Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 71 of 82
Found at i:25842901 original size:25 final size:26
Alignment explanation
Indices: 25842873--25842921 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
25842863 TACTATTTGC
25842873 CTTTTGTGTTCTA-TTC-ATTTTTTAA
1 CTTTTGT-TTCTACTTCTATTTTTTAA
*
25842898 CTTTTGTTTTTACTTCTATTTTTT
1 CTTTTGTTTCTACTTCTATTTTTT
25842922 TTTTTGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (26 bp):
CTTTTGTTTCTACTTCTATTTTTTAA
Found at i:25842944 original size:6 final size:6
Alignment explanation
Indices: 25842931--25842973 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
25842921 TTTTTTGCAG
*
25842931 AAAA-A AAAAGA AAAACA AAAAGGA AAAAGAA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAA-GA AAAAG-A AAAAGA AAAAGA
25842974 GTCAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 18 0.55
7 11 0.33
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:25842972 original size:13 final size:13
Alignment explanation
Indices: 25842934--25842973 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
25842924 TTTGCAGAAA
*
25842934 AAAAAAGAAAAAC
1 AAAAAAGAAAAAG
*
25842947 AAAAAGGAAAAAG
1 AAAAAAGAAAAAG
25842960 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
25842973 A
1 A
25842974 GTCAACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:25863529 original size:54 final size:53
Alignment explanation
Indices: 25863447--25863550 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 53
25863437 TCCTGTAAAG
25863447 CTGTGTGCCTTGAAATTAACCACCTCCATCCTGCTGCCTCAAACCTTTCANCCC
1 CTGTGTGCCTTGAAATTAACCACCTCCATCCTGCTGCCTCAAACCTTTCA-CCC
25863501 CTGTGTGCCTTGAAATTAACCACCTCCATCCTGCTGCCTCAAACCTTTCA
1 CTGTGTGCCTTGAAATTAACCACCTCCATCCTGCTGCCTCAAACCTTTCA
25863551 TTGATTTTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.38, G:0.12, T:0.29
Consensus pattern (53 bp):
CTGTGTGCCTTGAAATTAACCACCTCCATCCTGCTGCCTCAAACCTTTCACCC
Found at i:25881021 original size:42 final size:42
Alignment explanation
Indices: 25880975--25881103 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 42
25880965 AGACCTCCTT
*
25880975 CTTCGTCTATAACTGATCGGTGATCTTGACTTGGACCTTGAC
1 CTTCGTCTATAACTAATCGGTGATCTTGACTTGGACCTTGAC
* * * * * * * *
25881017 CTTCGCCGATAATTAATTGGTGATCTAGACTTTGATCTTGAT
1 CTTCGTCTATAACTAATCGGTGATCTTGACTTGGACCTTGAC
** *
25881059 CTTC-TCTGATAACTAAGGGGTGATTTTGACTTGGACCTTGAC
1 CTTCGTCT-ATAACTAATCGGTGATCTTGACTTGGACCTTGAC
25881101 CTT
1 CTT
25881104 GCACGAGAAG
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (42 bp):
CTTCGTCTATAACTAATCGGTGATCTTGACTTGGACCTTGAC
Found at i:25884360 original size:26 final size:27
Alignment explanation
Indices: 25884306--25884360 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
25884296 TTAATAAAAT
* *
25884306 ATTTTTATTTTTATTATATTTAATTAA
1 ATTTTTATATTTATTATATTTAATCAA
25884333 ATTTTTATATTT-TTAT-TTTAAATCAA
1 ATTTTTATATTTATTATATTT-AATCAA
25884359 AT
1 AT
25884361 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.12
26 11 0.44
27 11 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTTATATTTATTATATTTAATCAA
Found at i:25884633 original size:29 final size:28
Alignment explanation
Indices: 25884613--25884667 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
25884603 TATTTGATTA
*
25884613 AAAAT-AAAAATATAAAATTTAATTAAAT
1 AAAATAAAAAATA-AAAATTTATTTAAAT
*
25884641 ATAATAAAAAATAAAAATTTATTTAAA
1 AAAATAAAAAATAAAAATTTATTTAAA
25884668 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATAAAAAATAAAAATTTATTTAAAT
Found at i:25886500 original size:53 final size:53
Alignment explanation
Indices: 25886437--25886596 Score: 311
Period size: 53 Copynumber: 3.0 Consensus size: 53
25886427 GTGCTGCAAC
25886437 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
1 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
25886490 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
1 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
*
25886543 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATTTTGGGAAATT
1 AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
25886596 A
1 A
25886597 TCTTGGGCTA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 106 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (53 bp):
AGTTTATTGCAGCTGCTTGATGGTTTGATCATTAGTATCCATCTTGGGAAATT
Found at i:25905528 original size:2 final size:2
Alignment explanation
Indices: 25905521--25905547 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25905511 ACCATTCACG
25905521 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
25905548 GCCTTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25906828 original size:59 final size:59
Alignment explanation
Indices: 25906736--25906856 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
25906726 ATTTCAAGGA
*
25906736 ATCATACGAACTCCGAGCAAAGTTGTTTATATGCAATGCCGTCTAGTAGCAAACCATCC
1 ATCATACGAACTCCGAGCAAAGTTGTTTATATGCAATGCCATCTAGTAGCAAACCATCC
25906795 ATCATACGAACTCCGAGCAAAGTTGTTTATATGCAATGCCATCTAGTAGCAAACCATCC
1 ATCATACGAACTCCGAGCAAAGTTGTTTATATGCAATGCCATCTAGTAGCAAACCATCC
25906854 ATC
1 ATC
25906857 TTTGTGCCAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (59 bp):
ATCATACGAACTCCGAGCAAAGTTGTTTATATGCAATGCCATCTAGTAGCAAACCATCC
Found at i:25932293 original size:21 final size:20
Alignment explanation
Indices: 25932269--25932312 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
25932259 TTTTACCTTG
25932269 TTCAGACTGCTGAGGTTCTGT
1 TTCAGACTGCTGAGGTTCT-T
* *
25932290 TTCAGATTGCTGTGGTTCTT
1 TTCAGACTGCTGAGGTTCTT
25932310 TTC
1 TTC
25932313 CTGGATACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (20 bp):
TTCAGACTGCTGAGGTTCTT
Found at i:25933687 original size:2 final size:2
Alignment explanation
Indices: 25933680--25933705 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25933670 GCGTTTCAAC
25933680 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25933706 CACGCATGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25948792 original size:22 final size:22
Alignment explanation
Indices: 25948741--25948786 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25948731 CTCTCTTCAT
*
25948741 AAAAT-AAGAAAAGCAAACCCG
1 AAAATAAAGAAAAACAAACCCG
25948762 AAAATAAAGAAAAACATAA-CCG
1 AAAATAAAGAAAAACA-AACCCG
25948784 AAA
1 AAA
25948787 CAAAAGGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.67, C:0.15, G:0.11, T:0.07
Consensus pattern (22 bp):
AAAATAAAGAAAAACAAACCCG
Found at i:25952029 original size:18 final size:17
Alignment explanation
Indices: 25951994--25952042 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
25951984 TACCTTGTTC
*
25951994 ATATATTTATTGTTATGT
1 ATATATTT-TTTTTATGT
25952012 ATATATTTTTTTTGATGT
1 ATATATTTTTTTT-ATGT
*
25952030 ATGTTATTTTTTT
1 AT-ATATTTTTTT
25952043 ACACTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 14 0.52
19 9 0.33
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (17 bp):
ATATATTTTTTTTATGT
Found at i:25952220 original size:116 final size:115
Alignment explanation
Indices: 25952036--25952244 Score: 303
Period size: 116 Copynumber: 1.8 Consensus size: 115
25952026 ATGTATGTTA
* * * **
25952036 TTTTTTTACACTGATTATTTGAGTTAATGAGTATTACAGTATAGAATTCGGATTCATCTCAATGC
1 TTTTTTTACAATGATTATTTGAGTTAATGAGTACTACAGTATAGAATTCGGATTCATCCCAACAC
*
25952101 TTCGGTGAGAATCCATCTCGAACTTTATTTATTTTTAAAATATATATTAT
66 TTCGGTGAGAATCCATCTCGAACATTATTTATTTTTAAAATATATATTAT
* * *
25952151 TTTTTTTAACAATGATTATTTGAGTTAAT-AGGTACTAGAGTATAGAATTCGGATTTATCCCGAC
1 TTTTTTT-ACAATGATTATTTGAGTTAATGA-GTACTACAGTATAGAATTCGGATTCATCCCAAC
*
25952215 ACTTCGGTGAGAATCCGTCTCGAACATTAT
64 ACTTCGGTGAGAATCCATCTCGAACATTAT
25952245 ATAAATTTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
115 8 0.10
116 74 0.90
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (115 bp):
TTTTTTTACAATGATTATTTGAGTTAATGAGTACTACAGTATAGAATTCGGATTCATCCCAACAC
TTCGGTGAGAATCCATCTCGAACATTATTTATTTTTAAAATATATATTAT
Found at i:25953436 original size:8 final size:8
Alignment explanation
Indices: 25953423--25953474 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
25953413 TTATTTCTTG
25953423 TTTTTTTA
1 TTTTTTTA
25953431 TTTTTTTA
1 TTTTTTTA
*
25953439 TTATATTTCA
1 TT-T-TTTTA
25953449 TTATTATTTA
1 TT-TT-TTTA
25953459 TTTTTTTGA
1 TTTTTTT-A
25953468 TTTTTTT
1 TTTTTTT
25953475 GAAATAGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 13 0.34
9 12 0.32
10 13 0.34
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:25954457 original size:10 final size:10
Alignment explanation
Indices: 25954431--25954476 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 10
25954421 ATACATTTAC
25954431 TTAATCGTG-
1 TTAATCGTGT
25954440 TT-ATCGTGT
1 TTAATCGTGT
25954449 TTAATCGTG-
1 TTAATCGTGT
25954458 TT-ATCGTGT
1 TTAATCGTGT
*
25954467 TTAAACGTGT
1 TTAATCGTGT
25954477 ATACGTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 12 0.38
9 8 0.25
10 12 0.38
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.48
Consensus pattern (10 bp):
TTAATCGTGT
Found at i:25954483 original size:18 final size:18
Alignment explanation
Indices: 25954431--25954476 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
25954421 ATACATTTAC
25954431 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
25954449 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
*
25954467 TTAAACGTGT
1 TTAATCGTGT
25954477 ATACGTGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.48
Consensus pattern (18 bp):
TTAATCGTGTTATCGTGT
Found at i:25954754 original size:9 final size:9
Alignment explanation
Indices: 25954740--25954775 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
25954730 ATTTTTATTT
25954740 AACGTGTTA
1 AACGTGTTA
25954749 AACGTGTTA
1 AACGTGTTA
*
25954758 ATCGTGTTA
1 AACGTGTTA
25954767 AACGTGTTA
1 AACGTGTTA
25954776 TTAATCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (9 bp):
AACGTGTTA
Found at i:25954854 original size:39 final size:41
Alignment explanation
Indices: 25954774--25954855 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
25954764 TTAAACGTGT
**
25954774 TATTAATCGTGTCGTGTCATATATTGACACGTTTAATAAACG
1 TATTAATCGTGTCGTGTCA-ATATTGACACGTGCAATAAACG
* * *
25954816 TATTAATCGTGTCGTGTC-GTGTT-ACACGTGCATTAAACG
1 TATTAATCGTGTCGTGTCAATATTGACACGTGCAATAAACG
25954855 T
1 T
25954856 GTATGTGTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 14 0.40
40 3 0.09
42 18 0.51
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (41 bp):
TATTAATCGTGTCGTGTCAATATTGACACGTGCAATAAACG
Found at i:25966970 original size:8 final size:8
Alignment explanation
Indices: 25966950--25966978 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25966940 GTTTTAATAG
25966950 TATATTTT
1 TATATTTT
25966958 T-TATTTT
1 TATATTTT
25966965 TATATTTT
1 TATATTTT
25966973 TATATT
1 TATATT
25966979 GTGAAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATATTTT
Found at i:25967970 original size:24 final size:24
Alignment explanation
Indices: 25967921--25967970 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
25967911 AAGTAATTAT
* **
25967921 AATTTATATATATATATATATCAA
1 AATTTATACATATATATATAAAAA
25967945 AATTTATACATATA-ATTATAAAAA
1 AATTTATACATATATA-TATAAAAA
25967969 AA
1 AA
25967971 AATAAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTATACATATATATATAAAAA
Found at i:25971312 original size:2 final size:2
Alignment explanation
Indices: 25971305--25971330 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25971295 TCATTTTCAA
25971305 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25971331 GAACATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25977022 original size:19 final size:19
Alignment explanation
Indices: 25976998--25977034 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25976988 ATCTGGGATA
25976998 TGTATATGTATTCTTTATT
1 TGTATATGTATTCTTTATT
25977017 TGTATATGTATTCTTTAT
1 TGTATATGTATTCTTTAT
25977035 CGTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (19 bp):
TGTATATGTATTCTTTATT
Found at i:25986893 original size:16 final size:16
Alignment explanation
Indices: 25986869--25986899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25986859 ATTTCGATAA
25986869 ATATATGAAAAGTAAG
1 ATATATGAAAAGTAAG
*
25986885 ATATTTGAAAAGTAA
1 ATATATGAAAAGTAA
25986900 TGGGAACGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (16 bp):
ATATATGAAAAGTAAG
Found at i:26001023 original size:7 final size:7
Alignment explanation
Indices: 26001013--26001057 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
26001003 TTTGTTGTGC
26001013 TCTTTTT
1 TCTTTTT
26001020 TC-TTTT
1 TCTTTTT
*
26001026 TCTTTTC
1 TCTTTTT
26001033 TCTGTTTT
1 TCT-TTTT
26001041 TCTTTTT
1 TCTTTTT
26001048 T-TTTTT
1 TCTTTTT
26001054 TCTT
1 TCTT
26001058 GGAAGGGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 12 0.36
7 15 0.45
8 6 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (7 bp):
TCTTTTT
Found at i:26001040 original size:21 final size:20
Alignment explanation
Indices: 26001012--26001057 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
26001002 TTTTGTTGTG
26001012 CTCTTTTTTCTTTTTCTTTT
1 CTCTTTTTTCTTTTTCTTTT
*
26001032 CTCTGTTTTTCTTTTTTTTTT
1 CTCT-TTTTTCTTTTTCTTTT
*
26001053 TTCTT
1 CTCTT
26001058 GGAAGGGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (20 bp):
CTCTTTTTTCTTTTTCTTTT
Found at i:26011279 original size:16 final size:19
Alignment explanation
Indices: 26011258--26011295 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
26011248 TTCTCAATGG
26011258 CTTTGCTT-T-TTTGCA-T
1 CTTTGCTTCTATTTGCACT
26011274 CTTTGCTTCTATTTGCACT
1 CTTTGCTTCTATTTGCACT
26011293 CTT
1 CTT
26011296 GATTAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 6 0.32
19 4 0.21
ACGTcount: A:0.08, C:0.24, G:0.11, T:0.58
Consensus pattern (19 bp):
CTTTGCTTCTATTTGCACT
Found at i:26034768 original size:23 final size:23
Alignment explanation
Indices: 26034742--26034785 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
26034732 ATACAATATC
*
26034742 CTTATCCTAATTTAATTAGGAAT
1 CTTATCCTAATATAATTAGGAAT
26034765 CTTATCCTAATATAATTAGGA
1 CTTATCCTAATATAATTAGGA
26034786 TATGTTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
CTTATCCTAATATAATTAGGAAT
Found at i:26038383 original size:8 final size:9
Alignment explanation
Indices: 26038355--26038389 Score: 54
Period size: 10 Copynumber: 3.9 Consensus size: 9
26038345 TATAGCTAAT
26038355 TTTATTTTA
1 TTTATTTTA
26038364 TCTTATTTTA
1 T-TTATTTTA
26038374 TTTA-TTTA
1 TTTATTTTA
26038382 TTTATTTT
1 TTTATTTT
26038390 TGGACTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:26049122 original size:175 final size:175
Alignment explanation
Indices: 26048831--26049524 Score: 1388
Period size: 175 Copynumber: 4.0 Consensus size: 175
26048821 TCTATCTGAT
26048831 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
1 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
26048896 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
66 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
26048961 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
131 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
26049006 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
1 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
26049071 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
66 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
26049136 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
131 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
26049181 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
1 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
26049246 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
66 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
26049311 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
131 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
26049356 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
1 GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
26049421 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
66 CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
26049486 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACA
131 AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACA
26049525 GTCATCAAGC
Statistics
Matches: 519, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 519 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (175 bp):
GTAGATAAAATTCAACTACCATTACTGAAGTTATTTGCAGATACGAATATCAAGGTGGAAGAATC
CAACTATTATTGTACAATAAAAAGATAAAAACATAGGTGATGATGTTCTTTGAATCTTATTCTTG
AATCAAATCATCAAGCTGCTATTTAGCAATAAAAAGACAATTGAA
Found at i:26070687 original size:16 final size:16
Alignment explanation
Indices: 26070666--26070719 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
26070656 AGGAATACTT
26070666 AAGACAACATGGATCA
1 AAGACAACATGGATCA
* *
26070682 AAGACAAACA--AACCA
1 AAGAC-AACATGGATCA
26070697 ATA-ACAACATGGATCA
1 A-AGACAACATGGATCA
26070713 AAGACAA
1 AAGACAA
26070720 ACAAATCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 14 0.48
17 4 0.14
ACGTcount: A:0.57, C:0.20, G:0.13, T:0.09
Consensus pattern (16 bp):
AAGACAACATGGATCA
Found at i:26070704 original size:31 final size:31
Alignment explanation
Indices: 26070669--26070730 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
26070659 AATACTTAAG
26070669 ACAACATGGATCAAAGACAAACAAACCAATA
1 ACAACATGGATCAAAGACAAACAAACCAATA
*
26070700 ACAACATGGATCAAAGACAAACAAATCAATA
1 ACAACATGGATCAAAGACAAACAAACCAATA
26070731 TTTCTAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.58, C:0.21, G:0.10, T:0.11
Consensus pattern (31 bp):
ACAACATGGATCAAAGACAAACAAACCAATA
Found at i:26081659 original size:27 final size:27
Alignment explanation
Indices: 26081629--26081683 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
26081619 GACCCAAATA
26081629 TGAGCCATAACTTTGGTGACCAGATTC
1 TGAGCCATAACTTTGGTGACCAGATTC
26081656 TGAGCCATAACTTTGGTGACCAGATTC
1 TGAGCCATAACTTTGGTGACCAGATTC
26081683 T
1 T
26081684 TTGGCATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
TGAGCCATAACTTTGGTGACCAGATTC
Found at i:26083868 original size:36 final size:36
Alignment explanation
Indices: 26083826--26083896 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
26083816 GAGATACACA
26083826 TTCAGTAGGTCACATTTTTAGCATAGATACAAAGGG
1 TTCAGTAGGTCACATTTTTAGCATAGATACAAAGGG
*
26083862 TTCAGTAGGTCATATTTTTAGCATAGATACAAAGG
1 TTCAGTAGGTCACATTTTTAGCATAGATACAAAGG
26083897 TAACTGCCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (36 bp):
TTCAGTAGGTCACATTTTTAGCATAGATACAAAGGG
Found at i:26095542 original size:132 final size:131
Alignment explanation
Indices: 26095296--26095543 Score: 424
Period size: 132 Copynumber: 1.9 Consensus size: 131
26095286 TTCCATTGCT
* * *
26095296 TAATTATCATAAAGCTAAAAGCATTATCATAATTAACAAAAAGTCGCCATCACATTAAACTCTGG
1 TAATTATCATAAAGCTAAAAGCATTACCATAATTAACAAAAAGTCACCATCAAATTAAACTCTGG
*
26095361 TTATAAGGTCCCTACAATTCTACCTCCAAAAAGAGGTTACATATGGACAACGCCATCAAATTAAC
66 TTATAAAGTCCCTACAATTCTACCTCCAAAAAGAGGTTACATATGGACAACGCCATCAAATTAAC
26095426 C
131 C
*
26095427 TAATATATCGTAAAGCTAAAAGCATTACCATAATTAACAAAAAGTCACCATCAAATTAAACTCTG
1 TAAT-TATCATAAAGCTAAAAGCATTACCATAATTAACAAAAAGTCACCATCAAATTAAACTCTG
* *
26095492 GTTATAAAGTCCCTACAATTCTACCTCCAAGAAGAGGTTATATATGGACAAC
65 GTTATAAAGTCCCTACAATTCTACCTCCAAAAAGAGGTTACATATGGACAAC
26095544 ATTATCCTTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
131 4 0.04
132 105 0.96
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (131 bp):
TAATTATCATAAAGCTAAAAGCATTACCATAATTAACAAAAAGTCACCATCAAATTAAACTCTGG
TTATAAAGTCCCTACAATTCTACCTCCAAAAAGAGGTTACATATGGACAACGCCATCAAATTAAC
C
Found at i:26100349 original size:24 final size:23
Alignment explanation
Indices: 26100321--26100376 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
26100311 AGGGATGTTA
*
26100321 GGGTTTTGAGGAAGGAAATTATTG
1 GGGTTTTGAAGAA-GAAATTATTG
*
26100345 GGGTTTTGGAAGAAGAAATTATTT
1 GGGTTTT-GAAGAAGAAATTATTG
26100369 GGGTTTTG
1 GGGTTTTG
26100377 TTGAAGAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.03
24 23 0.79
25 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (23 bp):
GGGTTTTGAAGAAGAAATTATTG
Found at i:26100370 original size:25 final size:24
Alignment explanation
Indices: 26100321--26100391 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
26100311 AGGGATGTTA
*
26100321 GGGTTTT-GAGGAAGGAAATTATT
1 GGGTTTTGGAAGAAGGAAATTATT
26100344 GGGGTTTTGGAAGAA-GAAATTATTT
1 -GGGTTTTGGAAGAAGGAAATTA-TT
*
26100369 GGGTTTTGTTGAAGAGGGAAATT
1 GGGTTTTG--GAAGAAGGAAATT
26100392 TGGTTGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 22 0.55
25 7 0.17
26 5 0.12
27 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (24 bp):
GGGTTTTGGAAGAAGGAAATTATT
Found at i:26102501 original size:210 final size:210
Alignment explanation
Indices: 26102117--26102822 Score: 1092
Period size: 210 Copynumber: 3.4 Consensus size: 210
26102107 CAAGGGCTTG
* * * * ** **
26102117 AAACCAGATGTCATCACCTACAACTCTTTAATTCGA-GGATTTTGTTTTTCAGGCTTATGGAAAG
1 AAACCTGATGTTATCACTTACAACTCTTTAATAC-ATGGATTTTGCCTTTCAGGCCAATGGAAAG
* * * *
26102181 AAGCAACAATCTTGTTCCACAGAATGACGGATG-AGGAATTCATCCCAATGTGGTAACTTTCAGC
65 AGGCAACAAGCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAGC
*
26102245 TCTTTAATTGATGCTTTGTGCAAACAAAAGAGAGTGAAAGAAGCCCTTACAATGTTGGAGCTAAT
130 TCTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAAT
26102310 GAGTGAAAGAGGTGTA
195 GAGTGAAAGAGGTGTA
* * *
26102326 AAAGCTGATGTTATCACTTACAGCTCTTTAATACATAGATTTTGCCTTTCAGGCCAATGGAAAGA
1 AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTTTGCCTTTCAGGCCAATGGAAAGA
* *
26102391 GGCAGCAAGCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAACT
66 GGCAACAAGCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAGCT
*
26102456 CTTTAATTGATCCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAATG
131 CTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAATG
*
26102521 AGTGAAAGAGATGTA
196 AGTGAAAGAGGTGTA
*
26102536 AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTTTGTCTTTCAGGCCAATGGAAAGA
1 AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTTTGCCTTTCAGGCCAATGGAAAGA
* * * *
26102601 GGCAGCAATCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCGATGTAGTAACTTTCAGCT
66 GGCAACAAGCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAGCT
* * * * *
26102666 CTTTAATTGATGCTTTGTGCCAACAAAAGAAAGTGAAAGAGGCCCGTAGAATGTTGGAGCAAATG
131 CTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAATG
26102731 AGTGAAAGAGGTGTA
196 AGTGAAAGAGGTGTA
* * *
26102746 AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTGTGCCATTCAGGTCAATGGAAAGA
1 AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTTTGCCTTTCAGGCCAATGGAAAGA
26102811 GGCAACAAGCTT
66 GGCAACAAGCTT
26102823 TTTAAGTGGA
Statistics
Matches: 454, Mismatches: 41, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
208 1 0.00
209 80 0.18
210 373 0.82
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (210 bp):
AAACCTGATGTTATCACTTACAACTCTTTAATACATGGATTTTGCCTTTCAGGCCAATGGAAAGA
GGCAACAAGCTTGTTCCACAGAATGATGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAGCT
CTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAATG
AGTGAAAGAGGTGTA
Found at i:26102773 original size:105 final size:105
Alignment explanation
Indices: 26102244--26102777 Score: 243
Period size: 105 Copynumber: 5.1 Consensus size: 105
26102234 TAACTTTCAG
* * * *
26102244 CTCTTTAATTGATGCTTTGTGCAAACAAAAGAGAGTGAAAGAAGCCCTTACAATGTTGGAGCTAA
1 CTCTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAGGCCCGTACAATGTTGGAGCAAA
* *
26102309 TGAGTGAAAGAGGTGTAAAAGCTGATGTTATCACTTACAG
66 TGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTACAA
** * *** **** * * **
26102349 CTCTTTAATACATAGATTT-TGCCTTTCAGGCCAATG-GAAAGAGG-CAG--CAAGCTTGTTCCA
1 CTCTTTAATTGAT-GCTTTGTG-CAAACAAAAGAAAGTGAAAGAGGCCCGTACAA---TGTTGGA
* * ** ** * ** ** * *
26102409 -CAGAATGA-TGGATGAAGGAATCCATCCCAATGTGGTAACTTTCAA
61 GCA-AATGAGTGAAAG-AGGTGTAAAACCTGATGTTATCACTTACAA
* * * *
26102454 CTCTTTAATTGATCCTTTGTGCAAACAAAAGAAAGTGAAAGAAGCCCTTACAATGTTGGAGCTAA
1 CTCTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAGGCCCGTACAATGTTGGAGCAAA
*
26102519 TGAGTGAAAGAGATGTAAAACCTGATGTTATCACTTACAA
66 TGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTACAA
** * *** **** * * **
26102559 CTCTTTAATACATGGATTT-TGTCTTTCAGGCCAATG-GAAAGAGG-CAG--CAATCTTGTTCCA
1 CTCTTTAATTGAT-GCTTTGTG-CAAACAAAAGAAAGTGAAAGAGGCCCGTACAA---TGTTGGA
* * ** ** * * * * *
26102619 -CAGAATGA-TGGATGAAGGAATCCATCCCGATG-TAGTAACTTTCAG
61 GCA-AATGAGTGAAAG-AGGTGTAAAACCTGATGTTA-TCACTTACAA
* *
26102664 CTCTTTAATTGATGCTTTGTGCCAACAAAAGAAAGTGAAAGAGGCCCGTAGAATGTTGGAGCAAA
1 CTCTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAGGCCCGTACAATGTTGGAGCAAA
26102729 TGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTACAA
66 TGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTACAA
26102769 CTCTTTAAT
1 CTCTTTAAT
26102778 ACATGGATTG
Statistics
Matches: 278, Mismatches: 121, Indels: 60
0.61 0.26 0.13
Matches are distributed among these distances:
102 6 0.02
104 33 0.12
105 200 0.72
106 34 0.12
108 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (105 bp):
CTCTTTAATTGATGCTTTGTGCAAACAAAAGAAAGTGAAAGAGGCCCGTACAATGTTGGAGCAAA
TGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTACAA
Found at i:26102809 original size:105 final size:104
Alignment explanation
Indices: 26102490--26102813 Score: 235
Period size: 105 Copynumber: 3.1 Consensus size: 104
26102480 AAAAGAAAGT
* * * *
26102490 GAAAGAAGCCCTTACAATGTTGGAGCTAATGAGTGAAAGAGATGTAAAACCTGATGTTATCACTT
1 GAAAGAGGCCCGTA-AATGTTGGAGCAAATGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTT
* * * *
26102555 ACAACTCTTTAATACATGGATTTTGTCTTTCAGGCCAATG
65 ACAACTCTTTAATACATGGATTGTGCCATTCAGGACAATG
* * * ** * * ** ** * * *
26102595 GAAAGAGG-CAGCAATCTTGTTCCA-CAGAATGA-TGGATGAAGGAATCCATCCCGATG-TAGTA
1 GAAAGAGGCCCGTAA--ATGTTGGAGCA-AATGAGTGAAAG-AGGTGTAAAACCTGATGTTA-TC
* * ** ** * ** * *
26102656 ACTTTCAGCTCTTTAATTGATGCTTTGTGCCA-ACAAAAGAAAG
61 ACTTACAACTCTTTAATACATGGATTGTGCCATTCAGGACAATG
26102699 TGAAAGAGGCCCGTAGAATGTTGGAGCAAATGAGTGAAAGAGGTGTAAAACCTGATGTTATCACT
1 -GAAAGAGGCCCGTA-AATGTTGGAGCAAATGAGTGAAAGAGGTGTAAAACCTGATGTTATCACT
*
26102764 TACAACTCTTTAATACATGGATTGTGCCATTCAGGTCAATG
64 TACAACTCTTTAATACATGGATTGTGCCATTCAGGACAATG
26102805 GAAAGAGGC
1 GAAAGAGGC
26102814 AACAAGCTTT
Statistics
Matches: 148, Mismatches: 59, Indels: 24
0.64 0.26 0.10
Matches are distributed among these distances:
103 1 0.01
104 14 0.09
105 116 0.78
106 16 0.11
107 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (104 bp):
GAAAGAGGCCCGTAAATGTTGGAGCAAATGAGTGAAAGAGGTGTAAAACCTGATGTTATCACTTA
CAACTCTTTAATACATGGATTGTGCCATTCAGGACAATG
Found at i:26112923 original size:26 final size:26
Alignment explanation
Indices: 26112889--26112940 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
26112879 AAAACTTCTA
*
26112889 AATTTAATGACTCTTATTCATAGCCT
1 AATTTAATGACTCTTATGCATAGCCT
26112915 AATTTAATGACTCTTATGCATAGCCT
1 AATTTAATGACTCTTATGCATAGCCT
26112941 TACTGTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (26 bp):
AATTTAATGACTCTTATGCATAGCCT
Found at i:26117040 original size:27 final size:27
Alignment explanation
Indices: 26117002--26117064 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
26116992 TTTTGCATTG
* ** *
26117002 TTTTGCTACTTGCTTTATATTGTTTGC
1 TTTTGCTTCTTGCTTTATACAGTTTCC
26117029 TTTTGCTTCTTGCTTTATACAGTTTCC
1 TTTTGCTTCTTGCTTTATACAGTTTCC
26117056 TTTTGCTTC
1 TTTTGCTTC
26117065 CTTAAAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.10, C:0.19, G:0.13, T:0.59
Consensus pattern (27 bp):
TTTTGCTTCTTGCTTTATACAGTTTCC
Found at i:26131427 original size:15 final size:16
Alignment explanation
Indices: 26131409--26131438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26131399 AACCACTACC
26131409 ATTAT-AAATAAAATT
1 ATTATCAAATAAAATT
26131424 ATTATCAAATAAAAT
1 ATTATCAAATAAAAT
26131439 AGAATGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTATCAAATAAAATT
Found at i:26137011 original size:10 final size:10
Alignment explanation
Indices: 26136985--26137014 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
26136975 AAGATGTGAG
*
26136985 TTTTTTCCTT
1 TTTTTTTCTT
26136995 TTTTTTTCTT
1 TTTTTTTCTT
26137005 TTTTTTTCTT
1 TTTTTTTCTT
26137015 CTAGTTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:26137561 original size:19 final size:19
Alignment explanation
Indices: 26137539--26137583 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
26137529 TAATAAAAAG
26137539 TTAAAATTTATCTAAATTT
1 TTAAAATTTATCTAAATTT
26137558 TTAAAATTTATCTAAATTT
1 TTAAAATTTATCTAAATTT
26137577 TTAAAAT
1 TTAAAAT
26137584 ATTTCATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATTTATCTAAATTT
Found at i:26138369 original size:88 final size:90
Alignment explanation
Indices: 26138208--26138384 Score: 243
Period size: 88 Copynumber: 2.0 Consensus size: 90
26138198 TAAAAATATA
* *
26138208 TCTTACTTATATAATTATTCACTTTTTATTTATTTTGAAATTAATTAAATTTTAGTTAGAATAAA
1 TCTTACTTATATAATTATTCACTTTTTATTTATTTTAAAATTAATTAAATTTTAATTAGAATAAA
**
26138273 TGGCAATCGACTCAAAT-CAATTTG
66 TAACAATCGACTCAAATCCAATTTG
* *
26138297 TCTTCCTTATATAATTATTCA-TTCTTT-TTTATTTTAAAATTAATTAAATTTTAATTTGAATAA
1 TCTTACTTATATAATTATTCACTT-TTTATTTATTTTAAAATTAATTAAATTTTAATTAGAATAA
* * *
26138360 GTAATAATCGACTCATATCCAATTT
65 ATAACAATCGACTCAAATCCAATTT
26138385 AATAAATGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 48 0.62
89 29 0.38
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (90 bp):
TCTTACTTATATAATTATTCACTTTTTATTTATTTTAAAATTAATTAAATTTTAATTAGAATAAA
TAACAATCGACTCAAATCCAATTTG
Found at i:26147841 original size:26 final size:26
Alignment explanation
Indices: 26147812--26147861 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
26147802 TGCAGGTGAG
26147812 AAATCAACATAAGTGCAAGGGAATAT
1 AAATCAACATAAGTGCAAGGGAATAT
*
26147838 AAATCTACATAAGTGCAAGGGAAT
1 AAATCAACATAAGTGCAAGGGAAT
26147862 GTCTTAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (26 bp):
AAATCAACATAAGTGCAAGGGAATAT
Found at i:26149573 original size:36 final size:37
Alignment explanation
Indices: 26149524--26149804 Score: 136
Period size: 36 Copynumber: 7.8 Consensus size: 37
26149514 AATCCAGCAC
* * * *
26149524 AAAAGCAAGACTTTCAATTTACAGCCAATTAAAT-TA
1 AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* *
26149560 AAAAGTAAAACTTTCAATTTAAACCCAATTTAATGCA
1 AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* * * ** *
26149597 AAAA-CAAAAGTTTCAATTTCAACTCAATT--CGGTA
1 AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* ** *
26149631 GAAAAGCAACACTTTCAAACTAAACCCAATTCAATGC-
1 -AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* * * * * *
26149668 AAAAGCAAAAGTTTTAATTTCAACTCAATT-CA-GTA
1 AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* * * *
26149703 GAAAAGCGACACTTTCAAATTAAACCCAATTCAA-G-A
1 -AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
* * * *
26149739 AGAAGAAAAACTTTCTAA-TCAAACCCAATTCAAA-AC-
1 AAAAGCAAAACTTTC-AATTTAAACCCAATT-AAATGCA
* * * *
26149775 AAAATCAACATTTTCAATTTAAAACCAATT
1 AAAAGCAAAACTTTCAATTTAAACCCAATT
26149805 CAGTAAAATA
Statistics
Matches: 180, Mismatches: 53, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
34 3 0.02
35 29 0.16
36 140 0.78
37 7 0.04
38 1 0.01
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (37 bp):
AAAAGCAAAACTTTCAATTTAAACCCAATTAAATGCA
Found at i:26149625 original size:72 final size:72
Alignment explanation
Indices: 26149560--26149736 Score: 273
Period size: 72 Copynumber: 2.5 Consensus size: 72
26149550 AATTAAATTA
* * * *
26149560 AAAAGTAAAACTTTCAATTTAAACCCAATTTAATGCAAAAACAAAAGTTTCAATTTCAACTCAAT
1 AAAAGCAACACTTTCAAATTAAACCCAATTCAATGCAAAAACAAAAGTTTCAATTTCAACTCAAT
*
26149625 TCGGTAG
66 TCAGTAG
* * *
26149632 AAAAGCAACACTTTCAAACTAAACCCAATTCAATGCAAAAGCAAAAGTTTTAATTTCAACTCAAT
1 AAAAGCAACACTTTCAAATTAAACCCAATTCAATGCAAAAACAAAAGTTTCAATTTCAACTCAAT
26149697 TCAGTAG
66 TCAGTAG
*
26149704 AAAAGCGACACTTTCAAATTAAACCCAATTCAA
1 AAAAGCAACACTTTCAAATTAAACCCAATTCAA
26149737 GAAGAAGAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (72 bp):
AAAAGCAACACTTTCAAATTAAACCCAATTCAATGCAAAAACAAAAGTTTCAATTTCAACTCAAT
TCAGTAG
Found at i:26150111 original size:6 final size:6
Alignment explanation
Indices: 26150100--26150132 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
26150090 AAATCTACAG
26150100 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
26150133 GACCAAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:26150505 original size:38 final size:38
Alignment explanation
Indices: 26150463--26150539 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
26150453 TTAAGCATGT
26150463 CCTATAATTATTGTACACAAATATTAAATTACTTATTA
1 CCTATAATTATTGTACACAAATATTAAATTACTTATTA
*
26150501 CCTATAATTATTGTACACAAATATTGAATTACTTATTA
1 CCTATAATTATTGTACACAAATATTAAATTACTTATTA
26150539 C
1 C
26150540 ATAGTATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (38 bp):
CCTATAATTATTGTACACAAATATTAAATTACTTATTA
Found at i:26151187 original size:278 final size:277
Alignment explanation
Indices: 26150787--26151323 Score: 1049
Period size: 278 Copynumber: 1.9 Consensus size: 277
26150777 AATAATTAAC
26150787 TTAATCAAAATATTATTTGTTATTTTATGTCGTAGAATGTTAACATATCATTTTGACGTATCATA
1 TTAATCAAAATATTATTTGTTATTTTATGTCGTAGAATGTTAACATATCATTTTGACGTATCATA
26150852 ATGAATAAAAAAATAACATATTAATATGACATGATAATTAAATTATTTATTATTTTTACTTTTCA
66 ATGAATAAAAAAATAACATATTAATATGACATGATAATTAAATTATTTATTATTTTTACTTTTCA
26150917 TGTAAGTCACATGAATAGAAAAATGATAAATAGTATTTTAATTAATAACAATTTATTATTTATTA
131 TGTAAGTCACATGAATAGAAAAATGATAAATAGTATTTTAATTAATAACAATTTATTATTTATTA
26150982 GTTAT-AAAATTTATTTGATTCAAAATAAAAATATAAAAATTTAATTGAATGTAATATAAAAATA
196 GTTATAAAAATTTATTTGATTCAAAATAAAAATATAAAAATTTAATTGAATGTAATA-AAAAATA
26151046 AAGNATTTACTAACTATTA
260 AAG-ATTTACTAACTATTA
26151065 TTAATCAAAATATTATTTGTTATTTTATGTCGTAGAATGTTAACATATCATTTTGACGTATCATA
1 TTAATCAAAATATTATTTGTTATTTTATGTCGTAGAATGTTAACATATCATTTTGACGTATCATA
26151130 ATGAATAAAAAAATAACATATTAATATGACATGATAATTAAATTATTTATTATTTTTACTTTTCA
66 ATGAATAAAAAAATAACATATTAATATGACATGATAATTAAATTATTTATTATTTTTACTTTTCA
26151195 TGTAAGTCACATGAATAGAAAAATGATAAATAGTATTTTAATTAATAACAATTTATTATTTATTA
131 TGTAAGTCACATGAATAGAAAAATGATAAATAGTATTTTAATTAATAACAATTTATTATTTATTA
26151260 GTTATAAAAATTTATTTGATTCAAAATAAAAATATAAAAATTTAATTGAATGTAATAAAAAATA
196 GTTATAAAAATTTATTTGATTCAAAATAAAAATATAAAAATTTAATTGAATGTAATAAAAAATA
26151324 TAAATTGTTT
Statistics
Matches: 258, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
278 207 0.80
279 51 0.20
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (277 bp):
TTAATCAAAATATTATTTGTTATTTTATGTCGTAGAATGTTAACATATCATTTTGACGTATCATA
ATGAATAAAAAAATAACATATTAATATGACATGATAATTAAATTATTTATTATTTTTACTTTTCA
TGTAAGTCACATGAATAGAAAAATGATAAATAGTATTTTAATTAATAACAATTTATTATTTATTA
GTTATAAAAATTTATTTGATTCAAAATAAAAATATAAAAATTTAATTGAATGTAATAAAAAATAA
AGATTTACTAACTATTA
Found at i:26151734 original size:15 final size:15
Alignment explanation
Indices: 26151711--26151740 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26151701 AATTATAATA
26151711 TTTTATTTTAAATTT
1 TTTTATTTTAAATTT
*
26151726 TTTTGTTTTAAATTT
1 TTTTATTTTAAATTT
26151741 CTTTCCATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTATTTTAAATTT
Found at i:26153965 original size:3 final size:3
Alignment explanation
Indices: 26153957--26153983 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26153947 CTGTCTTTAC
26153957 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
26153984 TCTCTCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:26165505 original size:10 final size:10
Alignment explanation
Indices: 26165490--26165517 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
26165480 CTTCTCTGCT
26165490 TCTTGTTCCC
1 TCTTGTTCCC
26165500 TCTTGTTCCC
1 TCTTGTTCCC
26165510 TCTTGTTC
1 TCTTGTTC
26165518 TTCTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.11, T:0.54
Consensus pattern (10 bp):
TCTTGTTCCC
Found at i:26170334 original size:18 final size:18
Alignment explanation
Indices: 26170313--26170347 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26170303 TTTTTATGGA
26170313 ACTTCTTTT-TTTTCTTTT
1 ACTT-TTTTCTTTTCTTTT
26170331 ACTTTTTTCTTTTCTTT
1 ACTTTTTTCTTTTCTTT
26170348 CTTCATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
ACTTTTTTCTTTTCTTTT
Found at i:26171052 original size:18 final size:18
Alignment explanation
Indices: 26171022--26171057 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
26171012 TGTTAAATTG
26171022 GATTTAAATATTATAAAT
1 GATTTAAATATTATAAAT
26171040 GATTTGAAA-ATTATAAAT
1 GATTT-AAATATTATAAAT
26171058 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
GATTTAAATATTATAAAT
Found at i:26173834 original size:178 final size:178
Alignment explanation
Indices: 26173528--26173882 Score: 557
Period size: 178 Copynumber: 2.0 Consensus size: 178
26173518 TTTGACATGA
**
26173528 CATTCCTATTATGCAATAAAGGCACAATGGTGCTTATGTGAACATATGCCTTAATGTGTTAATTT
1 CATTCCTATTATGCAATAAAGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATTT
* ** ** *
26173593 GACATTTCGATTGTACATTAAGATGTAATGGTGTCAATTGAGAATTTTTTTTGTTTGATTATCAT
66 AACATTTCGATTGTACATTAAGATACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
* *
26173658 GATGGATTTGGTTGGTTAGCTTAAAGTGAGAACCACTTTGTGTTGTTG
131 GATGGATTCGGTTGGTTAGCTTAAAGTGAGAACCACTTTGTGGTGTTG
* *
26173706 CATTCCTATTGTGCAATAACGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATTT
1 CATTCCTATTATGCAATAAAGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATTT
* *
26173771 AACATTTCGATTGTATATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
66 AACATTTCGATTGTACATTAAGATACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
* * *
26173836 GATGGATTCGGTTGGTTAGTTTAAGGTGAGTACCACTTTGTGGTGTT
131 GATGGATTCGGTTGGTTAGCTTAAAGTGAGAACCACTTTGTGGTGTT
26173883 TGAAGAAATA
Statistics
Matches: 160, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
178 160 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (178 bp):
CATTCCTATTATGCAATAAAGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATTT
AACATTTCGATTGTACATTAAGATACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
GATGGATTCGGTTGGTTAGCTTAAAGTGAGAACCACTTTGTGGTGTTG
Found at i:26175057 original size:341 final size:340
Alignment explanation
Indices: 26173706--26175816 Score: 1993
Period size: 342 Copynumber: 6.3 Consensus size: 340
26173696 TGTGTTGTTG
* * * *
26173706 CATTCCTATTGTGCAATAACGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATTT
1 CATTCTTATTGTGCATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATTT
* * *
26173771 AACATTTCGATTGTATATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
66 AACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATCAT
* * * * * *
26173836 GATGGATTCGGTTGGTTAGTTTAAGGTGAGTACCACTTTGTGGTGTTTGAAGAAATAAAAAAATT
131 GATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAACT
* * * * * *
26173901 ATAAGGT-GGCAAGTGGCATTCCTATTATACGTTAAAGTATAATGGTGTCAATATATAAATCTAA
196 ATAAGGTGGGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAA
* * * * * * * *
26173965 CTTCTGGATGTATGCTACATTCCTATTTTACTATTGAAGGTATAAAGGTGCAAAATAGATATTTA
261 CATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATATTTA
26174030 AAATATTTGACATGA
326 AAATATTTGACATGA
* * * * * *
26174045 CATTCTTATTGTGCAATGAAA-ACACGATAGTGCTTATGTGAACATATAACTTAATATGTTAATT
1 CATTCTTATTGTGC-ATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATT
* * ** * *
26174109 TGACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGTA-CATT-AATGT-TTTG-TTGTC
65 TAACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTG-AGAATTCCTTTTGTTTGATTATC
* * * * * ** * *
26174170 ATGATGGATTTGATTAGTAAGCTTAAGATGGGAATTACTTTGTGGT-TTTGGCA-AAAGAAAGAT
129 ATGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGG-AGAAATAAAGAA
* * * **
26174233 ACTATAAGGTGTATGCATTTGACATTTCTATTATACATTAAGGTATAATGGTGTTAATATGTAAA
193 ACTATAAGGTG--GGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAA
* * * *
26174298 TCTAACATCTTGATATATGGTGCATTCCAATTTTACTATTGAAGATATAATGATACAAAATAGAT
256 TCTAACATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGAT
* *
26174363 ATTTAAAATATATGACATGG
321 ATTTAAAATATTTGACATGA
* * * ** ** * * *
26174383 CATT-TCTACTATGCAATAAAGAAACAATGGTGCTTATGTGAATGTATAGTTTGATGTATTAATT
1 CATTCT-TATTGTGCATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATT
** * * * * *
26174447 TCTCATTCTGATTGTACATTGAGGTATAATGGTGTCAATTGAGAATTCCTTTTGTTTCATTGTCA
65 TAACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATCA
* * ** * *
26174512 TTATGGATTTGGTTGGTTAGCTTAAGGTGGGAACCACTTTGTGGCATTTGGCGAAAGAAAGAAAC
130 TGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAAC
* * * * *
26174577 TATAAGGTGTGCACATTTGACGTTTCC-ATCATACATTAAGGTATAATGGTGCCAATATGTGAAT
195 TATAAGGTG-G-GCATGTGAC-ATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAAT
* * * * ***
26174641 CTAACATCTTGTTATACGGTGCATTCTTATTTGACCACCAAAGGTATAATGATGCAAAATAGATA
257 CTAACATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATA
26174706 TTTAAAATATTTGACATGA
322 TTTAAAATATTTGACATGA
* * * *
26174725 CATTCTTATTATGCGTTAAAGGCACAATGGTGCTTATGTGAACATTTAGCTTAATTTGTTAATTT
1 CATTCTTATTGTGCATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATTT
* *** * * * * * *
26174790 GACATTTTAATTGTATATTAAGGTATAATTGTGTCAATTGGGAATTCCTTTTGTTTGATAATCAA
66 AACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATCAT
* * ** * *
26174855 GATGGATTTGGTT-GTTATCTTAAGGTGAGAACCATTTTACGGTGTTTGGCGAAATAAAAAAACT
131 GATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAACT
* * * * * * *
26174919 ATAAGTTAAGGGCATTTGGCATTCCTATTGTACATTTAGGTATGATGGTGTCAATATGTAAATCT
196 ATAAGGT--GGGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCT
* * *
26174984 AATATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGGTGCAAAATAGATAAT
259 AACATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATATT
** *
26175049 TAAAATATTTGTTATGG
324 TAAAATATTTGACATGA
* * * * *
26175066 CATTCCTATTGTGCAATAAAGGCACAATGGTG-TTGATAT-AAGCATATAGCTTGATGCGTTAAT
1 CATTCTTATTGTGCATTAAAGGCACAATGGTGCTT-ATGTGAA-CATATAGCTTAATGTGTTAAT
* * *
26175129 TTAATATTCCGATTGTACATTAAGTTACAATAGTGTCAATTGAGAATTCCTTTTGTTTGATTATC
64 TTAACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATC
* * * *
26175194 ATGATGGATTTGGTTGGTTAGCTTAAGGTAAGCACCACTTTGTGGTGTTTTGAGTAATAAAGAAA
129 ATGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAA
* * * * *
26175259 CTATAAAGTGTGAGCATGTGACATTCCTATTATACATTAAGATCTAATGATACCAATATGTAAAT
194 CTAT-AAG-GTGGGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAAT
* * * * * * *
26175324 CTAGCATC----T-TA---TGCATTTCTATTTTACCGTCGAAGGTATAATGGTGCGAAAGAGA-A
257 CTAACATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATA
* * *
26175380 ATT-AAATTTTTGACATGG
322 TTTAAAATATTTGACATGA
* * ** * *
26175398 CATTCCTATTGTGCATTTATTGCACAA-------TATAT--AC-CAT-G----ATGTGTTAATTT
1 CATTCTTATTGTGCATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATTT
* * * * * * * * * *
26175448 AATATTCTGATTATACATTAAGTTAAAATCGTGTCAATTTAAAATTCCTTTTGTTTCATTGTCAT
66 AACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATCAT
* * * *
26175513 GATGGATTTGGTTGGTTTG-TTGAGGGTGAGAAGCACTTTGTGGTGTTTGGAGAAATAAAGAAAT
131 GATGGATTTGGTTGGTTAGCTT-AAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAAC
* * * * * *
26175577 TGTAAGGTGTGGCAAGTGGCATTCCTATTATACGTTAAGGTGTAATGGTACCAATATGTAAATCT
195 TATAAGGTG-GGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCT
** * *
26175642 AACATCTTGATATAAAGTGCATTTCTATTCTACCATTGAAGGTATAATGATGC-AAATAGATATT
259 AACATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATATT
*
26175706 TAAAATATTTCACATGA
324 TAAAATATTTGACATGA
* * * * * * *
26175723 CATTCTAATTGTGCAATGAAA-GCA-AGATGTTGCTTATGCGAGCATGTAACTTAATGTGTTAAT
1 CATTCTTATTGTGC-ATTAAAGGCACA-ATGGTGCTTATGTGAACATATAGCTTAATGTGTTAAT
* * **
26175786 TTGACATTTCGATTGTGTATTAAGGTACAAT
64 TTAACATTCCGATTGTACATTAAGGTACAAT
26175817 AATGTTAATA
Statistics
Matches: 1439, Mismatches: 279, Indels: 107
0.79 0.15 0.06
Matches are distributed among these distances:
315 3 0.00
316 58 0.04
317 123 0.09
320 1 0.00
321 3 0.00
322 2 0.00
323 7 0.00
324 37 0.03
325 32 0.02
326 4 0.00
332 38 0.03
333 4 0.00
334 40 0.03
335 21 0.01
336 41 0.03
337 11 0.01
338 201 0.14
339 95 0.07
340 47 0.03
341 316 0.22
342 346 0.24
343 8 0.01
344 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (340 bp):
CATTCTTATTGTGCATTAAAGGCACAATGGTGCTTATGTGAACATATAGCTTAATGTGTTAATTT
AACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTGATTATCAT
GATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAACT
ATAAGGTGGGCATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAA
CATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGGTATAATGATGCAAAATAGATATTTA
AAATATTTGACATGA
Found at i:26175083 original size:683 final size:679
Alignment explanation
Indices: 26173705--26175333 Score: 1900
Period size: 683 Copynumber: 2.4 Consensus size: 679
26173695 TTGTGTTGTT
* * * *
26173705 GCATTCCTATTGTGCAATAACGGCACAATGGTGCTTATGTGAACATATAACTTAATGTGTTAATT
1 GCATTCCTATTGTGCAATAAAGGCACAATGGTGCTTATGTGAA-GTATAGCTTGATGTGTTAATT
* *
26173770 TAACATT-TCGATTGTATATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATC
65 TATCATTCT-GATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATC
* * * * *
26173834 ATGATGGATTCGGTTGGTTAGTTTAAGGTGAGTACCACTTTGTGGTGTTTGAAGAAATAAAAAAA
129 ATGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAA
* * * * * *
26173899 TTATAAGGTG-GCA-A-GTGGCATTCCTATTATACGTTAAAGTATAATGGTGTCAATATATAAAT
194 CTATAAGGTGTGCACATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAAT
* * * * * * *** *
26173961 CTAACTTCTGGATGTATGCTACATTCCTATTTTACTATTGAAGGTATAAAGGTGCAAAATAGATA
259 CTAACATCTTGATATACGCTACATTCCTATTTGACCACCAAAGGTATAAAGATGCAAAATAGATA
* *
26174026 TTTAAAATATTTGACATGACATTCTTATTGTGCAATGAAAACACGATAGTGCTTATGTGAACATA
324 TTTAAAATATTTGACATGACATTCTTATTATGCAATGAAAACACAATAGTGCTTATGTGAACATA
* *
26174091 TAACTTAATATGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGTACATT
389 TAACTTAATATGTTAATTTGACATTCCAATTGTACATTAAGGTACAATGGTGTCAATTGGACATT
** * * ** **
26174156 AATGTTTTGTTGTCATGATGGATTTGATTAGTAAGCTTAAGATGGGAATTACTTTGTGGTTTTGG
454 AATGTTTTGTAATCAAGATGGATTTGATTAGTAAGCTTAAGATGAGAACCACTTTACGGTTTTGG
* * * *
26174221 CAAAAGAAAGATACTATAAGGTGTATGCATTTGACATTTCTATTATACATTAAGGTATAATGGTG
519 CAAAAGAAAAAAACTATAAGGTGTAGGCATTTGACATTCCTATTATACATTAAGGTATAATGGTG
* *
26174286 TTAATATGTAAATCTAACATCTTGATATATGGTGCATTCCAATTTTACTATTGAAGATATAATGA
584 TCAATATGTAAATCTAACATCTTGATATATGGTGCATTCCAATTTTACCATTGAAGATATAATGA
*
26174351 TACAAAATAGATATTTAAAATATATGACATG
649 TACAAAATAGATAATTAAAATATATGACATG
* * * ** * *
26174382 GCATTTCTACTATGCAATAAAGAAACAATGGTGCTTATGTGAATGTATAGTTTGATGTATTAATT
1 GCATTCCTATTGTGCAATAAAGGCACAATGGTGCTTATGTGAA-GTATAGCTTGATGTGTTAATT
* * * * *
26174447 TCTCATTCTGATTGTACATTGAGGTATAATGGTGTCAATTGAGAATTCCTTTTGTTTCATTGTCA
65 TATCATTCTGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCA
* * ** * *
26174512 TTATGGATTTGGTTGGTTAGCTTAAGGTGGGAACCACTTTGTGGCATTTGGCGAAAGAAAGAAAC
130 TGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAAC
* * * *
26174577 TATAAGGTGTGCACATTTGACGTTTCC-ATCATACATTAAGGTATAATGGTGCCAATATGTGAAT
195 TATAAGGTGTGCACATGTGAC-ATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAAT
* * * * *
26174641 CTAACATCTTGTTATACGGTGCATTCTTATTTGACCACCAAAGGTATAATGATGCAAAATAGATA
259 CTAACATCTTGATATACGCTACATTCCTATTTGACCACCAAAGGTATAAAGATGCAAAATAGATA
* * * *
26174706 TTTAAAATATTTGACATGACATTCTTATTATGC-GTTAAAGGCACAATGGTGCTTATGTGAACAT
324 TTTAAAATATTTGACATGACATTCTTATTATGCAATGAAA-ACACAATAGTGCTTATGTGAACAT
* * * ** * * *
26174770 TTAGCTTAATTTGTTAATTTGACATTTTAATTGTATATTAAGGTATAATTGTGTCAATTGGGA-A
388 ATAACTTAATATGTTAATTTGACATTCCAATTGTACATTAAGGTACAATGGTGTCAATT-GGACA
** * * * * * *
26174834 TTCCTTTTGTTTGATAATCAAGATGGATTTGGTT-GTTATCTTAAGGTGAGAACCATTTTACGGT
452 TT-AATGT-TTTG-TAATCAAGATGGATTTGATTAGTAAGCTTAAGATGAGAACCACTTTACGGT
* * * * *
26174898 GTTTGGCGAAATAAAAAAACTATAA-GT-TAAGGGCATTTGGCATTCCTATTGTACATTTAGGTA
514 -TTTGGCAAAAGAAAAAAACTATAAGGTGT-A-GGCATTTGACATTCCTATTATACATTAAGGTA
* * * *
26174961 TGATGGTGTCAATATGTAAATCTAATATCTTGATATATGGTGCATTCCTATTTTACCATTGAAGG
576 TAATGGTGTCAATATGTAAATCTAACATCTTGATATATGGTGCATTCCAATTTTACCATTGAAGA
* * * **
26175026 TATAATGGTGCAAAATAGATAATTAAAATATTTGTTATG
641 TATAATGATACAAAATAGATAATTAAAATATATGACATG
* *
26175065 GCATTCCTATTGTGCAATAAAGGCACAATGGTG-TTGATAT-AAGCATATAGCTTGATGCGTTAA
1 GCATTCCTATTGTGCAATAAAGGCACAATGGTGCTT-ATGTGAAG--TATAGCTTGATGTGTTAA
* * * *
26175128 TTTAAT-ATTCCGATTGTACATTAAGTTACAATAGTGTCAATTGAGAATTCCTTTTGTTTGATTA
63 TTT-ATCATTCTGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTA
* * * *
26175192 TCATGATGGATTTGGTTGGTTAGCTTAAGGTAAGCACCACTTTGTGGTGTTTTGAGTAATAAAGA
127 TCATGATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGA
* * * * *
26175257 AACTATAAAGTGTG-AGCATGTGACATTCCTATTATACATTAAGATCTAATGATACCAATATGTA
192 AACTATAAGGTGTGCA-CATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTA
*
26175321 AATCTAGCATCTT
256 AATCTAACATCTT
26175334 ATGCATTTCT
Statistics
Matches: 788, Mismatches: 145, Indels: 32
0.82 0.15 0.03
Matches are distributed among these distances:
677 171 0.22
678 4 0.01
679 5 0.01
680 190 0.24
681 10 0.01
682 37 0.05
683 370 0.47
684 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (679 bp):
GCATTCCTATTGTGCAATAAAGGCACAATGGTGCTTATGTGAAGTATAGCTTGATGTGTTAATTT
ATCATTCTGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATTCCTTTTGTTTAATTATCAT
GATGGATTTGGTTGGTTAGCTTAAGGTGAGAACCACTTTGTGGTGTTTGGAGAAATAAAGAAACT
ATAAGGTGTGCACATGTGACATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCT
AACATCTTGATATACGCTACATTCCTATTTGACCACCAAAGGTATAAAGATGCAAAATAGATATT
TAAAATATTTGACATGACATTCTTATTATGCAATGAAAACACAATAGTGCTTATGTGAACATATA
ACTTAATATGTTAATTTGACATTCCAATTGTACATTAAGGTACAATGGTGTCAATTGGACATTAA
TGTTTTGTAATCAAGATGGATTTGATTAGTAAGCTTAAGATGAGAACCACTTTACGGTTTTGGCA
AAAGAAAAAAACTATAAGGTGTAGGCATTTGACATTCCTATTATACATTAAGGTATAATGGTGTC
AATATGTAAATCTAACATCTTGATATATGGTGCATTCCAATTTTACCATTGAAGATATAATGATA
CAAAATAGATAATTAAAATATATGACATG
Found at i:26180110 original size:2 final size:2
Alignment explanation
Indices: 26180103--26180139 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
26180093 AGAGAACAAT
* *
26180103 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26180140 GCCATGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:26181520 original size:153 final size:154
Alignment explanation
Indices: 26181347--26181623 Score: 421
Period size: 153 Copynumber: 1.8 Consensus size: 154
26181337 AAATAATCAA
* * * * *
26181347 AAAAAATCTTTTACATTTAAACATTTGATTTATTAATAAATGTATGTATCATCTCTCAAAGATTT
1 AAAAAATCTTTTACACTTAAACATTGGATTTATTAACAAATATATGTATCATCTATCAAAGATTT
* * *
26181412 GTATTTTTTAAATATTTTTGTCAATTTAGTCT-TATAGACTTTAATTTTGTTCAATTTAGTCTCT
66 ATATTTTTTAAATATTTTTGTCAATTTAGTCTCTATACACTTTAATTTTATTCAATTTAGTCTCT
26181476 GTATTATTTTTTTATTCAAAATAC
131 GTATTATTTTTTTATTCAAAATAC
* * * *
26181500 AAAAAATCTTTTAGACTTAAACATTGGATTTATTGACAAGTATATGTCTCATCTATCAAAGATTT
1 AAAAAATCTTTTACACTTAAACATTGGATTTATTAACAAATATATGTATCATCTATCAAAGATTT
* *
26181565 ATATTTTTTAAATATTTTTTTCAATTTAGTCTCTATACATTTTAATTTTATTCAATTTA
66 ATATTTTTTAAATATTTTTGTCAATTTAGTCTCTATACACTTTAATTTTATTCAATTTA
26181624 ATATATATTA
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
153 86 0.79
154 23 0.21
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (154 bp):
AAAAAATCTTTTACACTTAAACATTGGATTTATTAACAAATATATGTATCATCTATCAAAGATTT
ATATTTTTTAAATATTTTTGTCAATTTAGTCTCTATACACTTTAATTTTATTCAATTTAGTCTCT
GTATTATTTTTTTATTCAAAATAC
Found at i:26187627 original size:53 final size:53
Alignment explanation
Indices: 26187517--26187627 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 53
26187507 CACTCCTGCT
* * * * *
26187517 AAATACAGCTCTCACAGTCTCTTCACTTTAGAAGGCATAGATACCAAGTCCCT
1 AAATACAGCTATCACAGTCTCTACACTTTAAAAGGCATAAATACCAAGTCCCA
*
26187570 AAATACAGCTATCA-AGGTCTCTAGAC-TTAAAAGGCATAAAT-CCAAGTTCCACA
1 AAATACAGCTATCACA-GTCTCTACACTTTAAAAGGCATAAATACCAAG-TCC-CA
26187623 AAATA
1 AAATA
26187628 AGAAATGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
51 5 0.10
52 17 0.35
53 27 0.55
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (53 bp):
AAATACAGCTATCACAGTCTCTACACTTTAAAAGGCATAAATACCAAGTCCCA
Found at i:26191031 original size:9 final size:9
Alignment explanation
Indices: 26191019--26191043 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26191009 TGATGGAGGT
26191019 GGTGGTGGG
1 GGTGGTGGG
26191028 GGTGGTGGG
1 GGTGGTGGG
26191037 GGTGGTG
1 GGTGGTG
26191044 AAGGTGGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.76, T:0.24
Consensus pattern (9 bp):
GGTGGTGGG
Found at i:26200219 original size:24 final size:23
Alignment explanation
Indices: 26200192--26200245 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
26200182 AGAAAACTAA
*
26200192 TATTTATTTAAGA-AAAATTAAAGG
1 TATTTATTTAA-ACAAAA-AAAAGG
26200216 TATTT-TTTAAACAAAAAAAAGG
1 TATTTATTTAAACAAAAAAAAGG
26200238 TA-TTATTT
1 TATTTATTT
26200246 CTTTTTGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 11 0.41
23 9 0.33
24 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (23 bp):
TATTTATTTAAACAAAAAAAAGG
Found at i:26200974 original size:2 final size:2
Alignment explanation
Indices: 26200967--26201001 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26200957 GAAAATATGC
26200967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26201002 AAACTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26211017 original size:2 final size:2
Alignment explanation
Indices: 26211010--26211040 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26211000 TTTATGCTCT
26211010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26211041 TGATGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26211290 original size:22 final size:21
Alignment explanation
Indices: 26211243--26211315 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
26211233 AAAATAAAGG
*
26211243 AAAAAAGAAAGAAGAAATAAGAA
1 AAAAAAGAAAGAA-AAATAA-TA
26211266 AAAAACAGAAAGGAAAAA-AATA
1 AAAAA-AGAAA-GAAAAATAATA
*
26211288 AAAGAAAGAAAGAAAAATAGTA
1 AAA-AAAGAAAGAAAAATAATA
26211310 AAAAAA
1 AAAAAA
26211316 TAATCAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 9 0.20
22 15 0.34
23 9 0.20
24 8 0.18
25 3 0.07
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (21 bp):
AAAAAAGAAAGAAAAATAATA
Found at i:26216799 original size:48 final size:48
Alignment explanation
Indices: 26216728--26216821 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
26216718 TGCACATTCG
* * *
26216728 AACAAGAAGATTAGATATTGTGAGTTTGGTTTTTGAAAGAGTGACTTA
1 AACAAGAAAATTAGATATTGTGAGTTTGGTTTCTAAAAGAGTGACTTA
*
26216776 AACAAGAAAATTGGATATTGTGAGTTTGGTTTCTAAAAGAGTGACT
1 AACAAGAAAATTAGATATTGTGAGTTTGGTTTCTAAAAGAGTGACT
26216822 CGTTGAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (48 bp):
AACAAGAAAATTAGATATTGTGAGTTTGGTTTCTAAAAGAGTGACTTA
Found at i:26226844 original size:39 final size:40
Alignment explanation
Indices: 26226776--26226856 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
26226766 AAAATGGTTT
* *
26226776 TTTAAATTAATAAATATTATTAGTGTAATATTCAAAAAAG
1 TTTAAATTAATAAATATTATTAGTATAATACTCAAAAAAG
*
26226816 TTTAAATTAAT-AATATTATTAGTATAATACTCGAAAAAG
1 TTTAAATTAATAAATATTATTAGTATAATACTCAAAAAAG
26226855 TT
1 TT
26226857 CATGAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 27 0.71
40 11 0.29
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (40 bp):
TTTAAATTAATAAATATTATTAGTATAATACTCAAAAAAG
Found at i:26250784 original size:18 final size:19
Alignment explanation
Indices: 26250763--26250798 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26250753 TGTCCAGTTT
26250763 TTAATTTATTTC-CTTTTC
1 TTAATTTATTTCTCTTTTC
*
26250781 TTAATTTGTTTCTCTTTT
1 TTAATTTATTTCTCTTTT
26250799 GGATATCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (19 bp):
TTAATTTATTTCTCTTTTC
Found at i:26252261 original size:56 final size:56
Alignment explanation
Indices: 26252180--26252295 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
26252170 AATGATTGTG
* *
26252180 AAAAGAGATGAAACCAACAGTAGTTTGGTTAATGGTGTGTCAAAGATAAGATTGCA
1 AAAAGAGATGAAACCAACAGCAGTTTGGTTAATGGTGTGTCAAAAATAAGATTGCA
* *
26252236 AAAAGAGATGAAACCAA-AGGCAGTTTGGTTATTGGTGTGTCAAAAATAATATTGCA
1 AAAAGAGATGAAACCAACA-GCAGTTTGGTTAATGGTGTGTCAAAAATAAGATTGCA
26252292 AAAA
1 AAAA
26252296 CTTGTCAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.02
56 54 0.98
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (56 bp):
AAAAGAGATGAAACCAACAGCAGTTTGGTTAATGGTGTGTCAAAAATAAGATTGCA
Found at i:26276214 original size:20 final size:20
Alignment explanation
Indices: 26276186--26276229 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
26276176 CACGAAGTTT
*
26276186 ATCCTTTTCTTGGTCTAACC
1 ATCCCTTTCTTGGTCTAACC
26276206 ATCCCTTTCTTGGTCTAACC
1 ATCCCTTTCTTGGTCTAACC
26276226 ATCC
1 ATCC
26276230 TATTCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.34, G:0.09, T:0.41
Consensus pattern (20 bp):
ATCCCTTTCTTGGTCTAACC
Found at i:26278126 original size:66 final size:66
Alignment explanation
Indices: 26278016--26278148 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 66
26278006 GTTCCTGGTT
* * *
26278016 CAAGGTAATCCATCCAAGTAAAACCATCTGCCCCAGCTGCATTTTCCTGCAGC-GTATTCTCCAT
1 CAAGGTAATCCATCCAAGCAAAACCATCTGCCCCACCTGCATTTTCCTGCA-CTGCATTCTCCAT
26278080 TA
65 TA
* * * *
26278082 CAAGGTAATCCATCCAAGCAAAATCATCTGCCGCACCTGTATTTTCCTTCACTGCATTCTCCATT
1 CAAGGTAATCCATCCAAGCAAAACCATCTGCCCCACCTGCATTTTCCTGCACTGCATTCTCCATT
26278147 A
66 A
26278148 C
1 C
26278149 TTGCTCATTC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 58 0.98
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (66 bp):
CAAGGTAATCCATCCAAGCAAAACCATCTGCCCCACCTGCATTTTCCTGCACTGCATTCTCCATT
A
Found at i:26282072 original size:21 final size:21
Alignment explanation
Indices: 26282047--26282090 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
26282037 CAACATATAT
26282047 ACTCTTGTCTAAATTAAAATA
1 ACTCTTGTCTAAATTAAAATA
* *
26282068 ACTCTTGTCTTAATTAAGATA
1 ACTCTTGTCTAAATTAAAATA
26282089 AC
1 AC
26282091 ATATGTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (21 bp):
ACTCTTGTCTAAATTAAAATA
Found at i:26282120 original size:49 final size:50
Alignment explanation
Indices: 26282038--26282132 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 50
26282028 ATCTTAAATC
* *
26282038 AACATATATACTCTTGTCTAAATTAAAATAACTCTTGTCTTAATTAAGAT
1 AACATATATACTCTTGTCTAAATTAAAACAACTCTTATCTTAATTAAGAT
* * * *
26282088 AACATATGTACT-TTGTCTAAATTGAGACAACTCTTATCTTCATTA
1 AACATATATACTCTTGTCTAAATTAAAACAACTCTTATCTTAATTA
26282133 TGACAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 28 0.72
50 11 0.28
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (50 bp):
AACATATATACTCTTGTCTAAATTAAAACAACTCTTATCTTAATTAAGAT
Found at i:26282907 original size:204 final size:204
Alignment explanation
Indices: 26282547--26282953 Score: 730
Period size: 204 Copynumber: 2.0 Consensus size: 204
26282537 ATTCAATATT
26282547 GCTTTTCAAAAAAAAAAAATTAATGATTCAATACTCCAAAATATAATCTTTTGAGTATTAAGATG
1 GCTTTTCAAAAAAAAAAAATTAATGATTCAATACTCCAAAATATAATCTTTTGAGTATTAAGATG
* *
26282612 TGATGAGTAGCTAATTCATCAATCCATTAGCCCAAATTATTCACTAATCTTCCTGAAATCACTAG
66 TGATGAGTAACTAATTCATCAATCCA-TAGCCCAAATTAATCACTAATCTTCCTGAAATCACTAG
26282677 AACTGATGTTAATACTATTAACTCCATTATTTAGATATATATTCCCAAACACTCACCTCAATTAT
130 AACTGATGTTAATACTATTAACTCCATTATTTAGATATATATTCCCAAACACTCACCTCAATTAT
26282742 AATCCTAANTG
195 AATCCTAA-TG
26282753 GCTTTTCCAAAAAAAAAAAAATTAATGATTCAATACTCCAAAATATAATCTTTTGAGTATTAAGA
1 GCTTTT-C-AAAAAAAAAAAATTAATGATTCAATACTCCAAAATATAATCTTTTGAGTATTAAGA
*
26282818 TGTGATGAGTAACTAATTCATCAAT-CA-A-CTCAAATTAATCACTAATCTTCCTGAAATCACTA
64 TGTGATGAGTAACTAATTCATCAATCCATAGCCCAAATTAATCACTAATCTTCCTGAAATCACTA
26282880 GAACTGATGTTAATACTATTAACTCCATTATTTAGATATATATTCCCAAACACTCACCTCAATTA
129 GAACTGATGTTAATACTATTAACTCCATTATTTAGATATATATTCCCAAACACTCACCTCAATTA
26282945 TAATCCTAA
194 TAATCCTAA
26282954 CATATAAAGT
Statistics
Matches: 196, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
204 106 0.54
205 1 0.01
206 6 0.03
207 3 0.02
208 80 0.41
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (204 bp):
GCTTTTCAAAAAAAAAAAATTAATGATTCAATACTCCAAAATATAATCTTTTGAGTATTAAGATG
TGATGAGTAACTAATTCATCAATCCATAGCCCAAATTAATCACTAATCTTCCTGAAATCACTAGA
ACTGATGTTAATACTATTAACTCCATTATTTAGATATATATTCCCAAACACTCACCTCAATTATA
ATCCTAATG
Found at i:26283221 original size:19 final size:19
Alignment explanation
Indices: 26283191--26283238 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
26283181 TAAGACTCAT
*
26283191 CATTTCTTTGAAGTGAATCG
1 CATTT-TTTGAAATGAATCG
26283211 CATTTTTTGAAATGAATCG
1 CATTTTTTGAAATGAATCG
26283230 CATTCTTTT
1 CATT-TTTT
26283239 CGTTTGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
CATTTTTTGAAATGAATCG
Found at i:26286490 original size:23 final size:23
Alignment explanation
Indices: 26286458--26286507 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
26286448 TAGGGTTTAA
* *
26286458 CATTGTGTGATTGGTTGATAAGT
1 CATTGCGTGACTGGTTGATAAGT
26286481 CATTGCGTGACTGGTTGATAAGT
1 CATTGCGTGACTGGTTGATAAGT
26286504 CATT
1 CATT
26286508 ACATGACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (23 bp):
CATTGCGTGACTGGTTGATAAGT
Found at i:26286506 original size:116 final size:117
Alignment explanation
Indices: 26286300--26286600 Score: 390
Period size: 116 Copynumber: 2.6 Consensus size: 117
26286290 TGGAGTTTGG
** * *
26286300 CATGGGGTCACTTAGGGTGTAAGTGATTGCATTAGGGTTTAACATTACGTGATTAGTTGATATGT
1 CATGGGGTCACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGCGTGATTAGTTGATAAGT
* * **
26286365 TATTGCGTGACTGATTAATAGGTCATT-GGTGACAACATGACTAGATTTTAA
66 CATTGCGTGACTGATTAATAAGTCATTACATGACAACATGACTAGATTTTAA
* * *
26286416 CATGGGGTCACTTAGAGTGTGCGTGATTGCATTAGGGTTTAACATTGTGTGATTGGTTGATAAGT
1 CATGGGGTCACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGCGTGATTAGTTGATAAGT
* * * * * *
26286481 CATTGCGTGACTGGTTGATAAGTCATTACATGACAGCATGATTGGATTTTGA
66 CATTGCGTGACTGATTAATAAGTCATTACATGACAACATGACTAGATTTTAA
* * * * *
26286533 CATGGCGTCACTT-GGGTGTGCATAATTGCATTAGGGTTTAACATTGCGTGACTAGTTGATAGGT
1 CATGGGGTCACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGCGTGATTAGTTGATAAGT
26286597 CATT
66 CATT
26286601 ATGTGAATAT
Statistics
Matches: 159, Mismatches: 25, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
116 129 0.81
117 30 0.19
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.36
Consensus pattern (117 bp):
CATGGGGTCACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGCGTGATTAGTTGATAAGT
CATTGCGTGACTGATTAATAAGTCATTACATGACAACATGACTAGATTTTAA
Found at i:26286514 original size:23 final size:23
Alignment explanation
Indices: 26286469--26286514 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26286459 ATTGTGTGAT
* *
26286469 TGGTTGATAAGTCATTGCGTGAC
1 TGGTTGATAAGTCATTACATGAC
26286492 TGGTTGATAAGTCATTACATGAC
1 TGGTTGATAAGTCATTACATGAC
26286515 AGCATGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGTTGATAAGTCATTACATGAC
Found at i:26286522 original size:23 final size:23
Alignment explanation
Indices: 26286473--26286522 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
26286463 TGTGATTGGT
* * * **
26286473 TGATAAGTCATTGCGTGACTGGT
1 TGATAAGTCATTACATGACAGCA
26286496 TGATAAGTCATTACATGACAGCA
1 TGATAAGTCATTACATGACAGCA
26286519 TGAT
1 TGAT
26286523 TGGATTTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (23 bp):
TGATAAGTCATTACATGACAGCA
Found at i:26300049 original size:15 final size:15
Alignment explanation
Indices: 26300016--26300051 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
26300006 GGGATTTAAG
*
26300016 AAGATTTGGAAAAAG
1 AAGATTTGGAAAAAC
*
26300031 AAGATTTGGAAAATC
1 AAGATTTGGAAAAAC
26300046 AAGATT
1 AAGATT
26300052 AAAGTTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.25
Consensus pattern (15 bp):
AAGATTTGGAAAAAC
Found at i:26300049 original size:18 final size:15
Alignment explanation
Indices: 26300013--26300043 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26300003 TGAGGGATTT
26300013 AAGAAGATTTGGAAA
1 AAGAAGATTTGGAAA
26300028 AAGAAGATTTGGAAA
1 AAGAAGATTTGGAAA
26300043 A
1 A
26300044 TCAAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (15 bp):
AAGAAGATTTGGAAA
Found at i:26303294 original size:4 final size:4
Alignment explanation
Indices: 26303287--26303337 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
26303277 TATTTTTATT
* * *
26303287 TATC TATC TATC TATC TAT- TATC TATC TATC TGTC TGTC TATC TGTC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
26303334 TATC
1 TATC
26303338 GATTTATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 3 0.07
4 39 0.93
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:26303308 original size:23 final size:23
Alignment explanation
Indices: 26303282--26303337 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
26303272 TTATATATTT
*
26303282 TTATTTATCTATCTATCTATCTA
1 TTATCTATCTATCTATCTATCTA
* *
26303305 TTATCTATCTATCTGTCTGTCTA
1 TTATCTATCTATCTATCTATCTA
*
26303328 TCTGTCTATC
1 T-TATCTATC
26303338 GATTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.20, C:0.21, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATCTATCTATCTATCTATCTA
Found at i:26312365 original size:27 final size:27
Alignment explanation
Indices: 26312332--26312385 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
26312322 ACTTAATACA
*
26312332 ATAATCTCTTGAATCACAGAATTTAAT
1 ATAATCTCTTGAATCACAAAATTTAAT
26312359 ATAATCTCTTGAATCACAAAATTTAAT
1 ATAATCTCTTGAATCACAAAATTTAAT
26312386 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (27 bp):
ATAATCTCTTGAATCACAAAATTTAAT
Found at i:26314449 original size:133 final size:132
Alignment explanation
Indices: 26314299--26314555 Score: 428
Period size: 132 Copynumber: 1.9 Consensus size: 132
26314289 TATAAGTTTA
26314299 TATAAACAAAAGTATATATACTGTAATTAA-AATTTTATGAATTATAATTTTTGCAATGTTAATA
1 TATAAACAAAAGTATATAT--TGTAATTAATAATTTTATGAATTATAATTTTTGCAATGTTAATA
* *
26314363 CAAAATAAAAGGTATATATATTTATATTTAAAGTAT-AATATATATATATATATACACACAACCA
64 CAAAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATATATATATATATACACACAACCA
26314427 CACNT
129 CAC-T
* * *
26314432 TATAAACAAAGGTATATATTGTAATTAATAATTTTATGAGTTATAATTTTTGCAATGTTAATATA
1 TATAAACAAAAGTATATATTGTAATTAATAATTTTATGAATTATAATTTTTGCAATGTTAATACA
26314497 AAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATATATATATATATACACACA
66 AAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATATATATATATATACACACA
26314556 CGCATACATA
Statistics
Matches: 117, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
131 9 0.08
132 66 0.56
133 42 0.36
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (132 bp):
TATAAACAAAAGTATATATTGTAATTAATAATTTTATGAATTATAATTTTTGCAATGTTAATACA
AAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATATATATATATATACACACAACCACA
CT
Found at i:26314529 original size:21 final size:22
Alignment explanation
Indices: 26314503--26314544 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
26314493 TATAAAATAA
*
26314503 AAAG-TAAATATATTTATATTT
1 AAAGATAAATATATATATATTT
26314524 AAAGTATAAATATATATATAT
1 AAAG-ATAAATATATATATAT
26314545 ATATACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAAGATAAATATATATATATTT
Found at i:26314902 original size:16 final size:15
Alignment explanation
Indices: 26314873--26314907 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
26314863 AAATAGAAAG
*
26314873 TAAATATATTTATAT
1 TAAATATATATATAT
26314888 TAAAGTATATATATAT
1 TAAA-TATATATATAT
26314904 TAAA
1 TAAA
26314908 ATAGTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TAAATATATATATAT
Found at i:26314939 original size:39 final size:40
Alignment explanation
Indices: 26314871--26314949 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
26314861 TAAAATAGAA
26314871 AGTAAATATATTTATATTAAAGTATATAT-ATATTAAAAT
1 AGTAAATATATTTATATTAAAGTATATATAATATTAAAAT
* * *
26314910 AGTAATTATATTTCT-TTATAA-TATGATATAATATTCAAAT
1 AGTAAATATATTTATATTA-AAGTAT-ATATAATATTAAAAT
26314950 TATTGAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 6 0.18
39 19 0.56
40 9 0.26
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (40 bp):
AGTAAATATATTTATATTAAAGTATATATAATATTAAAAT
Found at i:26322702 original size:8 final size:8
Alignment explanation
Indices: 26322689--26322718 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26322679 AACTTACCTC
26322689 TATAATAA
1 TATAATAA
26322697 TATAATAA
1 TATAATAA
26322705 TAT-ATAA
1 TATAATAA
26322712 TATAATA
1 TATAATA
26322719 TTTTGNGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAATAA
Found at i:26322839 original size:172 final size:176
Alignment explanation
Indices: 26322553--26322892 Score: 611
Period size: 172 Copynumber: 2.0 Consensus size: 176
26322543 CTACATACAT
26322553 GATATGAAGCTGGTGGTGCCACATTTCTGGCTTCAATTATAAGATAAGCTATAGTCTTCTCATTT
1 GATATGAAGCTGGTGGTGCCACATTTCTGGCTTCAATTATAAGATAAGCTATAGTCTTCTCATTT
26322618 TATTTTATTAGAAAGGTGCATAAATTCAAAAGATAAACTCAAGTAAAGAACAATAAATTTTAACT
66 TATTTTATTAGAAAGGTGCATAAATTCAAAAGATAAACTCAAGTAAAGAACAATAAATTTTAAC-
26322683 TACCT-CTATA-ATA-ATATA-AT-AATATATA-ATATAATATTTTG
130 TACCTGCTATATATATATATATATGAATATATATATATAATATTTTG
26322724 NGATATGAAGCTGGTGGTGCCACATTTCTGGCTTCAATTATAAGATAAGCTATAGTCTTCTCATT
1 -GATATGAAGCTGGTGGTGCCACATTTCTGGCTTCAATTATAAGATAAGCTATAGTCTTCTCATT
26322789 TTATTTTATTAGAAAGGTGCATAAATTCAAAAGATAAACTCAAGTAAAGAACAATAAATTTTAAC
65 TTATTTTATTAGAAAGGTGCATAAATTCAAAAGATAAACTCAAGTAAAGAACAATAAATTTTAAC
*
26322854 TACTTGCTATATATATATATATATGAATATATATATATA
130 TACCTGCTATATATATATATATATGAATATATATATATA
26322893 TATAATATAT
Statistics
Matches: 161, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
171 4 0.02
172 134 0.83
173 3 0.02
174 5 0.03
175 2 0.01
176 8 0.05
177 5 0.03
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (176 bp):
GATATGAAGCTGGTGGTGCCACATTTCTGGCTTCAATTATAAGATAAGCTATAGTCTTCTCATTT
TATTTTATTAGAAAGGTGCATAAATTCAAAAGATAAACTCAAGTAAAGAACAATAAATTTTAACT
ACCTGCTATATATATATATATATGAATATATATATATAATATTTTG
Found at i:26322868 original size:2 final size:2
Alignment explanation
Indices: 26322861--26322913 Score: 74
Period size: 2 Copynumber: 27.0 Consensus size: 2
26322851 AACTACTTGC
26322861 TA TA TA TA TA TA TA TA TGA -A TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
26322902 TA TA TA TT TA TA
1 TA TA TA TA TA TA
26322914 GAATTGCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26330936 original size:39 final size:38
Alignment explanation
Indices: 26330892--26330967 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
26330882 TTGTTTGGAA
26330892 GGCATCTAAAACAAG-TCACTTTTCTTTAATTTCAAATAT
1 GGCATCTAAAACAAGCT-ACTTTTC-TTAATTTCAAATAT
* *
26330931 GGCATCTAAAACAAGCTAGTTTTCTTAGTTTCAAATA
1 GGCATCTAAAACAAGCTACTTTTCTTAATTTCAAATA
26330968 AGGATACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 12 0.35
39 21 0.62
40 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (38 bp):
GGCATCTAAAACAAGCTACTTTTCTTAATTTCAAATAT
Found at i:26337056 original size:2 final size:2
Alignment explanation
Indices: 26336992--26337037 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
26336982 AGGACATGTG
*
26336992 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26337034 TA TA
1 TA TA
26337038 CACACACACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26340873 original size:231 final size:232
Alignment explanation
Indices: 26340448--26340905 Score: 717
Period size: 231 Copynumber: 2.0 Consensus size: 232
26340438 TTCATCCGCA
* * *
26340448 ATAGTTTGCAGGTTCAAAACAGAAAAGCCTTTTGACTATGAATATTCAAAACATTTTCCTAGAGA
1 ATAGTATGCAGGGTCAAAACAGAAAAGCCTTTTGACTATAAATATTCAAAACATTTTCCTAGAGA
* * *
26340513 CTTTAGAATAGAGAAGAAAAGAAAGGGAAAGGGGAAGGATGGTTATATGAATTATTGTGGTGGGT
66 CGTTAGAATAGAGAAGAAAAGAAAAGGAAAGGGGAAGGATGGTTATATGAATTATTGTGGTGGAT
26340578 GGGTCTGTCTGCAACCATGCCTATGTGCTTCTACACACACAATATGTACTAGGAGAAGGATGATT
131 GGGTCTGTCTGCAACCATGCCTATGTGCTTCTACACACACAATATGTACTAGGAGAAGGATGATT
26340643 GTATCAACCATTGTGTTAGTACACGTGTGCATCCACC
196 GTATCAACCATTGTGTTAGTACACGTGTGCATCCACC
* *
26340680 ATAGTATGCAGGGTCAAAA-AGGAAAAGCCTTTTGACTATAAATATT-AAAATCATTTTTCTGGA
1 ATAGTATGCAGGGTCAAAACA-GAAAAGCCTTTTGACTATAAATATTCAAAA-CATTTTCCTAGA
* * *
26340743 GACGTTAGAGTAGAGAAGAAAAGAAAAGG-AAGGGGAAGG-TGGTTTTATGAATTATTTTGGGTG
64 GACGTTAGAATAGAGAAGAAAAGAAAAGGAAAGGGGAAGGATGGTTATATGAATTATTGT-GGTG
* * * *
26340806 GATGTGTCTGTCTGCCACCATGTCTATGTGCTTCTACACTCACAATATGTACTAGGAGAAGGATG
128 GATGGGTCTGTCTGCAACCATGCCTATGTGCTTCTACACACACAATATGTACTAGGAGAAGGATG
*
26340871 ATTGTATCAACCATTGTGTTAGTACATGTGTGCAT
193 ATTGTATCAACCATTGTGTTAGTACACGTGTGCAT
26340906 GTGCACCTGG
Statistics
Matches: 207, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
230 17 0.08
231 113 0.55
232 77 0.37
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (232 bp):
ATAGTATGCAGGGTCAAAACAGAAAAGCCTTTTGACTATAAATATTCAAAACATTTTCCTAGAGA
CGTTAGAATAGAGAAGAAAAGAAAAGGAAAGGGGAAGGATGGTTATATGAATTATTGTGGTGGAT
GGGTCTGTCTGCAACCATGCCTATGTGCTTCTACACACACAATATGTACTAGGAGAAGGATGATT
GTATCAACCATTGTGTTAGTACACGTGTGCATCCACC
Found at i:26343185 original size:17 final size:16
Alignment explanation
Indices: 26343154--26343226 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 16
26343144 TTATTTATAT
26343154 AAATTATTAAATAAAA
1 AAATTATTAAATAAAA
*
26343170 AAATTATTTNAATAAAAAA
1 AAATTA-TT-AA-ATAAAA
26343189 AATATATAATTAAATAAAA
1 AA-AT-T-ATTAAATAAAA
*
26343208 ATAATTAAT-AATAAAA
1 A-AATTATTAAATAAAA
26343224 AAA
1 AAA
26343227 AACATAGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.04
16 14 0.30
17 4 0.09
18 3 0.06
19 15 0.32
20 5 0.11
21 3 0.06
22 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTATTAAATAAAA
Found at i:26343204 original size:21 final size:20
Alignment explanation
Indices: 26343159--26343228 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
26343149 TATATAAATT
26343159 ATTAAAT-AAAAAAATTAT-
1 ATTAAATAAAAAAAATTATA
*
26343177 -TTNAATAAAAAAAATATATA
1 ATTAAATAAAAAAAAT-TATA
*
26343197 ATTAAATAAAAATAATTAATA
1 ATTAAATAAAAAAAATT-ATA
26343218 A-TAAA-AAAAAA
1 ATTAAATAAAAAA
26343229 CATAGATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 5 0.12
18 8 0.19
19 8 0.19
20 5 0.12
21 17 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTAAATAAAAAAAATTATA
Found at i:26343260 original size:2 final size:2
Alignment explanation
Indices: 26343253--26343307 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
26343243 TTAGCATAGC
* * *
26343253 AT AT AT AT AT AT AT AT A- AA AA AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26343294 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
26343308 TAAGTAAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:26350559 original size:2 final size:2
Alignment explanation
Indices: 26350552--26350576 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26350542 ACTTAAAGAG
26350552 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
26350577 CATCACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26352309 original size:61 final size:62
Alignment explanation
Indices: 26352182--26352325 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 62
26352172 AGGAAAAAGC
* * * * *
26352182 AAGTTTTGGTGTGTAATATCTGGTGTTAAAGCTTTGGCCTTGACTTGTAACATCTGGTGTTG
1 AAGTTTTGGTCTGTAATATCTGGTGTTAAAGCTTTGACCTTGACGTGTAACATCTGCTCTTG
* * * * *
26352244 AAGTTTTGGTCT-TAATATTTGTTGTTGAAGCTTTGACCTTGGCGTGTAACATTTGCTACTT-
1 AAGTTTTGGTCTGTAATATCTGGTGTTAAAGCTTTGACCTTGACGTGTAACATCTGCT-CTTG
* * *
26352305 AAGTTTTTGTGTGTAACATCT
1 AAGTTTTGGTCTGTAATATCT
26352326 AATTAGGCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
61 47 0.71
62 19 0.29
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (62 bp):
AAGTTTTGGTCTGTAATATCTGGTGTTAAAGCTTTGACCTTGACGTGTAACATCTGCTCTTG
Found at i:26352781 original size:26 final size:26
Alignment explanation
Indices: 26352733--26352783 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
26352723 ATCATAAAAA
* * *
26352733 AACATGACATGTAATAATTTTTTTTC
1 AACATGACATATAACAATATTTTTTC
*
26352759 AACATGACATATAACGATATTTTTT
1 AACATGACATATAACAATATTTTTT
26352784 TTAACACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (26 bp):
AACATGACATATAACAATATTTTTTC
Found at i:26374389 original size:35 final size:35
Alignment explanation
Indices: 26374342--26374413 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
26374332 TATGAAGTGG
* *
26374342 TTATTCTACGTGAAGTAATACTTTACTTGTTCTAA
1 TTATTCTACGTGAAATAATACTTCACTTGTTCTAA
* *
26374377 TTATTCTGCGTGAAATAGTACTTCACTTGTTCTAA
1 TTATTCTACGTGAAATAATACTTCACTTGTTCTAA
26374412 TT
1 TT
26374414 GTTTTTCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (35 bp):
TTATTCTACGTGAAATAATACTTCACTTGTTCTAA
Found at i:26377100 original size:2 final size:2
Alignment explanation
Indices: 26377093--26377131 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
26377083 AAGGTCTTGC
* * *
26377093 TA TA TA TA TA TA TA TA TA CA TA TA TA TA CA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26377132 TGTAAAGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:26377108 original size:10 final size:10
Alignment explanation
Indices: 26377093--26377130 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
26377083 AAGGTCTTGC
*
26377093 TATATATATA
1 TATATATACA
26377103 TATATATACA
1 TATATATACA
26377113 TATATATACA
1 TATATATACA
*
26377123 CATATATA
1 TATATATA
26377131 TTGTAAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATATACA
Found at i:26377110 original size:12 final size:12
Alignment explanation
Indices: 26377093--26377131 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
26377083 AAGGTCTTGC
*
26377093 TATATATATATA
1 TATATACATATA
26377105 TATATACATATA
1 TATATACATATA
*
26377117 TATACACATATA
1 TATATACATATA
26377129 TAT
1 TAT
26377132 TGTAAAGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATACATATA
Found at i:26381981 original size:2 final size:2
Alignment explanation
Indices: 26381974--26382014 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26381964 AGCATTAATA
26381974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26382015 GTCCTAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26384697 original size:17 final size:18
Alignment explanation
Indices: 26384640--26384701 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
26384630 CTTACTCAAT
26384640 TTTATTTTTTTTCAATTTATA
1 TTTA-TTTTTTT--ATTTATA
*
26384661 -TAATTATTTTTATTTATA
1 TTTATT-TTTTTATTTATA
*
26384679 TTTATTTTTTTA-TTCTA
1 TTTATTTTTTTATTTATA
26384696 TTTATT
1 TTTATT
26384702 CATATGATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.28
18 13 0.36
19 6 0.17
20 7 0.19
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTTTTATTTATA
Found at i:26384881 original size:76 final size:75
Alignment explanation
Indices: 26384755--26384907 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 75
26384745 GTACAAATCA
26384755 TTAACTATATTCTTTTTCTTTTTTTTTTTGTTATGTAATATGTGGTTTCTACTTTTTGCTTGTCA
1 TTAACTATATTCTTTTTCTTTTTTTTTTTGTTATGTAATATGTGGTTTCTACTTTTTGCTTGTCA
26384820 TGTTCTTCTT
66 TGTTCTTCTT
26384830 NTTAACTATATTC-TTTTCTTTTTTTTTTTTGTTATGTAATATGTGGTTTCTACTTTTTGCTTGT
1 -TTAACTATATTCTTTTTC-TTTTTTTTTTTGTTATGTAATATGTGGTTTCTACTTTTTGCTTGT
26384894 CATGTTCTTCTT
64 CATGTTCTTCTT
26384906 TT
1 TT
26384908 TTATGTTAGT
Statistics
Matches: 76, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
75 7 0.09
76 69 0.91
ACGTcount: A:0.13, C:0.12, G:0.10, T:0.64
Consensus pattern (75 bp):
TTAACTATATTCTTTTTCTTTTTTTTTTTGTTATGTAATATGTGGTTTCTACTTTTTGCTTGTCA
TGTTCTTCTT
Found at i:26385626 original size:18 final size:16
Alignment explanation
Indices: 26385609--26385656 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
26385599 TATTATTTTA
*
26385609 TTATATATATA-AAAT
1 TTATAAATATATAAAT
26385624 TTA-AAATATATAAAT
1 TTATAAATATATAAAT
*
26385639 TTATAAATTTATATAAT
1 TTATAAATATATA-AAT
26385656 T
1 T
26385657 ATCGTTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.21
15 10 0.36
16 8 0.29
17 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAAATATATAAAT
Found at i:26385634 original size:16 final size:17
Alignment explanation
Indices: 26385613--26385656 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
26385603 ATTTTATTAT
26385613 ATATATAAAATTTA-AA
1 ATATATAAAATTTATAA
26385629 ATATAT-AAATTTATAA
1 ATATATAAAATTTATAA
* *
26385645 ATTTATATAATT
1 ATATATAAAATT
26385657 ATCGTTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 13 0.54
17 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAAAATTTATAA
Found at i:26391560 original size:114 final size:113
Alignment explanation
Indices: 26391337--26391551 Score: 299
Period size: 114 Copynumber: 1.9 Consensus size: 113
26391327 ATCAGGAAAT
* *
26391337 AGATTAGAGACACAGAAATAAAAATAATCAGTACTAATTTATTGTTTTGATAGAATATCTTGAAT
1 AGATTAGAGACACAGAAATAAAAATAATCAGTACTAATTTATTGTTTTAATAGAATATCTTAAAT
** *
26391402 TTGTATCATTTGAAAGATGACAGTAATGATATATGACAAGATACAAAA
66 TTGTATCATTTGAAAGAAAACAGTAATGACATATGACAAGATACAAAA
** * *
26391450 AGATTAGAGGGACAGAAATAAAAGTATTCAGTACTAATTT-TGATGTTTTAATAGAATATC-TAA
1 AGATTAGAGACACAGAAATAAAAATAATCAGTACTAATTTAT--TGTTTTAATAGAATATCTTAA
*
26391513 TATTTGTTTCATTTGAAAGAAAACAGTAATGACATATGA
64 -ATTTGTATCATTTGAAAGAAAACAGTAATGACATATGA
26391552 ACTGATACAG
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
112 1 0.01
113 38 0.43
114 50 0.56
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (113 bp):
AGATTAGAGACACAGAAATAAAAATAATCAGTACTAATTTATTGTTTTAATAGAATATCTTAAAT
TTGTATCATTTGAAAGAAAACAGTAATGACATATGACAAGATACAAAA
Found at i:26392372 original size:2 final size:2
Alignment explanation
Indices: 26392365--26392394 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26392355 GTCTTCATCT
26392365 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26392395 TCAATTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26396709 original size:20 final size:22
Alignment explanation
Indices: 26396658--26396710 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
26396648 GAAATTATAC
*
26396658 AAATATTTATTAATTTTTAAAAT
1 AAATATTT-TTCATTTTTAAAAT
26396681 AAATA--TTTCA-TTTTAAAA-
1 AAATATTTTTCATTTTTAAAAT
26396699 AAATATTTTTCA
1 AAATATTTTTCA
26396711 CTTAACAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.19
19 8 0.30
20 8 0.30
21 1 0.04
23 5 0.19
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTTTTCATTTTTAAAAT
Found at i:26398536 original size:14 final size:14
Alignment explanation
Indices: 26398517--26398543 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26398507 AGACTGACCA
26398517 AAAAGCAAAATTTT
1 AAAAGCAAAATTTT
26398531 AAAAGCAAAATTT
1 AAAAGCAAAATTT
26398544 GATAATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (14 bp):
AAAAGCAAAATTTT
Found at i:26404117 original size:2 final size:2
Alignment explanation
Indices: 26404110--26404176 Score: 88
Period size: 2 Copynumber: 35.5 Consensus size: 2
26404100 CCTCCTCCTC
* *
26404110 CT CT CT CT CT CT CT CT CT CA CT CN C- CT C- CT C- CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26404148 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
26404177 AACTTTGCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
1 4 0.07
2 54 0.93
ACGTcount: A:0.01, C:0.54, G:0.00, T:0.43
Consensus pattern (2 bp):
CT
Found at i:26416566 original size:236 final size:235
Alignment explanation
Indices: 26416154--26416609 Score: 770
Period size: 236 Copynumber: 1.9 Consensus size: 235
26416144 TTTAGTATAG
* *
26416154 GGCAAGCCATTTATAAGGCTTCGTCCTAAAATCCTTTTTCCAAACCCGAAGTAGAATGCAAAACA
1 GGCAAGCCATTAATAAGGCTTCGTCCTAAAATCCTTTTTCCAAACCCAAAGTAGAATGCAAAACA
* *
26416219 TTGACTATTTTCGTAAGAACTCGATTCTTACGTTCCACTACACCATTTTGTTTTGGTGCGTACAA
66 TTGACCATTTTCGTAAGAACTCGATTCTTACATTCCACTACACCATTTTGTTTTGGTGCGTACAA
*
26416284 AGCAGTAATCTCATGAATAATACCAGTGGACTCAAAACACTTGGGTTCATAATATTCACCTCCTC
131 AACAGTAATCTCATGAATAATACCAGTGGACTCAAAACACTTGGGTTCATAATATTCACCTCCTC
*
26416349 TATCATTTTGTAAACATTTGATAAGGCTTCGTCCTAGTAA
196 TATCACTTTGTAAACATTTGATAAGGCTTCGTCCTAGTAA
* *
26416389 GGCAAGCCATTAATTAGGCTTCGTCCTAAAATTC-TTTTCCTAAAACCCAAAGTAGAATGCAAAA
1 GGCAAGCCATTAATAAGGCTTCGTCCTAAAATCCTTTTTCC--AAACCCAAAGTAGAATGCAAAA
* *
26416453 CATTGACCATTTTCGTAAGAACTCGATTCTTACATTCCACTACACCATTTTGTTTTGGTGTGTAT
64 CATTGACCATTTTCGTAAGAACTCGATTCTTACATTCCACTACACCATTTTGTTTTGGTGCGTAC
* *
26416518 AAAACAGTAATCTCATGAATAATACCAGTGGACTCTAAATACTTGGGTTCATAATATTCACCTCC
129 AAAACAGTAATCTCATGAATAATACCAGTGGACTCAAAACACTTGGGTTCATAATATTCACCTCC
*
26416583 TTTATCACTTTGTAAACATTTGATAAG
194 TCTATCACTTTGTAAACATTTGATAAG
26416610 TAATTCACAA
Statistics
Matches: 206, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
234 6 0.03
235 31 0.15
236 169 0.82
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (235 bp):
GGCAAGCCATTAATAAGGCTTCGTCCTAAAATCCTTTTTCCAAACCCAAAGTAGAATGCAAAACA
TTGACCATTTTCGTAAGAACTCGATTCTTACATTCCACTACACCATTTTGTTTTGGTGCGTACAA
AACAGTAATCTCATGAATAATACCAGTGGACTCAAAACACTTGGGTTCATAATATTCACCTCCTC
TATCACTTTGTAAACATTTGATAAGGCTTCGTCCTAGTAA
Found at i:26436296 original size:32 final size:32
Alignment explanation
Indices: 26436255--26436317 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
26436245 AACACAAAGG
26436255 AGTAAAGACCACTAAC-AGAATAAAACTCAGTT
1 AGTAAAGACCACTAACAAG-ATAAAACTCAGTT
*
26436287 AGTAAAGACCGCTAACAAGATAAAACTCAGT
1 AGTAAAGACCACTAACAAGATAAAACTCAGT
26436318 CAAAAAGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.17
Consensus pattern (32 bp):
AGTAAAGACCACTAACAAGATAAAACTCAGTT
Done.