Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 5 of 10
Found at i:627373 original size:19 final size:21
Alignment explanation
Indices: 627344--627386 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
627334 GTTGCCACCG
*
627344 ACTTGTGGCTTGATG-GTGCC
1 ACTTGTGGCTTAATGAGTGCC
627364 ACTT-TGGCTTAATGAGTGCC
1 ACTTGTGGCTTAATGAGTGCC
627384 ACT
1 ACT
627387 GACTTGTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (21 bp):
ACTTGTGGCTTAATGAGTGCC
Found at i:627453 original size:27 final size:27
Alignment explanation
Indices: 627423--627908 Score: 600
Period size: 27 Copynumber: 17.7 Consensus size: 27
627413 TGTGCTTAGT
*
627423 TGCCACGGAGTTATGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627450 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
627477 TGCCACAGAGTAGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** *
627505 TGCCTTGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627532 TGCCACGGAGTTGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* ** *
627560 CGCCACAAAATTGTGGACTTGAAACA-GA
1 TGCCACGGAGTTGTGGACTT-AAA-AGGA
627588 TGCCACGGAGTTGTGGACTTAAAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627614 TACCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
627641 TGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
627669 TGCCACGAAGTCGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627696 TGCCACGGAGTTGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * *
627724 TGCCATAGAGTTATGGACTTGAAACGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
*
627752 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627779 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627806 TGCCACGGGGTTGTGGACTTTAAAAAGG-
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGA
* * *
627834 TTCCATGGAGTTGTGGATTTTAAAAGGA
1 TGCCACGGAGTTGTGGA-CTTAAAAGGA
627862 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
627889 TGCCACAGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
627909 TGAAAAGAAA
Statistics
Matches: 390, Mismatches: 56, Indels: 26
0.83 0.12 0.06
Matches are distributed among these distances:
26 26 0.07
27 193 0.49
28 164 0.42
29 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:627515 original size:55 final size:55
Alignment explanation
Indices: 627423--627908 Score: 590
Period size: 55 Copynumber: 8.9 Consensus size: 55
627413 TGTGCTTAGT
* * *
627423 TGCCACGGAGTTATGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
* * ** *
627477 TGCCACAGAGTAGTGGACTTTAAAAGAATGCCTTGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
* ** *
627532 TGCCACGGAGTTGTGGACTTTAAAAGAACGCCACAAAATTGTGGACTTGAAACA-GA
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTT-AAA-AGGA
* *
627588 TGCCACGGAGTTGTGGAC-TTAAAAG-GTACCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
627641 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTCGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
** * *
627696 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCATAGAGTTATGGACTTGAAACGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTT-AAAAGGA
** *
627752 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
* * * * *
627806 TGCCACGGGGTTGTGGACTTTAAAA-AGGTTCCATGGAGTTGTGGATTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGA-ATGCCACGGAGTTGTGGA-CTTAAAAGGA
* *
627862 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTT
627909 TGAAAAGAAA
Statistics
Matches: 371, Mismatches: 50, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.00
53 23 0.06
54 62 0.17
55 213 0.57
56 71 0.19
57 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (55 bp):
TGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:627600 original size:83 final size:81
Alignment explanation
Indices: 627423--627916 Score: 639
Period size: 83 Copynumber: 6.0 Consensus size: 81
627413 TGTGCTTAGT
* * *
627423 TGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGT
* *
627488 AGTGGACTTTAAAAGAA
66 TGTGGACTTGAAAAG-A
** * * * *
627505 TGCCTTGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAACGCCACAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAG
627570 TTGTGGACTTGAAACAGA
65 TTGTGGACTTGAAA-AGA
* *
627588 TGCCACGGAGTTGTGGACTTAAAA-GGTACCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGT
*
627652 TGTGGACTTTAAAAGGA
66 TGTGGACTTGAAAA-GA
* * * *
627669 TGCCACGAAGTCGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCATAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAG
* *
627734 TTATGGACTTGAAACGGA
65 TTGTGGACTTGAAA-AGA
* * *
627752 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGT
* *
627817 TGTGGACTTTAAAAAGG
66 TGTGGAC-TTGAAAAGA
* * * *
627834 TTCCATGGAGTTGTGGATTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 TGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
627899 TTGTGGACTTTGAAAAGA
65 TTGTGGAC-TTGAAAAGA
627917 AATGCCACTG
Statistics
Matches: 355, Mismatches: 49, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
80 1 0.00
81 51 0.14
82 117 0.33
83 184 0.52
84 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (81 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGT
TGTGGACTTGAAAAGA
Found at i:634245 original size:103 final size:100
Alignment explanation
Indices: 634053--634440 Score: 321
Period size: 103 Copynumber: 3.9 Consensus size: 100
634043 AGTGATAAAG
* ** * * * * **
634053 GTGCCAATATGTTGATTC-AGGACCAGTGATATTGGGCTTAAAGATGTAAAGAATGTCAATGTGT
1 GTGCCAATATGCTGATTCAAGG-CCAGCAACATTGGACTTAAAGATG-AAAG--TGCCAATATAC
* * * *
634117 TGATTCACGGTC-GCGACATTAGACTTGAAGATGAGAAGA
62 TGATTCAAGGCCAGCGATATTGGACTT-AAGATGAGAAGA
* * ** *
634156 ATGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTTAAAGATGACAAAGTGCCAATATGCTG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG--AAAGTGCCAATATACTG
* *
634221 ATTCAAGGCTAGCGATATTGGACTTAAAGATGACAA-A
64 ATTCAAGGCCAGCGATATTGGACTT-AAGATGAGAAGA
** * * * *
634258 GGTGCCAATATGCTGATTCAAGGCTGGCAATATTGGACTTAAAGATGAAGGTGCCAATGTATTGA
1 -GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGTGCCAATATACTGA
* * *
634323 TTCAAGGCCAGCAATATTGGACTTAA-AGGTGAAG-
65 TTCAAGGCCAGCGATATTGGACTTAAGATGAGAAGA
* * * *
634357 GTACCAATATGCTGATTCAAGGCCAGCAACATTAGACTT-AA-A-G---GTGCCAATATCCTAAT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGTGCCAATATACTGAT
634416 TCAAGGCCAGCGATATTGGACTTAA
66 TCAAGGCCAGCGATATTGGACTTAA
634441 AAGAAGATGC
Statistics
Matches: 236, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
92 36 0.15
95 1 0.00
96 1 0.00
97 2 0.01
98 34 0.14
99 4 0.02
100 2 0.01
101 36 0.15
102 18 0.08
103 95 0.40
104 7 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (100 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGTGCCAATATACTGAT
TCAAGGCCAGCGATATTGGACTTAAGATGAGAAGA
Found at i:634328 original size:49 final size:50
Alignment explanation
Indices: 634049--634441 Score: 331
Period size: 51 Copynumber: 7.9 Consensus size: 50
634039 GAAAAGTGAT
* ** *
634049 AAAGGTGCCAATATGTTGATTC-AGGACCAGTGATATTGGGCTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGG-CCAGCAATATTGGACTTAAAGATG
* * * * * * * * * *
634099 TAAAGAATGTCAATGTGTTGATTCACGGTC-GCGACATTAGACTTGAAGATG
1 -AAAG-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
* * ***
634150 AGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTTAAAGATG
1 A-AAG-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
* * *
634202 ACAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATG
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
**
634253 ACAAAGGTGCCAATATGCTGATTCAAGGCTGGCAATATTGGACTTAAAGATG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
* ** *
634305 -AAGGTGCCAATGTATTGATTCAAGGCCAGCAATATTGGACTTAAAGGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
* * *
634354 -AAGGTACCAATATGCTGATTCAAGGCCAGCAACATTAGAC-T-----T-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
* * *
634396 AAAGGTGCCAATATCCTAATTCAAGGCCAGCGATATTGGACTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
634442 AGAAGATGCC
Statistics
Matches: 286, Mismatches: 45, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
43 35 0.12
44 1 0.00
48 1 0.00
49 77 0.27
50 1 0.00
51 85 0.30
52 83 0.29
53 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (50 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
Found at i:634418 original size:43 final size:45
Alignment explanation
Indices: 634322--634441 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 45
634312 CAATGTATTG
* *
634322 ATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTACCAATATGCTG
1 ATTCAAGGCCAGCAATATTGGACTTAAAGGT--A-G-ACCAATATCCTA
* *
634371 ATTCAAGGCCAGCAACATTAGACTTAAAGGT-G-CCAATATCCTA
1 ATTCAAGGCCAGCAATATTGGACTTAAAGGTAGACCAATATCCTA
*
634414 ATTCAAGGCCAGCGATATTGGACTTAAA
1 ATTCAAGGCCAGCAATATTGGACTTAAA
634442 AGAAGATGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 34 0.53
45 1 0.02
49 29 0.45
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (45 bp):
ATTCAAGGCCAGCAATATTGGACTTAAAGGTAGACCAATATCCTA
Found at i:634432 original size:92 final size:95
Alignment explanation
Indices: 634207--634441 Score: 278
Period size: 92 Copynumber: 2.4 Consensus size: 95
634197 AGATGACAAA
* * *
634207 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCT
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--AAAGGTACCAATATGCT
** * *
634272 GATTCAAGGCTGGCAATATTGGACTTAAAGATGAAG
64 GATTCAAGGCCAGCAACATTAGACTT--A-A-GAAG
* * * *
634308 GTGCCAATGTATTGATTCAAGGCCAGCAATATTGGACTTAAAGGTG-AAGGTACCAATATGCTGA
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGGTACCAATATGCTGA
634372 TTCAAGGCCAGCAACATTAGACTT-A-AAG
66 TTCAAGGCCAGCAACATTAGACTTAAGAAG
* *
634400 GTGCCAATATCCTAATTCAAGGCCAGCGATATTGGACTTAAA
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAA
634442 AGAAGATGCC
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
92 40 0.34
94 1 0.01
98 37 0.31
101 40 0.34
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (95 bp):
GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGGTACCAATATGCTGA
TTCAAGGCCAGCAACATTAGACTTAAGAAG
Found at i:634520 original size:29 final size:28
Alignment explanation
Indices: 634461--634875 Score: 432
Period size: 29 Copynumber: 14.6 Consensus size: 28
634451 CACCAACTTG
* *
634461 TGTGGGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
634489 TGTGGGCTTTGAAAGGGATGCCACCGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
634518 TGTGGGCTTCTG-ATGGTTGCCACT-ACCT
1 TGTGGGCTT-TGAAAGGATGCCACTGA-CT
*
634546 TGTGGGCTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
634573 TGTGGGCTTTGAAAAGG-TGCCACTGAGT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
634601 TGTGGGCTTTGAAAAGGGTGCCACTAACA
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
634630 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
634659 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
634688 TGTGGGCTTTTGAAAAGATGCCATTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
634717 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
634746 TGTGGGCTTTTG-AAGGTTGCGACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
634774 TGTGGGCTTTTGAAAAGATGTCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
634803 TGTGGGCTTTGAAAAAGG-TACCACTGACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
*
634832 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
634860 TGTGGGCTTTGGAAGG
1 TGTGGGCTTTGAAAGG
634876 TGAGGAATGT
Statistics
Matches: 336, Mismatches: 34, Indels: 34
0.83 0.08 0.08
Matches are distributed among these distances:
27 39 0.12
28 110 0.33
29 169 0.50
30 18 0.05
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:634670 original size:86 final size:86
Alignment explanation
Indices: 634444--634870 Score: 496
Period size: 86 Copynumber: 5.0 Consensus size: 86
634434 GACTTAAAAG
* * * * * *
634444 AAGATGCCACCAACTTGTGTGGGCTTTTG-AAGGTTGCCACTAACTTGTGGGCTTTGAAAGGGAT
1 AAGATGCCACTAAC-T-TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTT
*
634508 GCCACCGACTTGTGGGCTTCTG-A
64 GCCACTGACTTGTGGGCTT-TGAA
** * * * *
634531 TGGTTGCCACTACCTTGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGC
1 AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTTGC
*
634593 CACTGAGTTGTGGGCTTTGAA
66 CACTGACTTGTGGGCTTTGAA
* * *
634614 AAGGGTGCCACTAACATGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGTG
1 AA-GATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTTG
634679 CCACTGACTTGTGGGCTTTTGAA
65 CCACTGACTTGTGGGC-TTTGAA
*
634702 AAGATGCCATTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTG
1 AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGGTTG
*
634765 CGACTGACTTGTGGGCTTTTGAA
65 CCACTGACTTGTGGGC-TTTGAA
* * * *
634788 AAGATGTCACTGACTTGTGGGC-TTTGAAAAAGGTACCACTGACTTGTGGGCTTTTG--AAGGTT
1 AAGATGCCACTAACTTGTGGGCTTTTG-AAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGGTT
634850 GCCACTGACTTGTGGGCTTTG
64 GCCACTGACTTGTGGGCTTTG
634871 GAAGGTGAGG
Statistics
Matches: 304, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
82 2 0.01
83 19 0.06
84 52 0.17
85 19 0.06
86 128 0.42
87 72 0.24
88 12 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (86 bp):
AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTTGC
CACTGACTTGTGGGCTTTGAA
Found at i:635277 original size:37 final size:37
Alignment explanation
Indices: 635235--635319 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
635225 AAAAATGAAG
*
635235 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAAGGT
635272 CACAAATGCATCATGCAAAATGAAATGTTATGAAGGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAAGGT
635309 CACAAATGCAT
1 CACAAATGCAT
635320 GTGGCATGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAAGGT
Found at i:636351 original size:16 final size:15
Alignment explanation
Indices: 636323--636369 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
636313 CATCCGGACC
636323 TTTTTTG-TTGTTTT
1 TTTTTTGTTTGTTTT
*
636337 TTTTTGTTTTTGTTTT
1 TTTTT-TGTTTGTTTT
636353 TTTTTTGTTTGTTTT
1 TTTTTTGTTTGTTTT
636368 TT
1 TT
636370 GTCTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.17
15 12 0.41
16 12 0.41
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTGTTTGTTTT
Found at i:636370 original size:11 final size:11
Alignment explanation
Indices: 636323--636371 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
636313 CATCCGGACC
636323 TTTTTTG-TTG
1 TTTTTTGTTTG
636333 TTTTTT-TTTG
1 TTTTTTGTTTG
*
636343 -TTTTTGTTTT
1 TTTTTTGTTTG
636353 TTTTTTGTTTG
1 TTTTTTGTTTG
636364 TTTTTTGT
1 TTTTTTGT
636372 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 12 0.35
11 17 0.50
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:636378 original size:11 final size:11
Alignment explanation
Indices: 636322--636380 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
636312 TCATCCGGAC
636322 CTTTTTTG-TT
1 CTTTTTTGTTT
*
636332 GTTTTTT-TTT
1 CTTTTTTGTTT
*
636342 -GTTTTTGTTT
1 CTTTTTTGTTT
*
636352 TTTTTTTGTTT
1 CTTTTTTGTTT
* *
636363 GTTTTTTGTCT
1 CTTTTTTGTTT
636374 CTTTTTT
1 CTTTTTT
636381 TTACGGAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.12
10 11 0.28
11 24 0.60
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (11 bp):
CTTTTTTGTTT
Found at i:636382 original size:15 final size:13
Alignment explanation
Indices: 636323--636382 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
636313 CATCCGGACC
*
636323 TTTTTTGTTGTTT
1 TTTTTTGTTTTTT
636336 TTTTTTGTTTTTGT
1 TTTTTTGTTTTT-T
636350 TTTTTT-TTTGTTT
1 TTTTTTGTTT-TTT
*
636363 GTTTTTTGTCTCTTT
1 -TTTTTTGT-TTTTT
636378 TTTTT
1 TTTTT
636383 ACGGAGGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 15 0.38
14 20 0.50
15 4 0.10
16 1 0.03
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:643169 original size:628 final size:626
Alignment explanation
Indices: 641966--643847 Score: 3185
Period size: 625 Copynumber: 3.0 Consensus size: 626
641956 TCTATGCTTG
*
641966 TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGCTGGCTCATTGTGGTTTGGTAAA
1 TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGTTGGCTCATTGTGGTTTGGTAAA
** * *
642031 GGGTTGGCAATAACGTTTGGTCCCTAACCTGTGCCGAACTGCAACACTTTTGAGTCAATTAGGCT
66 GGGTTGGCAGCAACGTTTGGTCCCTAACCTGTGCCGAACTGCAACACTTTCGAGTCAATTAAGCT
*
642096 TTGTTCCTTTCTCTTGAAGGATATGCAGTTCTCGATGTCATGCCCCGCTCCCCCAGCATGGTATT
131 TTGTACCTTTCTCTTGAAGGATATGCAGTTCTCGATGTCATGCCCCGCTCCCCCAGCATGGTATT
* * *
642161 CATAGTGGACATTAGGGTTGCACCATTGTGGGTATGGTGGTTTCTTTTCCAGAAA-ATAAACTGG
196 CACAGTGGACAGTAGGGTTGTACCATTGTGGGTATGGTGGTTTCTTTTCC-GAAACATAAACTGG
*
642225 AGCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCCCTTTATAGGTCATGGGGATGGGATCAA
260 AGCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATGGGATCAA
* *
642290 AATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAAGTGCATTGTTGGTTGCCTGATTGGTATTT
325 AATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAGGTGCATTGTTGGTTGTCTGATTGGTATTT
642355 TGGTAACCTTGTGGAGGGTGACTTTGTGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGT
390 TGGTAACCTTGTGGAGGGTGACTTTGTGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGT
* *
642420 TGTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATAGGGCGTGTTTGGGTAGTGAG
455 TGTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATATGGCATGTTTGGGTAGTGAG
* * *
642485 GGCTAGGTGGCAGACACTATCTTGGCTGAGATGAGCCAGCATAACTTATAGTATTGGTTTCTCCT
520 GGCTAGGTGGC-GACGCTGTCTTGGCTGAGATGAGCCAGCATAACTTATGGTATTGGTTTCTCCT
642550 TATTTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
584 T-TTTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
* *
642594 TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGTTGGCTCATTGTGATTTGCTAAA
1 TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGTTGGCTCATTGTGGTTTGGTAAA
* * * *
642659 GGGTTGGCAGCAACATTTGGTCCCTAACCTATGCTGAACTACAACACTTTCGAGTCAATTAAGCT
66 GGGTTGGCAGCAACGTTTGGTCCCTAACCTGTGCCGAACTGCAACACTTTCGAGTCAATTAAGCT
* **
642724 TTGTACCTTTCTCTTGAAGGATTTGCAGTTCTCGATGTCATGCCCTACTCCCCCAGCATGGTATT
131 TTGTACCTTTCTCTTGAAGGATATGCAGTTCTCGATGTCATGCCCCGCTCCCCCAGCATGGTATT
642789 CACAGTGGACAGTAGGGTTGTACCATTGTGGGTATGGTGGTTTCTTTTCCGAAACATAAACTGGA
196 CACAGTGGACAGTAGGGTTGTACCATTGTGGGTATGGTGGTTTCTTTTCCGAAACATAAACTGGA
* *
642854 GCTACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATAGGATCAAA
261 GCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATGGGATCAAA
642919 ATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAGGTGCATTGTTGGTTGTCTGATTGGTATTTT
326 ATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAGGTGCATTGTTGGTTGTCTGATTGGTATTTT
* ** * *
642984 GGTAACCTTATGGAGGGTGACACTGTGACAGGCTTGGTGGGATTGTAAAGGATGGGTTATAAGTT
391 GGTAACCTTGTGGAGGGTGACTTTGTGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGTT
* * *
643049 GTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAAAATATGGCATGTTTGGGTAGTAAAG
456 GTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATATGGCATGTTTGGGTAGTGAGG
*
643114 GCTAGGTGGTCGACGCTGTCTTGGCTGAGATGAGCTAGCATAACTTATGGTATTGGTTTCTCC--
521 GCTAGGTGG-CGACGCTGTCTTGGCTGAGATGAGCCAGCATAACTTATGGTATTGGTTTCTCCTT
* * *
643177 TTTTTTCTTATTAGCAACAAGCTTTTTGCTCAAGCTAGTTGC
585 TTTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
* *
643219 TCTTAACTTCGTATTTATTCTCAATTCCAATCATGTTTACAGTTGGCTCATTGTGGTTTGGTAAA
1 TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGTTGGCTCATTGTGGTTTGGTAAA
* *
643284 GGGTTGGCAGCAACGTTTGGTCCCTGACCTGTGCCGAACTGCAACATTTTCGAGTCAATTAAGCT
66 GGGTTGGCAGCAACGTTTGGTCCCTAACCTGTGCCGAACTGCAACACTTTCGAGTCAATTAAGCT
* **
643349 TTTTACCTTTCTCTTGAAGGATATGCAGTTCTTAATGTCATGCCCCGCTCCCCCAGCATGGTATT
131 TTGTACCTTTCTCTTGAAGGATATGCAGTTCTCGATGTCATGCCCCGCTCCCCCAGCATGGTATT
* * *
643414 CACAGTGGACAGTAGGATTGTACCATTGTGGGTATGGTGGTTTCTTTTCCGGAACATAAACTAGA
196 CACAGTGGACAGTAGGGTTGTACCATTGTGGGTATGGTGGTTTCTTTTCCGAAACATAAACTGGA
643479 GCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATGGGATCAAA
261 GCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATGGGATCAAA
* *
643544 ATGTTGTTTTTGCTGAGTTGCACCTTGATTACTAGGTGCATTGTTGGTTGTCCGATTGGTATTTT
326 ATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAGGTGCATTGTTGGTTGTCTGATTGGTATTTT
*
643609 GGTAACCTTGTGGAGGGTGACTTTATGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGTT
391 GGTAACCTTGTGGAGGGTGACTTTGTGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGTT
*
643674 ATGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATATGGCATGTTTGGGTAGTGAGG
456 GTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATATGGCATGTTTGGGTAGTGAGG
* *
643739 GCTAGGTGGCCGACGTTGTCTTGGCTGAGATGAGCCAGCATAACTTATGGTATTAGTTTCTCCTT
521 GCTAGGTGG-CGACGCTGTCTTGGCTGAGATGAGCCAGCATAACTTATGGTATTGGTTTCTCCTT
643804 CTTTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
585 -TTTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
643847 T
1 T
643848 TCTCCGGTAG
Statistics
Matches: 1169, Mismatches: 80, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
625 585 0.50
627 4 0.00
628 579 0.50
629 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (626 bp):
TCTTAACTTCGTATTTATTCTCAATGCCAATCATGTTTGCAGTTGGCTCATTGTGGTTTGGTAAA
GGGTTGGCAGCAACGTTTGGTCCCTAACCTGTGCCGAACTGCAACACTTTCGAGTCAATTAAGCT
TTGTACCTTTCTCTTGAAGGATATGCAGTTCTCGATGTCATGCCCCGCTCCCCCAGCATGGTATT
CACAGTGGACAGTAGGGTTGTACCATTGTGGGTATGGTGGTTTCTTTTCCGAAACATAAACTGGA
GCCACCAAATGGTTTTGGAGCAGGGTTTGGTAGAGCTCTTTATAGGTCATGGGGATGGGATCAAA
ATGTTGTTTTTGCTGAGTTGCACCTCGATTACTAGGTGCATTGTTGGTTGTCTGATTGGTATTTT
GGTAACCTTGTGGAGGGTGACTTTGTGACGGGCTTGGTGGGATTGCAAAGGATGGGTTATAAGTT
GTGGCATAAATCGGCTGAGAGGGGATTGTAAAGGGGTGAGAATATGGCATGTTTGGGTAGTGAGG
GCTAGGTGGCGACGCTGTCTTGGCTGAGATGAGCCAGCATAACTTATGGTATTGGTTTCTCCTTT
TTTTTCTTATTAGCAACAGGCTTTTTGCTCGAGCCAGTTGC
Found at i:647869 original size:22 final size:24
Alignment explanation
Indices: 647835--647885 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
647825 TTCTTAAAGC
647835 TTTAACTCGAATTAAT-TAAACAAT
1 TTTAACTCGAATT-ATCTAAACAAT
*
647859 TTTAA-TC-AATTATCTAAACACT
1 TTTAACTCGAATTATCTAAACAAT
647881 TTTAA
1 TTTAA
647886 GCCTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 2 0.08
24 5 0.20
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTAACTCGAATTATCTAAACAAT
Found at i:652125 original size:30 final size:30
Alignment explanation
Indices: 652084--652178 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 30
652074 GAGCCCTTAA
* *
652084 TTTCATCAATTTGATCTTTCAAACATTTAT
1 TTTCATCAATTTGACCCTTCAAACATTTAT
* * *
652114 TTTTATTAATTTGAGCCCTT-AAACATCTAT
1 TTTCATCAATTTGA-CCCTTCAAACATTTAT
* *
652144 TTTCATCAATTTAAGCCTTCAAACATTTAT
1 TTTCATCAATTTGACCCTTCAAACATTTAT
652174 TTTCA
1 TTTCA
652179 CCTTATTAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 4 0.08
30 46 0.87
31 3 0.06
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTCATCAATTTGACCCTTCAAACATTTAT
Found at i:653297 original size:84 final size:84
Alignment explanation
Indices: 653209--653368 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
653199 CAATGTTGAA
*
653209 TTTTT-ATGAGATTAAAGAGTTCTTTTA-GGACAAATAAGCTAAGTCATTAGATTTAATTTGAGG
1 TTTTTAATGAGATTAAAGA-TTCTTTTAGGGA-AAATAAGCTAAGTCATTAGATTTAAATTGAGG
653272 GTTATTTTAGGTAATGGATTT
64 GTTATTTTAGGTAATGGATTT
* * * * * *
653293 TTTTTAATGAGATTAAGGATTTTTTTAGGGATAATAAGCTAGGTCATTCGATTTAAATTGATGGT
1 TTTTTAATGAGATTAAAGATTCTTTTAGGGAAAATAAGCTAAGTCATTAGATTTAAATTGAGGGT
653358 TATTTTAGGTA
66 TATTTTAGGTA
653369 TAGAATTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 52 0.78
85 15 0.22
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (84 bp):
TTTTTAATGAGATTAAAGATTCTTTTAGGGAAAATAAGCTAAGTCATTAGATTTAAATTGAGGGT
TATTTTAGGTAATGGATTT
Found at i:653548 original size:22 final size:22
Alignment explanation
Indices: 653523--653564 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
653513 TTTTTAATAT
653523 TATTTTT-CAATTAATATTTATA
1 TATTTTTACAATTAA-ATTTATA
*
653545 TATTTTTATAATTAAATTTA
1 TATTTTTACAATTAAATTTA
653565 AAATGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTACAATTAAATTTATA
Found at i:658896 original size:62 final size:62
Alignment explanation
Indices: 658799--658926 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
658789 TATTTACTTA
* *
658799 GAGTCGCCACTAATCTATTTTGGCCGGATGAGATTAATCACCCGTCAGAATTAACATTTTTG
1 GAGTCGCCACCAATCTATTTTGGCCGGATGAGATTAATCACCCGTCAGAACTAACATTTTTG
*
658861 GAGTCGCCACCAATCTATTTTGGCCGGATGAGATTAGTCACCCGTCAGAACTAACATTTTTG
1 GAGTCGCCACCAATCTATTTTGGCCGGATGAGATTAATCACCCGTCAGAACTAACATTTTTG
658923 GAGT
1 GAGT
658927 TACAAAATTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (62 bp):
GAGTCGCCACCAATCTATTTTGGCCGGATGAGATTAATCACCCGTCAGAACTAACATTTTTG
Found at i:665180 original size:48 final size:48
Alignment explanation
Indices: 665109--665230 Score: 181
Period size: 48 Copynumber: 2.5 Consensus size: 48
665099 CAATGTGCCA
* *
665109 ATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGACAATATGATG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGATG
* * * *
665157 ATTCAAGACCAGCGACATTGAGCTAAGTGAAAAGTGGACAATGTGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGATG
*
665205 ATTCAAGGCCAGTGACATTGAGCTAA
1 ATTCAAGGCCAGCGACATTGAGCTAA
665231 TAAAGGTGCC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGATG
Found at i:665408 original size:28 final size:28
Alignment explanation
Indices: 665355--666028 Score: 565
Period size: 28 Copynumber: 23.1 Consensus size: 28
665345 CCAACTTATA
*
665355 TGGGCTTTG-AAGGATGCCATTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
665382 TGGGCTTTGAAAAGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
665410 TGGGCTTTGAAAAGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
665438 CGGGCTTTGAAAGGATGCCACTGATTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
665466 TACGAGCTTTGAGAAGGATGCTACTGACTTG
1 T--GGGCTTTGA-AAGGATGCCACTGACTTG
* * *
665497 TGGGCTTTGAAAAGATGCCACTAATTTGTG
1 TGGGCTTTGAAAGGATGCCACTGA-CT-TG
*
665527 TGGGCTTTGAGAAGGATGCCACTAACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
665556 TGGGCTTTGAGAAGGATGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* *
665585 TGGGCTTTGAAAGGATGCCACTAACTTC
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
665613 TGGGCTTTGAAAGGATGCCACTAATTTGTG
1 TGGGCTTTGAAAGGATGCCACTGA-CT-TG
665643 TGGGCTTTGAGAAGGATGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
665672 T-GG-TATTGAAAGGATGCCACTGACTTG
1 TGGGCT-TTGAAAGGATGCCACTGACTTG
*
665699 TGGGCTTTGAAATAGGTTGCCACTGACTTATG
1 TGGGCTTTG-AA-AGGATGCCACTGAC-T-TG
*
665731 TGGGCTTTGAAATGGGTTGCCA-TGGACTTGTG
1 TGGGCTTTGAAA--GGATGCCACT-GAC-T-TG
* * **
665763 TGGGCTTTCAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
* *
665795 TGGGCTTTGAAATGGGTAGCCA-TCGATTTGTG
1 TGGGCTTTGAAA-GGAT-GCCACT-GA-CT-TG
* * *
665827 TGGGCTTTCAAATGAGTTGCCACCGACTTATG
1 TGGGCTTTGAAA-G-GATGCCACTGAC-T-TG
**
665859 TGGGCTTTGAAATAATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
665887 TGGGCTTTGGAAAGG-TGCCACTGACTTG
1 TGGGCTTT-GAAAGGATGCCACTGACTTG
* ** *
665915 TGAGCTTAAAAAGGATGCCAC-GAAGTTG
1 TGGGCTTTGAAAGGATGCCACTG-ACTTG
* * *
665943 TGGACTTTGGAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
** *
665971 TGGGCTTAAAAAGGATGCCA-TGAAGTTG
1 TGGGCTTTGAAAGGATGCCACTG-ACTTG
* * * *
665999 TGGAC-TTAAAAGGATGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
666026 TGG
1 TGG
666029 ACTTAAAAGA
Statistics
Matches: 544, Mismatches: 70, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
27 58 0.11
28 209 0.38
29 62 0.11
30 56 0.10
31 50 0.09
32 107 0.20
33 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:665781 original size:64 final size:64
Alignment explanation
Indices: 665697--665871 Score: 269
Period size: 64 Copynumber: 2.7 Consensus size: 64
665687 GCCACTGACT
* * * * *
665697 TGTGGGCTTTGAAATAGGTTGCCACTGACTTATGTGGGCTTTGAAATGGGTTGCCATGGACTTG
1 TGTGGGCTTTCAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTAGCCATCGACTTG
* * *
665761 TGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTAGCCATCGATTTG
1 TGTGGGCTTTCAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTAGCCATCGACTTG
*
665825 TGTGGGCTTTCAAATGAGTTGCCACCGACTTATGTGGGCTTTGAAAT
1 TGTGGGCTTTCAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAAT
665872 AATGCCACTG
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 100 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (64 bp):
TGTGGGCTTTCAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTAGCCATCGACTTG
Found at i:665829 original size:96 final size:96
Alignment explanation
Indices: 665697--665871 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
665687 GCCACTGACT
* * * ** *
665697 TGTGGGCTTTGAAATAGGTTGCCACTGACTTATGTGGGCTTTGAAATGGGTTGCCATGGACTTGT
1 TGTGGGCTTTGAAATAGGTAGCCACTGACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTAT
665762 GTGGGCTTTCAAATGGGTTGCCACCAACTTG
66 GTGGGCTTTCAAATGGGTTGCCACCAACTTG
* * *
665793 TGTGGGCTTTGAAATGGGTAGCCA-TCGATTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTA
1 TGTGGGCTTTGAAATAGGTAGCCACT-GACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTA
*
665857 TGTGGGCTTTGAAAT
65 TGTGGGCTTTCAAAT
665872 AATGCCACTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 67 0.99
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (96 bp):
TGTGGGCTTTGAAATAGGTAGCCACTGACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTAT
GTGGGCTTTCAAATGGGTTGCCACCAACTTG
Found at i:665927 original size:27 final size:27
Alignment explanation
Indices: 665873--666356 Score: 289
Period size: 27 Copynumber: 17.8 Consensus size: 27
665863 CTTTGAAATA
* *
665873 ATGCCACTGACTTGTGGGCTTTGGAAAGG
1 ATGCCACTGACTTGTGGAC-TT-AAAAGG
665902 -TGCCACTGACTTGT-GAGCTTAAAAAGG
1 ATGCCACTGACTTGTGGA-CTT-AAAAGG
* **
665929 ATGCCAC-GAAGTTGTGGACTTTGGAAGG
1 ATGCCACTG-ACTTGTGGAC-TTAAAAGG
* *
665957 GTGCCACTGACTTGTGGGCTTAAAAAGG
1 ATGCCACTGACTTGTGGACTT-AAAAGG
*
665985 ATGCCA-TGAAGTTGTGGACTTAAAAGG
1 ATGCCACTG-ACTTGTGGACTTAAAAGG
* *
666012 ATGCCACAGAGTTGTGGACTTAAAA-G
1 ATGCCACTGACTTGTGGACTTAAAAGG
*
666038 AGTGCCAC-GAAGTTGTGGACTTAAAAGG
1 A-TGCCACTG-ACTTGTGGACTTAAAAGG
* * * *
666066 GT-CTACGGAGTTGTGGACTTAAAAGG
1 ATGCCACTGACTTGTGGACTTAAAAGG
* *
666092 ATGCCA-TGGAGTTGTGAACTTAAAAGG
1 ATGCCACT-GACTTGTGGACTTAAAAGG
* *
666119 GTGCCA-TGGAGTTGTGG-----AAAGG
1 ATGCCACT-GACTTGTGGACTTAAAAGG
* *
666141 GTGCCA-TGGAGTTGTGGACTTAAAAGG
1 ATGCCACT-GACTTGTGGACTTAAAAGG
* * *
666168 ATGCCACGGAGTTATGGACTTTAAAAGG
1 ATGCCACTGACTTGTGGAC-TTAAAAGG
* * * *
666196 GTGTCACGGAGTTGTGGAC-TATAAAGG
1 ATGCCACTGACTTGTGGACTTA-AAAGG
* * *
666223 GTGCCACAGAGTTGTGGACTTAAAAGG
1 ATGCCACTGACTTGTGGACTTAAAAGG
* * *
666250 ATGCCTCGGAGTTGTGGACTTTAAAAGG
1 ATGCCACTGACTTGTGGAC-TTAAAAGG
* * * *
666278 GTACCACGGAGTTGTGGACTTTAAAAGG
1 ATGCCACTGACTTGTGGAC-TTAAAAGG
* * *
666306 ATGCCACGGAGTTGTGGACTTTGAAAAGAA
1 ATGCCACTGACTTGTGGAC-TT-AAAAG-G
* *
666336 ATGCCACTGAATCGTGGACTT
1 ATGCCACTGACTTGTGGACTT
666357 TGAAGAGGTC
Statistics
Matches: 385, Mismatches: 43, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
22 22 0.06
26 27 0.07
27 163 0.42
28 145 0.38
29 12 0.03
30 16 0.04
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (27 bp):
ATGCCACTGACTTGTGGACTTAAAAGG
Found at i:666142 original size:22 final size:22
Alignment explanation
Indices: 666114--666158 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
666104 TGTGAACTTA
666114 AAAGGGTGCCATGGAGTTGTGG
1 AAAGGGTGCCATGGAGTTGTGG
666136 AAAGGGTGCCATGGAGTTGTGG
1 AAAGGGTGCCATGGAGTTGTGG
666158 A
1 A
666159 CTTAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.22
Consensus pattern (22 bp):
AAAGGGTGCCATGGAGTTGTGG
Found at i:666203 original size:28 final size:28
Alignment explanation
Indices: 666136--666333 Score: 276
Period size: 28 Copynumber: 7.1 Consensus size: 28
666126 GGAGTTGTGG
*
666136 AAAGGGTGCCATGGAGTTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* *
666163 AAAGGATGCCACGGAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* *
666191 AAAGGGTGTCACGGAGTTGTGGACTAT-
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
666218 AAAGGGTGCCACAGAGTTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* *
666245 AAAGGATGCCTCGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
666273 AAAGGGTACCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
666301 AAAGGATGCCACGGAGTTGTGGACTTTGA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-A
666330 AAAG
1 AAAG
666334 AAATGCCACT
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 64 0.43
28 79 0.53
29 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (28 bp):
AAAGGGTGCCACGGAGTTGTGGACTTTA
Found at i:666249 original size:82 final size:81
Alignment explanation
Indices: 665900--666326 Score: 501
Period size: 82 Copynumber: 5.3 Consensus size: 81
665890 GCTTTGGAAA
* * * **
665900 GGTGCCACTGACTTGT-GAGCTTAAAAAGGATGCCACGAAGTTGTGGACTTTGGAAGGGTGCCAC
1 GGTGCCACGGAGTTGTGGA-CTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC
* * *
665964 TGACTTGTGGGCTTAAAAAG
64 GGAGTTGTGGACTT--AAAG
* * * * * *
665984 GATGCCATGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAGAGTGCCACGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGG
666048 AGTTGTGGACTTAAAAG
66 AGTTGTGGACTT-AAAG
* * * *
666065 GGT-CTACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGAAC-TTAAAAGGGTGCCATGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGG
666128 AGTTGTGG----AAAG
66 AGTTGTGGACTTAAAG
* * *
666140 GGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAGGGTGTCACGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGG
666205 AGTTGTGGACTATAAAG
66 AGTTGTGGACT-TAAAG
* * *
666222 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCTCGGAGTTGTGGACTTTAAAAGGGTACCACGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGG
666287 AGTTGTGGACTTTAAAAG
66 AGTTGTGGAC-TT-AAAG
*
666305 GATGCCACGGAGTTGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
666327 TGAAAAGAAA
Statistics
Matches: 294, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
75 7 0.02
76 38 0.13
77 23 0.08
80 59 0.20
81 7 0.02
82 96 0.33
83 48 0.16
84 14 0.05
85 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (81 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAG
Found at i:667638 original size:22 final size:22
Alignment explanation
Indices: 667613--667685 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
667603 TGTTGTTCCC
667613 TTTTTTATTTTGCTTTTGCACTT
1 TTTTTTATTTTGCTTTTGCAC-T
* *
667636 TTTTTTGTTTTTCTTTT-CA-T
1 TTTTTTATTTTGCTTTTGCACT
*
667656 ATTTTGTACTTTTGCTTTTG-ACCT
1 -TTTTTTA-TTTTGCTTTTGCA-CT
667680 TTTTTT
1 TTTTTT
667686 TGTCATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.03
21 5 0.13
22 12 0.31
23 20 0.51
24 1 0.03
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTTTATTTTGCTTTTGCACT
Found at i:667638 original size:44 final size:45
Alignment explanation
Indices: 667590--667686 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
667580 TTCATGCCCT
* *
667590 TTTTTTTTATTTTTGTTGTTCCCT-TTTT-TA-TTTTGCTTTTG-CAC
1 TTTTTTTTATTTTTCTT-TT-CATATTTTGTACTTTTGCTTTTGAC-C
*
667634 TTTTTTTTGTTTTTCTTTTCATATTTTGTACTTTTGCTTTTGACC
1 TTTTTTTTATTTTTCTTTTCATATTTTGTACTTTTGCTTTTGACC
667679 TTTTTTTT
1 TTTTTTTT
667687 GTCATTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
42 2 0.04
43 6 0.13
44 17 0.37
45 20 0.43
46 1 0.02
ACGTcount: A:0.07, C:0.12, G:0.08, T:0.72
Consensus pattern (45 bp):
TTTTTTTTATTTTTCTTTTCATATTTTGTACTTTTGCTTTTGACC
Found at i:672443 original size:27 final size:27
Alignment explanation
Indices: 672405--672472 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
672395 TATTGAAAAA
*
672405 AATGGGGTTGGAGTATCTCCTCGGAGG
1 AATGGGGTTGGAGTATCCCCTCGGAGG
672432 AATGGGGTTGGAGTATCCCCTCGGAGG
1 AATGGGGTTGGAGTATCCCCTCGGAGG
*
672459 AATGAGGTTGGAGT
1 AATGGGGTTGGAGT
672473 GTCCTCGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.13, G:0.41, T:0.25
Consensus pattern (27 bp):
AATGGGGTTGGAGTATCCCCTCGGAGG
Found at i:674006 original size:18 final size:16
Alignment explanation
Indices: 673983--674033 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
673973 TTATTTATTT
673983 TTAATTTCGTAAAAATAA
1 TTAATTT-GTAAAAAT-A
*
674001 TTAATTTAATAAAAAT-
1 TTAATTT-GTAAAAATA
674017 TTAATTTGTTAAAAATA
1 TTAATTTG-TAAAAATA
674034 GTTGAAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
TTAATTTGTAAAAATA
Found at i:674741 original size:14 final size:15
Alignment explanation
Indices: 674710--674751 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
674700 ATTAAAAATA
*
674710 TTAAT-TTTTTAA-T
1 TTAATATTTATAATT
674723 TTAATATTTA-AATT
1 TTAATATTTATAATT
674737 TTAATATTTATAATT
1 TTAATATTTATAATT
674752 ATTTATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 7 0.28
14 14 0.56
15 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATATTTATAATT
Found at i:675022 original size:18 final size:19
Alignment explanation
Indices: 675001--675056 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
674991 TTTTTAATCA
675001 AATATTAATTTT-TATATT
1 AATATTAATTTTATATATT
*
675019 AATATAAATTTTAATATATT
1 AATATTAATTTT-ATATATT
*
675039 AATAATTAATATTATATA
1 AAT-ATTAATTTTATATA
675057 AATTTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.34
20 14 0.44
21 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTAATTTTATATATT
Found at i:675038 original size:20 final size:18
Alignment explanation
Indices: 674988--675042 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
674978 ATTAAATTTA
*
674988 AAATTTTTA-ATCAAATAT
1 AAATTTTTATAT-TAATAT
*
675006 TAATTTTTATATTAATAT
1 AAATTTTTATATTAATAT
675024 AAATTTTAATATATTAATA
1 AAATTTT--TATATTAATA
675043 ATTAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 19 0.61
19 2 0.06
20 10 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATTTTTATATTAATAT
Found at i:675040 original size:32 final size:32
Alignment explanation
Indices: 675002--675100 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 32
674992 TTTTAATCAA
675002 ATATTAATTTTTATATTAATATAAATTTTAAT
1 ATATTAATTTTTATATTAATATAAATTTTAAT
* * *
675034 ATATTAATAATTAATATT-ATATAAATTTAAAT
1 ATATTAAT-TTTTATATTAATATAAATTTTAAT
* * * *
675066 ATTTTTATTTATATTTTTAATAT--ATTTTAAT
1 ATATTAATTTTTA-TATTAATATAAATTTTAAT
675097 -TATT
1 ATATT
675101 TTTTACTATC
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
30 3 0.06
31 9 0.17
32 30 0.57
33 11 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
ATATTAATTTTTATATTAATATAAATTTTAAT
Found at i:675074 original size:23 final size:24
Alignment explanation
Indices: 675048--675099 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
675038 TAATAATTAA
675048 TATTATATAAATTTAA-ATATTTT
1 TATTATATAAATTTAATATATTTT
**
675071 TATT-TATATTTTTAATATATTTT
1 TATTATATAAATTTAATATATTTT
*
675094 AATTAT
1 TATTAT
675100 TTTTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.38
23 14 0.58
24 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATATAAATTTAATATATTTT
Found at i:675084 original size:22 final size:22
Alignment explanation
Indices: 675059--675105 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
675049 ATTATATAAA
*
675059 TTTAAATAT-TTTTATTTATATT
1 TTTAAATATATTTTAATTAT-TT
675081 TTT-AATATATTTTAATTATTT
1 TTTAAATATATTTTAATTATTT
675102 TTTA
1 TTTA
675106 CTATCAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTAAATATATTTTAATTATTT
Found at i:675103 original size:21 final size:21
Alignment explanation
Indices: 675063--675105 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
675053 TATAAATTTA
*
675063 AATATTTTTATTTATATTTTT
1 AATATTTTTAATTATATTTTT
675084 AATATATTTTAATTAT-TTTTT
1 AATAT-TTTTAATTATATTTTT
675105 A
1 A
675106 CTATCAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
AATATTTTTAATTATATTTTT
Found at i:675400 original size:2 final size:2
Alignment explanation
Indices: 675393--675432 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
675383 TTCTGAATAG
*
675393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
675433 TTTAACATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:677610 original size:79 final size:79
Alignment explanation
Indices: 677477--677682 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 79
677467 TCATTATCTC
* * * * * * *
677477 TTTATTCCCAAAATATGATTTTCTTCACCATCAAGAATACTCCAACCCCGTTATTTTCGAGAGGA
1 TTTATTTCCAAAATATCAATTT-TTCACCATCAGGGATACTCCAACCCCGTTATTTTCAAGAGAA
677542 TACTCCAAC-CC-TGAT
65 TACTCCAACTCCAT--T
** * *
677557 TTTATTTTTAAAATATCAATTTTTTACTATC-GAGGATACTCCAACCCCGTTATTTTCAAGAGAA
1 TTTATTTCCAAAATATCAATTTTTCACCATCAG-GGATACTCCAACCCCGTTATTTTCAAGAGAA
* *
677621 TATTTCAACTCCATT
65 TACTCCAACTCCATT
*
677636 TTTATTTCCAAAATATCAGTTTTTCACCATCAGGGATACTCCAACCC
1 TTTATTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCC
677683 TATTTTTATT
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
79 83 0.80
80 20 0.19
81 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (79 bp):
TTTATTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCAAGAGAAT
ACTCCAACTCCATT
Found at i:677689 original size:51 final size:52
Alignment explanation
Indices: 677633--677743 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 52
677623 TTTCAACTCC
677633 ATTTTTATTTCCAAAATATCAG-TTTTTCACCATC-AGGGATACTCCAACCC-T
1 ATTTTTATTTCCAAAATAT-AGATTTTTCACCATCGA-GGATACTCCAACCCGT
* *
677684 ATTTTTATTTCCAAAATATTGATTTTTTACCATCGAGGATACTCCAACCCGTT
1 ATTTTTATTTCCAAAATATAGATTTTTCACCATCGAGGATACTCCAACCCG-T
677737 ATTTTTA
1 ATTTTTA
677744 AAGGGATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
50 1 0.02
51 44 0.81
52 1 0.02
53 8 0.15
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (52 bp):
ATTTTTATTTCCAAAATATAGATTTTTCACCATCGAGGATACTCCAACCCGT
Found at i:677690 original size:130 final size:129
Alignment explanation
Indices: 677536--677810 Score: 351
Period size: 129 Copynumber: 2.1 Consensus size: 129
677526 GTTATTTTCG
** *
677536 AGAGGATACTCCAACCCTGATTTTATTTTTAAAATATCAATTTTTTACTATCGAGGATACTCCAA
1 AGAGGATACTCCAACCCTGATTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCCAA
* * *
677601 CCCCGTTATTTTC-AAGAGAATATTTCAACTCCATTTTTATTTCCAAAATATC-AGTTTTTCACC
66 -CCCGTTATTTTCAAAG-GAATATTCCAACTCCAGTTTTATTTCCAAAATATCGA-TTTTTCACA
677664 AT
128 AT
**
677666 CAG-GGATACTCCAACCCT-ATTTTTATTTCCAAAATATTGATTTTTTACCATCGAGGATACTCC
1 -AGAGGATACTCCAACCCTGA-TTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCC
* * * * *
677729 AACCCGTTATTTTTAAAGGGATATTCCAACTTCGGTTTTATTTTCAAAATATCGATTTTTCACAA
64 AACCCGTTATTTTCAAAGGAATATTCCAACTCCAGTTTTATTTCCAAAATATCGATTTTTCACAA
677794 T
129 T
*
677795 TGAGGATACTCCAACC
1 AGAGGATACTCCAACC
677811 TCGTTGTTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
128 1 0.01
129 64 0.51
130 59 0.47
131 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (129 bp):
AGAGGATACTCCAACCCTGATTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCCAA
CCCGTTATTTTCAAAGGAATATTCCAACTCCAGTTTTATTTCCAAAATATCGATTTTTCACAAT
Found at i:677788 original size:129 final size:130
Alignment explanation
Indices: 677536--677810 Score: 353
Period size: 130 Copynumber: 2.1 Consensus size: 130
677526 GTTATTTTCG
** *
677536 AGAGGATACTCCAACCCTGATTTTATTTTTAAAATATCAATTTTTTACTATCGAGGATACTCCAA
1 AGAGGATACTCCAACCCTGATTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCCAA
* * * *
677601 CCCCGTTATTTTCAAGAGAATATTTCAACTCCATTTTTATTTCCAAAATATCAGTTTTTCACCAT
66 CCCCGTTATTTTAAAGAGAATATTCCAACTCCAGTTTTATTTCCAAAATATCAGTTTTTCACAAT
**
677666 CAG-GGATACTCCAACCCT-ATTTTTATTTCCAAAATATTGATTTTTTACCATCGAGGATACTCC
1 -AGAGGATACTCCAACCCTGA-TTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCC
* * * *
677729 AA-CCCGTTATTTTTAAAG-GGATATTCCAACTTCGGTTTTATTTTCAAAATATC-GATTTTTCA
64 AACCCCGTTA-TTTTAAAGAGAATATTCCAACTCCAGTTTTATTTCCAAAATATCAG-TTTTTCA
677791 CAAT
127 CAAT
*
677795 TGAGGATACTCCAACC
1 AGAGGATACTCCAACC
677811 TCGTTGTTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
128 2 0.02
129 60 0.48
130 62 0.49
131 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (130 bp):
AGAGGATACTCCAACCCTGATTTTATTTCCAAAATATCAATTTTTTACCATCGAGGATACTCCAA
CCCCGTTATTTTAAAGAGAATATTCCAACTCCAGTTTTATTTCCAAAATATCAGTTTTTCACAAT
Found at i:677858 original size:79 final size:78
Alignment explanation
Indices: 677667--677859 Score: 242
Period size: 78 Copynumber: 2.5 Consensus size: 78
677657 TTTCACCATC
** * * *
677667 AGGGATACTCCAACCCTATTTTTATTTCCAAAATATTGATTTTTTACCATCGAGGATACTCCAAC
1 AGGGATACTCCAACCCCGTTTTTATTTCCAAAATATCGATTTTTCACAATCGAGGATACTCCAAC
*
677732 CCGTTATTTTTAA
66 CCGTTATTTTCAA
* ** * * *
677745 AGGGATATTCCAACTTCGGTTTTATTTTCAAAATATCGATTTTTCACAATTGAGGATACTCCAAC
1 AGGGATACTCCAACCCCGTTTTTATTTCCAAAATATCGATTTTTCACAATCGAGGATACTCCAAC
* *
677810 CTCGTTGTTTTCGA
66 C-CGTTATTTTCAA
*
677824 AGGGATACTCCAACCCCGTTTTTATCTCCAAAATAT
1 AGGGATACTCCAACCCCGTTTTTATTTCCAAAATAT
677860 TAAATTTTTC
Statistics
Matches: 94, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
78 55 0.59
79 39 0.41
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (78 bp):
AGGGATACTCCAACCCCGTTTTTATTTCCAAAATATCGATTTTTCACAATCGAGGATACTCCAAC
CCGTTATTTTCAA
Found at i:678848 original size:21 final size:20
Alignment explanation
Indices: 678823--678876 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
678813 TTACAAGCCA
*
678823 ATGTATCGCTACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
678843 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
678863 ATGTATCGATACAA
1 ATGTATCGATACAA
678877 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:681428 original size:13 final size:13
Alignment explanation
Indices: 681409--681445 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
681399 TATAATTGCC
681409 ATGTATCGATACA
1 ATGTATCGATACA
*
681422 GTGTATCGATACA
1 ATGTATCGATACA
681435 ATGTATCGATA
1 ATGTATCGATA
681446 TAGAGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:683624 original size:27 final size:27
Alignment explanation
Indices: 683594--683648 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
683584 TTCTTCATAA
683594 ATTTCTATATCATTGTCAACAAAACAT
1 ATTTCTATATCATTGTCAACAAAACAT
683621 ATTTCTATATCATTGTCAACAAAACAT
1 ATTTCTATATCATTGTCAACAAAACAT
683648 A
1 A
683649 CTCTCCTTTC
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:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (27 bp):
ATTTCTATATCATTGTCAACAAAACAT
Found at i:687649 original size:34 final size:32
Alignment explanation
Indices: 687606--687674 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
687596 CGTTACAAGC
687606 CAATGTATCGATACAAT-TTGGTCATGTACCGATA
1 CAATGTATCGATAC-ATCTT-GT-ATGTACCGATA
*
687640 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTACCGATA
687672 CAA
1 CAA
687675 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 13 0.39
33 4 0.12
34 16 0.48
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTACCGATA
Found at i:687761 original size:13 final size:13
Alignment explanation
Indices: 687743--687767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
687733 TACAGTGGTC
687743 ATGTATCGATACA
1 ATGTATCGATACA
687756 ATGTATCGATAC
1 ATGTATCGATAC
687768 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:687785 original size:33 final size:32
Alignment explanation
Indices: 687726--687788 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
687716 ATCTTTGCAA
*
687726 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
687758 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
687789 TCTGAAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:689335 original size:151 final size:150
Alignment explanation
Indices: 689132--689491 Score: 388
Period size: 162 Copynumber: 2.3 Consensus size: 150
689122 ATACAAAAAG
* * * *
689132 TTTTTGAAATCTTTTATACCTCGACGGATACCCATAGGAATATAAAAGATTAAAAT-TT-TTTCT
1 TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAATATTATTTAT
* * *
689195 -C-GAAAGTATTAATTTAACTTAATTTTATTTATTTTCGAAAACATCATTTCGTAACC-TAATGG
66 CCTGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTCGT-ACCTTAATGG
* ***
689257 AAGCCCGAAAGGATACGGAATGTTTT
130 AAGCCCGAAAGAATA--GAA---ACA
* *
689283 TTTTTGAAATCTTTTATACCCCTACAGATACCCATAAGAATATAAAAAATTAAAAAAATAATTAA
1 TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATT---AAAAT-ATT--
* * * * *
689348 AATTTATCCTGAAAGTAGTAATTCAATTTTATTTTATTTATTTTTGAAAATACCATTTTGTACCT
60 -ATTTATCCTGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTCGTACCT
*
689413 TAATGGAAGCTCGAAAGAATAGAAACA
124 TAATGGAAGCCCGAAAGAATAGAAACA
*
689440 TTTTTGAAATCTTTTATACCCCTACGGATGCCCATAAGAATATAAAAGATTA
1 TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTA
689492 GAAAAAATAA
Statistics
Matches: 175, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
151 46 0.26
154 6 0.03
156 2 0.01
157 48 0.27
160 7 0.04
161 4 0.02
162 62 0.35
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (150 bp):
TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAATATTATTTAT
CCTGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTCGTACCTTAATGGA
AGCCCGAAAGAATAGAAACA
Found at i:689460 original size:157 final size:161
Alignment explanation
Indices: 689180--689511 Score: 431
Period size: 162 Copynumber: 2.1 Consensus size: 161
689170 AATATAAAAG
* * * * *
689180 ATTAAAATTTTTTCTCGAAAGTATTAATTTAACTTAATTTTATTTATTTTCGAAAACATCATTTC
1 ATTAAAATTTATCCTCGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTC
* ***
689245 GTAACCTAATGGAAGCCCGAAAGGATACGGAATGTTTTTTTTTGAAATCTTTTATACCCCTACAG
66 GTAACCTAATGGAAGCCCGAAAGAATAC-GAA--TACATTTTTGAAATCTTTTATACCCCTACAG
689310 ATACCCATAAGAATATAAAAAATTA-AAAAAATA
128 ATACCCATAAGAATATAAAAAATTAGAAAAAATA
* * * * *
689343 ATTAAAATTTATCCT-GAAAGTAGTAATTCAATTTTATTTTATTTATTTTTGAAAATACCATTTT
1 ATTAAAATTTATCCTCGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTC
* *
689407 GT-ACCTTAATGGAAGCTCGAAAGAATA-GAA-ACATTTTTGAAATCTTTTATACCCCTACGGAT
66 GTAACC-TAATGGAAGCCCGAAAGAATACGAATACATTTTTGAAATCTTTTATACCCCTACAGAT
* *
689469 GCCCATAAGAATATAAAAGATTAGAAAAAATA
130 ACCCATAAGAATATAAAAAATTAGAAAAAATA
689501 ATTAAAATTTA
1 ATTAAAATTTA
689512 ATTTTATCAC
Statistics
Matches: 149, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
157 49 0.33
158 19 0.13
160 3 0.02
161 3 0.02
162 62 0.42
163 13 0.09
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (161 bp):
ATTAAAATTTATCCTCGAAAGTAGTAATTCAACTTAATTTTATTTATTTTCGAAAACACCATTTC
GTAACCTAATGGAAGCCCGAAAGAATACGAATACATTTTTGAAATCTTTTATACCCCTACAGATA
CCCATAAGAATATAAAAAATTAGAAAAAATA
Found at i:690399 original size:14 final size:14
Alignment explanation
Indices: 690380--690415 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
690370 TTGTAGCCGT
690380 TGGAGTTTGATTGG
1 TGGAGTTTGATTGG
690394 TGGAGTTTGATTGG
1 TGGAGTTTGATTGG
690408 TGGAGTTT
1 TGGAGTTT
690416 CTAGCTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (14 bp):
TGGAGTTTGATTGG
Found at i:690575 original size:13 final size:13
Alignment explanation
Indices: 690557--690582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
690547 CAATTTTTGG
690557 TGTATCGATACAT
1 TGTATCGATACAT
690570 TGTATCGATACAT
1 TGTATCGATACAT
690583 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:690598 original size:32 final size:33
Alignment explanation
Indices: 690537--690600 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
690527 TACAAGCCAA
** *
690537 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGCTGTATCGATACAT
690570 TGTATCGATAC-ATACTTGCTGTATCGATACA
1 TGTATCGATACAATACTTGCTGTATCGATACA
690601 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGCTGTATCGATACAT
Found at i:691636 original size:23 final size:23
Alignment explanation
Indices: 691597--691640 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
691587 CAAAAGATAA
691597 CTTAGTTTTTCTAATTTTTCTAC
1 CTTAGTTTTTCTAATTTTTCTAC
*
691620 CTTATTTTCTTCT-ATTTTTCT
1 CTTAGTTT-TTCTAATTTTTCT
691641 CTTGTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (23 bp):
CTTAGTTTTTCTAATTTTTCTAC
Found at i:691648 original size:21 final size:21
Alignment explanation
Indices: 691597--691670 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
691587 CAAAAGATAA
*
691597 CTTAGTTT-TTCTAATTTTTCT
1 CTTATTTTCTTCT-ATTTTTCT
691618 ACCTTATTTTCTTCTATTTTTCT
1 --CTTATTTTCTTCTATTTTTCT
* * *
691641 CTTGTTTTCTATCTCTTTTTTT
1 CTTATTTTCT-TCTATTTTTCT
*
691663 CTTTTTTT
1 CTTATTTT
691671 TTTCAGCTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.20
22 16 0.36
23 15 0.34
24 4 0.09
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (21 bp):
CTTATTTTCTTCTATTTTTCT
Found at i:692522 original size:164 final size:166
Alignment explanation
Indices: 692283--692593 Score: 427
Period size: 164 Copynumber: 1.9 Consensus size: 166
692273 AAATATTTAT
* * * *
692283 AGAATAGAAAATTTAGTTTTTGGGAAAAAGGGGATTTCAAAGAAAAAAATCCAAAACTCTTGAAA
1 AGAATAGAAAATTTAGTTTTTGCGAAAAAGGGAATTTCAAAGAAAAAAATCAAAAACTCATGAAA
* ** *
692348 ATGAATGAATTTTTAAAAACTAATTTAATATAAAATAAATAATAATATTTTATAG-ATTT-AAAA
66 ATGAATGAATTTCTAAAAACTAAAATAATATAAAATAAATAATAATATTTGAT-GTATTTCAAAA
*
692411 ATTGAAAACCAAAAAAAAATCCCCCAAAAAAATTTGC
130 ATTAAAAACCAAAAAAAAATCCCCCAAAAAAATTTGC
*
692448 AGAATAGAAAACTTT-GTTTTT-CGAAAACAGGAGAATTTC-AAG-AAAAATTCAAAAACTCATG
1 AGAATAGAAAA-TTTAGTTTTTGCGAAAA-AGG-GAATTTCAAAGAAAAAAATCAAAAACTCATG
* *
692509 AAAATGAATGAATTTCTCAAAACTAAAATATTATAAAATAAATAATAATATTTGATGTATTTCAA
63 AAAATGAATGAATTTCTAAAAACTAAAATAATATAAAATAAATAATAATATTTGATGTATTTCAA
*
692574 AAATTAAAAACCAAGAAAAA
128 AAATTAAAAACCAAAAAAAA
692594 TTTATGAAGT
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
163 1 0.01
164 75 0.59
165 43 0.34
166 9 0.07
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (166 bp):
AGAATAGAAAATTTAGTTTTTGCGAAAAAGGGAATTTCAAAGAAAAAAATCAAAAACTCATGAAA
ATGAATGAATTTCTAAAAACTAAAATAATATAAAATAAATAATAATATTTGATGTATTTCAAAAA
TTAAAAACCAAAAAAAAATCCCCCAAAAAAATTTGC
Found at i:692623 original size:15 final size:16
Alignment explanation
Indices: 692589--692628 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
692579 AAAAACCAAG
692589 AAAAATTTATGAAGTA
1 AAAAATTTATGAAGTA
692605 AAAAATTTATGAAGTA
1 AAAAATTTATGAAGTA
692621 AAAAATTT
1 AAAAATTT
692629 TGTTTTCTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAAATTTATGAAGTA
Found at i:692858 original size:168 final size:169
Alignment explanation
Indices: 692546--692869 Score: 422
Period size: 171 Copynumber: 1.9 Consensus size: 169
692536 ATATTATAAA
* * * * * *
692546 ATAAATAATAATATTTGATGTATTTCAAAAATTAAAAACCAAGAAAAATTTATGAAGTAAAAAAT
1 ATAAATAATAATAATTGATGAATTTCAAAAAATAAAAACCAAGAAAAATCTAT--ACTAAAAAAA
* *** * * *
692611 TTATGAAGTAAAAAATTTTGTTTTCTCGAAAAAAAAAAGAAATCTTAAGGAAAAAATTCAAAACT
64 TTACGAAGTAAAAAATAACGTATTCTCGAAAAAAAAAAGAAATCTCAAGGAAAAAATTAAAAACT
692676 AAAGAAAATGAAGGAATTTTTGAAAAATAATTTAATGTGAC
129 AAAGAAAATGAAGGAATTTTTGAAAAATAATTTAATGTGAC
* * *
692717 ATAAATACTAATAATTGATGAATTTTAAAAAATAAAAACCAAGAAAAATCCTCT-CTAAAAAAAT
1 ATAAATAATAATAATTGATGAATTTCAAAAAATAAAAACCAAGAAAAAT-CTATACTAAAAAAAT
*
692781 TACGAAGTAGAAAATAACGTATT-TCG-AAAAAAAAAGAAATCTCAAGGAAAAAAATTAAAAACT
65 TACGAAGTAAAAAATAACGTATTCTCGAAAAAAAAAAGAAATCTCAAGG-AAAAAATTAAAAACT
692844 CAAA-AAAATGAAGGAATTTTTGAAAA
129 -AAAGAAAATGAAGGAATTTTTGAAAA
692870 CTCATTTGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
167 20 0.15
168 39 0.29
169 28 0.21
171 44 0.33
172 2 0.02
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (169 bp):
ATAAATAATAATAATTGATGAATTTCAAAAAATAAAAACCAAGAAAAATCTATACTAAAAAAATT
ACGAAGTAAAAAATAACGTATTCTCGAAAAAAAAAAGAAATCTCAAGGAAAAAATTAAAAACTAA
AGAAAATGAAGGAATTTTTGAAAAATAATTTAATGTGAC
Found at i:696138 original size:13 final size:13
Alignment explanation
Indices: 696120--696145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
696110 CAATTTTTTG
696120 TGTATCGATACAT
1 TGTATCGATACAT
696133 TGTATCGATACAT
1 TGTATCGATACAT
696146 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:696894 original size:21 final size:21
Alignment explanation
Indices: 696853--696896 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
696843 CTCCCCTTTA
* *
696853 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
696874 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
696895 TC
1 TC
696897 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:700789 original size:15 final size:15
Alignment explanation
Indices: 700769--700799 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
700759 ATTTCGTTTG
*
700769 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
700784 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
700799 G
1 G
700800 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:702632 original size:21 final size:21
Alignment explanation
Indices: 702603--702647 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
702593 AAGTTTTCAT
*
702603 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
702623 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
702645 TTT
1 TTT
702648 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:704881 original size:13 final size:13
Alignment explanation
Indices: 704863--704888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704853 CATTTTTTTG
704863 TGTATCGATACAT
1 TGTATCGATACAT
704876 TGTATCGATACAT
1 TGTATCGATACAT
704889 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:711064 original size:7 final size:8
Alignment explanation
Indices: 711011--711074 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
711001 TACTTTATTA
711011 TTTTAATT
1 TTTTAATT
*
711019 TTTAAATT
1 TTTTAATT
*
711027 TTTCTTATT
1 TTT-TAATT
711036 TTTTATGATGT
1 TTTTA--AT-T
*
711047 TTTGAATT
1 TTTTAATT
*
711055 TTTTTATT
1 TTTTAATT
711063 TTTTAATT
1 TTTTAATT
711071 TTTT
1 TTTT
711075 TTATTTGAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
8 29 0.66
9 8 0.18
10 2 0.05
11 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:711066 original size:17 final size:17
Alignment explanation
Indices: 711004--711080 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 17
710994 TCTATGTTAC
711004 TTTATTATTTTAA-TTTT
1 TTTATT-TTTTAATTTTT
** *
711021 TAAATTTTTCTTATTTTT
1 TTTATTTTT-TAATTTTT
* *
711039 TATGATGTTTTGAA-TTTT
1 T-TTAT-TTTTTAATTTTT
711057 TTTATTTTTTAATTTTT
1 TTTATTTTTTAATTTTT
711074 TTTATTT
1 TTTATTT
711081 GAGATGGTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
16 9 0.20
17 20 0.43
18 10 0.22
19 3 0.07
20 4 0.09
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTATTTTTTAATTTTT
Found at i:711209 original size:26 final size:26
Alignment explanation
Indices: 711180--711229 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
711170 TCATAATTAT
711180 ATTTAAAATATT-ATATATTTATATAA
1 ATTTAAAATATTAATA-ATTTATATAA
* *
711206 ATTTTAATTATTAATAATTTATAT
1 ATTTAAAATATTAATAATTTATAT
711230 TATATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTAAAATATTAATAATTTATATAA
Found at i:711238 original size:13 final size:13
Alignment explanation
Indices: 711187--711240 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
711177 TATATTTAAA
711187 ATATTATATATTT
1 ATATTATATATTT
*
711200 ATA-TAAAT-TTT
1 ATATTATATATTT
711211 A-ATTATTAATAATTT
1 ATATTA-T-AT-ATTT
711226 ATATTATATATTT
1 ATATTATATATTT
711239 AT
1 AT
711241 TAAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
10 1 0.03
11 6 0.18
12 4 0.12
13 11 0.33
14 2 0.06
15 5 0.15
16 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:712057 original size:2 final size:2
Alignment explanation
Indices: 712050--712078 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
712040 ATGCCGAAAG
712050 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 A
712079 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:712083 original size:2 final size:2
Alignment explanation
Indices: 712078--712108 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
712068 ATATATATAT
712078 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
712109 ACTTACTTCA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:714949 original size:21 final size:21
Alignment explanation
Indices: 714925--714964 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
714915 AGTTTAATTT
714925 ATATAATTTAAATTTAAATAA
1 ATATAATTTAAATTTAAATAA
** *
714946 ATATTTTTTTAATTTAAAT
1 ATATAATTTAAATTTAAAT
714965 TAATTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATAATTTAAATTTAAATAA
Found at i:715153 original size:34 final size:33
Alignment explanation
Indices: 715115--715179 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
715105 TTCATATTCA
715115 ATAAATACAAAAAATATAATA-AATATATTTAAAC
1 ATAAATA-AAAAAA-ATAATATAATATATTTAAAC
* *
715149 ATAAATAACATAAATAATATAATATATTTAA
1 ATAAATAAAAAAAATAATATAATATATTTAA
715180 TATACATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 15 0.54
34 7 0.25
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (33 bp):
ATAAATAAAAAAAATAATATAATATATTTAAAC
Found at i:716045 original size:16 final size:16
Alignment explanation
Indices: 716014--716056 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
716004 ATGTAATTAT
716014 ATCTAA-AATTACTAG
1 ATCTAACAATTACTAG
716029 ATCTAACAATTGA-TAG
1 ATCTAACAATT-ACTAG
716045 ATCTAACAATTA
1 ATCTAACAATTA
716057 ATTTGAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (16 bp):
ATCTAACAATTACTAG
Found at i:717350 original size:15 final size:16
Alignment explanation
Indices: 717302--717389 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 16
717292 TTTAATATTT
*
717302 TTTATATTTATATATAT
1 TTTATA-TTATATATAA
717319 TTTATATCT-TA-ATAA
1 TTTATAT-TATATATAA
717334 TTTATATTATATA-AA
1 TTTATATTATATATAA
* *
717349 TTT-TGA-GATATGT-A
1 TTTAT-ATTATATATAA
717363 TTTATATTATATCATATA
1 TTTATATTATAT-ATA-A
717381 TTATATATT
1 TT-TATATT
717390 TTAAATATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
14 11 0.20
15 23 0.42
16 5 0.09
17 7 0.13
18 3 0.05
19 6 0.11
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTATATTATATATAA
Found at i:719984 original size:34 final size:32
Alignment explanation
Indices: 719946--720020 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 32
719936 ATTAACTATT
*
719946 AAATAATAAAACACAATATAATTA-ATTATATTTA
1 AAATAATAAAA-ACAAT-TAATTATATTATA-ATA
*
719980 AAATAAT-AAAACTATTAATTATATTATAATA
1 AAATAATAAAAACAATTAATTATATTATAATA
720011 AAATAATAAA
1 AAATAATAAA
720021 TGAATTCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 15 0.41
32 12 0.32
33 3 0.08
34 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATAATAAAAACAATTAATTATATTATAATA
Found at i:720431 original size:21 final size:20
Alignment explanation
Indices: 720406--720449 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
720396 TTATAAGTTA
720406 AAAATAA-AATATAAAATTTAT
1 AAAATAATAA-AT-AAATTTAT
*
720427 AAAATAATAAATAATTTTAT
1 AAAATAATAAATAAATTTAT
720447 AAA
1 AAA
720450 TATTCGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 9 0.43
22 2 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAATAAATAAATTTAT
Found at i:720971 original size:28 final size:29
Alignment explanation
Indices: 720934--720989 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
720924 ATAAATATAT
** *
720934 TTTATTAAAATTTATATAATATGTTAAAA
1 TTTATTAAAAAATATATAATATATTAAAA
720963 TTTA-TAAAAAATATATAATATATTAAA
1 TTTATTAAAAAATATATAATATATTAAA
720990 TATATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTATTAAAAAATATATAATATATTAAAA
Found at i:721001 original size:15 final size:16
Alignment explanation
Indices: 720971--721004 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
720961 AATTTATAAA
720971 AAATATATAATATATT
1 AAATATATAATATATT
*
720987 AAATATAT-TTATATT
1 AAATATATAATATATT
721002 AAA
1 AAA
721005 AAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATATAATATATT
Found at i:722189 original size:13 final size:13
Alignment explanation
Indices: 722171--722197 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
722161 TAAAATTATA
722171 TTTTTATAAATAT
1 TTTTTATAAATAT
722184 TTTTTATAAATAT
1 TTTTTATAAATAT
722197 T
1 T
722198 ATATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTATAAATAT
Found at i:722227 original size:19 final size:19
Alignment explanation
Indices: 722205--722269 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 19
722195 ATTATATTTA
722205 TTTTAATAAATTAAAATAT
1 TTTTAATAAATTAAAATAT
722224 TTTTAAATAAA--AAAAT-T
1 TTTT-AATAAATTAAAATAT
* * *
722241 ATTTAAAAAATTAATATAT
1 TTTTAATAAATTAAAATAT
722260 TTTTAA-AAAT
1 TTTTAATAAAT
722270 ATAGAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 5 0.13
17 4 0.11
18 13 0.34
19 10 0.26
20 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAATAAATTAAAATAT
Found at i:722269 original size:18 final size:18
Alignment explanation
Indices: 722179--722269 Score: 57
Period size: 19 Copynumber: 4.9 Consensus size: 18
722169 TATTTTTATA
722179 AATAT-TTTTTATAAATATT
1 AATATATTTTTA-AAA-ATT
*
722198 -ATATTTATTTTAATAAATT
1 AATATAT-TTTTAA-AAATT
*
722217 AAAATATTTTTAAATAA--
1 AATATATTTTTAAA-AATT
*
722234 AA-AAATTATTTAAAAAATT
1 AATATATT-TTT-AAAAATT
722253 AATATATTTTTAAAAAT
1 AATATATTTTTAAAAAT
722270 ATAGAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 14 0.24
19 18 0.31
20 15 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATATTTTTAAAAATT
Found at i:722489 original size:11 final size:11
Alignment explanation
Indices: 722460--722492 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
722450 AAACATAATT
*
722460 ATATAAAAATA
1 ATATAAATATA
722471 ATATAAATATA
1 ATATAAATATA
722482 ATATAAATATA
1 ATATAAATATA
722493 TTAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAAATATA
Found at i:722554 original size:26 final size:28
Alignment explanation
Indices: 722482--722562 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 28
722472 TATAAATATA
*
722482 ATATAAATATATTAATATATTAAAATTT
1 ATATAAATATATTAATATTTTAAAATTT
*
722510 ATTTAAATAAATTATTAATATTTTAAAA-TT
1 ATATAAAT--A-TATTAATATTTTAAAATTT
722540 ATATAAATATA-TAATATTTTAAA
1 ATATAAATATATTAATATTTTAAA
722563 TATATTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
26 12 0.26
27 2 0.04
28 8 0.17
30 10 0.21
31 15 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATAAATATATTAATATTTTAAAATTT
Found at i:723391 original size:16 final size:16
Alignment explanation
Indices: 723370--723405 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
723360 TACAGTTTCT
*
723370 TATTTTTTATTTTTTA
1 TATTTTATATTTTTTA
723386 TATTTTATATTTTTTA
1 TATTTTATATTTTTTA
723402 -ATTT
1 TATTT
723406 ATAAGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTATATTTTTTA
Found at i:723641 original size:15 final size:15
Alignment explanation
Indices: 723621--723655 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
723611 TAAAATTAAG
*
723621 TTATTATTTAAATTA
1 TTATTAATTAAATTA
*
723636 TTATTAATTAATTTA
1 TTATTAATTAAATTA
723651 TTATT
1 TTATT
723656 CAATCAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTAATTAAATTA
Found at i:724500 original size:24 final size:23
Alignment explanation
Indices: 724434--724502 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
724424 AAAAAATATT
*
724434 TTATTAATAAA-TATTTATTAAA
1 TTATTAATAAAGTATTTATGAAA
* * *
724456 ATA-TAAAAAAGTGAATT-TGAATA
1 TTATTAATAAAGT-ATTTATGAA-A
724479 TTATTAATAAAGTATTTATGAAA
1 TTATTAATAAAGTATTTATGAAA
724502 T
1 T
724503 GAAATTAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 11 0.31
24 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
TTATTAATAAAGTATTTATGAAA
Found at i:725214 original size:12 final size:12
Alignment explanation
Indices: 725199--725267 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
725189 GTTAAATATT
*
725199 TATTTAATTTTA
1 TATTTAATTTAA
725211 TATTTTAATTTAA
1 TA-TTTAATTTAA
*
725224 TTTTTAATTTAA
1 TATTTAATTTAA
* *
725236 TATTTAAATAAA
1 TATTTAATTTAA
* *
725248 AATTTTAATTTTA
1 TA-TTTAATTTAA
725261 TATTTAA
1 TATTTAA
725268 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 27 0.60
13 18 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTAATTTAA
Found at i:725219 original size:13 final size:13
Alignment explanation
Indices: 725201--725271 Score: 74
Period size: 13 Copynumber: 5.6 Consensus size: 13
725191 TAAATATTTA
*
725201 TTTAATTTTATAT
1 TTTAATTTAATAT
725214 TTTAATTTAAT-T
1 TTTAATTTAATAT
725226 TTTAATTTAATA-
1 TTTAATTTAATAT
* * *
725238 TTTAAATAAAAAT
1 TTTAATTTAATAT
*
725251 TTTAATTTTATAT
1 TTTAATTTAATAT
*
725264 TTAAATTT
1 TTTAATTT
725272 TTTATTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 21 0.45
13 26 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTAATTTAATAT
Found at i:725223 original size:18 final size:17
Alignment explanation
Indices: 725196--725236 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
725186 AAGGTTAAAT
725196 ATTT-ATTTAATTTTATA
1 ATTTAATTTAATTTT-TA
*
725213 TTTTAATTTAATTTTTA
1 ATTTAATTTAATTTTTA
725230 ATTTAAT
1 ATTTAAT
725237 ATTTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTAATTTAATTTTTA
Found at i:725229 original size:25 final size:25
Alignment explanation
Indices: 725201--725271 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
725191 TAAATATTTA
* *
725201 TTTAATTTTATATTTTAATTTAATT
1 TTTAATTTTATATTTAAATTTAAAT
* **
725226 TTTAATTTAATATTTAAATAAAAAT
1 TTTAATTTTATATTTAAATTTAAAT
725251 TTTAATTTTATATTTAAATTT
1 TTTAATTTTATATTTAAATTT
725272 TTTATTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTAATTTTATATTTAAATTTAAAT
Found at i:725272 original size:13 final size:13
Alignment explanation
Indices: 725190--725278 Score: 60
Period size: 13 Copynumber: 7.2 Consensus size: 13
725180 TAAAATAAGG
*
725190 TTAAATATT-TAT
1 TTAAATTTTATAT
725202 TT-AATTTTATAT
1 TTAAATTTTATAT
* *
725214 TTTAATTTAAT-T
1 TTAAATTTTATAT
* *
725226 TTTAATTTAATAT
1 TTAAATTTTATAT
** *
725239 TTAAA-TAAAAAT
1 TTAAATTTTATAT
*
725251 TTTAATTTTATAT
1 TTAAATTTTATAT
*
725264 TTAAATTTTTTAT
1 TTAAATTTTATAT
725277 TT
1 TT
725279 TTTTTAAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
11 5 0.08
12 28 0.45
13 29 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAAATTTTATAT
Found at i:727294 original size:33 final size:33
Alignment explanation
Indices: 727257--727323 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
727247 TTCAACGATC
727257 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
727290 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
727323 T
1 T
727324 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:727295 original size:13 final size:13
Alignment explanation
Indices: 727277--727301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
727267 CATAAAATGT
727277 TGTATCGATACAA
1 TGTATCGATACAA
727290 TGTATCGATACA
1 TGTATCGATACA
727302 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:727385 original size:13 final size:13
Alignment explanation
Indices: 727367--727391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
727357 ATTACTCACA
727367 TGTATCGATACAT
1 TGTATCGATACAT
727380 TGTATCGATACA
1 TGTATCGATACA
727392 CTGATCTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:727527 original size:52 final size:52
Alignment explanation
Indices: 727399--727519 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
727389 ACACTGATCT
*
727399 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
727451 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
727503 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
727520 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:731133 original size:25 final size:25
Alignment explanation
Indices: 731105--731152 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
731095 TCTCAATTGA
731105 AAATTTTTATAATTAAGAATTTTTT
1 AAATTTTTATAATTAAGAATTTTTT
*
731130 AAATTTTTGTAATTAAGAATTTT
1 AAATTTTTATAATTAAGAATTTT
731153 AAATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (25 bp):
AAATTTTTATAATTAAGAATTTTTT
Found at i:732998 original size:13 final size:13
Alignment explanation
Indices: 732980--733006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
732970 AGAGACATCT
732980 TAAATGATCTTAA
1 TAAATGATCTTAA
732993 TAAATGATCTTAA
1 TAAATGATCTTAA
733006 T
1 T
733007 TATGGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAATGATCTTAA
Found at i:733632 original size:153 final size:153
Alignment explanation
Indices: 733475--733761 Score: 400
Period size: 153 Copynumber: 1.9 Consensus size: 153
733465 AGGTTATTGG
733475 GATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTT-TCACAACCGAGTCCTAA
1 GATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTTCT-ACAACCGAGTCCTAA
* * ** *
733539 GTTACCACCGTATTGCTTTTATG-CTAAAGGTGTACATTTA-AGATAGGTTTGGCCTTTTACAAT
65 GTTACCACCGGATTGCTTTTATGTC-AAAGGTATACATTTAGA-ATAAATTTGACCTTTTACAAT
733602 TTTTTCGTATCCTTTAGGGTTACCAA
128 TTTTTCGTATCCTTTAGGGTTACCAA
** *** * *
733628 GATATTTTCACGTCGAAGGTATGTCCGTGGGCATTTTGGTAATTTTTCTATAACCGAGTCCTAGG
1 GATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTTCTACAACCGAGTCCTAAG
* *
733693 TTGCCACCGGATTGCTTTTATGTCAAAGGTATACATTTAGAATAAATTTGACTTTTTACAATTTT
66 TTACCACCGGATTGCTTTTATGTCAAAGGTATACATTTAGAATAAATTTGACCTTTTACAATTTT
733758 TTCG
131 TTCG
733762 CGTCTTTTAA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
153 114 0.97
154 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (153 bp):
GATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTTCTACAACCGAGTCCTAAG
TTACCACCGGATTGCTTTTATGTCAAAGGTATACATTTAGAATAAATTTGACCTTTTACAATTTT
TTCGTATCCTTTAGGGTTACCAA
Found at i:733776 original size:153 final size:153
Alignment explanation
Indices: 733457--733776 Score: 394
Period size: 153 Copynumber: 2.1 Consensus size: 153
733447 TCATTTTTGT
****
733457 GTCTTTTAAGGTTATTGGGATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTT
1 GTCTTTTAAGGTTACCAAGATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTT
* * **
733522 TCACAACCGAGTCCTAAGTTACCACCGTATTGCTTTTATGCTAAAGGTGTACATTTAAGATAGGT
66 TCACAACCGAGTCCTAAGTTACCACCGGATTGCTTTTATGCTAAAGGTATACATTTAAGATAAAT
* *
733587 TTGGCCTTTTACAATTTTTTCGT
131 TTGACCTTTTACAATTTTTTCGC
* * * ** ***
733610 ATCCTTTAGGGTTACCAAGATATTTTCACGTCGAAGGTATGTCCGTGGGCATTTTGGTAA-TTTT
1 GTCTTTTAAGGTTACCAAGATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTT
* * *
733674 TCTATAACCGAGTCCTAGGTTGCCACCGGATTGCTTTTATG-TCAAAGGTATACATTT-AGAATA
66 TC-ACAACCGAGTCCTAAGTTACCACCGGATTGCTTTTATGCT-AAAGGTATACATTTAAG-ATA
*
733737 AATTTGACTTTTTACAATTTTTTCGC
128 AATTTGACCTTTTACAATTTTTTCGC
733763 GTCTTTTAAGGTTA
1 GTCTTTTAAGGTTA
733777 TTGGATTCTT
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
152 9 0.06
153 130 0.94
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (153 bp):
GTCTTTTAAGGTTACCAAGATATTTTCACGTCGAAGGTATACCCAAAGGCATTTTGGTAATTTTT
TCACAACCGAGTCCTAAGTTACCACCGGATTGCTTTTATGCTAAAGGTATACATTTAAGATAAAT
TTGACCTTTTACAATTTTTTCGC
Found at i:735571 original size:2 final size:2
Alignment explanation
Indices: 735564--735594 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
735554 CAATTTCTCT
735564 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
735595 TAAGAGTTAC
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:737286 original size:3 final size:3
Alignment explanation
Indices: 737273--737305 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
737263 TTCCCTCTCT
737273 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TT
737306 GAAAACCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:737321 original size:6 final size:6
Alignment explanation
Indices: 737312--737349 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
737302 TCTTGAAAAC
*
737312 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTGCTG CT
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CT
737350 ACGTTGCCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.34, G:0.18, T:0.47
Consensus pattern (6 bp):
CTTCTG
Found at i:744634 original size:41 final size:41
Alignment explanation
Indices: 744582--744663 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
744572 TTTTAAATGA
744582 CCCATGCTTCTTGATGTTGTTCATTGCTGCTATTTTAAGCT
1 CCCATGCTTCTTGATGTTGTTCATTGCTGCTATTTTAAGCT
* *
744623 CCCATGTTTCTTGATGTTGTTCATTGCTGGTATTTTAAGCT
1 CCCATGCTTCTTGATGTTGTTCATTGCTGCTATTTTAAGCT
744664 TGAAAATCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.48
Consensus pattern (41 bp):
CCCATGCTTCTTGATGTTGTTCATTGCTGCTATTTTAAGCT
Found at i:750363 original size:24 final size:25
Alignment explanation
Indices: 750331--750378 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
750321 ATTTGAATTT
*
750331 CTTTGATGAATG-AAATTATGTTTG
1 CTTTCATGAATGCAAATTATGTTTG
* *
750355 CTTTCATGACTGCAATTTATGTTT
1 CTTTCATGAATGCAAATTATGTTT
750379 ACCTTGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (25 bp):
CTTTCATGAATGCAAATTATGTTTG
Found at i:750608 original size:21 final size:22
Alignment explanation
Indices: 750582--750626 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
750572 ATGAGTACTA
750582 AATTTGTTT-TATAAAGG-GGAG
1 AATTTGTTTCT-TAAAGGAGGAG
750603 AATTTGTTTCTTAAAGGAGGAG
1 AATTTGTTTCTTAAAGGAGGAG
750625 AA
1 AA
750627 GTTTCTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (22 bp):
AATTTGTTTCTTAAAGGAGGAG
Found at i:750668 original size:76 final size:76
Alignment explanation
Indices: 750542--750685 Score: 243
Period size: 76 Copynumber: 1.9 Consensus size: 76
750532 ATGTTAAAGG
* * * *
750542 GGAGGAGAAGTTTCTTAAAGGGGGAGAAGTATGAGTACTAAATTTGTTTTATAAAGGGGAGAATT
1 GGAGGAGAAGTTTCTTAAAAGGGGAAAAGTATGAGTACTAAATTTGTTTTATAAAAGGAAGAATT
750607 TGTTTCTTAAA
66 TGTTTCTTAAA
*
750618 GGAGGAGAAGTTTCTTAAAATGGGAAAAGTATGAGTACTAAATTTGTTTTATAAAAGGAAGAATT
1 GGAGGAGAAGTTTCTTAAAAGGGGAAAAGTATGAGTACTAAATTTGTTTTATAAAAGGAAGAATT
750683 TGT
66 TGT
750686 ATAATATATT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (76 bp):
GGAGGAGAAGTTTCTTAAAAGGGGAAAAGTATGAGTACTAAATTTGTTTTATAAAAGGAAGAATT
TGTTTCTTAAA
Found at i:750815 original size:25 final size:25
Alignment explanation
Indices: 750774--750821 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
750764 AGAAGGATAA
*
750774 TTTGTTAAGGGAAAGTATTAAATAT
1 TTTGTTAAGGGAAAGTACTAAATAT
**
750799 TTTGTTAAGGGGGAGTACTAAAT
1 TTTGTTAAGGGAAAGTACTAAAT
750822 TGAAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (25 bp):
TTTGTTAAGGGAAAGTACTAAATAT
Found at i:751528 original size:32 final size:33
Alignment explanation
Indices: 751465--751529 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
751455 CAGTCCCAGA
*
751465 TGTATCAATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCAATACAT
* *
751498 TGTATCAATACATGTT-CTTAGTATTAATACAT
1 TGTATCAATACATATTGCTTAGTATCAATACAT
751530 ATTGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTAGTATCAATACAT
Found at i:751613 original size:33 final size:34
Alignment explanation
Indices: 751576--751657 Score: 112
Period size: 38 Copynumber: 2.3 Consensus size: 34
751566 AAAACTCACT
*
751576 TTGTATCGATA-TAAAGTATCATACATACTTAAA
1 TTGTATTGATATTAAAGTATCATACATACTTAAA
751609 TTGTATTGATACATTTTAAAGTATCATACATACTTAAA
1 TTGTATTGAT--A--TTAAAGTATCATACATACTTAAA
751647 TTGTATTGATA
1 TTGTATTGATA
751658 CATTGTGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 9 0.21
35 1 0.02
36 1 0.02
38 32 0.74
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (34 bp):
TTGTATTGATATTAAAGTATCATACATACTTAAA
Found at i:751620 original size:21 final size:21
Alignment explanation
Indices: 751596--751660 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
751586 ATAAAGTATC
751596 ATACATACTTAAATTGTATTG
1 ATACATACTTAAATTGTATTG
* *
751617 ATACAT-TTTAAA--GTA-TC
1 ATACATACTTAAATTGTATTG
751634 ATACATACTTAAATTGTATTG
1 ATACATACTTAAATTGTATTG
751655 ATACAT
1 ATACAT
751661 TGTGAAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.19
18 8 0.22
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (21 bp):
ATACATACTTAAATTGTATTG
Found at i:751638 original size:38 final size:39
Alignment explanation
Indices: 751587--751680 Score: 154
Period size: 38 Copynumber: 2.4 Consensus size: 39
751577 TGTATCGATA
751587 TAAAGTATCATACATACTTAAATTGTATTGATACATT-T
1 TAAAGTATCATACATACTTAAATTGTATTGATACATTGT
751625 TAAAGTATCATACATACTTAAATTGTATTGATACATTGT
1 TAAAGTATCATACATACTTAAATTGTATTGATACATTGT
*
751664 GAAATGTATCGATACAT
1 TAAA-GTATC-ATACAT
751681 TGAGCCCAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.71
39 4 0.08
40 5 0.10
41 6 0.12
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (39 bp):
TAAAGTATCATACATACTTAAATTGTATTGATACATTGT
Found at i:751645 original size:18 final size:18
Alignment explanation
Indices: 751587--751646 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
751577 TGTATCGATA
751587 TAAAGTATCATACATACT
1 TAAAGTATCATACATACT
* *
751605 TAAATTGTATTGATACAT-TT
1 TAAA--GTA-TCATACATACT
751625 TAAAGTATCATACATACT
1 TAAAGTATCATACATACT
751643 TAAA
1 TAAA
751647 TTGTATTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.21
18 12 0.35
20 8 0.24
21 7 0.21
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAAGTATCATACATACT
Found at i:751682 original size:20 final size:20
Alignment explanation
Indices: 751587--751682 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
751577 TGTATCGATA
**
751587 TAAA-GTATC-ATACATACT
1 TAAATGTATCGATACATTGT
*
751605 TAAATTGTATTGATACATT-T
1 TAAA-TGTATCGATACATTGT
**
751625 TAAA-GTATC-ATACATACT
1 TAAATGTATCGATACATTGT
*
751643 TAAATTGTATTGATACATTGT
1 TAAA-TGTATCGATACATTGT
*
751664 GAAATGTATCGATACATTG
1 TAAATGTATCGATACATTG
751683 AGCCCAACAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
17 6 0.10
18 13 0.21
20 27 0.44
21 16 0.26
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (20 bp):
TAAATGTATCGATACATTGT
Found at i:752059 original size:15 final size:15
Alignment explanation
Indices: 752035--752070 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
752025 GCATTTTGAG
*
752035 TTTGTAAAATCTTTT
1 TTTGTTAAATCTTTT
752050 TTTGTTAAATCTTTT
1 TTTGTTAAATCTTTT
752065 TTTGTT
1 TTTGTT
752071 GTAAAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (15 bp):
TTTGTTAAATCTTTT
Found at i:755047 original size:15 final size:17
Alignment explanation
Indices: 755027--755058 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
755017 TAAAAATATT
755027 TGTT-AACATT-TTAAA
1 TGTTAAACATTATTAAA
755042 TGTTAAACATTATTAAA
1 TGTTAAACATTATTAAA
755059 ATATACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 6 0.40
17 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TGTTAAACATTATTAAA
Found at i:755470 original size:18 final size:18
Alignment explanation
Indices: 755447--755481 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
755437 TGAAATGACA
*
755447 AAAAAAAAATAAAAAAAT
1 AAAAAAAAAGAAAAAAAT
755465 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
755482 AATTGGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAT
Found at i:755471 original size:20 final size:20
Alignment explanation
Indices: 755446--755484 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
755436 ATGAAATGAC
*
755446 AAAAAAAAA-ATAAAAAAAT
1 AAAAAAAAAGAAAAAAAAAT
755465 AAAAAAAAAGAAAAAAAAAT
1 AAAAAAAAAGAAAAAAAAAT
755485 TGGAGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAAAT
Done.