Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 119 of 161
Found at i:37659872 original size:16 final size:16
Alignment explanation
Indices: 37659837--37659874 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37659827 TCATCAACAT
* *
37659837 AAAAGAGTAAATATAT
1 AAAAGAGTAAATACAC
37659853 AAAAGAGTAAATACAC
1 AAAAGAGTAAATACAC
37659869 AAAAGA
1 AAAAGA
37659875 ACCATCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.66, C:0.05, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAAGAGTAAATACAC
Found at i:37675382 original size:56 final size:48
Alignment explanation
Indices: 37675358--37675457 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 48
37675348 ATAATATCCT
*
37675358 ATAATATCC-A-ATTAGGAATCAAATTGCTAAGAA-ATAATA-ACC-T-
1 ATAATATCCTATATTAGGAATCAAATTGCTAA-AAGATAATATCCCATA
*
37675401 ATAACATCC--TATTAGGAATCAAATTGCTAAAAGATAATATCCCATA
1 ATAATATCCTATATTAGGAATCAAATTGCTAAAAGATAATATCCCATA
37675447 ATAATATCCTA
1 ATAATATCCTA
37675458 ACATCTCCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.04
43 34 0.72
44 2 0.04
45 1 0.02
46 8 0.17
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (48 bp):
ATAATATCCTATATTAGGAATCAAATTGCTAAAAGATAATATCCCATA
Found at i:37675415 original size:43 final size:42
Alignment explanation
Indices: 37675347--37675439 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 42
37675337 AATATCCCAT
* *
37675347 AATAATATCCTATAATATCCAATTAGGAATCAAATTGCTAAGA
1 AATAATAACCTATAACATCCAATTAGGAATCAAATTGCTAA-A
*
37675390 AATAATAACCTATAACATCCTATTAGGAATCAAATTGCTAAA
1 AATAATAACCTATAACATCCAATTAGGAATCAAATTGCTAAA
37675432 AGATAATA
1 A-ATAATA
37675440 TCCCATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (42 bp):
AATAATAACCTATAACATCCAATTAGGAATCAAATTGCTAAA
Found at i:37680650 original size:14 final size:14
Alignment explanation
Indices: 37680633--37680667 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
37680623 CTCACATTTC
37680633 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
37680647 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
37680661 TATTTCT
1 T-TTTCT
37680668 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:37680651 original size:19 final size:18
Alignment explanation
Indices: 37680613--37680657 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
37680603 TACGGTACGC
37680613 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
37680630 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
37680649 TTCTTTTCT
1 TTCTTTTCT
37680658 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:37683092 original size:16 final size:17
Alignment explanation
Indices: 37683073--37683104 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37683063 TTATTAAATC
37683073 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
37683089 ATATATTTAATATTAA
1 ATATATTTAATATTAA
37683105 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:37683168 original size:66 final size:63
Alignment explanation
Indices: 37683097--37683309 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
37683087 AAATATATTT
37683097 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
37683161 AG
62 AG
* * * * * * *
37683163 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
37683223 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
37683283 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
37683310 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:37683183 original size:120 final size:120
Alignment explanation
Indices: 37683059--37683351 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
37683049 AATTATTTTA
* * *
37683059 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
37683122 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
37683179 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
37683244 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
37683299 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
37683352 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:37683211 original size:18 final size:17
Alignment explanation
Indices: 37683180--37683214 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37683170 ATTATTAAGA
37683180 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
37683197 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
37683215 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:37683328 original size:18 final size:17
Alignment explanation
Indices: 37683300--37683334 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37683290 ATTATTAAGA
*
37683300 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37683317 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37683335 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37683448 original size:147 final size:149
Alignment explanation
Indices: 37683288--37683562 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
37683278 ATAAGAATAT
*
37683288 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
37683353 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
37683416 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
37683435 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
37683500 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
37683563 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:37683475 original size:18 final size:17
Alignment explanation
Indices: 37683447--37683481 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37683437 ATTATTAAGA
*
37683447 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37683464 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37683482 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37683692 original size:44 final size:45
Alignment explanation
Indices: 37683643--37683737 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
37683633 TTACACCTCT
* *
37683643 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
37683687 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
37683732 ATTACA
1 ATTACA
37683738 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:37683737 original size:16 final size:16
Alignment explanation
Indices: 37683718--37683785 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
37683708 GATTTGCTAT
* *
37683718 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
37683734 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
37683750 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
37683766 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37683782 TACA
1 TACA
37683786 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37684393 original size:93 final size:90
Alignment explanation
Indices: 37684268--37684460 Score: 199
Period size: 93 Copynumber: 2.1 Consensus size: 90
37684258 GGGTATTTGA
* * ** *
37684268 AACTTTCAAAATGCATTAAAAAGGTCCGCAAACTTAAAAAAAAAAGAAGTAATTAAGCCCTTACT
1 AACTTTCAAAATACATCAAAAAGACCCGCAAACTTAAAAAAAAAA-AAGCAATTAAGCCC---CT
*
37684333 -CTTTTTTTTGCACTCAATTGAATACTTG
62 GATTTTTTTTGCACTCAATTGAATACTTG
* * **** *
37684361 AACTTTTAAAATACATCAAAAAGACCCTCAAACTTTTTCAAGAAAAAGCAATTAAGCCCCTGATT
1 AACTTTCAAAATACATCAAAAAGACCCGCAAACTTAAAAAAAAAAAAGCAATTAAGCCCCTGATT
**
37684426 TTTTTTGCACTCAATTGGGTACTTG
66 TTTTTTGCACTCAATTGAATACTTG
*
37684451 AACTGTCAAA
1 AACTTTCAAA
37684461 TGTATAAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
89 2 0.02
90 33 0.40
92 13 0.16
93 34 0.41
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (90 bp):
AACTTTCAAAATACATCAAAAAGACCCGCAAACTTAAAAAAAAAAAAGCAATTAAGCCCCTGATT
TTTTTTGCACTCAATTGAATACTTG
Found at i:37684603 original size:10 final size:10
Alignment explanation
Indices: 37684590--37684656 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 10
37684580 AATTATAAAA
37684590 AATAAAAATT
1 AATAAAAATT
*
37684600 AATAAAAGTT
1 AATAAAAATT
*
37684610 -ATACAAATT
1 AATAAAAATT
* **
37684619 ATTAAATTTT
1 AATAAAAATT
37684629 AATAAAAA-T
1 AATAAAAATT
37684638 -ATAAAAATT
1 AATAAAAATT
* *
37684647 TATTAAAATT
1 AATAAAAATT
37684657 TATTATAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
8 7 0.16
9 9 0.21
10 27 0.63
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
AATAAAAATT
Found at i:37684630 original size:29 final size:29
Alignment explanation
Indices: 37684592--37684673 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
37684582 TTATAAAAAA
* * *
37684592 TAAAAATTAATAAAAGTTATACAAA-TTAT
1 TAAAATTTAATAAAA-ATATAAAAATTTAT
*
37684621 TAAATTTTAATAAAAATATAAAAATTTAT
1 TAAAATTTAATAAAAATATAAAAATTTAT
37684650 TAAAATTTATTATAAAAATCATAA
1 TAAAATTTA--ATAAAAAT-ATAA
37684674 CAAAAATTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 7 0.16
29 25 0.57
31 8 0.18
32 4 0.09
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (29 bp):
TAAAATTTAATAAAAATATAAAAATTTAT
Found at i:37684923 original size:20 final size:20
Alignment explanation
Indices: 37684900--37685001 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 20
37684890 AGAATTTTAC
37684900 ATTTTTTTACATTTTTTATA
1 ATTTTTTTACATTTTTTATA
*
37684920 ATTTTCTTACGACTTTTTAAAATCTTATA
1 ATTTTTTTAC-A--TTTT----T-T-ATA
* *
37684949 ATTTTTTTACAATTTTTATG
1 ATTTTTTTACATTTTTTATA
37684969 ATTTTTTTA-A-TTTTTA-A
1 ATTTTTTTACATTTTTTATA
* *
37684986 ATATTTTTATATTTTT
1 ATTTTTTTACATTTTT
37685002 ATTAAAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
17 8 0.12
18 7 0.11
19 5 0.08
20 20 0.31
21 2 0.03
22 1 0.02
23 4 0.06
26 3 0.05
27 1 0.02
28 2 0.03
29 12 0.18
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTTTACATTTTTTATA
Found at i:37684924 original size:18 final size:18
Alignment explanation
Indices: 37684903--37685002 Score: 62
Period size: 18 Copynumber: 5.3 Consensus size: 18
37684893 ATTTTACATT
37684903 TTTTTACATTTTTTATAA
1 TTTTTACATTTTTTATAA
* *
37684921 TTTTCTTACGACTTTTTAAAA
1 -TTT-TTAC-ATTTTTTATAA
* *
37684942 TCTTATA-ATTTTTTTACAA
1 T-TTTTACA-TTTTTTATAA
*
37684961 TTTTTATGATTTTTT-TAA
1 TTTTTA-CATTTTTTATAA
*
37684979 TTTTTAAATATTTTTAT-A
1 TTTTTACAT-TTTTTATAA
37684997 TTTTTA
1 TTTTTA
37685003 TTAAAATTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.03
18 25 0.38
19 19 0.29
20 8 0.12
21 11 0.17
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTACATTTTTTATAA
Found at i:37685002 original size:8 final size:9
Alignment explanation
Indices: 37684952--37685003 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
37684942 TCTTATAATT
*
37684952 TTTTTACAA
1 TTTTTATAA
*
37684961 TTTTTATGA
1 TTTTTATAA
*
37684970 TTTTTTTAA
1 TTTTTATAA
*
37684979 TTTTTAAATA
1 TTTTTATA-A
37684989 TTTTTAT-A
1 TTTTTATAA
37684997 TTTTTAT
1 TTTTTAT
37685004 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 8 0.23
9 20 0.57
10 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:37685012 original size:28 final size:28
Alignment explanation
Indices: 37684960--37685013 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
37684950 TTTTTTTACA
**
37684960 ATTTTTATGATTTTTTTAATTTTTAAAT
1 ATTTTTATGATTTTTTTAAAATTTAAAT
37684988 ATTTTTAT-ATTTTTATTAAAATTTAA
1 ATTTTTATGATTTTT-TTAAAATTTAA
37685014 TCATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
ATTTTTATGATTTTTTTAAAATTTAAAT
Found at i:37688996 original size:13 final size:14
Alignment explanation
Indices: 37688905--37688996 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 14
37688895 TTATTTAGAT
37688905 TATTATATTTAAAA
1 TATTATATTTAAAA
37688919 T-TTATATTTTAAAA
1 TATTATA-TTTAAAA
*
37688933 -A-AATATTTGAGTGAAA
1 TATTATATTT-A---AAA
*
37688949 TTATGTATTTTTAAAA
1 -TAT-TATATTTAAAA
* *
37688965 TATT-TATTTAGAT
1 TATTATATTTAAAA
37688978 TATTATATTTAAAA
1 TATTATATTTAAAA
37688992 T-TTAT
1 TATTAT
37688997 TTAAATAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 23
0.66 0.09 0.26
Matches are distributed among these distances:
12 3 0.05
13 23 0.39
14 17 0.29
15 3 0.05
16 6 0.10
18 1 0.02
19 1 0.02
20 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (14 bp):
TATTATATTTAAAA
Found at i:37688998 original size:25 final size:28
Alignment explanation
Indices: 37688948--37688999 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
37688938 TTTGAGTGAA
*
37688948 ATTATGTATTTTTAAAATATTTATTTAG
1 ATTATGTATATTTAAAATATTTATTTAG
37688976 ATTAT-TATATTT-AAA-ATTTATTTA
1 ATTATGTATATTTAAAATATTTATTTA
37689000 AATAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 3 0.13
27 6 0.26
28 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (28 bp):
ATTATGTATATTTAAAATATTTATTTAG
Found at i:37694279 original size:34 final size:35
Alignment explanation
Indices: 37694213--37694279 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
37694203 CAAACACCAG
* *
37694213 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
37694248 AAAACATTTTTCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37694280 CATTTTACCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 15 0.56
35 12 0.44
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37694809 original size:17 final size:17
Alignment explanation
Indices: 37694789--37694824 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37694779 CAAAATCCAA
37694789 GATTGATTAAAAAACAT
1 GATTGATTAAAAAACAT
37694806 GATTGATTAAAAAACAT
1 GATTGATTAAAAAACAT
37694823 GA
1 GA
37694825 GAACTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (17 bp):
GATTGATTAAAAAACAT
Found at i:37698566 original size:23 final size:23
Alignment explanation
Indices: 37698536--37698582 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
37698526 TAACTCACTG
37698536 ACAAGTTAAGCATTTAGCTACAT
1 ACAAGTTAAGCATTTAGCTACAT
37698559 ACAAGTTAAGCATTTAGCTACAT
1 ACAAGTTAAGCATTTAGCTACAT
37698582 A
1 A
37698583 TTCGACCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
ACAAGTTAAGCATTTAGCTACAT
Found at i:37704650 original size:14 final size:14
Alignment explanation
Indices: 37704633--37704683 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
37704623 TATTTTATTA
37704633 ATATTATAACATAT
1 ATATTATAACATAT
* * *
37704647 ATATTTCTTA-TTAT
1 ATA-TTATAACATAT
37704661 ATATTATAACATAT
1 ATATTATAACATAT
*
37704675 ATATAATAA
1 ATATTATAA
37704684 GTTAACATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTATAACATAT
Found at i:37706440 original size:22 final size:22
Alignment explanation
Indices: 37706401--37706457 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
37706391 GTGGGGGTCA
*
37706401 ACACGCTCATGT-AAAGGAGGC
1 ACACGCCCATGTGAAAGGAGGC
*
37706422 ACACGCCCGTGTGAAAGGAGGC
1 ACACGCCCATGTGAAAGGAGGC
*
37706444 ATACGCCCATGTGA
1 ACACGCCCATGTGA
37706458 CCCAGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.14
Consensus pattern (22 bp):
ACACGCCCATGTGAAAGGAGGC
Found at i:37711145 original size:33 final size:30
Alignment explanation
Indices: 37711089--37711182 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 30
37711079 CAATAAATTA
* *
37711089 TAAAGTATTATTTAAAATTTAAAATTATAATTT
1 TAAATTATTA-TTAAAA--TAAAATTATAATAT
*
37711122 CTAAAATTTATTATTAAAATAAAATTTTAATAT
1 -T-AAA-TTATTATTAAAATAAAATTATAATAT
*
37711155 TAAATAATTATTAAAATAATAAATTATA
1 TAAATTATTATTAAAAT-A-AAATTATA
37711183 TTAATTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
30 12 0.24
31 4 0.08
32 8 0.16
33 12 0.24
34 1 0.02
35 9 0.18
36 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAATTATTATTAAAATAAAATTATAATAT
Found at i:37711146 original size:18 final size:19
Alignment explanation
Indices: 37711123--37711158 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37711113 TTATAATTTC
*
37711123 TAAAA-TTTATTATTAAAA
1 TAAAATTTTAATATTAAAA
37711141 TAAAATTTTAATATTAAA
1 TAAAATTTTAATATTAAA
37711159 TAATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTTAATATTAAAA
Found at i:37711190 original size:9 final size:9
Alignment explanation
Indices: 37711176--37711219 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
37711166 TAAAATAATA
37711176 AATTATATT
1 AATTATATT
37711185 AATTATATT
1 AATTATATT
* *
37711194 GA-T-GATT
1 AATTATATT
37711201 AATTATATT
1 AATTATATT
37711210 AATTATATT
1 AATTATATT
37711219 A
1 A
37711220 TTAAATACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 4 0.14
8 2 0.07
9 23 0.79
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (9 bp):
AATTATATT
Found at i:37720401 original size:17 final size:17
Alignment explanation
Indices: 37720379--37720430 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
37720369 TTTATAGAAT
*
37720379 CAAATCTTCTAATATTA
1 CAAATCTTCTAAGATTA
* *
37720396 CAAATCTTCCAAGATTG
1 CAAATCTTCTAAGATTA
*
37720413 CATATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
37720430 C
1 C
37720431 TCCCTATACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:37722122 original size:10 final size:10
Alignment explanation
Indices: 37722107--37722133 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37722097 TATATTTCCA
37722107 TTTTCTTTAT
1 TTTTCTTTAT
37722117 TTTTCTTTAT
1 TTTTCTTTAT
37722127 TTTTCTT
1 TTTTCTT
37722134 CTTTAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTAT
Found at i:37722816 original size:610 final size:610
Alignment explanation
Indices: 37721658--37722879 Score: 1955
Period size: 610 Copynumber: 2.0 Consensus size: 610
37721648 GTTATGGATG
*
37721658 TCGTGTAGGGTGTCACGACATTGTGCCTTAAGGTTATGACTTCAAGCTCTCGAGGTTGCAACTTC
1 TCGTGTAGGGTGTCACGACATTGTGCCTTAAGATTATGACTTCAAGCTCTCGAGGTTGCAACTTC
* * * * * *
37721723 AAGCCAAACATCAAAGTGAATGAGATTAAGTAAACTGTGGTCTAGGTTGTGACATCGGTAAGCTA
66 AAGCCAAACATCAAAGTGAATGAGATCAAATAAACTATGGTCTAGGTTGCGACATCAGCAAGCTA
*
37721788 ATGTTGTGAAACTAAGTGCTCCTCAAGCCTCTTATAAGCCAACTATCGTGGGGGTAACGGCACCA
131 ATGTTGTGAAACTAAGTGCTCCTCAAGCCTCCTATAAGCCAACTATCGTGGGGGTAACGGCACCA
* * * **
37721853 AAGCTTGGGTTGTTATGACATTGAATCCTAATAGGTGAAAATTTGTAGGGTAATTTTCTGTCTAG
196 AAGCTTGGGTTGTTATCACATTAAATCCTAACAGGTGAAAATTTCCAGGGTAATTTTCTGTCTAG
* * *
37721918 AAAACCTCAAGTCAGCCACAATTTGAAGGGCATTTTTTTCAATATTAAGGTTGTAGTGTCAAGCT
261 AAAACCTCAAGTCAGCCACAATTTAAAAGGCATTTTTTTCAATATTAAGGTTGTAGTGCCAAGCT
37721983 ATTTAAAGCCTTTTTACGGCTTAAAAAGATATACAAGTCAATATTCCAATCATCATCTTCTTGTT
326 ATTTAAAGCCTTTTTACGGCTTAAAAAGATATACAAGTCAATATTCCAATCATCATCTTCTTGTT
*
37722048 CCCTCAATCATTTTAGATTCCTAGGCTTTTCCTTTTCTAGGTTAGGCTTTATATTTCCATTTTCT
391 CCCTCAATCATTTTAGATTCCTAGGCTTTTCCTTTTCTAGGTTAGACTTTATATTTCCATTTTCT
* * *
37722113 TTATTTTTCTTTATTTTTCTTCTTTAACTCAAAAAGGTACAAGGATCTCTTGTGTCATTTTGAGT
456 TTATTTTTCTTGACTTTTCTTCTTTAACTCAAAAAGGTACAAGGACCTCTTGTGTCATTTTGAGT
* *
37722178 TTTTCTTCATAGTAATCAATAGGTTTAAATCTTATGGTTATTTAAAGTTCCAAAGTATTAATTT-
521 TTTTCTTCATAATAATCAATAGGTTTAAATCTTACGGTTATTTAAAGTTCCAAAGTATTAATTTG
37722242 GGCTATGGATTTGTAGATTATTCTT
586 GGCTATGGATTTGTAGATTATTCTT
* * * * *
37722267 TCGTGTAGGGTGTCGCGACATTGTGCTTTAAGATTGTGACTTCAAGCTCTTGTGGTTGCAACTTC
1 TCGTGTAGGGTGTCACGACATTGTGCCTTAAGATTATGACTTCAAGCTCTCGAGGTTGCAACTTC
*
37722332 AAGCCAAACATCAAAGTGAACT-AGATCAAATAGACTATGGTCTAGGTTGCGACATCAGCAAGCT
66 AAGCCAAACATCAAAGTGAA-TGAGATCAAATAAACTATGGTCTAGGTTGCGACATCAGCAAGCT
* * * *
37722396 AATGTTGTGAAACTGAGTGCTCTTCAAGCCTCCTATAAGCCAACTATCGTGGGGGGTCATGGCAC
130 AATGTTGTGAAACTAAGTGCTCCTCAAGCCTCCTATAAGCCAACTATCGT-GGGGGTAACGGCAC
* *
37722461 CAAAGCTTGGG-TGTTGTCACATTAAATCCTAACAGGTGAAAATTTCCAGGGTAATTTTTTTGTC
194 CAAAGCTTGGGTTGTTATCACATTAAATCCTAACAGGTGAAAATTTCCAGGGTAA-TTTTCTGTC
* * * *
37722525 TAGAAAACCTCAAGTTAGCCACATTTTAAAAGGCATTTTTTTCAATATTAGGGTTGTAGTGCCAG
258 TAGAAAACCTCAAGTCAGCCACAATTTAAAAGGCATTTTTTTCAATATTAAGGTTGTAGTGCCAA
* * * * * *
37722590 GCTATTTAAAGCTTTTTTATGGTTTAAAAAGCTATACAATTCAATATTCCCATCATCATCTTCTT
323 GCTATTTAAAGCCTTTTTACGGCTTAAAAAGATATACAAGTCAATATTCCAATCATCATCTTCTT
* *
37722655 GTTCCTTCAATCATTTTAGATTCCTAGGCTTTTCCTTTTCTAGGTTAGACTTTATTTTTCCATTT
388 GTTCCCTCAATCATTTTAGATTCCTAGGCTTTTCCTTTTCTAGGTTAGACTTTATATTTCCATTT
* *
37722720 TCTTTATTTTTCTTGACTTTTCTTCTTTAACTCAAAAATGTACAATGACCTCTTGTGTCATTTTG
453 TCTTTATTTTTCTTGACTTTTCTTCTTTAACTCAAAAAGGTACAAGGACCTCTTGTGTCATTTTG
*
37722785 AGTTTTTCTTCATAATAATCAATAGGTTTAAATGTTACGGTTATTTAAAGTTCCAAAGTATTAAT
518 AGTTTTTCTTCATAATAATCAATAGGTTTAAATCTTACGGTTATTTAAAGTTCCAAAGTATTAAT
37722850 TTGGGCTATGGATTTGTAGATTATTCTT
583 TTGGGCTATGGATTTGTAGATTATTCTT
37722878 TC
1 TC
37722880 TTTTCATCAA
Statistics
Matches: 560, Mismatches: 49, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
609 198 0.35
610 335 0.60
611 27 0.05
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (610 bp):
TCGTGTAGGGTGTCACGACATTGTGCCTTAAGATTATGACTTCAAGCTCTCGAGGTTGCAACTTC
AAGCCAAACATCAAAGTGAATGAGATCAAATAAACTATGGTCTAGGTTGCGACATCAGCAAGCTA
ATGTTGTGAAACTAAGTGCTCCTCAAGCCTCCTATAAGCCAACTATCGTGGGGGTAACGGCACCA
AAGCTTGGGTTGTTATCACATTAAATCCTAACAGGTGAAAATTTCCAGGGTAATTTTCTGTCTAG
AAAACCTCAAGTCAGCCACAATTTAAAAGGCATTTTTTTCAATATTAAGGTTGTAGTGCCAAGCT
ATTTAAAGCCTTTTTACGGCTTAAAAAGATATACAAGTCAATATTCCAATCATCATCTTCTTGTT
CCCTCAATCATTTTAGATTCCTAGGCTTTTCCTTTTCTAGGTTAGACTTTATATTTCCATTTTCT
TTATTTTTCTTGACTTTTCTTCTTTAACTCAAAAAGGTACAAGGACCTCTTGTGTCATTTTGAGT
TTTTCTTCATAATAATCAATAGGTTTAAATCTTACGGTTATTTAAAGTTCCAAAGTATTAATTTG
GGCTATGGATTTGTAGATTATTCTT
Found at i:37728922 original size:41 final size:41
Alignment explanation
Indices: 37728863--37728942 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
37728853 TGACTTTTCG
* *
37728863 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
*
37728904 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCT
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCT
37728943 GTTTTTGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
Found at i:37728953 original size:25 final size:26
Alignment explanation
Indices: 37728918--37728967 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
37728908 TTTAGCGGCA
*
37728918 TTTTTGGAGAAGCGCCGCTAATGCTG
1 TTTTTGGAGAAGCGCCACTAATGCTG
37728944 TTTTT-GAGAAGCGCCACTAATGCT
1 TTTTTGGAGAAGCGCCACTAATGCT
37728968 CTGGGCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (26 bp):
TTTTTGGAGAAGCGCCACTAATGCTG
Found at i:37728964 original size:66 final size:67
Alignment explanation
Indices: 37728876--37729008 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 67
37728866 CTTTAGCGGC
** *
37728876 GTTTTTGGAAAAGCGCTGCTAATGCTCTGGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATG
1 GTTTTTGGAAAAGCGCCACTAATGCTCTGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATG
37728941 CT
66 CT
* *
37728943 GTTTTT-GAGAAGCGCCACTAATGCTCTGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG
1 GTTTTTGGAAAAGCGCCACTAATGCTCTGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATG
37729007 CT
66 CT
37729009 CAGGGCTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 55 0.90
67 6 0.10
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (67 bp):
GTTTTTGGAAAAGCGCCACTAATGCTCTGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATG
CT
Found at i:37729041 original size:41 final size:40
Alignment explanation
Indices: 37728943--37729042 Score: 155
Period size: 41 Copynumber: 2.5 Consensus size: 40
37728933 CGCTAATGCT
* * *
37728943 GTTTTTGAGAAGCGCCACTAATGCTCTGGGCTTTAGCGGC
1 GTTTTTGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC
37728983 GTTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC
1 GTTTTT-GAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC
37729024 GTTTTTGAAAAAGCGCCGC
1 GTTTTTG-AAAAGCGCCGC
37729043 AAAAACATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 7 0.13
41 48 0.87
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (40 bp):
GTTTTTGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC
Found at i:37729720 original size:21 final size:21
Alignment explanation
Indices: 37729696--37729737 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37729686 TAAGGTTTAA
* *
37729696 GGGTTAATAGTTAGGGGTTAG
1 GGGTTAAGAGTTAGCGGTTAG
*
37729717 GGGTTAAGGGTTAGCGGTTAG
1 GGGTTAAGAGTTAGCGGTTAG
37729738 AGCTTAGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.45, T:0.31
Consensus pattern (21 bp):
GGGTTAAGAGTTAGCGGTTAG
Found at i:37729758 original size:14 final size:14
Alignment explanation
Indices: 37729712--37729758 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
37729702 ATAGTTAGGG
* *
37729712 GTTAGGGGTTAAGG
1 GTTAGAGGTTAAGA
*
37729726 GTTAGCGGTT-AGA
1 GTTAGAGGTTAAGA
37729739 GCTTAGAGGTTAAGA
1 G-TTAGAGGTTAAGA
37729754 GTTAG
1 GTTAG
37729759 TGATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 3 0.11
14 21 0.75
15 4 0.14
ACGTcount: A:0.26, C:0.04, G:0.40, T:0.30
Consensus pattern (14 bp):
GTTAGAGGTTAAGA
Found at i:37731100 original size:16 final size:16
Alignment explanation
Indices: 37731079--37731109 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37731069 TTATTTCTAA
37731079 TTGGGGTTCTTTTCTT
1 TTGGGGTTCTTTTCTT
37731095 TTGGGGTTCTTTTCT
1 TTGGGGTTCTTTTCT
37731110 GGGTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.26, T:0.61
Consensus pattern (16 bp):
TTGGGGTTCTTTTCTT
Found at i:37737617 original size:111 final size:111
Alignment explanation
Indices: 37737419--37737641 Score: 351
Period size: 111 Copynumber: 2.0 Consensus size: 111
37737409 TAAAAGTCAT
*
37737419 GTTTTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCATTCTTATAGTGGTGTTTGTGGTAGA
1 GTTTTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCATTCTTATAGTGGCGTTTGTGGTAGA
* **
37737484 AGTGTTGCTAAAGGTAATGATCTTTAGCGGCGTTTGTGGTAGAAGC
66 AGCGCCGCTAAAGGTAATGATCTTTAGCGGCGTTTGTGGTAGAAGC
* * *
37737530 GTTTTTAGCGGCGTTTGTCAAAAAGTGTCGCTAAAAGTCATAT-TTATAGTGGCGTTTGTGGTAT
1 GTTTTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCAT-TCTTATAGTGGCGTTTGTGGTAG
37737594 AAGCGCCGCTAAAGGTTAA-GATCTTTAGCGGCGTTTGTGGTAGAAGC
65 AAGCGCCGCTAAAGG-TAATGATCTTTAGCGGCGTTTGTGGTAGAAGC
37737641 G
1 G
37737642 CCGCTAAAGG
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
111 99 0.96
112 4 0.04
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.34
Consensus pattern (111 bp):
GTTTTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCATTCTTATAGTGGCGTTTGTGGTAGA
AGCGCCGCTAAAGGTAATGATCTTTAGCGGCGTTTGTGGTAGAAGC
Found at i:37737629 original size:43 final size:43
Alignment explanation
Indices: 37737580--37737715 Score: 202
Period size: 43 Copynumber: 3.2 Consensus size: 43
37737570 TATTTATAGT
* *
37737580 GGCGTTTGTGGTATAAGCGCCGCTAAAGGTTAAGATCTTTAGC
1 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATCTTTAGC
*
37737623 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGC
1 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATCTTTAGC
* * *
37737666 GGCGTTTGTGGTAGACGCGCCGCTAAAGGTCATGA-CTTTTAAC
1 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATC-TTTAGC
37737709 GGCGTTT
1 GGCGTTT
37737716 ATTTCTAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 86 0.99
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATCTTTAGC
Found at i:37737712 original size:86 final size:85
Alignment explanation
Indices: 37737558--37737715 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
37737548 CAAAAAGTGT
* * * *
37737558 CGCTAAAAGTCATATTTATAGTGGCGTTTGTGGTATAAGCGCCGCTAAAGGTTAAGATCTTTAGC
1 CGCTAAAAGTCATATTTATAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATCTTTAAC
37737623 GGCGTTTGTGGTAGAAGCGC
66 GGCGTTTGTGGTAGAAGCGC
* * *
37737643 CGCTAAAGGTCATGATCTT-TAGCGGCGTTTGTGGTAGACGCGCCGCTAAAGGTCATGA-CTTTT
1 CGCTAAAAGTCAT-AT-TTATAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATC-TTT
37737706 AACGGCGTTT
63 AACGGCGTTT
37737716 ATTTCTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 13 0.21
86 48 0.76
87 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (85 bp):
CGCTAAAAGTCATATTTATAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAAGATCTTTAAC
GGCGTTTGTGGTAGAAGCGC
Found at i:37738678 original size:3 final size:3
Alignment explanation
Indices: 37738670--37738733 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
37738660 AGTTTTCTAC
*
37738670 CTT CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
37738718 CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT C
37738734 AAACTTGATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:37742184 original size:21 final size:20
Alignment explanation
Indices: 37742154--37742197 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
37742144 TAGTGAGAAT
*
37742154 TATTTTCTAACTACA-AATTC
1 TATTTTCTAAATA-AGAATTC
37742174 TATTTGTCTAAATAAGAATTC
1 TATTT-TCTAAATAAGAATTC
37742195 TAT
1 TAT
37742198 AGATTTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (20 bp):
TATTTTCTAAATAAGAATTC
Found at i:37747086 original size:50 final size:50
Alignment explanation
Indices: 37746961--37747204 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
37746951 GAATATAACA
* * * * * * *
37746961 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGAGA-TGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACT-TCTCATCTAGG
* * * * * *
37747010 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTAGG
* * ** * *
37747060 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTAGG
* * * *
37747110 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTAGG
* *
37747160 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCAT
37747205 AATCTCAATG
Statistics
Matches: 165, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
49 37 0.22
50 128 0.78
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTAGG
Found at i:37747135 original size:100 final size:100
Alignment explanation
Indices: 37747023--37747204 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 100
37747013 CAATGTCATA
* ** * *
37747023 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCT
* *
37747088 TACGGGGGACTTCTCATCTTGGTGCCAACACCATG
66 TACAGGGGACCTCTCATCTTGGTGCCAACACCATG
* * *
37747123 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCT
*
37747188 TACATGGGACCTCTCAT
66 TACAGGGGACCTCTCAT
37747205 AATCTCAATG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 71 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCT
TACAGGGGACCTCTCATCTTGGTGCCAACACCATG
Found at i:37753423 original size:50 final size:50
Alignment explanation
Indices: 37753299--37753595 Score: 272
Period size: 50 Copynumber: 5.8 Consensus size: 50
37753289 AAATATAACA
* * * ** * * * *
37753299 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * ** *
37753348 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * ** *
37753398 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
37753448 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
37753498 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
* * * *
37753554 TGCCAATGTCATGTCCCAAACATGGTTTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37753596 TTACCCAAAT
Statistics
Matches: 201, Mismatches: 40, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 37 0.18
50 122 0.61
53 4 0.02
56 38 0.19
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:37758728 original size:24 final size:23
Alignment explanation
Indices: 37758680--37758729 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
37758670 ACATAATTTG
*
37758680 AAACTTTATATGTAACATTTGAA
1 AAACTTTATATGTAACATTTAAA
*
37758703 AAACTTT-TATTTAAGCACTTTAAA
1 AAACTTTATATGTAA-CA-TTTAAA
37758727 AAA
1 AAA
37758730 TATTTAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 9 0.39
24 8 0.35
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (23 bp):
AAACTTTATATGTAACATTTAAA
Found at i:37759018 original size:18 final size:19
Alignment explanation
Indices: 37758982--37759019 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37758972 AATAGTTTAT
37758982 CAAAAACAAGAACATAAAC
1 CAAAAACAAGAACATAAAC
37759001 CAAAAA-AACGAACA-AAAC
1 CAAAAACAA-GAACATAAAC
37759019 C
1 C
37759020 CCATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.24, G:0.05, T:0.03
Consensus pattern (19 bp):
CAAAAACAAGAACATAAAC
Found at i:37761136 original size:17 final size:16
Alignment explanation
Indices: 37761114--37761149 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
37761104 TGAAAGCGTA
37761114 TTTAAATTTATTAATAT
1 TTTAAATTTATTAA-AT
*
37761131 TTTAAATTTTTTAAAT
1 TTTAAATTTATTAAAT
37761147 TTT
1 TTT
37761150 GTGGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAAATTTATTAAAT
Found at i:37762923 original size:374 final size:374
Alignment explanation
Indices: 37762234--37762982 Score: 1471
Period size: 374 Copynumber: 2.0 Consensus size: 374
37762224 TCCCGAGAAT
37762234 GAGTTTTTTTATTTAAAATTTGTATGTTTGAAAAAATTTCGATTATTTAGATTCGACGAGAAAAA
1 GAGTTTTTTTATTTAAAATTTGTATGTTTGAAAAAATTTCGATTATTTAGATTCGACGAGAAAAA
37762299 TTGGAATCAAATACGTTAGGGCTCAATTCTCTCGAGGATTCCAAACTTCGAGTATTTTGAAGATT
66 TTGGAATCAAATACGTTAGGGCTCAATTCTCTCGAGGATTCCAAACTTCGAGTATTTTGAAGATT
* *
37762364 TTTGAATAAATTGGTTTTAATACTTAAATGATGTGAACCATAACCTTTTAAGCGAATAAAATGCA
131 TTTGAATAAATTGGTTTTAATACTTAAATGATATGAAACATAACCTTTTAAGCGAATAAAATGCA
37762429 ATAGAATAATAATGTGCAATGCGAATTAATTATTCGTAAATTTAAATATACGCCGGCGAATACAA
196 ATAGAATAATAATGTGCAATGCGAATTAATTATTCGTAAATTTAAATATACGCCGGCGAATACAA
*
37762494 ACAATCAATCGATAAATACAAACAAGCATAGTAACAATAATCTCAATTATGTCAATGTCAACATC
261 ACAATCAATCGATAAATACAAACAAGCATAGTAACAATAATCTCAATTATGTCAATATCAACATC
37762559 AACATTCCAAATAAATACTATAAAAAAATAAATCCACATACACTTAATC
326 AACATTCCAAATAAATACTATAAAAAAATAAATCCACATACACTTAATC
37762608 GAGTTTTTTTATTTAAAATTTGTATGTTTGAAAAAATTTCGATTATTTAGATTCGACGAGAAAAA
1 GAGTTTTTTTATTTAAAATTTGTATGTTTGAAAAAATTTCGATTATTTAGATTCGACGAGAAAAA
37762673 TTGGAATCAAATACGTTAGGGCTCAATTCTCTCGAGGATTCCAAACTTCGAGTATTTTGAAGATT
66 TTGGAATCAAATACGTTAGGGCTCAATTCTCTCGAGGATTCCAAACTTCGAGTATTTTGAAGATT
37762738 TTTGAATAAATTGGTTTTAATACTTAAATGATATGAAACATAACCTTTTAAGCGAATAAAATGCA
131 TTTGAATAAATTGGTTTTAATACTTAAATGATATGAAACATAACCTTTTAAGCGAATAAAATGCA
37762803 ATAGAATAATAATGTGCAATGCGAATTAATTATTCGTAAATTTAAATATACGCCGGCGAATACAA
196 ATAGAATAATAATGTGCAATGCGAATTAATTATTCGTAAATTTAAATATACGCCGGCGAATACAA
37762868 ACAATCAATCGATAAATACAAACAAGCATAGTAACAATAATCTCAATTATGTCAATATCAACATC
261 ACAATCAATCGATAAATACAAACAAGCATAGTAACAATAATCTCAATTATGTCAATATCAACATC
37762933 AACATTCCAAATAAATACTATAAAAAAATAAATCCACATACACTTAATC
326 AACATTCCAAATAAATACTATAAAAAAATAAATCCACATACACTTAATC
37762982 G
1 G
37762983 TACATCTATA
Statistics
Matches: 372, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
374 372 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (374 bp):
GAGTTTTTTTATTTAAAATTTGTATGTTTGAAAAAATTTCGATTATTTAGATTCGACGAGAAAAA
TTGGAATCAAATACGTTAGGGCTCAATTCTCTCGAGGATTCCAAACTTCGAGTATTTTGAAGATT
TTTGAATAAATTGGTTTTAATACTTAAATGATATGAAACATAACCTTTTAAGCGAATAAAATGCA
ATAGAATAATAATGTGCAATGCGAATTAATTATTCGTAAATTTAAATATACGCCGGCGAATACAA
ACAATCAATCGATAAATACAAACAAGCATAGTAACAATAATCTCAATTATGTCAATATCAACATC
AACATTCCAAATAAATACTATAAAAAAATAAATCCACATACACTTAATC
Found at i:37763329 original size:15 final size:15
Alignment explanation
Indices: 37763311--37763349 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
37763301 AACTAATATA
37763311 AATAATAATAATACT
1 AATAATAATAATACT
*
37763326 AATAATAATAATTCT
1 AATAATAATAATACT
*
37763341 AATGATAAT
1 AATAATAAT
37763350 GATGATAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:37763335 original size:12 final size:11
Alignment explanation
Indices: 37763293--37763333 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
37763283 TATGTGGATA
37763293 AATATATAAACT
1 AATA-ATAAACT
37763305 AAT-ATAAA-T
1 AATAATAAACT
37763314 AATAATAATACT
1 AATAATAA-ACT
37763326 AATAATAA
1 AATAATAA
37763334 TAATTCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.15
10 9 0.35
11 1 0.04
12 12 0.46
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATAAACT
Found at i:37766857 original size:16 final size:16
Alignment explanation
Indices: 37766836--37766868 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37766826 TATCTAAAGA
37766836 ATATTAAAAATGGCTG
1 ATATTAAAAATGGCTG
37766852 ATATTAAAAATGGCTG
1 ATATTAAAAATGGCTG
37766868 A
1 A
37766869 AAAACATAAA
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:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATATTAAAAATGGCTG
Found at i:37767645 original size:3 final size:3
Alignment explanation
Indices: 37767637--37767662 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37767627 GCAATGTGGG
37767637 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
37767663 TTGGGATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37773141 original size:21 final size:21
Alignment explanation
Indices: 37773107--37773156 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
37773097 GCGGTGGCGA
* * *
37773107 TGAGATTAGTTACTTTAACGG
1 TGAGATTAGATACTCTAACAG
* *
37773128 TGAGATTGGATACTCTAGCAG
1 TGAGATTAGATACTCTAACAG
37773149 TGAGATTA
1 TGAGATTA
37773157 AAAATAATGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (21 bp):
TGAGATTAGATACTCTAACAG
Found at i:37773380 original size:22 final size:22
Alignment explanation
Indices: 37773310--37773384 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 22
37773300 ATATGTGAAT
* *
37773310 TTATAAATTAATTTAATAAAATA
1 TTATAAA-TATTTTAATAAATTA
* **
37773333 TTAAAATATATTTTTTAATATTTTA
1 TTATAA-ATA--TTTTAATAAATTA
37773358 TTATAAATATTTTAATAAATTA
1 TTATAAATATTTTAATAAATTA
37773380 -TATAA
1 TTATAA
37773385 TAAATTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 5 0.12
22 11 0.27
23 7 0.17
24 4 0.10
25 14 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATAAATATTTTAATAAATTA
Found at i:37773440 original size:29 final size:29
Alignment explanation
Indices: 37773408--37773463 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
37773398 TTTAATAGAT
*
37773408 AAAATATATTA-AAATTGTATTTATATTAA
1 AAAAT-TATTAGAAATTATATTTATATTAA
37773437 AAAATTATTAGAAATTATATTTATATT
1 AAAATTATTAGAAATTATATTTATATT
37773464 GATTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTATTAGAAATTATATTTATATTAA
Found at i:37776435 original size:30 final size:30
Alignment explanation
Indices: 37776399--37776622 Score: 137
Period size: 30 Copynumber: 7.4 Consensus size: 30
37776389 TCATCGACCA
* * *
37776399 ATGAAAAGGGATAGTTTCGATTATCAAACT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* *
37776429 ATGAAAAGGGATTG-TGACGACTATCAAAATT
1 ATGAAAAGGGATAGCT-TCGACTATC-AAATT
* ** * *
37776460 ATGAAAAGGGATAGCTTCGGCTATTGAGTC
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
*
37776490 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * *
37776520 ATGGAAAGGGAT-GGTGACGACCACCAAAATT
1 ATGAAAAGGGATAGCT-TCGACTATC-AAATT
** * * ** *
37776551 ATGAAAAAAGATAGCTTTGGCTATTGAATA
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* ** **
37776581 ATGGAAAGGGATAGCTTCGGTTATTGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
*
37776611 ATGGAAAGGGAT
1 ATGAAAAGGGAT
37776623 GGTATCAACC
Statistics
Matches: 149, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
29 3 0.02
30 103 0.69
31 40 0.27
32 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:37776554 original size:91 final size:91
Alignment explanation
Indices: 37776398--37776625 Score: 312
Period size: 91 Copynumber: 2.5 Consensus size: 91
37776388 ATCATCGACC
* * * * * * *
37776398 AATGAAAAGGGATAGTTTCGATTATCAAACTATGAAAAGGGATTGTGACGACTATCAAAATTATG
1 AATGAAAAGGGATAGCTTCGGTTATCAAATTATGGAAAGGGATGGTGACGACCACCAAAATTATG
** *
37776463 AAAAGGGATAGCTTCGGCTATTGAGT
66 AAAAAAGATAGCTTCGGCTATTGAAT
* *
37776489 CATGAAAAGGGATAGCTTCGGCTATCAAATTATGGAAAGGGATGGTGACGACCACCAAAATTATG
1 AATGAAAAGGGATAGCTTCGGTTATCAAATTATGGAAAGGGATGGTGACGACCACCAAAATTATG
*
37776554 AAAAAAGATAGCTTTGGCTATTGAAT
66 AAAAAAGATAGCTTCGGCTATTGAAT
* **
37776580 AATGGAAAGGGATAGCTTCGGTTATTGAATTATGGAAAGGGATGGT
1 AATGAAAAGGGATAGCTTCGGTTATCAAATTATGGAAAGGGATGGT
37776626 ATCAACCCTC
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 119 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (91 bp):
AATGAAAAGGGATAGCTTCGGTTATCAAATTATGGAAAGGGATGGTGACGACCACCAAAATTATG
AAAAAAGATAGCTTCGGCTATTGAAT
Found at i:37782097 original size:33 final size:33
Alignment explanation
Indices: 37782060--37782203 Score: 94
Period size: 33 Copynumber: 4.3 Consensus size: 33
37782050 ATAACCCACT
*
37782060 TATGGTCTTATCATTAGAATGTCATAGCCCAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
* *** * *
37782093 TATGGTCTTA-CATATAAACATTGTTGTAGTCCAAC
1 TATGGTCTTATCAT-TAGA-A-TGCCATAGCCCAGC
* ** * * * * *
37782128 CATGGTCTTATGTTTATAGTGCCATAACCTAGT
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
*
37782161 TATGGTCTTATCATCAGAATGCCATAGCCC-GAC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAG-C
37782194 TATGGTCTTA
1 TATGGTCTTA
37782204 CATATATAAA
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
32 4 0.05
33 51 0.65
34 1 0.01
35 22 0.28
36 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (33 bp):
TATGGTCTTATCATTAGAATGCCATAGCCCAGC
Found at i:37782227 original size:101 final size:101
Alignment explanation
Indices: 37782026--37782243 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 101
37782016 CATGGCCCTG
* * *
37782026 CCATGGTCTTACGTTCATAGTACCATAACCCACTTATGGTCTTATCATTAGAATGTCATAGCCCA
1 CCATGGTCTTACGTTTATAGTACCATAACCCACTTATGGTCTTATCATCAGAATGCCATAGCCCA
* ***
37782091 GCTATGGTCTTACATATAAACATTGTTGTAGTCCAA
66 GCTATGGTCTTACATATAAACACTGCCATAGTCCAA
* * * *
37782127 CCATGGTCTTATGTTTATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCC-
1 CCATGGTCTTACGTTTATAGTACCATAACCCACTTATGGTCTTATCATCAGAATGCCATAGCCCA
37782191 GACTATGGTCTTACATATATAA-ACTGCCAT-GCTCCAA
66 G-CTATGGTCTTACATATA-AACACTGCCATAG-TCCAA
37782228 CCATGGTCTTACGTTT
1 CCATGGTCTTACGTTT
37782244 GAATAATTGT
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
100 2 0.02
101 98 0.96
102 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (101 bp):
CCATGGTCTTACGTTTATAGTACCATAACCCACTTATGGTCTTATCATCAGAATGCCATAGCCCA
GCTATGGTCTTACATATAAACACTGCCATAGTCCAA
Found at i:37793924 original size:17 final size:17
Alignment explanation
Indices: 37793902--37793935 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37793892 AACATTATTC
37793902 AAGGGTTGGAAATGTCA
1 AAGGGTTGGAAATGTCA
37793919 AAGGGTTGGAAATGTCA
1 AAGGGTTGGAAATGTCA
37793936 CCAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (17 bp):
AAGGGTTGGAAATGTCA
Found at i:37794914 original size:44 final size:44
Alignment explanation
Indices: 37794848--37794935 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
37794838 ACGAGATAAA
* *
37794848 ATCCCGTTCATTTTATCGGATACTTATTTTTTCATTTTTCTTTT
1 ATCCCGTTCATTTTATCAGATACTTAATTTTTCATTTTTCTTTT
37794892 ATCCCGTTCATTTTATCAGATACTTAATTTTTCATTTTTCTTTT
1 ATCCCGTTCATTTTATCAGATACTTAATTTTTCATTTTTCTTTT
37794936 TGAATAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (44 bp):
ATCCCGTTCATTTTATCAGATACTTAATTTTTCATTTTTCTTTT
Found at i:37798228 original size:18 final size:18
Alignment explanation
Indices: 37798205--37798239 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37798195 AATGTTCAAT
37798205 AGATTGATTAATTTAATG
1 AGATTGATTAATTTAATG
37798223 AGATTGATTAATTTAAT
1 AGATTGATTAATTTAAT
37798240 AAGTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (18 bp):
AGATTGATTAATTTAATG
Found at i:37800217 original size:17 final size:17
Alignment explanation
Indices: 37800192--37800246 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
37800182 GTTCATAGAG
*
37800192 TTTTGATTAGGAAATGT
1 TTTTTATTAGGAAATGT
*
37800209 TTTTTATTACGAAATGT
1 TTTTTATTAGGAAATGT
*
37800226 TTTTTACTAGGAAAT-T
1 TTTTTATTAGGAAATGT
37800242 TTTTT
1 TTTTT
37800247 TGGACGTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 6 0.18
17 28 0.82
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.55
Consensus pattern (17 bp):
TTTTTATTAGGAAATGT
Found at i:37802175 original size:4 final size:4
Alignment explanation
Indices: 37802166--37802199 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
37802156 AAGCTTTAGA
37802166 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TATAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T
37802200 ATATATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:37805881 original size:5 final size:5
Alignment explanation
Indices: 37805848--37805891 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
37805838 AATGTATTTT
37805848 TTGCA TT-CA TTGCA TT-CA -TGCA TTAGCA TTGCA TTGCA TTGCA T
1 TTGCA TTGCA TTGCA TTGCA TTGCA TT-GCA TTGCA TTGCA TTGCA T
37805892 CATATGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 1 0.03
4 8 0.23
5 21 0.60
6 5 0.14
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (5 bp):
TTGCA
Found at i:37805888 original size:10 final size:9
Alignment explanation
Indices: 37805848--37805901 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
37805838 AATGTATTTT
37805848 TTGCATTCA
1 TTGCATTCA
37805857 TTGCATTCA
1 TTGCATTCA
37805866 -TGCATTAGCA
1 TTGCATT--CA
37805876 TTGCATTGCA
1 TTGCATT-CA
37805886 TTGCA-TCA
1 TTGCATTCA
37805894 TATGCATT
1 T-TGCATT
37805902 AAAACTCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 9 0.22
9 14 0.35
10 11 0.28
11 6 0.15
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (9 bp):
TTGCATTCA
Found at i:37805901 original size:24 final size:22
Alignment explanation
Indices: 37805848--37805901 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
37805838 AATGTATTTT
37805848 TTGCATTCATTGCATTCATGCA
1 TTGCATTCATTGCATTCATGCA
37805870 TTAGCATTGCATTGCATTGCAT-CA
1 TT-GCATT-CATTGCATT-CATGCA
37805894 TATGCATT
1 T-TGCATT
37805902 AAAACTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 2 0.07
23 5 0.18
24 17 0.61
25 4 0.14
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (22 bp):
TTGCATTCATTGCATTCATGCA
Found at i:37809572 original size:7 final size:7
Alignment explanation
Indices: 37809560--37809585 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37809550 AATCATTCAA
37809560 CTCACCC
1 CTCACCC
37809567 CTCACCC
1 CTCACCC
37809574 CTCACCC
1 CTCACCC
37809581 CTCAC
1 CTCAC
37809586 ACTCTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (7 bp):
CTCACCC
Found at i:37814484 original size:56 final size:56
Alignment explanation
Indices: 37814398--37814573 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
37814388 ACAAGGGATG
37814398 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37814454 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
37814510 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37814566 ATGGGCAA
1 ATGGGCAA
37814574 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:37814608 original size:112 final size:112
Alignment explanation
Indices: 37814398--37814608 Score: 259
Period size: 112 Copynumber: 1.9 Consensus size: 112
37814388 ACAAGGGATG
37814398 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
* * * ** ** ***
37814463 ACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
66 ACATCTAATGAAAAATGAAGTGAGAAAACAAAAATAAAATAAGAAGC
*
37814510 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAT
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAA-
37814575 AA-A-CTAAT-AAGAAATGGAAG-GAAGAAAACAAAAA
65 AACATCTAATGAA-AAAT-GAAGTG-AGAAAACAAAAA
37814609 AAAGGAATGT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
110 2 0.02
111 7 0.08
112 73 0.87
113 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.21
Consensus pattern (112 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
ACATCTAATGAAAAATGAAGTGAGAAAACAAAAATAAAATAAGAAGC
Found at i:37819080 original size:41 final size:41
Alignment explanation
Indices: 37819022--37819212 Score: 355
Period size: 41 Copynumber: 4.6 Consensus size: 41
37819012 CTTAATTTAA
* *
37819022 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
37819064 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
37819105 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
37819146 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
37819187 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
37819213 ACGTATAGTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 143 0.97
42 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:37821979 original size:30 final size:29
Alignment explanation
Indices: 37821911--37821980 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
37821901 TGAAGTTTAA
37821911 TTTCT-AAGCTTTGGGGAAAAAGTGTAAAT
1 TTTCTAAAG-TTTGGGGAAAAAGTGTAAAT
* * * * *
37821940 ATGCAAAAGTTTAGGGGAAAAATTGTAATT
1 TTTCTAAAGTTT-GGGGAAAAAGTGTAAAT
37821970 TTTCTAAAGTT
1 TTTCTAAAGTT
37821981 CGAGTCAAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (29 bp):
TTTCTAAAGTTTGGGGAAAAAGTGTAAAT
Found at i:37822367 original size:45 final size:45
Alignment explanation
Indices: 37822312--37822479 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 45
37822302 ATATCGTTGG
* **
37822312 AAATATAGGT-GTATGCTATGTGTTGATTCCACCCGATATTAATGA
1 AAATATAGGTGGT-TGCTATGTGTTGATTTCACCCGATACCAATGA
* * * * *
37822357 AAATAAAGGTGGTTGTTATGTGCTGATTTCACCAGATACCAATGG
1 AAATATAGGTGGTTGCTATGTGTTGATTTCACCCGATACCAATGA
** * *
37822402 TTATATAGGTGGTTGCTATGTGTTGATTTCACCCGGTACCATTGA
1 AAATATAGGTGGTTGCTATGTGTTGATTTCACCCGATACCAATGA
** * *
37822447 GTATAAAGGTGGTTGCTATGTGCTGATTTCACC
1 AAATATAGGTGGTTGCTATGTGTTGATTTCACC
37822480 GAGTACTATT
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 100 0.98
46 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
AAATATAGGTGGTTGCTATGTGTTGATTTCACCCGATACCAATGA
Found at i:37822426 original size:90 final size:90
Alignment explanation
Indices: 37822314--37822479 Score: 244
Period size: 90 Copynumber: 1.8 Consensus size: 90
37822304 ATCGTTGGAA
** *
37822314 ATATAGGTGTATGCTATGTGTTGATTCCACCCGATATTAATGAAAATAAAGGTGGTTGTTATGTG
1 ATATAGGTGTATGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGTG
37822379 CTGATTTCACCAGATACCAATGGTT
66 CTGATTTCACCAGATACCAATGGTT
* * * **
37822404 ATATAGGTGGT-TGCTATGTGTTGATTTCACCCGGTACCATTGAGTATAAAGGTGGTTGCTATGT
1 ATATAGGT-GTATGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGT
37822468 GCTGATTTCACC
65 GCTGATTTCACC
37822480 GAGTACTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 65 0.97
91 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (90 bp):
ATATAGGTGTATGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGTG
CTGATTTCACCAGATACCAATGGTT
Found at i:37822491 original size:45 final size:45
Alignment explanation
Indices: 37822359--37822517 Score: 182
Period size: 45 Copynumber: 3.6 Consensus size: 45
37822349 ATTAATGAAA
* *
37822359 ATAAAGGTGGTTGTTATGTGCTGATTTCACC-AGATACCAATG-GTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAG-TACCATTGAG-T
* *
37822404 ATATAGGTGGTTGCTATGTGTTGATTTCACCCG-GTACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA-CCGAGTACCATTGAGT
* *
37822449 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGT
* * *
37822494 ATAACGGTGG-TGATGTGTGCTGAT
1 ATAAAGGTGGTTGCTATGTGCTGAT
37822518 CCACCGTGTA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
44 15 0.15
45 80 0.81
46 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGT
Found at i:37822503 original size:90 final size:90
Alignment explanation
Indices: 37822314--37822504 Score: 226
Period size: 90 Copynumber: 2.1 Consensus size: 90
37822304 ATCGTTGGAA
** *
37822314 ATATAGGT-GTATGCTATGTGTTGATTCCACCCGATATTAATGAAAATAAAGGTGGTTGTTATGT
1 ATATAGGTGGT-TGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGT
**
37822378 GCTGATTTCACCAGATACCAATGGTT
65 GCTGATTTCACCAGATACCAATGACT
* * * **
37822404 ATATAGGTGGTTGCTATGTGTTGATTTCACCCGGTACCATTGAGTATAAAGGTGGTTGCTATGTG
1 ATATAGGTGGTTGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGTG
* *
37822469 CTGATTTCACC-GAGTACTATTGACT
66 CTGATTTCACCAGA-TACCAATGACT
37822494 ATA-ACGGTGGT
1 ATATA-GGTGGT
37822505 GATGTGTGCT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
89 3 0.03
90 81 0.94
91 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (90 bp):
ATATAGGTGGTTGCTATGTGTTGATTCCACCCGATACCAATGAAAATAAAGGTGGTTGCTATGTG
CTGATTTCACCAGATACCAATGACT
Found at i:37831550 original size:44 final size:44
Alignment explanation
Indices: 37831485--37832138 Score: 290
Period size: 45 Copynumber: 14.5 Consensus size: 44
37831475 CTGTAAATCG
* * *
37831485 TATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
*** * * * *
37831529 TATCTCCCTGAAGTTGCAGTGGAATGGACTGAAGATAATAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAGTCT
* * * * *
37831574 TATCTCCCTGAAGTTGCAGTGGAACGGACTGAAGATAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAGTCT
* * * * *
37831619 TATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATATAAATTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-------CTACAAGTCT
* * * * * * * *
37831670 TATCTTCCTGAAGTTACGGTGGAGCAAATTGAAGTTATAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
* * * *** * *
37831714 TATCTCCCTAAAGTTACAGTGGAGTAGATCGGAGATAGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAGTCT
** * * **
37831759 TATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
*
37831803 TATCTCCCTGAAGTTGCAGTGGAGCAAATTCAAGACGCT--AA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-GCTACAAGTCT
* * *
37831847 TATTTCCCTGAGGTTGCAGTGGAACAGATTAAAGCTTAAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-T------ACAAGTCT
* * * * * *
37831898 TATCTGCTTGAAGTTGCAGTGGAGCAAACTATAGATAGCGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C-AAGTCT
* * * *
37831943 TATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCATAAATTAGATATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-C-TACA--AG---TCT
* * * * * * *
37831994 AATCTCTCTGAAGTTGCAGTAGAGCATATCATAGC-A-AA-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
* *
37832035 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAA--T-C---TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
** * * * * * *
37832073 CGTCTCCCTGAATTTGCAGCGGAGTAGATTGAAGCTGCAAGTCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
*
37832117 TATCTCTCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGG
37832139 CGTGGATCGA
Statistics
Matches: 460, Mismatches: 110, Indels: 80
0.71 0.17 0.12
Matches are distributed among these distances:
38 27 0.06
40 1 0.00
41 30 0.07
42 2 0.00
43 2 0.00
44 144 0.31
45 148 0.32
46 3 0.01
47 7 0.02
48 1 0.00
50 4 0.01
51 90 0.20
52 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCT
Found at i:37831654 original size:45 final size:44
Alignment explanation
Indices: 37831480--37832067 Score: 292
Period size: 45 Copynumber: 12.9 Consensus size: 44
37831470 ACAGGCTGTA
* * * **
37831480 AATCGTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAG-CCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
*** * * *
37831523 AAGTCTTATCTCCCTGAAGTTGCAGTGGAATGGACTGAAGATAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * * *
37831568 AAGTCTTATCTCCCTGAAGTTGCAGTGGAACGGACTGAAGATAAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * *
37831613 AAGTCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATATAAATTAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT--A--AC
* * * * * *
37831664 AAATCTTATCTTCCTGAAGTTACGGTGGAGCAAATTGAAGTTATA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-AC
* * * *** *
37831709 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATCGGAGATAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
** * *
37831753 AAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTATA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-AC
* * * **
37831798 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTCAAGA-CGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * * *
37831841 TAATCTTATTTCCCTGAGGTTGCAGTGGAACAGATTAAAGCTTAAAGCCAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---ATA---AC
* * * * * *
37831892 AAGTCTTATCTGCTTGAAGTTGCAGTGGAGCAAACTATAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * * *
37831937 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCATAAATTAG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT--A--AC
* * * * * *
37831988 ATATCTAATCTCTCTGAAGTTGCAGTAGAGCATATCATAGCA-AAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ATAAC
* *
37832033 ---CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
37832068 TCTCTCGTCT
Statistics
Matches: 413, Mismatches: 102, Indels: 62
0.72 0.18 0.11
Matches are distributed among these distances:
41 27 0.07
43 2 0.00
44 129 0.31
45 142 0.34
46 4 0.01
47 7 0.02
48 2 0.00
49 3 0.01
50 5 0.01
51 90 0.22
52 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
Found at i:37831692 original size:51 final size:51
Alignment explanation
Indices: 37831611--37831736 Score: 115
Period size: 51 Copynumber: 2.6 Consensus size: 51
37831601 ACTGAAGATA
* * *
37831611 ACAAGTCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATATAAATT
1 ACAAATCTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGATATAAATT
* * * *
37831662 ACAAATCTTATCTT-CCTGAAGTTACGGTGGAGCAAATTGAAG-T-T--A-T
1 ACAAATCTTAT-TTCCCTAAAGTTACAGTGGAACAAATTAAAGATATAAATT
*
37831708 --AAATCTTATCTCCCTAAAGTTACAGTGGA
1 ACAAATCTTATTTCCCTAAAGTTACAGTGGA
37831737 GTAGATCGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.02
44 24 0.38
46 1 0.02
47 1 0.02
49 1 0.02
50 1 0.02
51 32 0.51
52 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (51 bp):
ACAAATCTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGATATAAATT
Found at i:37831798 original size:89 final size:89
Alignment explanation
Indices: 37831663--37831826 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
37831653 ATATAAATTA
* * * * *
37831663 CAAATCTTATCTTCCTGAAGTTACGGTGGAGCAAATTGAAGTTATAAATCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTTACAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTAAAGT
37831728 TACAGTGGAGTAGATCGGAGATAG
66 TACAGTGGAGTAGATCGGAGATAG
* * * *
37831752 CAAATCTTATC-TCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAG
1 CAAATCTTATCTTC-CTGAAGTTACAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTAAAG
*
37831816 TTGCAGTGGAG
65 TTACAGTGGAG
37831827 CAAATTCAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
88 2 0.03
89 62 0.97
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
CAAATCTTATCTTCCTGAAGTTACAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTAAAGT
TACAGTGGAGTAGATCGGAGATAG
Found at i:37831919 original size:95 final size:96
Alignment explanation
Indices: 37831801--37831977 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
37831791 AGCTATAAAC
* * * *
37831801 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTCA-AGA-CGCTAATCTTATTTCCCTGAGGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-ATAGATAGCGAATCTTATTTCCCTGAAGTTGC
37831864 AGTGGAACAGATTAAAGCTTAAAGCCACAAGT
65 AGTGGAACAGATTAAAGCTTAAAGCCACAAGT
* *
37831896 CTTATCTGCTTGAAGTTGCAGTGGAGCAAACTATAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTATAGATAGCGAATCTTATTTCCCTGAAGTTGCA
*
37831961 GTGGAACAGATTGAAGC
66 GTGGAACAGATTAAAGC
37831978 CATAAATTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
94 1 0.01
95 32 0.44
96 40 0.55
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTATAGATAGCGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTAAAGCTTAAAGCCACAAGT
Found at i:37832006 original size:96 final size:95
Alignment explanation
Indices: 37831804--37832067 Score: 256
Period size: 96 Copynumber: 2.8 Consensus size: 95
37831794 TATAAACCTT
* * * *
37831804 ATCTCCCTGAAGTTGCAGTGGAGCAAAT-TCAAGA-CGCTAATCTTATTTCCCTGAGGTTGCAGT
1 ATCTCTCTGAAGTTGCAGTGGAGCAAATAT--AGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
* *
37831867 GGAACAGATTAAAGCTTAAAGCCACAAGTCTT
64 GGAACAGATTAAAGCATAAAGCCACAAGTCTA
*
37831899 ATCTGCT-TGAAGTTGCAGTGGAGCAAACTATAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 ATCT-CTCTGAAGTTGCAGTGGAGCAAA-TATAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
* ** *
37831963 GGAACAGATTGAAGCCATAAA-TTAGATA-TCTA
64 GGAACAGATTAAAG-CATAAAGCCACA-AGTCTA
* * * * *
37831995 ATCTCTCTGAAGTTGCAGTAGAGC--ATAT-CATAGCAAACCTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAAATATAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
* *
37832057 AGCAGACTAAA
66 AACAGATTAAA
37832068 TCTCTCGTCT
Statistics
Matches: 143, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
92 37 0.26
93 3 0.02
94 1 0.01
95 29 0.20
96 66 0.46
97 7 0.05
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (95 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAAATATAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
AACAGATTAAAGCATAAAGCCACAAGTCTA
Found at i:37833156 original size:37 final size:37
Alignment explanation
Indices: 37833106--37833184 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37833096 TTATTACGAA
* * *
37833106 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
37833143 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37833180 GTCTT
1 GTCTT
37833185 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37833381 original size:47 final size:47
Alignment explanation
Indices: 37833303--37833621 Score: 478
Period size: 47 Copynumber: 6.7 Consensus size: 47
37833293 CCCTTCGGGA
* * * * * *
37833303 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37833350 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37833397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37833444 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37833491 CTTATCACATATATACACTTTCACATTCATCACACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCAT--CACATCGGCCATTAGGC
37833540 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37833587 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
37833622 AGAATCCTAA
Statistics
Matches: 250, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 204 0.82
49 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37833583 original size:143 final size:141
Alignment explanation
Indices: 37833303--37833621 Score: 505
Period size: 143 Copynumber: 2.2 Consensus size: 141
37833293 CCCTTCGGGA
* * ** * *
37833303 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCAGCCACTAGGCCCTATCACATATATACAC
37833368 TTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCATCACATC
37833433 GGCCATTAGGC
131 GGCCATTAGGC
* * *
37833444 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCAGCCACTAGGCCCTATCACATATATACAC
37833509 TTTCACATTCATCACACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCATCACA
66 TTTCACATTCAT--CACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCATCACA
37833574 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
37833587 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
37833622 AGAATCCTAA
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
141 68 0.42
142 1 0.01
143 94 0.58
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCAGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:37837829 original size:15 final size:14
Alignment explanation
Indices: 37837793--37837847 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
37837783 TCTATTGATC
37837793 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
37837807 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
37837821 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
37837836 GAAAGAAAAGAA
1 GAGA-AAAAGAA
37837848 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:37841381 original size:166 final size:166
Alignment explanation
Indices: 37841107--37841438 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 166
37841097 CAAAGTTTTA
*
37841107 GTGTGTCTTGACTAAGACAAATTTATTAGTGGCTGCTAATTAATTTGTCTTAGCCGAATTAATGA
1 GTGTGTCTTGACTAAGACAAATTTATTAGTGGCTGCTAATTAATTTGTCTTAGCCAAATTAATGA
37841172 GCAGAATTTTAATATGTCCAGCTGCTGATTTCATGAGTATTAAACTTGTCCTAATCACATTTATT
66 GCAGAATTTTAATATGTCCAGCTGCTGATTTCATGAGTATTAAACTTGTCCTAATCACATTTATT
37841237 TGATGTCTTTTTCAGCTAGCTTAATGGCAAAGAAAG
131 TGATGTCTTTTTCAGCTAGCTTAATGGCAAAGAAAG
37841273 GTGTGTCTTGACTAAGACAAATTTATTAGTGGCTGCTAATTAATTTGTCTTAGCCAAATTAATGA
1 GTGTGTCTTGACTAAGACAAATTTATTAGTGGCTGCTAATTAATTTGTCTTAGCCAAATTAATGA
*
37841338 GCAGAATTTTAATATGTCCAGCTGCTGATTTCATGAGTATTAAACTTGTCTTAATCACATTTATT
66 GCAGAATTTTAATATGTCCAGCTGCTGATTTCATGAGTATTAAACTTGTCCTAATCACATTTATT
37841403 TGATGTCTTTTTCAGCTAGCTTAATGGCAAAGAAAG
131 TGATGTCTTTTTCAGCTAGCTTAATGGCAAAGAAAG
37841439 CTCATAAAGA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (166 bp):
GTGTGTCTTGACTAAGACAAATTTATTAGTGGCTGCTAATTAATTTGTCTTAGCCAAATTAATGA
GCAGAATTTTAATATGTCCAGCTGCTGATTTCATGAGTATTAAACTTGTCCTAATCACATTTATT
TGATGTCTTTTTCAGCTAGCTTAATGGCAAAGAAAG
Found at i:37845256 original size:36 final size:36
Alignment explanation
Indices: 37845176--37845256 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
37845166 GCTAAACAAT
* *
37845176 GCCATTTTGGTCGGCGTTCATAATCCCCAAAATGAC
1 GCCATTTTGGTCGGCGTTCATAAGCCCCAAAATCAC
*
37845212 GCCGTTTTGGTCGGCGTTCATAAGCCCCAAAA-CATC
1 GCCATTTTGGTCGGCGTTCATAAGCCCCAAAATCA-C
*
37845248 GTCATTTTG
1 GCCATTTTG
37845257 TGTCTGACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (36 bp):
GCCATTTTGGTCGGCGTTCATAAGCCCCAAAATCAC
Found at i:37845741 original size:14 final size:14
Alignment explanation
Indices: 37845719--37845751 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37845709 ATTACATTTA
*
37845719 TTTTA-TTATATCG
1 TTTTATTTATATCC
37845732 TTTTATTTATATCC
1 TTTTATTTATATCC
37845746 TTTTAT
1 TTTTAT
37845752 ATGATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTTATTTATATCC
Found at i:37855582 original size:58 final size:58
Alignment explanation
Indices: 37855518--37855631 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
37855508 ATGGACACGA
37855518 CCCTCTATTGAGAAATGTTACTATCG-TCTATATTTACATGACGTTCTTAGAGGTTCCC
1 CCCTCTATTGAGAAATGTTACTATCGTTC-ATATTTACATGACGTTCTTAGAGGTTCCC
37855576 CCCTCTATTGAGAAATGTTACTATCGTTCATATTTACATGACGTTCTTAGAGGTTC
1 CCCTCTATTGAGAAATGTTACTATCGTTCATATTTACATGACGTTCTTAGAGGTTC
37855632 TCACCAATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
58 53 0.96
59 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (58 bp):
CCCTCTATTGAGAAATGTTACTATCGTTCATATTTACATGACGTTCTTAGAGGTTCCC
Found at i:37869050 original size:21 final size:21
Alignment explanation
Indices: 37868989--37869043 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
37868979 GCAGTGTCCC
* * * *
37868989 TTCTATTTTATTTACATATAT
1 TTCTTTTTTATTTTCTTTTAT
37869010 TTCTTTTTTATTTTCTTTTAT
1 TTCTTTTTTATTTTCTTTTAT
37869031 TT-TTCTTTTATTT
1 TTCTT-TTTTATTT
37869044 CGTTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (21 bp):
TTCTTTTTTATTTTCTTTTAT
Found at i:37877157 original size:3 final size:3
Alignment explanation
Indices: 37877149--37877184 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
37877139 ATTTTATTGT
*
37877149 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37877185 CCTACTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37886730 original size:631 final size:631
Alignment explanation
Indices: 37885527--37886788 Score: 2292
Period size: 631 Copynumber: 2.0 Consensus size: 631
37885517 AGATGCATCC
37885527 TAAGGATATGAAGAAAACAACATTTATAACCTTATGGGGAACCTTTTGTTATAAGGTGATGCCAT
1 TAAGGATATGAAGAAAACAACATTTATAACCTTATGGGGAACCTTTTGTTATAAGGTGATGCCAT
*
37885592 TTGGGTTGAAAAATGCAGGGGCAACGTATCAGAGGGCCATGGTAACACTGTTCCATGATATGATG
66 TTGGGTTGAAAAATGCAGGGGCAACGTATCAGAGGGCCATGGTAACACTGTTCCATGACATGATG
*
37885657 CATAAGGAGTTAGAAGTCTATGTTGATGACATGATTGCAAAATCTAAAACAGAAGAGGAACATGT
131 CATAAGGAGTTAGAAGTCTATGTTGATGACATGATTGCAAAATCTAAAACAGAAAAGGAACATGT
** * *
37885722 GCAGGTCCTTAAGAAATTATTTGTGAGGTTGAGAAAATTTCAACTAAAGCTAAATCCAGCGAAAT
196 GCAGGTCCTTAAGAAATTATTTACGAGATTGAGAAAATTTCAACTAAAGCTAAATCCAGCAAAAT
* * *
37885787 GCACATTTGGGGTCAGATCAGGAAAATTGCTGGGGTTCGTGGTCAGTGAGAGAGGAATTGAGATT
261 GCACATTCGGGGTCAGATCAGGAAAATTGCTGGGATTCGTGGTCAGTGAAAGAGGAATTGAGATT
* * *
37885852 GATCCTGACAAAGTAAGAGTAATACAAGAATTACCTCTGCCGCGTACTCAAAAAGAGGTTCAAGG
326 GATCCTGACAAAGTAAGAGCAATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGG
*
37885917 TTTTCTAGGAAGATTGAACTATAATGCTCGGTTCATCTCACAGCTAATCGAGAAACGCGACCCCA
391 TTTTCTAGGAAGACTGAACTATAATGCTCGGTTCATCTCACAGCTAATCGAGAAACGCGACCCCA
* * *
37885982 TATTTTGTCTCCTTAAGAAACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAA
456 TATTTCGCCTCCTCAAGAAACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAA
37886047 AAAGTCAAACATTACCTTTCCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCAT
521 AAAGTCAAACATTACCTTTCCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCAT
37886112 ACTGTATTTGGCAGTATTTGAAAATTTCATGGGATGCGTGCTTGGT
586 ACTGTATTTGGCAGTATTTGAAAATTTCATGGGATGCGTGCTTGGT
37886158 TAAGGATATGAAGAAAACAACATTTATAACCTTATGGGGAACCTTTTGTTATAAGGTGATGCCAT
1 TAAGGATATGAAGAAAACAACATTTATAACCTTATGGGGAACCTTTTGTTATAAGGTGATGCCAT
37886223 TTGGGTTGAAAAATGCAGGGGCAACGTATCAGAGGGCCATGGTAACACTGTTCCATGACATGATG
66 TTGGGTTGAAAAATGCAGGGGCAACGTATCAGAGGGCCATGGTAACACTGTTCCATGACATGATG
37886288 CATAAGGAGTTAGAAGTCTATGTTGATGACATGATTGCAAAATCTAAAACAGAAAAGGAACATGT
131 CATAAGGAGTTAGAAGTCTATGTTGATGACATGATTGCAAAATCTAAAACAGAAAAGGAACATGT
* *
37886353 GCAGGTCCTTAAGAAATTATTTACGAGATTGAGGAAATTTCAGCTAAAGCTAAATCCAGCAAAAT
196 GCAGGTCCTTAAGAAATTATTTACGAGATTGAGAAAATTTCAACTAAAGCTAAATCCAGCAAAAT
*
37886418 GCACATTCGGGGTCAGATCAGGAAAATTGCTTGGATTCGTGGTCAGTGAAAGAGGAATTGAGATT
261 GCACATTCGGGGTCAGATCAGGAAAATTGCTGGGATTCGTGGTCAGTGAAAGAGGAATTGAGATT
* *
37886483 GATCCTGACAAAGTAAGAGCAATACAAGAATTACCCCCGCCGCGTACTCAAAAGGAGGTTCGAGG
326 GATCCTGACAAAGTAAGAGCAATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGG
* * *
37886548 TTTTCTAGGAAGGCTGAACTATATTGCTCGGTTCATCTCACAGCTAA-CTGAGAAATGCGACCCC
391 TTTTCTAGGAAGACTGAACTATAATGCTCGGTTCATCTCACAGCTAATC-GAGAAACGCGACCCC
37886612 ATATTTCGCCTCCTCAAGAAACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGA
455 ATATTTCGCCTCCTCAAGAAACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGA
37886677 AAAAGTCAAACATTACCTTTCCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCA
520 AAAAGTCAAACATTACCTTTCCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCA
37886742 TACTGTATTTGGCAGTATTTGAAAATTTCATGGGATGCGTGCTTGGT
585 TACTGTATTTGGCAGTATTTGAAAATTTCATGGGATGCGTGCTTGGT
37886789 CAACATGATG
Statistics
Matches: 606, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
630 1 0.00
631 605 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (631 bp):
TAAGGATATGAAGAAAACAACATTTATAACCTTATGGGGAACCTTTTGTTATAAGGTGATGCCAT
TTGGGTTGAAAAATGCAGGGGCAACGTATCAGAGGGCCATGGTAACACTGTTCCATGACATGATG
CATAAGGAGTTAGAAGTCTATGTTGATGACATGATTGCAAAATCTAAAACAGAAAAGGAACATGT
GCAGGTCCTTAAGAAATTATTTACGAGATTGAGAAAATTTCAACTAAAGCTAAATCCAGCAAAAT
GCACATTCGGGGTCAGATCAGGAAAATTGCTGGGATTCGTGGTCAGTGAAAGAGGAATTGAGATT
GATCCTGACAAAGTAAGAGCAATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGG
TTTTCTAGGAAGACTGAACTATAATGCTCGGTTCATCTCACAGCTAATCGAGAAACGCGACCCCA
TATTTCGCCTCCTCAAGAAACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAA
AAAGTCAAACATTACCTTTCCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCAT
ACTGTATTTGGCAGTATTTGAAAATTTCATGGGATGCGTGCTTGGT
Found at i:37887994 original size:776 final size:776
Alignment explanation
Indices: 37886503--37888051 Score: 2983
Period size: 776 Copynumber: 2.0 Consensus size: 776
37886493 AAGTAAGAGC
* * *
37886503 AATACAAGAATTACCCCCGCCGCGTACTCAAAAGGAGGTTCGAGGTTTTCTAGGAAGGCTGAACT
1 AATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGGTTTTCTAGGAAGACTGAACT
* *
37886568 ATATTGCTCGGTTCATCTCACAGCTAACTGAGAAATGCGACCCCATATTTCGCCTCCTCAAGAAA
66 ATAATGCTCGGTTCATCTCACAGCTAACTGAGAAACGCGACCCCATATTTCGCCTCCTCAAGAAA
37886633 CATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAAAAAGTCAAACATTACCTTTC
131 CATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAAAAAGTCAAACATTACCTTTC
37886698 CAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCATACTGTATTTGGCAGTATTTG
196 CAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCATACTGTATTTGGCAGTATTTG
37886763 AAAATTTCATGGGATGCGTGCTTGGTCAACATGATGAGCCAGGACGAAAAGAAAGAGCAATCTAC
261 AAAATTTCATGGGATGCGTGCTTGGTCAACATGATGAGCCAGGACGAAAAGAAAGAGCAATCTAC
37886828 TATCTCAGTAAGAAGTTCACCGAATGCGAAACAAGATATTCGCCAATCGAGAAGTTATGTTGTGC
326 TATCTCAGTAAGAAGTTCACCGAATGCGAAACAAGATATTCGCCAATCGAGAAGTTATGTTGTGC
37886893 CCTGATCTGGACAACTCGGAGACTGAGACAGTACATGTTGTACCATACAACCTGGTTAATCTCTA
391 CCTGATCTGGACAACTCGGAGACTGAGACAGTACATGTTGTACCATACAACCTGGTTAATCTCTA
37886958 AATTGGACCCTCTGAAATACTTGATGGAATCAACCGCTTTGAATGGAAGAATGGCCCGATGGCAA
456 AATTGGACCCTCTGAAATACTTGATGGAATCAACCGCTTTGAATGGAAGAATGGCCCGATGGCAA
37887023 ATTCTCCTATCTGAATTTGACAAAGTCTATGTGAACCAGAAGGCGGTCAAAGGGAATGCATTAGC
521 ATTCTCCTATCTGAATTTGACAAAGTCTATGTGAACCAGAAGGCGGTCAAAGGGAATGCATTAGC
37887088 GGACTTCCTGGCAAGTAGAGCGCTGGAGGATTATGAACCATTGAACTTTGATATCCCAAATGAAG
586 GGACTTCCTGGCAAGTAGAGCGCTGGAGGATTATGAACCATTGAACTTTGATATCCCAAATGAAG
37887153 ATTTGATGTATGTTGCAACTACAGAAAGAGGTTTCCAAGAAGGTGGTCCTTGGAAGCTAAATTTT
651 ATTTGATGTATGTTGCAACTACAGAAAGAGGTTTCCAAGAAGGTGGTCCTTGGAAGCTAAATTTT
37887218 GACGGAGCTTCAAATGCTATAGGCAACGGAATCGGGGCAGTACTCGTGTCCCCTAGTGAGT
716 GACGGAGCTTCAAATGCTATAGGCAACGGAATCGGGGCAGTACTCGTGTCCCCTAGTGAGT
* * *
37887279 AATACAAGAATTACCTCTGCCGCGTACTCAAAAAGAGGTTCAAGGTTTTCTAGGAAGATTGAACT
1 AATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGGTTTTCTAGGAAGACTGAACT
* * *
37887344 ATAATGCTCGGTTCATCTCACAGCTAA-TCGAGAAACGCGACCCCATATTTTGTCTCCTTAAGAA
66 ATAATGCTCGGTTCATCTCACAGCTAACT-GAGAAACGCGACCCCATATTTCGCCTCCTCAAGAA
37887408 ACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAAAAAGTCAAACATTACCTTT
130 ACATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAAAAAGTCAAACATTACCTTT
37887473 CCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCATACTGTATTTGGCAGTATTT
195 CCAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCATACTGTATTTGGCAGTATTT
37887538 GAAAATTTCATGGGATGCGTGCTTGGTCAACATGATGAGCCAGGACGAAAAGAAAGAGCAATCTA
260 GAAAATTTCATGGGATGCGTGCTTGGTCAACATGATGAGCCAGGACGAAAAGAAAGAGCAATCTA
37887603 CTATCTCAGTAAGAAGTTCACCGAATGCGAAACAAGATATTCGCCAATCGAGAAGTTATGTTGTG
325 CTATCTCAGTAAGAAGTTCACCGAATGCGAAACAAGATATTCGCCAATCGAGAAGTTATGTTGTG
37887668 CCCTGATCTGGACAACTCGGAGACTGAGACAGTACATGTTGTACCATACAACCTGGTTAATCTCT
390 CCCTGATCTGGACAACTCGGAGACTGAGACAGTACATGTTGTACCATACAACCTGGTTAATCTCT
37887733 AAATTGGACCCTCTGAAATACTTGATGGAATCAACCGCTTTGAATGGAAGAATGGCCCGATGGCA
455 AAATTGGACCCTCTGAAATACTTGATGGAATCAACCGCTTTGAATGGAAGAATGGCCCGATGGCA
37887798 AATTCTCCTATCTGAATTTGACAAAGTCTATGTGAACCAGAAGGCGGTCAAAGGGAATGCATTAG
520 AATTCTCCTATCTGAATTTGACAAAGTCTATGTGAACCAGAAGGCGGTCAAAGGGAATGCATTAG
37887863 CGGACTTCCTGGCAAGTAGAGCGCTGGAGGATTATGAACCATTGAACTTTGATATCCCAAATGAA
585 CGGACTTCCTGGCAAGTAGAGCGCTGGAGGATTATGAACCATTGAACTTTGATATCCCAAATGAA
37887928 GATTTGATGTATGTTGCAACTACAGAAAGAGGTTTCCAAGAAGGTGGTCCTTGGAAGCTAAATTT
650 GATTTGATGTATGTTGCAACTACAGAAAGAGGTTTCCAAGAAGGTGGTCCTTGGAAGCTAAATTT
37887993 TGACGGAGCTTCAAATGCTATAGGCAACGGAATCGGGGCAGTACTCGTGTCCCCTAGTG
715 TGACGGAGCTTCAAATGCTATAGGCAACGGAATCGGGGCAGTACTCGTGTCCCCTAGTG
37888052 GAGATCATTA
Statistics
Matches: 761, Mismatches: 11, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
775 1 0.00
776 760 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (776 bp):
AATACAAGAATTACCCCCGCCGCGTACTCAAAAAGAGGTTCAAGGTTTTCTAGGAAGACTGAACT
ATAATGCTCGGTTCATCTCACAGCTAACTGAGAAACGCGACCCCATATTTCGCCTCCTCAAGAAA
CATAATCCAGGTGTATGGGATGAGGAATGTCAAAAAACTTTTGAAAAAGTCAAACATTACCTTTC
CAATGCCCCAGTGCTGATGCCACATTACCCAGACAAACCGCTCATACTGTATTTGGCAGTATTTG
AAAATTTCATGGGATGCGTGCTTGGTCAACATGATGAGCCAGGACGAAAAGAAAGAGCAATCTAC
TATCTCAGTAAGAAGTTCACCGAATGCGAAACAAGATATTCGCCAATCGAGAAGTTATGTTGTGC
CCTGATCTGGACAACTCGGAGACTGAGACAGTACATGTTGTACCATACAACCTGGTTAATCTCTA
AATTGGACCCTCTGAAATACTTGATGGAATCAACCGCTTTGAATGGAAGAATGGCCCGATGGCAA
ATTCTCCTATCTGAATTTGACAAAGTCTATGTGAACCAGAAGGCGGTCAAAGGGAATGCATTAGC
GGACTTCCTGGCAAGTAGAGCGCTGGAGGATTATGAACCATTGAACTTTGATATCCCAAATGAAG
ATTTGATGTATGTTGCAACTACAGAAAGAGGTTTCCAAGAAGGTGGTCCTTGGAAGCTAAATTTT
GACGGAGCTTCAAATGCTATAGGCAACGGAATCGGGGCAGTACTCGTGTCCCCTAGTGAGT
Found at i:37891078 original size:49 final size:49
Alignment explanation
Indices: 37891006--37891285 Score: 168
Period size: 50 Copynumber: 5.7 Consensus size: 49
37890996 GCAATTCAAA
* * * *
37891006 AGATTGAAGCCATAACGGCGAATCTTACTTCTAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
* ** * * **** *
37891055 AGATTGAAGCTACAATAGCGAATCTCGCTTCCCCGAC-ATTGCAATTCAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCAGGCGA-TGCAGCGGAAC
* * *
37891105 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
* ** * * **** *
37891154 AGATTGAAGTTACAACAGCGAATCTCGCTTCCCCGAC-ATTGCAATTCAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCAGGCGA-TGCAGCGGAAC
* * ** * * *
37891204 AGATCGAAGCCACAATGGCAAATCTTATTTCTCAGGCGATGCAGCGGAGC
1 AGATTGAAGCTACAACAGCGAATCTTACTTC-CAGGCGATGCAGCGGAAC
* * *
37891254 AAATTGAAGCTACGACAGCGAATCTCACTTCC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCC
37891286 CCGACATTGT
Statistics
Matches: 158, Mismatches: 66, Indels: 14
0.66 0.28 0.06
Matches are distributed among these distances:
49 62 0.39
50 95 0.60
51 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
Found at i:37891162 original size:99 final size:99
Alignment explanation
Indices: 37890991--37891433 Score: 564
Period size: 99 Copynumber: 4.5 Consensus size: 99
37890981 AAGAAACCAT
* *
37890991 ACATTGCAATTCAAAAGATTGAAGCCATAACGGCGAATCTTACTTCTAGGCGATGCAGCGGAACA
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACA
*
37891056 GATTGAAGCTACAATAGCGAATCTCGCTTCCCCG
66 GATTGAAGCTACAACAGCGAATCTCGCTTCCCCG
*
37891090 ACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACA
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACA
*
37891155 GATTGAAGTTACAACAGCGAATCTCGCTTCCCCG
66 GATTGAAGCTACAACAGCGAATCTCGCTTCCCCG
* * * * *
37891189 ACATTGCAATTCAAAAGATCGAAGCCACAATGGCAAATCTTATTTCTCAGGCGATGCAGCGGAGC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTC-CAGGCGATGCAGCGGAAC
* * *
37891254 AAATTGAAGCTACGACAGCGAATCTCACTTCCCCG
65 AGATTGAAGCTACAACAGCGAATCTCGCTTCCCCG
* * * * * * *
37891289 ACATTGTAATTCAAAGGATTGAAGCCACAACGGTGCATCTTACTTCCAAGCGATGCAGTGAAACA
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACA
* * ***** * * *
37891354 TATTGACGCTATGGTGGTGAATCTTGCTTTCCCG
66 GATTGAAGCTACAACAGCGAATCTCGCTTCCCCG
* * * *
37891388 ACATTGCAACT-AAAAGATTGAAGCCGCAACGACGAATCTTATTTCC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
37891434 TCGACGAGAC
Statistics
Matches: 300, Mismatches: 43, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
98 29 0.10
99 185 0.62
100 86 0.29
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (99 bp):
ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACA
GATTGAAGCTACAACAGCGAATCTCGCTTCCCCG
Found at i:37891390 original size:199 final size:198
Alignment explanation
Indices: 37890991--37891432 Score: 580
Period size: 199 Copynumber: 2.2 Consensus size: 198
37890981 AAGAAACCAT
* *
37890991 ACATTGCAATTCAAAAGATTGAAGCCATAACGGCGAATCTTACTTCTAGGCGATGCAGCGGAACA
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTATTTCTAGGCGATGCAGCGGAACA
* * *
37891056 GATTGAAGCTACAATAGCGAATCTCGCTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAAC
66 AATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAAC
* * *
37891121 GGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGTTACAACAGCGAATCTCGCTTCC
131 GGCGAATCTTACTTCCAAGCGATGCAGCGAAACAGATTGAAGCTACAACAGCGAATCTCGCTTCC
37891186 CCG
196 CCG
* * * *
37891189 ACATTGCAATTCAAAAGATCGAAGCCACAATGGCAAATCTTATTTCTCAGGCGATGCAGCGGAGC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTATTTCT-AGGCGATGCAGCGGAAC
* * * *
37891254 AAATTGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGTAATTCAAAGGATTGAAGCCACAA
65 AAATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAA
* * * * * ***** * * *
37891319 CGGTGCATCTTACTTCCAAGCGATGCAGTGAAACATATTGACGCTATGGTGGTGAATCTTGCTTT
130 CGGCGAATCTTACTTCCAAGCGATGCAGCGAAACAGATTGAAGCTACAACAGCGAATCTCGCTTC
37891384 CCCG
195 CCCG
* * *
37891388 ACATTGCAACT-AAAAGATTGAAGCCGCAACGACGAATCTTATTTC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTATTTC
37891433 CTCGACGAGA
Statistics
Matches: 208, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
198 71 0.34
199 137 0.66
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (198 bp):
ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTATTTCTAGGCGATGCAGCGGAACA
AATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAAC
GGCGAATCTTACTTCCAAGCGATGCAGCGAAACAGATTGAAGCTACAACAGCGAATCTCGCTTCC
CCG
Found at i:37892417 original size:3 final size:3
Alignment explanation
Indices: 37892409--37892441 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
37892399 ATTTTATTGT
*
37892409 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37892442 CCTACTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37892690 original size:4 final size:4
Alignment explanation
Indices: 37892681--37892706 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37892671 TTTAATTGTA
37892681 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
37892707 CATCTTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:37899479 original size:45 final size:44
Alignment explanation
Indices: 37899402--37899817 Score: 319
Period size: 45 Copynumber: 9.3 Consensus size: 44
37899392 TTGAAAAGCT
* * * * *
37899402 GCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATA
1 GCAGATCTTGTCTTCCTATACTGG-AGCGAAGTAGATCAAAGATA
* * * *
37899447 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATACTGG-AGCGAAGTAGATCAAAGATA
* * * *
37899492 ACAGATCTTATCTTCCTATACTGGCAGCGAAGTTGATCAAATATA
1 GCAGATCTTGTCTTCCTATACTGG-AGCGAAGTAGATCAAAGATA
** * * * * * * *
37899537 GCAGATCTTACCTTCATGTATTGGCGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATACTGGAGCGAAGTAGATCAAAGATA
* * * *
37899581 ACAGATCTTGTTTTCCTATACTGGTAGCGAAATAGATCAAATATA
1 GCAGATCTTGTCTTCCTATACTGG-AGCGAAGTAGATCAAAGATA
* ** * * * *
37899626 GCAGATCTTATCTTTATGTATTGGCGTGAAGTAGATCAAAGATA
1 GCAGATCTTGTCTTCCTATACTGGAGCGAAGTAGATCAAAGATA
* * * * * * *
37899670 GCTGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAA
1 GCAGATCTTGTCTTCCTATACTGGAGCGAAGTAGATCAAAGATA
* * *
37899714 ACAGATCTTGTTTTCCTATACTGGCAGCGAAGTAGATCAAATATA
1 GCAGATCTTGTCTTCCTATACTGG-AGCGAAGTAGATCAAAGATA
* * * * * * *
37899759 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATACTGGAGCGAAGTAGATCAAAGATA
* *
37899803 ACGGATCTTGTCTTC
1 GCAGATCTTGTCTTC
37899818 ATGTATTGAC
Statistics
Matches: 292, Mismatches: 77, Indels: 5
0.78 0.21 0.01
Matches are distributed among these distances:
44 133 0.46
45 159 0.54
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATACTGGAGCGAAGTAGATCAAAGATA
Found at i:37899586 original size:44 final size:44
Alignment explanation
Indices: 37899403--37899930 Score: 410
Period size: 44 Copynumber: 11.9 Consensus size: 44
37899393 TGAAAAGCTG
* * * * * * *
37899403 CAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATAG
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA
*** * * * * *
37899448 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA
* * * * * * * *
37899493 CAGATCTTATCTTCCTATACTGGCAGCGAAGTTGATCAAATATAG
1 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAA
** * *
37899538 CAGATCTTACCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
* * * * * * * * *
37899582 CAGATCTTGTTTTCCTATACTGGTAGCGAAATAGATCAAATATAG
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA
* * *
37899627 CAGATCTTATCTTTATGTATTGGCGTGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
* *
37899671 CTGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
* * * * * * *
37899715 CAGATCTTGTTTTCCTATACTGGCAGCGAAGTAGATCAAATATAG
1 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAA
* *
37899760 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
* * * * *
37899804 CGGATCTTGTCTTCATGTATTGACATAAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
** * * * *
37899848 TGGTTCTTGTCTTCATGTATTGACATGAAGTAGATCAAATATAGA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA-A
* * *
37899893 -AGACCTTGTCTTCCTGTATTGGCAGTGAAGAAGATCAA
1 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAA
37899931 GGTGGAGTAG
Statistics
Matches: 389, Mismatches: 89, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
44 216 0.56
45 173 0.44
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (44 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
Found at i:37899712 original size:133 final size:133
Alignment explanation
Indices: 37899402--37899930 Score: 565
Period size: 133 Copynumber: 4.0 Consensus size: 133
37899392 TTGAAAAGCT
* * * * * * * * *
37899402 GCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCCATA
1 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATA
* * * * * * * * * *
37899467 CTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTCCTATACTGGCAGCGAAGTTGATCAA
65 CTGGTAGCGAAGTAGATCAAATATAGCAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCAA
*
37899532 ATATA
129 AGATA
**
37899537 GCAGATCTTACCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATAC
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATAC
* *
37899602 TGGTAGCGAAATAGATCAAATATAGCAGATCTTATCTTTATGTATTGGCGTGAAGTAGATCAAAG
66 TGGTAGCGAAGTAGATCAAATATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAG
37899667 ATA
131 ATA
* *
37899670 GCTGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTTTTCCTATAC
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATAC
* * *
37899735 TGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
66 TGGTAGCGAAGTAGATCAAATATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
37899800 AAA
131 ATA
* * * * * * ** * * * * *
37899803 ACGGATCTTGTCTTCATGTATTGACATAAAGTAGATCGAAGATAATGGTTCTTGTCTTCATGTAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATAC
** * * * * * *
37899868 TGACA-TGAAGTAGATCAAATATAGAAGACCTTGTCTTCCTGTATTGGCAGTGAAGAAGATCAA
66 TGGTAGCGAAGTAGATCAAATATAGCAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCAA
37899931 GGTGGAGTAG
Statistics
Matches: 338, Mismatches: 55, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
132 39 0.12
133 206 0.61
134 74 0.22
135 19 0.06
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (133 bp):
GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTTTTCCTATAC
TGGTAGCGAAGTAGATCAAATATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAG
ATA
Found at i:37899746 original size:89 final size:89
Alignment explanation
Indices: 37899405--37899930 Score: 369
Period size: 89 Copynumber: 5.9 Consensus size: 89
37899395 AAAAGCTGCA
* * * * * * * * ** *
37899405 GATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
1 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTG
** * * * * *
37899470 GTGGCGAAGTAGATCGAAGAAAACA
65 GCAGTGAAGTAGATCAAAGATAGCT
* * * * * * * * * ** *
37899495 GATCTTATCTTCCTATACTGGCAGCGAAGTTGATCAAATATAGCAGATCTTACCTTCATGTATTG
1 GATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTG
* * * *
37899560 GC-GTGAAGTAGATCGAAGAAAACA
65 GCAGTGAAGTAGATCAAAGATAGCT
* * * * * * * * * * * **
37899584 GATCTTGTTTTCCTATACTGGTAGCGAAATAGATCAAATATAGCAGATCTTATCTTTATGTATTG
1 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTG
37899649 GC-GTGAAGTAGATCAAAGATAGCT
65 GCAGTGAAGTAGATCAAAGATAGCT
* * *
37899673 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTTTTCCTATACTGG
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTGG
* * *
37899738 CAGCGAAGTAGATCAAATATAGCA
66 CAGTGAAGTAGATCAAAGATAGCT
* * * *
37899762 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACGGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTGG
* * *
37899827 CA-TAAAGTAGATCGAAGATA-AT
66 CAGTGAAGTAGATCAAAGATAGCT
* * * * * *
37899849 GGTTCTTGTCTTCATGTATTGACATGAAGTAGATCAAATATAGA-AGACCTTGTCTTCCTGTATT
1 -GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA-AAACAGATCTTGTCTTCCTGTATT
*
37899913 GGCAGTGAAGAAGATCAA
64 GGCAGTGAAGTAGATCAA
37899931 GGTGGAGTAG
Statistics
Matches: 358, Mismatches: 72, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
88 101 0.28
89 206 0.58
90 51 0.14
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (89 bp):
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTGTATTGG
CAGTGAAGTAGATCAAAGATAGCT
Found at i:37900588 original size:11 final size:12
Alignment explanation
Indices: 37900552--37900591 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
37900542 TTTTATTTAC
37900552 ATATATTTCTTTT
1 ATAT-TTTCTTTT
*
37900565 TTATTTTCTTTT
1 ATATTTTCTTTT
37900577 AT-TTTTCTTTT
1 ATATTTTCTTTT
37900588 ATAT
1 ATAT
37900592 CGTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 11 0.46
12 10 0.42
13 3 0.12
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (12 bp):
ATATTTTCTTTT
Found at i:37902621 original size:3 final size:3
Alignment explanation
Indices: 37902613--37902656 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
37902603 ATTTTTTCTC
37902613 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37902657 CTACTATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37903147 original size:5 final size:5
Alignment explanation
Indices: 37903137--37903165 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37903127 AAACATACCT
37903137 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
37903166 TATTATTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:37907513 original size:25 final size:24
Alignment explanation
Indices: 37907462--37907571 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 24
37907452 CTATTCGACT
*
37907462 AAAGGAGAAGAAAG-AAGGAGAAG-
1 AAAGGAAAAGAAAGAAAGGA-AAGA
* *
37907485 AAAGAAAAAGAAAGAAAAGGAAAGT
1 AAAGGAAAAGAAAG-AAAGGAAAGA
* *
37907510 AAAGGAGAAGAAAGAAAAAGAAAGA
1 AAAGGAAAAGAAAG-AAAGGAAAGA
*
37907535 AAAGGAAAGGAGAAGAAAGGAAAGA
1 AAAGGAAAAGA-AAGAAAGGAAAGA
*
37907560 AAAGGAGAAGAA
1 AAAGGAAAAGAA
37907572 GAAGAAGAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
23 12 0.17
24 4 0.06
25 53 0.74
26 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (24 bp):
AAAGGAAAAGAAAGAAAGGAAAGA
Found at i:37907516 original size:35 final size:35
Alignment explanation
Indices: 37907476--37907543 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
37907466 GAGAAGAAAG
37907476 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAGTA
1 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAGTA
37907511 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAG
1 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAG
37907544 GAGAAGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.01
Consensus pattern (35 bp):
AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAGTA
Found at i:37907558 original size:35 final size:35
Alignment explanation
Indices: 37907471--37907616 Score: 120
Period size: 35 Copynumber: 4.0 Consensus size: 35
37907461 TAAAGGAGAA
*
37907471 GAAAGAAGGAG-AA-GAAAGAAAAAGAAAGAAAAG
1 GAAAGAAGAAGAAAGGAAAGAAAAAGAAAGAAAAG
*
37907504 GAAAGTAA-AGGAGAA-GAAAGAAAAAGAAAGAAAAG
1 GAAAG-AAGAAGA-AAGGAAAGAAAAAGAAAGAAAAG
* *
37907539 GAAAGGAGAAGAAAGGAAAGAAAAGGAGAAGAAGAAG
1 GAAAGAAGAAGAAAGGAAAGAAAAAGA-AAGAA-AAG
*
37907576 AAGAAGAAGAAGAAGAGCGAGGGAAGGAAAAAGAAAGAAAA
1 GA-AAGAAGAAGAA-AG-GA---AA-GAAAAAGAAAGAAAA
37907617 AAATAAGGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
33 6 0.07
34 5 0.05
35 41 0.45
36 5 0.05
37 4 0.04
38 10 0.11
39 2 0.02
40 2 0.02
42 2 0.02
43 7 0.08
44 7 0.08
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.01
Consensus pattern (35 bp):
GAAAGAAGAAGAAAGGAAAGAAAAAGAAAGAAAAG
Found at i:37907563 original size:10 final size:10
Alignment explanation
Indices: 37907484--37907571 Score: 74
Period size: 10 Copynumber: 8.7 Consensus size: 10
37907474 AGAAGGAGAA
*
37907484 GAAAGAAAAA
1 GAAAGAAAAG
37907494 GAAAGAAAAG
1 GAAAGAAAAG
*
37907504 GAAAGTAAAG
1 GAAAGAAAAG
37907514 GAGAAG-AAA-
1 GA-AAGAAAAG
*
37907523 GAAAAAGAAAG
1 GAAAGA-AAAG
* *
37907534 AAAAGGAAAG
1 GAAAGAAAAG
37907544 GAGAAG-AAAG
1 GA-AAGAAAAG
37907554 GAAAGAAAAG
1 GAAAGAAAAG
37907564 GAGAAGAA
1 GA-AAGAA
37907572 GAAGAAGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 43 0.67
11 14 0.22
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:37908122 original size:130 final size:128
Alignment explanation
Indices: 37907880--37908118 Score: 304
Period size: 132 Copynumber: 1.9 Consensus size: 128
37907870 TGAAAAAAAT
* * *
37907880 GTAAAATAATAAAATACGAAAATAAAATATTTTTTGAAAGTAATAAAATTTGAAAAAAATACGAA
1 GTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAAGCAATAAAATTGGAAAAAAATACGAA
37907945 CAAAGAGCCGAAATAAGGGTTTTTTACTAAATTAATGCATTTAAAACATAATGTACTAAAATAAC
66 CAAAGAGCCGAAATAAGGGTTTTTTACTAAATT-AT-CATTTAAAACATAATGTACTAAAATAAC
* * *** *
37908010 GTAAAATAATAAAATATAAAAATAATATATTTTTTGAAA-CAATGAGGCTTCGGTAAAAAAATAT
1 GTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAAGCAAT-AAAATT-GG-AAAAAAATAC
* * *
37908074 GAACAAAGGGCTGAAATAAGGTTTTTTTACTAAATT-T-ATTTAAAA
63 GAACAAAGAGCCGAAATAAGGGTTTTTTACTAAATTATCATTTAAAA
37908119 AACACACTAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
128 8 0.09
129 3 0.03
130 40 0.43
131 1 0.01
132 42 0.45
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.31
Consensus pattern (128 bp):
GTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAAGCAATAAAATTGGAAAAAAATACGAA
CAAAGAGCCGAAATAAGGGTTTTTTACTAAATTATCATTTAAAACATAATGTACTAAAATAAC
Found at i:37908178 original size:8 final size:8
Alignment explanation
Indices: 37908155--37908190 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
37908145 CATAATGTAC
37908155 TAAAATAA
1 TAAAATAA
37908163 TGTAAAATAA
1 --TAAAATAA
37908173 TAAAATAA
1 TAAAATAA
37908181 TAAAATAA
1 TAAAATAA
37908189 TA
1 TA
37908191 TATTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (8 bp):
TAAAATAA
Found at i:37908431 original size:153 final size:152
Alignment explanation
Indices: 37907970--37908881 Score: 1222
Period size: 153 Copynumber: 5.9 Consensus size: 152
37907960 AGGGTTTTTT
* * *
37907970 ACTAAATTAATGCATTTAAAACATAATGTACTAAAATAACGTAAAATAATAAAA-TATAAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-AAAAATA
* *** * * *
37908034 -ATATATTTTTTGAAA-CAATGAGGCTTCGGTAAAAAAATATGAACAAAGGGCTGAAATAA-GGT
65 TATAT-TTTTTTGAAAGTAAT-AAAATTCGG-GAAAAAATACGAACAAAGGGCCGAAATAAGGGT
37908096 TTTTTTACTAAATTTATTTAAAAAACAC
127 TTTTTT--TAAATTTATTTAAAAAACAC
37908124 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TAATAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAA-AAAAT-
37908188 ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
64 ATATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGG-T
37908253 ATTTTTTTAAATTTATTTAAAAAACAC
127 -TTTTTTTAAATTTATTTAAAAAACAC
* *
37908280 ACTAAATTAATAAATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAT
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAT
* *
37908345 -TATTTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAATAAAGGGCC-AAGATAAGGGTTAT
66 ATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAA-ATAAGGGTT-T
*
37908408 TTTTTGAAATTCATTTAAAAAACAC
129 TTTTT-AAATTTATTTAAAAAACAC
*
37908433 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTATAAAATAG
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATA-
* * * *
37908498 TATA-TTTTTTAAAAGTAATAAAATCCGGGGAAAAAATACGAACTAAGGGCCGAAATAAGTGTTT
65 TATATTTTTTTGAAAGTAATAAAATTC-GGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTT
*
37908562 TTTTAAAATTTATTT-AAAAA-AC
129 TTTTTAAATTTATTTAAAAAACAC
* * * *
37908584 ACTAAATTAATACATTTAAAATATAATGTACTAAAATAATGTCAAATAATAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAAT-A
37908649 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGG-
65 TATATTTTT-TTGAAAGTAATAAAATTCGGG--AAAAAATACGAACAAAGGGCCGAAATAAGGGT
37908713 -TTTTTT-AATTTATTTAAAAAACAC
127 TTTTTTTAAATTTATTTAAAAAACAC
* * *
37908737 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAAATAGAAAATAG
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATA-
* * * *
37908802 TATATTTTTTT-AAAGTAATAAAATCCGGGAAAAAAATACAAACAAATGGCCGAAATAAGAGTTT
65 TATATTTTTTTGAAAGTAATAAAATTCGGG-AAAAAATACGAACAAAGGGCCGAAATAAGGGTTT
*
37908866 TTTACTAAATTTATTT
129 TTT-TTAAATTTATTT
37908882 TGAAGTTGCA
Statistics
Matches: 687, Mismatches: 43, Indels: 56
0.87 0.05 0.07
Matches are distributed among these distances:
150 29 0.04
151 92 0.13
152 39 0.06
153 222 0.32
154 130 0.19
155 65 0.09
156 97 0.14
157 7 0.01
158 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (152 bp):
ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAT
ATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
TTTAAATTTATTTAAAAAACAC
Found at i:37908790 original size:304 final size:304
Alignment explanation
Indices: 37907970--37908881 Score: 1279
Period size: 304 Copynumber: 3.0 Consensus size: 304
37907960 AGGGTTTTTT
* *
37907970 ACTAAATTAATGCATTTAAAACATAATGTACTAAAATAACGTAAAATAATAAAATATAAAAATAA
1 ACTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAT-TAAAAATAA
* *** * * * *
37908035 TATA-TTTTTTGAAA-CAATGAGGCTTCGGTAAAAAAATATGAACAAAGGGCTGAAATAAGGTTT
65 TATATTTTTTTGAAAGTAAT-AAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG-GT
37908098 TTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
128 TTTT--TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
* * * *
37908163 TGTAAAATAATAAAATAATAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GGGAAAAAAT
191 TGTAAAATAATAAAATTATAAAATAGTATA-TTTT-TTAAAAGTAATAAAATCCGGGGAAAAAAT
* *
37908227 ACGAACAAAGGGCCGAAATAAGGGTTATTTTTTTAAATTTATTTAAAAAACAC
254 ACGAACAAAGGGCCGAAATAAGAG-T-TTTTTTAAAATTTATTTAAAAAACAC
* *
37908280 ACTAAATTAATAAATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATT-AAAA-AAT
1 ACTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAATAAT
* *
37908343 ATTATTTTTTTAAAAGTAATAAAATTCGGG-AAAAAATACGAATAAAGGGCC-AAGATAAGGGTT
66 A-TATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAA-ATAAGGG--
*
37908406 ATTTTTTGAAATTCATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATA
127 -TTTTTT-AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATA
37908471 ATGTAAAATAATAAAATTATAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAATA
190 ATGTAAAATAATAAAATTATAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAATA
* *
37908536 CGAACTAAGGGCCGAAATAAGTGTTTTTTTAAAATTTATTT-AAAAA-AC
255 CGAACAAAGGGCCGAAATAAGAGTTTTTTTAAAATTTATTTAAAAAACAC
* *
37908584 ACTAAATTAATACATTTAAAATATAATGTACTAAAATAATGTCAAATAATAAAATTAGAAAATAA
1 ACTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-AAAATAA
37908649 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
65 TATATTTTT-TTGAAAGTAATAAAATTCGGG-AAAAAAATACGAACAAAGGGCCGAAATAAGGGT
*
37908714 TTTTT-AATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATATACTAAAATAATG
128 TTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATG
* * * * *
37908778 TAAAATAATAAAAATAGAAAATAGTATATTTTTTTAAAGTAATAAAATCCGGGAAAAAAATACAA
193 TAAAATAATAAAATTATAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAATACGA
*
37908843 ACAAATGGCCGAAATAAGAG-TTTTTTACTAAATTTATTT
258 ACAAAGGGCCGAAATAAGAGTTTTTTTA--AAATTTATTT
37908882 TGAAGTTGCA
Statistics
Matches: 546, Mismatches: 38, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
303 7 0.01
304 188 0.34
305 15 0.03
306 33 0.06
307 47 0.09
308 67 0.12
309 128 0.23
310 61 0.11
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (304 bp):
ACTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAATAAT
ATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTT
TTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
AATAATAAAATTATAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAATACGAACA
AAGGGCCGAAATAAGAGTTTTTTTAAAATTTATTTAAAAAACAC
Found at i:37912645 original size:42 final size:39
Alignment explanation
Indices: 37912584--37912686 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 39
37912574 CCACTAATCC
** *
37912584 TAATAACTAACACAATAATAATAATAGTTTTTTACTCAAAA
1 TAATAACT-A-ACAATAATAATAATAGGGTTTTACTAAAAA
*
37912625 TAAT-ACTAACTAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATAACTAAC-AATAATAATAA-TAGGGTTTTACTAAAAA
37912665 TAATAACTAACAATAAT-ATAAT
1 TAATAACTAACAATAATAATAAT
37912687 GTAAAAACTA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
38 3 0.06
39 15 0.28
40 26 0.48
41 10 0.19
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (39 bp):
TAATAACTAACAATAATAATAATAGGGTTTTACTAAAAA
Done.