTAAAAATAAGAA--A
62345242 TTAAAAATAGAGAAA
1 TTAAAAATA-AGAAA
62345257 ACCAATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.46
15 1 0.04
16 10 0.38
17 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (14 bp):
TTAAAAATAAGAAA
Found at i:62346444 original size:19 final size:21
Alignment explanation
Indices: 62346408--62346449 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
62346398 AAAGTTATTG
* *
62346408 TTTGATTTAAGT-TTTTAATA
1 TTTGATTTAAGTAATTAAATA
62346428 TTTGA-TTAAGTAATTAAATA
1 TTTGATTTAAGTAATTAAATA
62346448 TT
1 TT
62346450 AAAAAGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTGATTTAAGTAATTAAATA
Found at i:62346569 original size:22 final size:22
Alignment explanation
Indices: 62346544--62346588 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
62346534 ATGTTAATCT
62346544 AAATACGAAGCAAAATATAATA
1 AAATACGAAGCAAAATATAATA
62346566 AAATACGAAGCAAAATATAATA
1 AAATACGAAGCAAAATATAATA
62346588 A
1 A
62346589 CTTATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (22 bp):
AAATACGAAGCAAAATATAATA
Found at i:62352184 original size:13 final size:13
Alignment explanation
Indices: 62352166--62352197 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
62352156 GGGTCTTTTT
62352166 TTCGAGTTTCGAG
1 TTCGAGTTTCGAG
62352179 TTCGAG-TTCGAG
1 TTCGAGTTTCGAG
62352191 TT-GAGTT
1 TTCGAGTT
62352198 GAATTTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 9 0.50
13 6 0.33
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.41
Consensus pattern (13 bp):
TTCGAGTTTCGAG
Found at i:62357967 original size:80 final size:81
Alignment explanation
Indices: 62357814--62357967 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 81
62357804 ATAATATACC
* * * * *
62357814 TATTTACAATCTAAGAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTATTGTATTTCATATCA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
*
62357879 ATAGTATATACTTATT
66 ATAATATATACTTATT
* * ** *
62357895 TATTTACAATCT-ACAAAAATAAT-AAAAATTTTGTTTATATTGTATTCTACTATATTTTACATA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGT-TATTGTATTCTACTATATTTCACATA
62357958 AATAATATAT
65 AATAATATAT
62357968 CAATATTTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 10 0.16
80 39 0.64
81 12 0.20
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (81 bp):
TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
ATAATATATACTTATT
Found at i:62357975 original size:80 final size:81
Alignment explanation
Indices: 62357814--62357991 Score: 179
Period size: 80 Copynumber: 2.3 Consensus size: 81
62357804 ATAATATACC
* * * * *
62357814 TATTTACAATCTAAGAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTATTGTATTTCATATCA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
* *
62357879 ATAGTATATACTTATT
66 ATAATATATACATATT
* * ** *
62357895 TATTTACAATCT-ACAAAAATAAT-AAAAATTTTGTTTATATTGTATTCTACTATATTTTACATA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGT-TATTGTATTCTACTATATTTCACATA
62357958 AATAATATAT-CA-A--
65 AATAATATATACATATT
* *
62357971 TATTTACAATTTACCAAAAAA
1 TATTTACAATCTAACAAAAAA
62357992 TGAAAAGCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
76 11 0.14
77 6 0.08
78 1 0.01
79 11 0.14
80 39 0.49
81 12 0.15
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (81 bp):
TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
ATAATATATACATATT
Found at i:62359330 original size:17 final size:17
Alignment explanation
Indices: 62359278--62359331 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
62359268 TATTAATGAA
62359278 TTTGAAAATATTATTAA-
1 TTTGAAAA-ATTATTAAT
* *
62359295 GTTGATATAATTGATTAAT
1 TTTGA-AAAATT-ATTAAT
62359314 TTTGAAAAATTATTAAT
1 TTTGAAAAATTATTAAT
62359331 T
1 T
62359332 AATATTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.47
18 12 0.40
19 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
TTTGAAAAATTATTAAT
Found at i:62361582 original size:14 final size:13
Alignment explanation
Indices: 62361562--62361597 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
62361552 TTTGAAAAAA
62361562 AAATTAAAAATAT
1 AAATTAAAAATAT
62361575 AGAATTAAAAAATAT
1 A-AATT-AAAAATAT
62361590 AAATTAAA
1 AAATTAAA
62361598 TCTACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAATTAAAAATAT
Found at i:62361587 original size:15 final size:14
Alignment explanation
Indices: 62361562--62361597 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62361552 TTTGAAAAAA
62361562 AAATT-AAAAATAT
1 AAATTAAAAAATAT
62361575 AGAATTAAAAAATAT
1 A-AATTAAAAAATAT
62361590 AAATTAAA
1 AAATTAAA
62361598 TCTACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 11 0.52
15 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATTAAAAAATAT
Found at i:62362124 original size:13 final size:13
Alignment explanation
Indices: 62362068--62362121 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
62362058 GGTTAGTTTG
*
62362068 ATTAATTAATTCT
1 ATTAATTAATTTT
* *
62362081 ATTAATTGATTTA
1 ATTAATTAATTTT
*
62362094 ATCAATTAATTTT
1 ATTAATTAATTTT
62362107 ATTAATT-ATTTT
1 ATTAATTAATTTT
62362119 ATT
1 ATT
62362122 TAAAAGTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 8 0.24
13 26 0.76
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (13 bp):
ATTAATTAATTTT
Found at i:62364286 original size:24 final size:20
Alignment explanation
Indices: 62364242--62364283 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
62364232 TGTCGACATA
62364242 TAGAACCAATAATATATACT
1 TAGAACCAATAATATATACT
62364262 TAGAACCAATAATATATACT
1 TAGAACCAATAATATATACT
62364282 TA
1 TA
62364284 CTTCCATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (20 bp):
TAGAACCAATAATATATACT
Found at i:62368454 original size:51 final size:51
Alignment explanation
Indices: 62368369--62368516 Score: 190
Period size: 51 Copynumber: 2.9 Consensus size: 51
62368359 CGGATACACG
* * *
62368369 GTGGCCTGCACATAGTACCAC-CGTTGTAGCCAAAGCTATTTTATTTACAAA
1 GTGGCCTTCACATAGTACCACAC-TTGTATCCAAAGCTATTTTATTCACAAA
* * * *
62368420 GTGGGCTTTACATAGTACCACACTTGTTTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTCACAAA
* * *
62368471 GTGGCCTTCACATAGCACTACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTC
62368517 TTAAGGTTTA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 82 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTCACAAA
Found at i:62368572 original size:28 final size:28
Alignment explanation
Indices: 62368540--62368656 Score: 151
Period size: 24 Copynumber: 4.5 Consensus size: 28
62368530 GGGAAATTTC
*
62368540 TCACTTAGCACAATGCTATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
62368568 TCACTTAG----ATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
62368592 TCACTTAGCACACTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
62368620 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
62368644 TCACTTAGCACAA
1 TCACTTAGCACAA
62368657 CGTCATATCC
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
24 45 0.58
28 32 0.42
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:62368596 original size:52 final size:52
Alignment explanation
Indices: 62368540--62368656 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
62368530 GGGAAATTTC
*
62368540 TCACTTAGCACAATGCTATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
62368592 TCACTTAGCACACTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
62368644 TCACTTAGCACAA
1 TCACTTAGCACAA
62368657 CGTCATATCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:62370162 original size:13 final size:13
Alignment explanation
Indices: 62370146--62370183 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
62370136 AAGCAGCTAT
62370146 TAAAATTTTATAA
1 TAAAATTTTATAA
* *
62370159 TAAAA-TTCAAAA
1 TAAAATTTTATAA
62370171 TAAAATTTTATAA
1 TAAAATTTTATAA
62370184 GAATGAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATTTTATAA
Found at i:62371630 original size:17 final size:18
Alignment explanation
Indices: 62371608--62371641 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
62371598 CTTAATGAAA
62371608 AAATAAAATAC-AAAAAG
1 AAATAAAATACGAAAAAG
62371625 AAATAAAATACGAAAAA
1 AAATAAAATACGAAAAA
62371642 ATAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (18 bp):
AAATAAAATACGAAAAAG
Found at i:62371640 original size:32 final size:32
Alignment explanation
Indices: 62371573--62371645 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
62371563 AAAATAGTAT
* **
62371573 AAAAAATAAAATACTAAAAGAATATCTTAATG
1 AAAAAATAAAATACAAAAAGAATATCAAAATG
62371605 AAAAAATAAAATACAAAAAGAA-AT-AAAATACG
1 AAAAAATAAAATACAAAAAGAATATCAAAAT--G
62371637 AAAAAATAA
1 AAAAAATAA
62371646 CTTTTTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 2 0.06
32 31 0.86
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (32 bp):
AAAAAATAAAATACAAAAAGAATATCAAAATG
Found at i:62372373 original size:41 final size:41
Alignment explanation
Indices: 62372328--62372410 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
62372318 TTAAAATTAA
62372328 TAACCGAAATTTATTTTGAAATTACAGGCATCGCAATGGCT
1 TAACCGAAATTTATTTTGAAATTACAGGCATCGCAATGGCT
62372369 TAACCGAAATTTATTTTGAAATTACAGGCATCGCAATGGCT
1 TAACCGAAATTTATTTTGAAATTACAGGCATCGCAATGGCT
62372410 T
1 T
62372411 CATTGATTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (41 bp):
TAACCGAAATTTATTTTGAAATTACAGGCATCGCAATGGCT
Found at i:62373792 original size:7 final size:7
Alignment explanation
Indices: 62373771--62373846 Score: 98
Period size: 7 Copynumber: 10.9 Consensus size: 7
62373761 TACACTTATC
*
62373771 TGATCAG
1 TGATAAG
*
62373778 TGACAAG
1 TGATAAG
62373785 TGATAAG
1 TGATAAG
62373792 TGATAAG
1 TGATAAG
62373799 TGATAAG
1 TGATAAG
62373806 TGATAAG
1 TGATAAG
62373813 TGATAAG
1 TGATAAG
*
62373820 TGACAAG
1 TGATAAG
* *
62373827 TGACAAA
1 TGATAAG
*
62373834 TGACAAG
1 TGATAAG
62373841 TGATAA
1 TGATAA
62373847 ATGTGATCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (7 bp):
TGATAAG
Found at i:62376331 original size:28 final size:28
Alignment explanation
Indices: 62376294--62376347 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
62376284 GAACTTCTGA
62376294 TTTTGGTTTTTATTTGT-GTTTTTTTATT
1 TTTTGG-TTTTATTTGTGGTTTTTTTATT
* *
62376322 TTTTTGTTTTATTTTTGGTTTTTTTA
1 TTTTGGTTTTATTTGTGGTTTTTTTA
62376348 ATTTCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (28 bp):
TTTTGGTTTTATTTGTGGTTTTTTTATT
Found at i:62376358 original size:27 final size:27
Alignment explanation
Indices: 62376301--62376358 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
62376291 TGATTTTGGT
* * *
62376301 TTTTATTTGTGTTTTTTTATTTTTTTG
1 TTTTATTTGTGTTTTTTTATATTTCTA
*
62376328 TTTTATTTTTGGTTTTTTTA-ATTTCTA
1 TTTTATTTGT-GTTTTTTTATATTTCTA
62376355 TTTT
1 TTTT
62376359 TATTCCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.10, C:0.02, G:0.09, T:0.79
Consensus pattern (27 bp):
TTTTATTTGTGTTTTTTTATATTTCTA
Found at i:62376359 original size:28 final size:26
Alignment explanation
Indices: 62376300--62376362 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
62376290 CTGATTTTGG
* *
62376300 TTTTTATTTGTGTTTTTTTATTTTTT
1 TTTTTATTTGTGTTTTTTTATTTCTA
*
62376326 TGTTTTATTTTTGGTTTTTTTAATTTCTA
1 T-TTTTATTTGT-GTTTTTTT-ATTTCTA
62376355 TTTTTATT
1 TTTTTATT
62376363 CCAATGGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 9 0.29
28 15 0.48
29 6 0.19
ACGTcount: A:0.11, C:0.02, G:0.08, T:0.79
Consensus pattern (26 bp):
TTTTTATTTGTGTTTTTTTATTTCTA
Found at i:62377712 original size:20 final size:20
Alignment explanation
Indices: 62377674--62377721 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
62377664 TAAATTCTAA
* **
62377674 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
62377694 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
62377714 AAA-ATAAA
1 AAAGATAAA
62377722 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:62378546 original size:14 final size:14
Alignment explanation
Indices: 62378527--62378562 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
62378517 TCTTTATAAT
62378527 GATACTATTCTAAC
1 GATACTATTCTAAC
62378541 GATACTATTCTAAC
1 GATACTATTCTAAC
62378555 GATACTAT
1 GATACTAT
62378563 ATTTACTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:62379461 original size:33 final size:33
Alignment explanation
Indices: 62379397--62379473 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
62379387 ATTGGGTCGA
* *** * *
62379397 ATCCACCGCAGTACAGTACTTTTCTCGGCCCGT
1 ATCCACCGCAGTACAGCACTACCCCCAGCCCGT
62379430 ATCCACCGCAGTACAGCACTACCCCCAGCCCGT
1 ATCCACCGCAGTACAGCACTACCCCCAGCCCGT
*
62379463 ATGCACCGCAG
1 ATCCACCGCAG
62379474 CATGGCACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.22, C:0.42, G:0.18, T:0.18
Consensus pattern (33 bp):
ATCCACCGCAGTACAGCACTACCCCCAGCCCGT
Found at i:62383428 original size:12 final size:12
Alignment explanation
Indices: 62383386--62383435 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
62383376 ACACATAATT
62383386 AATCTAAATACA
1 AATCTAAATACA
*
62383398 AAACTAAA-ACA
1 AATCTAAATACA
*
62383409 CATACTAAATACA
1 AAT-CTAAATACA
62383422 AATCTAAATACA
1 AATCTAAATACA
62383434 AA
1 AA
62383436 ATTAAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.20
Consensus pattern (12 bp):
AATCTAAATACA
Found at i:62383441 original size:12 final size:12
Alignment explanation
Indices: 62383389--62383442 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
62383379 CATAATTAAT
62383389 CTAAATACAAAA
1 CTAAATACAAAA
*
62383401 CTAAA-ACACATA
1 CTAAATACA-AAA
*
62383413 CTAAATACAAAT
1 CTAAATACAAAA
62383425 CTAAATACAAAA
1 CTAAATACAAAA
*
62383437 TTAAAT
1 CTAAAT
62383443 TAGTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 3 0.09
12 29 0.83
13 3 0.09
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (12 bp):
CTAAATACAAAA
Found at i:62383768 original size:13 final size:13
Alignment explanation
Indices: 62383729--62383771 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
62383719 TTCTCCTTCC
62383729 TTCTTTCTCTCTATT
1 TTCTTTCT-TCT-TT
*
62383744 CTCTTT-TTCTTT
1 TTCTTTCTTCTTT
62383756 TTCTTTCTTCTTT
1 TTCTTTCTTCTTT
62383769 TTC
1 TTC
62383772 CCTCACCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 1 0.04
15 5 0.20
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCTTTCTTCTTT
Found at i:62384683 original size:20 final size:20
Alignment explanation
Indices: 62384646--62384683 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62384636 ATAAATTTAT
* *
62384646 AGATTAAATTTATTAAATAA
1 AGATTAAATTGATAAAATAA
62384666 AGATTAAATTGATAAAAT
1 AGATTAAATTGATAAAAT
62384684 TTGTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
AGATTAAATTGATAAAATAA
Found at i:62386164 original size:6 final size:6
Alignment explanation
Indices: 62386153--62386181 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
62386143 CTGCTCTAAT
62386153 ACCTCC ACCTCC ACCTCC ACCTCC ACCTC
1 ACCTCC ACCTCC ACCTCC ACCTCC ACCTC
62386182 AAACTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.66, G:0.00, T:0.17
Consensus pattern (6 bp):
ACCTCC
Found at i:62386918 original size:34 final size:34
Alignment explanation
Indices: 62386875--62386944 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
62386865 AGTGTCAGAA
62386875 CAACTTAGCCTAAAAGAAAAGGAACATCCTAGGG
1 CAACTTAGCCTAAAAGAAAAGGAACATCCTAGGG
62386909 CAACTTAGCCTAAAAGAAAAGGAACATCCTAGGG
1 CAACTTAGCCTAAAAGAAAAGGAACATCCTAGGG
62386943 CA
1 CA
62386945 TTGTTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.14
Consensus pattern (34 bp):
CAACTTAGCCTAAAAGAAAAGGAACATCCTAGGG
Found at i:62391741 original size:18 final size:18
Alignment explanation
Indices: 62391718--62391776 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
62391708 AACTCTTTTG
62391718 CTTTTAGATTCAAAAGCA
1 CTTTTAGATTCAAAAGCA
* *
62391736 CTTTTA-ACTCCAAAAGTTA
1 CTTTTAGA-TTCAAAAG-CA
*
62391755 TTTATTAGATTCAAAAGCA
1 CTT-TTAGATTCAAAAGCA
62391774 CTT
1 CTT
62391777 CTTACTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
19 6 0.19
20 10 0.32
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (18 bp):
CTTTTAGATTCAAAAGCA
Found at i:62392367 original size:25 final size:25
Alignment explanation
Indices: 62392318--62392369 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
62392308 TTAATTTTAG
*
62392318 AAAAAGAAAAATATAAAATATAAAA
1 AAAAAGAAAAAAATAAAATATAAAA
*
62392343 AAAAAGAAAAACAATGAAATA-AAAA
1 AAAAAGAAAAA-AATAAAATATAAAA
62392368 AA
1 AA
62392370 TATAACTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.12
Consensus pattern (25 bp):
AAAAAGAAAAAAATAAAATATAAAA
Found at i:62392942 original size:31 final size:31
Alignment explanation
Indices: 62392904--62392965 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
62392894 AAACTACTCA
62392904 TATCCTACAATATCTATAGTAAATTATATTC
1 TATCCTACAATATCTATAGTAAATTATATTC
62392935 TATCCTACAATATCTATAGTAAATTATATTC
1 TATCCTACAATATCTATAGTAAATTATATTC
62392966 GAATTCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (31 bp):
TATCCTACAATATCTATAGTAAATTATATTC
Found at i:62397053 original size:36 final size:36
Alignment explanation
Indices: 62396993--62397104 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 36
62396983 GGTTTCATTT
* * *
62396993 AGTAACATTCAATTATTCAGTAGCAGTTAGTTATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
* * * *
62397029 AGTAACAATCATTTGCTCAATAGCAATCAGTTATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
* * ** *
62397065 AGTAACGATCAATTATTCAATAATAGTTAGTCATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
62397101 AGTA
1 AGTA
62397105 CTTTTATTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
Found at i:62397075 original size:18 final size:18
Alignment explanation
Indices: 62396993--62397083 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 18
62396983 GGTTTCATTT
* *
62396993 AGTAACATTCAATTATTC
1 AGTAACAATCAGTTATTC
* * *
62397011 AGTAGCAGTTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
62397029 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
* *
62397047 AATAGCAATCAGTTATTC
1 AGTAACAATCAGTTATTC
* *
62397065 AGTAACGATCAATTATTC
1 AGTAACAATCAGTTATTC
62397083 A
1 A
62397084 ATAATAGTTA
Statistics
Matches: 54, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:62398042 original size:12 final size:11
Alignment explanation
Indices: 62398019--62398052 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
62398009 TTTGTTACTC
62398019 AATTTCTATTT
1 AATTTCTATTT
62398030 AATTTCTACTTT
1 AATTTCTA-TTT
*
62398042 AATTTCAATTT
1 AATTTCTATTT
62398053 TAATCTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (11 bp):
AATTTCTATTT
Found at i:62398562 original size:13 final size:13
Alignment explanation
Indices: 62398523--62398564 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
62398513 TTTATTTTAT
62398523 ATATATTATAATA
1 ATATATTATAATA
62398536 ATATAATT-TAATA
1 ATAT-ATTATAATA
62398549 ATATACTTAT-ATA
1 ATATA-TTATAATA
62398562 ATA
1 ATA
62398565 AGTAAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 21 0.81
14 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATATTATAATA
Found at i:62400714 original size:13 final size:14
Alignment explanation
Indices: 62400690--62400718 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62400680 GTGTATATGG
62400690 AAAATTCATTTTAA
1 AAAATTCATTTTAA
62400704 AAAATTC-TTTTAA
1 AAAATTCATTTTAA
62400717 AA
1 AA
62400719 TGGTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTCATTTTAA
Found at i:62406048 original size:53 final size:54
Alignment explanation
Indices: 62405985--62406091 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 54
62405975 CTTAAATATA
* *
62405985 TAATTAAATTAACTATGGTAATGGCAATCACATGCA-TTTTTTCATGCATGGCC
1 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCC
62406038 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCC
1 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCC
62406092 CTAAAGAGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 34 0.67
54 17 0.33
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (54 bp):
TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCC
Found at i:62408764 original size:2 final size:2
Alignment explanation
Indices: 62408757--62408788 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62408747 AAGGGGACTT
62408757 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
62408789 TAGATAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:62424440 original size:21 final size:21
Alignment explanation
Indices: 62424414--62424454 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62424404 ATCTGCTCAA
* *
62424414 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
62424435 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
62424455 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:62429330 original size:131 final size:131
Alignment explanation
Indices: 62429157--62429546 Score: 477
Period size: 131 Copynumber: 3.0 Consensus size: 131
62429147 TTTAGAGAGT
* * * * * *
62429157 ATGAGTGAAATTCTAAAGGAATC-TTCGATCATTTTGAACAAAC-AGGAGATCGCAACCCAGCAC
1 ATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAACGA-GAAATTGCAACCCAGCAC
* * * * * **
62429220 GATAGGGCACGATTTCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTGGAGAATTTTTAAA
64 GTTAGGGCACGA-TTCCAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAA
*
62429285 CG-C
128 CGAA
* *
62429288 ATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
** *
62429353 TAGGGCACGATTCTGTGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAA-TTTTAAAGG
66 TAGGGCACGATTC-CAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAACG
62429417 AATA
130 -A-A
62429421 ATGAATGAAATTCTAAAGGGACATTCGA-TA-TTTGAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* * *
62429484 TATGGCACGATTCCGAGAATTGCCAAATATCGAACACCGCCTTCATTTTAAAGAATTTTTAAA
66 TAGGGCACGATTCC-AGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAA
62429547 TGAATAATTG
Statistics
Matches: 226, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
130 12 0.05
131 177 0.78
132 10 0.04
133 27 0.12
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACGATTCCAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAACGA
A
Found at i:62438549 original size:19 final size:18
Alignment explanation
Indices: 62438527--62438566 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
62438517 TGAATAAAAC
*
62438527 TTATTTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
62438546 TTATCTAGCTAAATAAAT
1 TTATCTACCTAAATAAAT
62438564 TTA
1 TTA
62438567 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:62443123 original size:42 final size:42
Alignment explanation
Indices: 62443077--62443166 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
62443067 ACTTAAATAG
*
62443077 AGAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
62443119 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
62443161 ATAAAA
1 AGAAAA
62443167 ATATTCTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:62443213 original size:19 final size:18
Alignment explanation
Indices: 62443191--62443230 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
62443181 TGAATAAAAC
*
62443191 TTATCTATCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
62443210 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
62443228 TTA
1 TTA
62443231 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:62459018 original size:121 final size:121
Alignment explanation
Indices: 62458855--62459096 Score: 423
Period size: 121 Copynumber: 2.0 Consensus size: 121
62458845 ACAAGTGGAT
* *
62458855 GTTTAGGTTCAGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTATTTTGGAA
1 GTTTAGATTCAGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTATTTGGGAA
*
62458920 GTGAAATATTTTTTTATTAATTTATATATATATTAAAAAAAATTAAAGATTATATA
66 GTGAAATAATTTTTTATTAATTTATATATATATTAAAAAAAATTAAAGATTATATA
62458976 GTTTAGATTCAGATGAATGTGGACAATTAAACTTA-AGCATTCATTTGTTCAAATTTATTTGGGA
1 GTTTAGATTCAGATGAATGTGGACAATTAAACTTAGA-CATTCATTTGTTCAAATTTATTTGGGA
* *
62459040 AGTGAAATAATTTTTTATTAATTTATATATATTTTTAAAAAAATTAAAGATTATATA
65 AGTGAAATAATTTTTTATTAATTTATATATATATTAAAAAAAATTAAAGATTATATA
62459097 ATTTCTTTTT
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 1 0.01
121 114 0.99
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (121 bp):
GTTTAGATTCAGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTATTTGGGAA
GTGAAATAATTTTTTATTAATTTATATATATATTAAAAAAAATTAAAGATTATATA
Found at i:62459592 original size:3 final size:3
Alignment explanation
Indices: 62459584--62459613 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
62459574 CGTCTGCCAT
62459584 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
62459614 TTCCTTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
GTC
Found at i:62461147 original size:15 final size:16
Alignment explanation
Indices: 62461113--62461147 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
62461103 TCTTGATGCC
*
62461113 AAAATCTACCTTGAGA
1 AAAACCTACCTTGAGA
62461129 AAAACCTACCTTGAGA
1 AAAACCTACCTTGAGA
62461145 AAA
1 AAA
62461148 TTAATATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (16 bp):
AAAACCTACCTTGAGA
Found at i:62462401 original size:26 final size:24
Alignment explanation
Indices: 62462343--62462400 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
62462333 ATTAAATTAA
62462343 TTCTGTGTGTCTTTGTGCATGTGG
1 TTCTGTGTGTCTTTGTGCATGTGG
62462367 TTCTGTGTGTCTTTGTGCATGTGG
1 TTCTGTGTGTCTTTGTGCATGTGG
62462391 TTCTGTGTGT
1 TTCTGTGTGT
62462401 GTCTTCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.03, C:0.12, G:0.33, T:0.52
Consensus pattern (24 bp):
TTCTGTGTGTCTTTGTGCATGTGG
Found at i:62473620 original size:17 final size:19
Alignment explanation
Indices: 62473581--62473620 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
62473571 TACAATCTAG
*
62473581 ACAGAGAAGTTTTATAATC
1 ACAGAGAAGTTTTATAAGC
62473600 -CAGA-AAGTTTTA-AAGC
1 ACAGAGAAGTTTTATAAGC
62473616 ACAGA
1 ACAGA
62473621 TGAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.16
17 12 0.63
18 4 0.21
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
ACAGAGAAGTTTTATAAGC
Found at i:62483606 original size:11 final size:12
Alignment explanation
Indices: 62483583--62483609 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62483573 CAAAAATATA
62483583 TTTTTAAATTTT
1 TTTTTAAATTTT
62483595 TTTTTAAATTTT
1 TTTTTAAATTTT
62483607 TTT
1 TTT
62483610 ATTTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTAAATTTT
Found at i:62483619 original size:15 final size:13
Alignment explanation
Indices: 62483583--62483616 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
62483573 CAAAAATATA
62483583 TTTTTAAA-TTTT
1 TTTTTAAATTTTT
62483595 TTTTTAAATTTTT
1 TTTTTAAATTTTT
62483608 TTATTTAAA
1 TT-TTTAAA
62483617 ATTAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 6 0.30
14 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAAATTTTT
Found at i:62499409 original size:12 final size:12
Alignment explanation
Indices: 62499392--62499438 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
62499382 AAAATAAAAA
62499392 AATATATCAACT
1 AATATATCAACT
62499404 AATATATCAACT
1 AATATATCAACT
*
62499416 AAT-T-T-TA-T
1 AATATATCAACT
62499424 AATATATCAACT
1 AATATATCAACT
62499436 AAT
1 AAT
62499439 TTTCTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.14
9 2 0.07
10 2 0.07
11 2 0.07
12 19 0.66
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATCAACT
Found at i:62499446 original size:24 final size:20
Alignment explanation
Indices: 62499403--62499441 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
62499393 ATATATCAAC
62499403 TAATATATCAACTAATTTTA
1 TAATATATCAACTAATTTTA
62499423 TAATATATCAACTAATTTT
1 TAATATATCAACTAATTTT
62499442 CTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATATATCAACTAATTTTA
Found at i:62511317 original size:16 final size:17
Alignment explanation
Indices: 62511296--62511333 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
62511286 TTATATTTAA
62511296 TAATATAA-TGAATTAT
1 TAATATAACTGAATTAT
* *
62511312 TAATATAACTTAATTTT
1 TAATATAACTGAATTAT
62511329 TAATA
1 TAATA
62511334 AATTATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATATAACTGAATTAT
Found at i:62516371 original size:17 final size:18
Alignment explanation
Indices: 62516335--62516372 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
62516325 TTGGGCCGGG
62516335 CACTAGTCTCTTCATAAA
1 CACTAGTCTCTTCATAAA
* *
62516353 CACTAGT-TTTTCTTAAA
1 CACTAGTCTCTTCATAAA
62516370 CAC
1 CAC
62516373 AAGCACTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (18 bp):
CACTAGTCTCTTCATAAA
Found at i:62517438 original size:3 final size:3
Alignment explanation
Indices: 62517430--62517527 Score: 99
Period size: 3 Copynumber: 32.3 Consensus size: 3
62517420 TTTGTTAATT
*
62517430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * *
62517476 TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
62517521 TCA TTA T
1 TTA TTA T
62517528 ATTTATACCT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 1 0.01
3 73 0.94
4 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:62517703 original size:36 final size:34
Alignment explanation
Indices: 62517663--62517731 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
62517653 CATATTTTCG
62517663 TATATTTTATAA-TTTGTATATACATATACTTATATC
1 TATATTTTATAACTTT-TATA-A-ATATACTTATATC
* *
62517699 TATATTTTCTAACTTTTATAAATATATTTATAT
1 TATATTTTATAACTTTTATAAATATACTTATAT
62517732 GTACATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.37
35 1 0.03
36 15 0.50
37 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (34 bp):
TATATTTTATAACTTTTATAAATATACTTATATC
Found at i:62517851 original size:14 final size:14
Alignment explanation
Indices: 62517834--62517864 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62517824 CTATTTACTC
*
62517834 TTTTTTATTTTTAT
1 TTTTTTATTATTAT
62517848 TTTTTTATTATTAT
1 TTTTTTATTATTAT
62517862 TTT
1 TTT
62517865 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTATTATTAT
Found at i:62528838 original size:1 final size:1
Alignment explanation
Indices: 62528832--62528864 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
62528822 TTTGCTTCCT
62528832 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62528865 CTTTGGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62530190 original size:44 final size:44
Alignment explanation
Indices: 62530073--62530700 Score: 291
Period size: 44 Copynumber: 14.6 Consensus size: 44
62530063 ATAATACAGG
* * *
62530073 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GT-A-A
*
62530119 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
62530163 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---G--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * *
62530202 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTAA
*
62530243 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
62530287 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---G--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
62530326 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTAA
* * * * * *
62530367 TCTTATCTCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-ATAGTA-A
* * * *
62530413 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * *
62530456 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAG-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT--AGTAA
* * * *
62530500 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG-AT-AGTAA
* * * * * * *
62530541 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-ATAGTA-A
* ** **
62530587 TCTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATAGTA-A
* * * * *
62530631 TCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACT-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
*
62530674 TCCTATCTCCCTGA-AGTTACAGTGGAG
1 TCTTATCTCCCTGAGA-TTACAGTGGAG
62530701 TGGGTTAAAA
Statistics
Matches: 445, Mismatches: 97, Indels: 83
0.71 0.16 0.13
Matches are distributed among these distances:
37 2 0.00
38 2 0.00
39 48 0.11
41 86 0.19
42 9 0.02
43 60 0.13
44 135 0.30
45 5 0.01
46 97 0.22
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
Found at i:62530334 original size:124 final size:124
Alignment explanation
Indices: 62530114--62530386 Score: 537
Period size: 124 Copynumber: 2.2 Consensus size: 124
62530104 CCAAAGAATT
62530114 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
62530179 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
66 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
62530238 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
62530303 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
66 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
*
62530362 TCAGGTCTTATCTCCCTGAGATTAC
1 TCAGATCTTATCTCCCTGAGATTAC
62530387 GGTGGAACAG
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 148 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (124 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
Found at i:62530540 original size:174 final size:170
Alignment explanation
Indices: 62530239--62530651 Score: 562
Period size: 174 Copynumber: 2.4 Consensus size: 170
62530229 AAGATCACAT
* * *
62530239 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGAT
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGAT
62530304 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
66 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
*
62530369 TTATCTCCCTGAGATTACGGTGGAACAGACCGAAGAATTG
131 TTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
*
62530409 CAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AG
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-
* * *
62530472 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
* * **
62530537 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTG
125 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
* * * * ** * *
62530583 CAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCCGAGA
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTA-ATCCTATCTCCCTGAGA
62530647 TTACA
65 TTACA
62530652 GCGGAGCAGA
Statistics
Matches: 213, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
168 1 0.00
169 30 0.14
170 42 0.20
174 121 0.57
175 18 0.08
176 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (170 bp):
CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGAT
TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
TTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
Found at i:62530589 original size:87 final size:87
Alignment explanation
Indices: 62530324--62530696 Score: 303
Period size: 87 Copynumber: 4.3 Consensus size: 87
62530314 CGGATTAAAG
* * * * *
62530324 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACGG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
*
62530389 TGGAACAGACCGAAGAATTGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
62530411 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
62530475 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
62530497 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
62530562 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * * *
62530585 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
62530650 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
62530671 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
62530697 GGAGTGGGTT
Statistics
Matches: 220, Mismatches: 54, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
85 28 0.13
86 7 0.03
87 117 0.53
88 8 0.04
89 29 0.13
90 31 0.14
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:62530593 original size:46 final size:45
Alignment explanation
Indices: 62530324--62530700 Score: 209
Period size: 46 Copynumber: 8.6 Consensus size: 45
62530314 CGGATTAAAG
* * * * *
62530324 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CA-TCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * *
62530365 GGTCTTATCTCCCTG-AGATTACGGTGGAACAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATT-CA
* * * *
62530411 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-TCA
* * ** **
62530455 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * * *
62530497 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * *
62530539 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATT-CA
* ** * *
62530585 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA--GA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-AATTCA
* * *
62530629 GATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAG-A--CA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATTCA
* *
62530671 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAG
62530701 TGGGTTAAAA
Statistics
Matches: 258, Mismatches: 55, Indels: 44
0.72 0.15 0.12
Matches are distributed among these distances:
40 2 0.01
41 56 0.22
42 8 0.03
43 53 0.21
44 66 0.26
45 4 0.02
46 67 0.26
47 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
Found at i:62530663 original size:131 final size:128
Alignment explanation
Indices: 62530413--62530664 Score: 276
Period size: 131 Copynumber: 1.9 Consensus size: 128
62530403 GAATTGCAGA
* * *
62530413 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
* * * * * *
62530478 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
* * * *
62530541 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAGTT
* * * *
62530605 ACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCG
62 ACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCCGAAG-TTACAGCAGAGCAGATCG
62530665 AAGACACTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.01
128 34 0.34
130 5 0.05
131 61 0.60
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
Found at i:62530690 original size:174 final size:174
Alignment explanation
Indices: 62530239--62530701 Score: 485
Period size: 174 Copynumber: 2.7 Consensus size: 174
62530229 AAGATCACAT
* * * **
62530239 CAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AG
1 CAGATCTTATCCCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG-AATCCTATCTCCCCGAAG
** * * *
62530302 ATTACAATGGAGCGGATT-AAAG----GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
64 -TTACAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACA
*
62530362 TCAGGTCTTATCTCCCTGAGATTACGGTGGAACAGACCGAAGAATTG
128 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
* * * * * *
62530409 CAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAGAATCCTATCTCCCCGAAGTT
* * * * * *
62530474 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
* * **
62530539 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTG
131 GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
* * * *
62530583 CAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCG-AGA
1 CAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAGA-ATCCTATCTCCCCGAAG-
** * * * *
62530647 TTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGT
64 TTACAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAGTAGAGT
62530702 GGGTTAAAAT
Statistics
Matches: 249, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
169 30 0.12
170 44 0.18
171 1 0.00
174 149 0.60
175 25 0.10
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (174 bp):
CAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAGAATCCTATCTCCCCGAAGTT
ACAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTG
Found at i:62532003 original size:3 final size:3
Alignment explanation
Indices: 62531995--62532089 Score: 93
Period size: 3 Copynumber: 31.3 Consensus size: 3
62531985 TTTGTTAATT
*
62531995 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA
* * * * * * *
62532041 TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62532089 T
1 T
62532090 ATTTATACCT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 70 0.93
4 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:62532265 original size:36 final size:34
Alignment explanation
Indices: 62532225--62532293 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
62532215 CATATTTTCG
62532225 TATATTTTATAA-TTTGTATATACATATACTTATATC
1 TATATTTTATAACTTT-TATA-A-ATATACTTATATC
* *
62532261 TATATTTTCTAACTTTTATAAATATATTTATAT
1 TATATTTTATAACTTTTATAAATATACTTATAT
62532294 GTACATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.37
35 1 0.03
36 15 0.50
37 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (34 bp):
TATATTTTATAACTTTTATAAATATACTTATATC
Found at i:62532413 original size:14 final size:14
Alignment explanation
Indices: 62532396--62532426 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62532386 CTATTTACTC
*
62532396 TTTTTTATTTTTAT
1 TTTTTTATTATTAT
62532410 TTTTTTATTATTAT
1 TTTTTTATTATTAT
62532424 TTT
1 TTT
62532427 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTATTATTAT
Found at i:62535014 original size:92 final size:93
Alignment explanation
Indices: 62534884--62535068 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
62534874 AGCAATCCTT
62534884 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
62534949 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
* *
62534977 TTCTTCGCCTTTGTTTAC-TTTGTTAGGATTGAGCTCTGATTAGAGGTTTTGTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
62535041 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
62535069 CTGGCAGCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 73 0.81
93 17 0.19
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.56
Consensus pattern (93 bp):
TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:62541246 original size:20 final size:21
Alignment explanation
Indices: 62541218--62541258 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62541208 TTCAATTCTA
62541218 AAATATTAAAT-GATTTATTT
1 AAATATTAAATCGATTTATTT
* *
62541238 AAATTTTAAATCTATTTATTT
1 AAATATTAAATCGATTTATTT
62541259 TTAAGTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATATTAAATCGATTTATTT
Found at i:62541805 original size:22 final size:22
Alignment explanation
Indices: 62541779--62541828 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
62541769 ACTCTAGTGG
*
62541779 ATATTTTGAGAAAATAAAA-AAA
1 ATATTTT-AAAAAATAAAATAAA
62541801 ATA-TTTAAAAAATAAAATAAA
1 ATATTTTAAAAAATAAAATAAA
62541822 A-ATTTTA
1 ATATTTTA
62541829 TTTTAGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.44
21 11 0.44
22 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATTTTAAAAAATAAAATAAA
Found at i:62542020 original size:29 final size:30
Alignment explanation
Indices: 62541988--62542049 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
62541978 CAATTTGATG
*
62541988 CATGAAA-TTTGATTTG-ATACAATTATACA
1 CATGAAACTTTGATTTGAAT-CAAATATACA
*
62542017 CATGAAACTTTTATTTGAATCAAATATACA
1 CATGAAACTTTGATTTGAATCAAATATACA
62542047 CAT
1 CAT
62542050 TTAAAGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.24
30 20 0.69
31 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (30 bp):
CATGAAACTTTGATTTGAATCAAATATACA
Found at i:62542251 original size:31 final size:29
Alignment explanation
Indices: 62542174--62542251 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
62542164 AAATTTGATC
* *
62542174 AAATCAAAATTCCATATATAAAATTGCACA
1 AAATCAAAATT-CATGTATAAAATTACACA
* * *
62542204 AAACCAAAGTTCATGTATAGAATTACACA
1 AAATCAAAATTCATGTATAAAATTACACA
62542233 TTAAATCAAAATTCATGTA
1 --AAATCAAAATTCATGTA
62542252 AGTGTCACGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 15 0.38
30 9 0.23
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:62547868 original size:35 final size:35
Alignment explanation
Indices: 62547800--62547877 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
62547790 GTAAACAACA
* * *
62547800 TAATATTATTAAAATCACAATACATTTATATTATG
1 TAATATTATTAAAATCACAATACATTAAAATTATC
62547835 TAATATTATTAAAATCA-AATA-ATACTAAAATTATC
1 TAATATTATTAAAATCACAATACAT--TAAAATTATC
*
62547870 AAATATTA
1 TAATATTA
62547878 AATTATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.05
34 4 0.11
35 31 0.84
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (35 bp):
TAATATTATTAAAATCACAATACATTAAAATTATC
Found at i:62562724 original size:16 final size:16
Alignment explanation
Indices: 62562703--62562735 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62562693 TAGAGAGAGT
62562703 AAGCGTGCTCAGTTGG
1 AAGCGTGCTCAGTTGG
62562719 AAGCGTGCTCAGTTGG
1 AAGCGTGCTCAGTTGG
62562735 A
1 A
62562736 TGTGTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.24
Consensus pattern (16 bp):
AAGCGTGCTCAGTTGG
Found at i:62566172 original size:13 final size:14
Alignment explanation
Indices: 62566147--62566179 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
62566137 TTTTCTCATC
62566147 TTCT-TCCCAAAAA
1 TTCTATCCCAAAAA
62566160 TTCTATCCCAAAAA
1 TTCTATCCCAAAAA
62566174 TTCTAT
1 TTCTAT
62566180 GGAGACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (14 bp):
TTCTATCCCAAAAA
Found at i:62570699 original size:22 final size:22
Alignment explanation
Indices: 62570671--62570714 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62570661 TCTTCTATCA
62570671 AGGTCTACAGCAAAATCAACAT
1 AGGTCTACAGCAAAATCAACAT
*
62570693 AGGTCTATAGCAAAATCAACAT
1 AGGTCTACAGCAAAATCAACAT
62570715 CAACATACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (22 bp):
AGGTCTACAGCAAAATCAACAT
Found at i:62572431 original size:13 final size:13
Alignment explanation
Indices: 62572415--62572446 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62572405 CTCCGTAATA
62572415 GTTCTGTTGATTC
1 GTTCTGTTGATTC
62572428 GTTCTGTTGATTC
1 GTTCTGTTGATTC
*
62572441 ATTCTG
1 GTTCTG
62572447 CAACGCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.22, T:0.53
Consensus pattern (13 bp):
GTTCTGTTGATTC
Found at i:62574186 original size:5 final size:5
Alignment explanation
Indices: 62574176--62574203 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62574166 CAATTTGTGA
62574176 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62574204 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:62594661 original size:42 final size:42
Alignment explanation
Indices: 62594605--62594745 Score: 122
Period size: 42 Copynumber: 3.4 Consensus size: 42
62594595 TTGTCTTTAC
* * * *
62594605 TTTCCGTTTAGCTCTCACAAGCTTTTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACAAGCTTTTATTTAACCCATATGAG
* ** *
62594647 TTTTCGTTCAGCTCTTTTGAA-CTTTTATTTAACCCTTATGAG
1 TTTCCGTTCAGCTC-TTACAAGCTTTTATTTAACCCATATGAG
* * * * * *
62594689 TTTCCGTTCAGCTCTTACGAGCTTTCATTCAACACTTATGGG
1 TTTCCGTTCAGCTCTTACAAGCTTTTATTTAACCCATATGAG
* *
62594731 TTTCTGTTTAGCTCT
1 TTTCCGTTCAGCTCT
62594746 CATGAGCTTC
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.04
42 73 0.92
43 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACAAGCTTTTATTTAACCCATATGAG
Found at i:62597267 original size:31 final size:31
Alignment explanation
Indices: 62597232--62597292 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
62597222 TGCACTACTG
62597232 TACTTTCTCAACTTAATTTTACTAGTCCAAT
1 TACTTTCTCAACTTAATTTTACTAGTCCAAT
62597263 TACTTTCTCAACTTAATTTTACTAGTCCAA
1 TACTTTCTCAACTTAATTTTACTAGTCCAA
62597293 GGCTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
TACTTTCTCAACTTAATTTTACTAGTCCAAT
Found at i:62600670 original size:16 final size:17
Alignment explanation
Indices: 62600649--62600694 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
62600639 AGCAGGGGTG
62600649 GAGAAAGGGAGAGGA-A
1 GAGAAAGGGAGAGGAGA
*
62600665 GAGAAAGAGAGA-GAGA
1 GAGAAAGGGAGAGGAGA
62600681 GAGAAAAGGGAGAG
1 GAG-AAAGGGAGAG
62600695 AGGGTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (17 bp):
GAGAAAGGGAGAGGAGA
Found at i:62615135 original size:38 final size:39
Alignment explanation
Indices: 62615093--62615180 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
62615083 TATTGGCATC
*
62615093 TTAATATTTTTTTA-ATGTTTATGTTATAATATTATAT-A
1 TTAATATTTTTTTAGATGTTTATGTTATAA-ATTACATAA
** *
62615131 TTAATA-TGATTTAGTATTTTTATGTTATAAATTACATAA
1 TTAATATTTTTTTAG-ATGTTTATGTTATAAATTACATAA
62615170 TATAATATTTT
1 T-TAATATTTT
62615181 AACAAATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
37 5 0.13
38 12 0.31
39 16 0.41
40 5 0.13
41 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (39 bp):
TTAATATTTTTTTAGATGTTTATGTTATAAATTACATAA
Found at i:62619622 original size:32 final size:30
Alignment explanation
Indices: 62619584--62619643 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
62619574 TTAATAAAAG
* *
62619584 TAAAATTATATTTTTATCTCTTTTAAAAATAA
1 TAAAATTATAATTTAAT-T-TTTTAAAAATAA
*
62619616 TAAAATTTTAATTTAATTTTTTAAAAAT
1 TAAAATTATAATTTAATTTTTTAAAAAT
62619644 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 1 0.04
32 14 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAAATTATAATTTAATTTTTTAAAAATAA
Found at i:62620156 original size:19 final size:19
Alignment explanation
Indices: 62620132--62620170 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62620122 CAAGATTAGC
62620132 TGCAACATGCTTTCCTTCG
1 TGCAACATGCTTTCCTTCG
62620151 TGCAACATGCTTTCCTTCG
1 TGCAACATGCTTTCCTTCG
62620170 T
1 T
62620171 ACGGGGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCAACATGCTTTCCTTCG
Found at i:62621069 original size:28 final size:28
Alignment explanation
Indices: 62621024--62621079 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
62621014 GGGCTTGAAT
* * *
62621024 AATATTATTTTATAAATTATAAATTATA
1 AATATTATTTTAAAAATTAAAAAATATA
62621052 AATA-TATTTTAAATAATTAAAAAATATA
1 AATATTATTTTAAA-AATTAAAAAATATA
62621080 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATTATTTTAAAAATTAAAAAATATA
Found at i:62621083 original size:20 final size:21
Alignment explanation
Indices: 62621045--62621085 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62621035 ATAAATTATA
* *
62621045 AATTATAAATATATTTTAAAT
1 AATTATAAAAATATATTAAAT
62621066 AATTA-AAAAATATATTAAAT
1 AATTATAAAAATATATTAAAT
62621086 TAAAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTATAAAAATATATTAAAT
Found at i:62626572 original size:22 final size:20
Alignment explanation
Indices: 62626548--62626631 Score: 53
Period size: 21 Copynumber: 3.8 Consensus size: 20
62626538 TTTGAAATAT
62626548 ATATTTGAAATATTTTATTAATA
1 ATATTT-AAATATTTTATT-A-A
*
62626571 TATATTTTGAAATTACTTTTTTTAA
1 -ATA-TTT-AAA-TA-TTTTATTAA
* *
62626596 AT-TTTAAATATTATTTTTTA
1 ATATTTAAATATT-TTATTAA
62626616 ATATTTAAATATTTTA
1 ATATTTAAATATTTTA
62626632 AACTTTCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
19 2 0.04
20 12 0.23
21 13 0.25
22 3 0.06
24 5 0.10
25 8 0.15
26 3 0.06
27 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTTAAATATTTTATTAA
Found at i:62626677 original size:23 final size:22
Alignment explanation
Indices: 62626588--62626677 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 22
62626578 TGAAATTACT
*
62626588 TTTTTTAA-ATTTTAAATATTA
1 TTTTTTAATAATTTAAATATTA
62626609 TTTTTTAAT-ATTTAAATATT-
1 TTTTTTAATAATTTAAATATTA
* * *
62626629 TTAAACTTTCA-AATTT-ATTATTA
1 TT---TTTTAATAATTTAAATATTA
62626652 TTTTTATAATAATTTAAATATTA
1 TTTTT-TAATAATTTAAATATTA
62626675 TTT
1 TTT
62626678 AATTTGTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
20 4 0.08
21 20 0.38
22 10 0.19
23 19 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTTAATAATTTAAATATTA
Found at i:62626706 original size:15 final size:15
Alignment explanation
Indices: 62626686--62626719 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
62626676 TTAATTTGTT
62626686 TTATAATATTTTAAA
1 TTATAATATTTTAAA
62626701 TTATAATATTTTAAA
1 TTATAATATTTTAAA
62626716 TTAT
1 TTAT
62626720 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:62626719 original size:67 final size:66
Alignment explanation
Indices: 62626548--62626728 Score: 164
Period size: 66 Copynumber: 2.7 Consensus size: 66
62626538 TTTGAAATAT
* *
62626548 ATATTTGAAATATTTT--ATTAATATATATTTTGAAATTACTTTTTTTAA-ATTTTAAATATTAT
1 ATATTT-AAATATTTTAAATT-ATA-ATATTTT-AAATTA-TTTTTATAATAATTTAAATATTAT
62626610 TTTTTA
61 TTTTTA
*
62626616 ATATTTAAATATTTTAAACTT-TCAA-A-TTTATTATTATTTTTATAATAATTTAAATATTATTT
1 ATATTTAAATATTTTAAA-TTAT-AATATTTTA-AATTATTTTTATAATAATTTAAATATTATTT
62626678 AATTT-
63 --TTTA
*
62626683 GT-TTTATAATATTTTAAATTATAATATTTTAAATTATTTTTA-AATA
1 ATATTTA-AATATTTTAAATTATAATATTTTAAATTATTTTTATAATA
62626729 TATTCAAACC
Statistics
Matches: 96, Mismatches: 5, Indels: 26
0.76 0.04 0.20
Matches are distributed among these distances:
65 9 0.09
66 34 0.35
67 34 0.35
68 15 0.16
69 2 0.02
70 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (66 bp):
ATATTTAAATATTTTAAATTATAATATTTTAAATTATTTTTATAATAATTTAAATATTATTTTTT
A
Found at i:62627021 original size:21 final size:21
Alignment explanation
Indices: 62626965--62627031 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 21
62626955 TTAATTTTAA
* * *
62626965 AAAATTTAAAATGTATATTTG
1 AAAATTTTAAATATATATTTT
*
62626986 AAATGTTTTATAATATATATTTT
1 AAA-ATTTTA-AATATATATTTT
62627009 AAAATTTTAAATAT-TATTTT
1 AAAATTTTAAATATATATTTT
62627029 AAA
1 AAA
62627032 TTATTTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.23
21 8 0.21
22 9 0.23
23 13 0.33
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTT
Found at i:62627041 original size:31 final size:34
Alignment explanation
Indices: 62626991--62627059 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 34
62626981 ATTTGAAATG
62626991 TTTTATAATATATATTTTAAAATTTTAAATATTA
1 TTTTATAATATATATTTTAAAATTTTAAATATTA
*
62627025 TTTTA-AAT-TAT-TTTTAAAATTTTGAATATTA
1 TTTTATAATATATATTTTAAAATTTTAAATATTA
62627056 TTTT
1 TTTT
62627060 TTAAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 23 0.68
32 3 0.09
33 3 0.09
34 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
TTTTATAATATATATTTTAAAATTTTAAATATTA
Found at i:62627057 original size:21 final size:20
Alignment explanation
Indices: 62627024--62627085 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
62627014 TTTAAATATT
62627024 ATTTTAA-ATTATTTTTAAA
1 ATTTTAATATTATTTTTAAA
62627043 ATTTTGAATATTATTTTTTAAAA
1 ATTTT-AATATTA-TTTTT-AAA
* *
62627066 AATTAAATATATATTTTTAA
1 ATTTTAATAT-TATTTTTAA
62627086 TAATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 6 0.17
22 15 0.42
23 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTAATATTATTTTTAAA
Found at i:62627063 original size:22 final size:21
Alignment explanation
Indices: 62627024--62627083 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
62627014 TTTAAATATT
62627024 ATTTTAA-ATTA-TTTTTAAA
1 ATTTTAATATTATTTTTTAAA
62627043 ATTTTGAATATTATTTTTTAAAA
1 ATTTT-AATATTATTTTTT-AAA
* *
62627066 AATTAAATATATATTTTT
1 ATTTTAATAT-TATTTTT
62627084 AATAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.15
20 2 0.06
21 4 0.12
22 10 0.29
23 13 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTAATATTATTTTTTAAA
Done.