Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 54 of 362
Found at i:16139409 original size:20 final size:20
Alignment explanation
Indices: 16139386--16139425 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16139376 AATTAAATTG
*
16139386 AATTGTAAT-TATATGTGAAT
1 AATTGAAATGTATAT-TGAAT
16139406 AATTGAAATGTATATTGAAT
1 AATTGAAATGTATATTGAAT
16139426 TGAGAAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (20 bp):
AATTGAAATGTATATTGAAT
Found at i:16139733 original size:38 final size:38
Alignment explanation
Indices: 16139691--16139763 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
16139681 ACTGGGTACC
16139691 ACTTTACTTCG-ACTAGGCTGATGAGACACTGGGTGTCA
1 ACTTTACTTCGAACTA-GCTGATGAGACACTGGGTGTCA
** * *
16139729 ACTTTGTTTCGAACTATCTGATGAGGCACTGGGTG
1 ACTTTACTTCGAACTAGCTGATGAGACACTGGGTG
16139764 CCACACTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 26 0.87
39 4 0.13
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (38 bp):
ACTTTACTTCGAACTAGCTGATGAGACACTGGGTGTCA
Found at i:16150401 original size:74 final size:74
Alignment explanation
Indices: 16150317--16150467 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 74
16150307 GCTGATATGT
*
16150317 TTTAAATACTTCAAAACTCATACCTTGCTTACCTTTTGGCAAAGGCGAATGACGATCGTTGAAAA
1 TTTAAATACTTCAAAACTCATACCTTGCTTACCTTTTGGCAAAGGCGAACGACGATCGTTGAAAA
16150382 TGTTACCTC
66 TGTTACCTC
16150391 TTTAAATACTTCAAAACTCATACCTTGCTTACCTTTTGGCAAAGGCGAACGACGATCGTTGAAAA
1 TTTAAATACTTCAAAACTCATACCTTGCTTACCTTTTGGCAAAGGCGAACGACGATCGTTGAAAA
16150456 TGTTACCTC
66 TGTTACCTC
16150465 TTT
1 TTT
16150468 CAGTCAACAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (74 bp):
TTTAAATACTTCAAAACTCATACCTTGCTTACCTTTTGGCAAAGGCGAACGACGATCGTTGAAAA
TGTTACCTC
Found at i:16150743 original size:6 final size:6
Alignment explanation
Indices: 16150734--16150779 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
16150724 ACTCTCTATC
* *
16150734 TCTTTT TCTTTT TCCTTT TCTTTT TCTTTT TCAATTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT TCT
16150780 CATTCTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:16150755 original size:18 final size:19
Alignment explanation
Indices: 16150734--16150779 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
16150724 ACTCTCTATC
*
16150734 TCTTTTTCTTTTTC-CTTT
1 TCTTTTTCTTTTTCAATTT
16150752 TCTTTTTCTTTTTCAATTT
1 TCTTTTTCTTTTTCAATTT
16150771 TCTTTTTCT
1 TCTTTTTCT
16150780 CATTCTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTTTCTTTTTCAATTT
Found at i:16150798 original size:13 final size:12
Alignment explanation
Indices: 16150732--16150798 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 12
16150722 TCACTCTCTA
16150732 TCTCTTTTTCTT
1 TCTCTTTTTCTT
* *
16150744 TTTCCTTTTCTT
1 TCTCTTTTTCTT
*
16150756 TTTCTTTTTCAATT
1 TCTCTTTTTC--TT
16150770 T-TCTTTTTCTCAT
1 TCTCTTTTTCT--T
16150783 TCTCTTTTTGCTT
1 TCTCTTTTT-CTT
16150796 TCT
1 TCT
16150799 TTCACACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.02
12 19 0.41
13 14 0.30
14 10 0.22
15 2 0.04
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.72
Consensus pattern (12 bp):
TCTCTTTTTCTT
Found at i:16158936 original size:27 final size:27
Alignment explanation
Indices: 16158906--16158959 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
16158896 ATTATTGCAT
*
16158906 ACTGTATCTG-ATGGGGCTAAGGCCCAA
1 ACTGAATCTGAAT-GGGCTAAGGCCCAA
*
16158933 ACTGAATCTGTAATGGGCTCAGGCCCA
1 ACTGAATCTG-AATGGGCTAAGGCCCA
16158960 GCCTATATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 12 0.52
29 2 0.09
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (27 bp):
ACTGAATCTGAATGGGCTAAGGCCCAA
Found at i:16166122 original size:49 final size:50
Alignment explanation
Indices: 16165996--16166230 Score: 175
Period size: 49 Copynumber: 4.8 Consensus size: 50
16165986 CCTTAGGATC
** * * *
16165996 AAAACCATCATT-TTCAGTCTATCTAGGATGGTAAGATATG-CAAATAGTA
1 AAAACCATCATTGTTGGGTC-ATCTGGGATGGTAAAATATGACAAATAGTG
* ** * * *
16166045 AAAACCATCGTT-TCTAAGTCACCCGGGATGGTAAAATGTGA-AAATAGTG
1 AAAACCATCATTGT-TGGGTCATCTGGGATGGTAAAATATGACAAATAGTG
* *
16166094 AAAACCATCATTGTTGGGTCATCTGGGATGGTAGAATATCGATATAAT-G-G
1 AAAACCATCATTGTTGGGTCATCTGGGATGGTAAAATAT-GACA-AATAGTG
* * * *
16166144 AAAA-CATCATTGTCGGGTCCT-TCGAGATGGTAAAATAT-ACAGATAGTG
1 AAAACCATCATTGTTGGGTCATCT-GGGATGGTAAAATATGACAAATAGTG
* *
16166192 AAAGCCATCATTGTCT-GGTCATCTGGGATGGTAGAATAT
1 AAAACCATCATTGT-TGGGTCATCTGGGATGGTAAAATAT
16166231 CAAAATGTGT
Statistics
Matches: 148, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 5 0.03
49 119 0.80
50 14 0.09
51 2 0.01
52 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (50 bp):
AAAACCATCATTGTTGGGTCATCTGGGATGGTAAAATATGACAAATAGTG
Found at i:16166864 original size:26 final size:26
Alignment explanation
Indices: 16166835--16166899 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
16166825 GGTTATAATG
* *
16166835 TTGAATTGGTTGATTTGGTACACAAA
1 TTGATTTGGATGATTTGGTACACAAA
*
16166861 TTGATTTGGATGATTTGGTATACAAA
1 TTGATTTGGATGATTTGGTACACAAA
16166887 TTGATTTGGATGA
1 TTGATTTGGATGA
16166900 ATGTTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.42
Consensus pattern (26 bp):
TTGATTTGGATGATTTGGTACACAAA
Found at i:16167477 original size:45 final size:45
Alignment explanation
Indices: 16167418--16167556 Score: 224
Period size: 45 Copynumber: 3.1 Consensus size: 45
16167408 ACTGCTACTG
* * *
16167418 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
*
16167463 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTATTGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
* *
16167508 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
16167553 TTAC
1 TTAC
16167557 TGTTATTGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
Found at i:16167549 original size:51 final size:50
Alignment explanation
Indices: 16167418--16167595 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 50
16167408 ACTGCTACTG
* * *
16167418 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTAC-----TGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
16167463 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTA----T-TGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
* * **
16167508 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTA-TGTTACCA
** * * *
16167559 TTATTGATTCGACACTTTGTGTGTCGAGTACTGTTAC
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
16167596 CATTACTGTT
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
45 76 0.67
49 1 0.01
51 36 0.32
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (50 bp):
TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
Found at i:16167594 original size:90 final size:87
Alignment explanation
Indices: 16167418--16167601 Score: 203
Period size: 90 Copynumber: 2.0 Consensus size: 87
16167408 ACTGCTACTG
*
16167418 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGGCACTTTGT
1 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGT
*
16167483 GTGTCGAATATTGTTATTGTTACCA
66 GTGTCG-A-A-TGTTACTGTTACCA
* * * **
16167508 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTGTTATTGATTCGACA
1 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACC---A---TTACCGATTCGACA
16167573 CTTTGTGTGTCG-A-G-TACTGTTACCA
60 CTTTGTGTGTCGAATGTTACTGTTACCA
16167598 TTAC
1 TTAC
16167602 TGTTACAGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
90 55 0.68
91 1 0.01
93 2 0.02
96 23 0.28
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (87 bp):
TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGT
GTGTCGAATGTTACTGTTACCA
Found at i:16167619 original size:96 final size:90
Alignment explanation
Indices: 16167429--16167652 Score: 214
Period size: 96 Copynumber: 2.4 Consensus size: 90
16167419 TACCAATTGG
* *
16167429 GCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGGCACTTTGTGTGTCGAATAT
1 GCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGTGTGTCGAATAC
*** * **
16167494 TGTTATTGTTACCATTACCGATTTG
66 TGTTACCATTACCATTACAGATTCA
* **
16167519 GCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTGTTATTGATTCGACACTTTGTGTGTC
1 GCACTTTGTATGTCGAATATTGTTACTGTTACC---A---TTACCGATTCGACACTTTGTGTGTC
* **
16167584 GAGTACTGTTACCATTACTGTTACAGATTCA
60 GAATACTGTTACCATTACCATTACAGATTCA
* * ** * *
16167615 GCACTTTTTTTGTTAAATACTGTTACTGTTACTATTAC
1 GCACTTTGTATGTCGAATATTGTTACTGTTACCATTAC
16167653 TGCTACCGTT
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
90 35 0.33
93 2 0.02
96 70 0.65
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (90 bp):
GCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGTGTGTCGAATAC
TGTTACCATTACCATTACAGATTCA
Found at i:16167643 original size:6 final size:6
Alignment explanation
Indices: 16167632--16167675 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
16167622 TTTTGTTAAA
* * *
16167632 TACTGT TACTGT TACTAT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
16167676 TAGGTATTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:16167647 original size:45 final size:45
Alignment explanation
Indices: 16167413--16167652 Score: 133
Period size: 45 Copynumber: 5.2 Consensus size: 45
16167403 CCGCTACTGC
* * * * * *
16167413 TACTGTTACCA-ATTGGGCACTTTGTATGTCGAATATTGTTACTGT
1 TACTGTTA-CAGATTCGACACTTTGTGTGTCAAATACTGTTACCGT
** * * * * **
16167458 TACCATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTATTGT
1 TACTGTTACAGATTCGACACTTTGTGTGTCAAATACTGTTACCGT
** * * *
16167503 TACCATTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGT
1 TACTGTTACAGATTCGACACTTTGTGTGTC-AA-A----TACTGTTACCGT
** * * *
16167554 TACTGTTATTGATTCGACACTTTGTGTGTCGAGTACTGTTACCAT
1 TACTGTTACAGATTCGACACTTTGTGTGTCAAATACTGTTACCGT
* * * *
16167599 TACTGTTACAGATTC-AGCACTTTTTTTGTTAAATACTGTTACTGT
1 TACTGTTACAGATTCGA-CACTTTGTGTGTCAAATACTGTTACCGT
*
16167644 TACTATTAC
1 TACTGTTAC
16167653 TGCTACCGTT
Statistics
Matches: 157, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.01
45 119 0.76
46 1 0.01
47 1 0.01
50 1 0.01
51 33 0.21
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCAAATACTGTTACCGT
Found at i:16167663 original size:18 final size:19
Alignment explanation
Indices: 16167632--16167673 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16167622 TTTTGTTAAA
* *
16167632 TACTGTTACTGTTACT-AT
1 TACTGCTACCGTTACTGAT
16167650 TACTGCTACCGTTACTGAT
1 TACTGCTACCGTTACTGAT
16167669 TACTG
1 TACTG
16167674 TTTAGGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (19 bp):
TACTGCTACCGTTACTGAT
Found at i:16169829 original size:17 final size:19
Alignment explanation
Indices: 16169789--16169829 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
16169779 ACATAAAAAT
16169789 TATATAAAAATATTTTTAA
1 TATATAAAAATATTTTTAA
*
16169808 AATAT-AAAATA-TTTTAA
1 TATATAAAAATATTTTTAA
16169825 TATAT
1 TATAT
16169830 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAAAAATATTTTTAA
Found at i:16178654 original size:53 final size:54
Alignment explanation
Indices: 16178597--16178846 Score: 330
Period size: 53 Copynumber: 4.6 Consensus size: 54
16178587 AACTTACCAT
*
16178597 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATC-AA
* * *
16178650 TGCCATG-CATTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCGA
1 TGCCATGTC-TTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAA
*
16178705 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * *
16178758 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * *
16178812 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
16178847 ATCTTACCAA
Statistics
Matches: 174, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
52 3 0.02
53 82 0.47
54 43 0.25
55 42 0.24
56 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
Found at i:16178795 original size:108 final size:107
Alignment explanation
Indices: 16178597--16178846 Score: 360
Period size: 108 Copynumber: 2.3 Consensus size: 107
16178587 AACTTACCAT
* *
16178597 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACTAATGCCATGCATTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATTG
* *
16178662 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCGA
66 ACATGGTCTTACATGGGACCTTTGCCTTATAG-AACTCATCAA
16178705 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGTC-TT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATG-CATT
*** *
16178769 GACATGGTCTTACATGATTTCC-TTGCCTTATAGAACTTATCAA
65 GACATGGTCTTACATG-GGACCTTTGCCTTATAGAACTCATCAA
* * *
16178812 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
16178847 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
107 40 0.31
108 86 0.67
109 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (107 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATTG
ACATGGTCTTACATGGGACCTTTGCCTTATAGAACTCATCAA
Found at i:16178877 original size:47 final size:47
Alignment explanation
Indices: 16178825--16178946 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
16178815 CATGCCTTGG
* * *
16178825 CATGGTCTTACATGATATCCTTATCTTACCAAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
16178872 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
16178919 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
16178947 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:16179134 original size:44 final size:44
Alignment explanation
Indices: 16179085--16179168 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
16179075 TCCTTAATAG
* * *
16179085 TCAATTCCTCTTTAAATGCCATGTTATGAA-CATGGAATTTTTCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGAATTTTTCA
* *
16179129 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGAATTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTT
16179169 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTTTTCA
Found at i:16180586 original size:14 final size:15
Alignment explanation
Indices: 16180558--16180598 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
16180548 CAAAAAAATC
*
16180558 TATTTTT-TTAATAT
1 TATTTTTCTTATTAT
16180572 T-TTTTTCTTATTAT
1 TATTTTTCTTATTAT
*
16180586 TATTTTCCTTATT
1 TATTTTTCTTATT
16180599 TTGCTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTCTTATTAT
Found at i:16180865 original size:12 final size:12
Alignment explanation
Indices: 16180830--16180867 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
16180820 GTTTATATAT
*
16180830 ATATTAAAATT-
1 ATATAAAAATTA
16180841 ATATAAAAA-TA
1 ATATAAAAATTA
16180852 ATATAAAAATTA
1 ATATAAAAATTA
16180864 ATAT
1 ATAT
16180868 GGGCAGGCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:16186890 original size:32 final size:32
Alignment explanation
Indices: 16186849--16186911 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
16186839 TCGCAGAAAC
16186849 AGACGAGAAATAAGGCGAAGCCTAAGATACAT
1 AGACGAGAAATAAGGCGAAGCCTAAGATACAT
16186881 AGACGAGAAATAAGGCGAAGCCTAAGATACA
1 AGACGAGAAATAAGGCGAAGCCTAAGATACA
16186912 CAGAGGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.25, T:0.11
Consensus pattern (32 bp):
AGACGAGAAATAAGGCGAAGCCTAAGATACAT
Found at i:16194312 original size:60 final size:60
Alignment explanation
Indices: 16194219--16194333 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
16194209 GTCAGTCAAG
*
16194219 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCGTACATATGCTAGGCTGA
1 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCGTACACATGCTAGGCTGA
*
16194279 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACTGTACACATGCTAG
1 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCGTACACATGCTAG
16194334 TATATTCAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (60 bp):
ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCGTACACATGCTAGGCTGA
Found at i:16205661 original size:15 final size:15
Alignment explanation
Indices: 16205641--16205672 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16205631 ACAAAATATA
*
16205641 AATAAAGATAAAAAT
1 AATAAAAATAAAAAT
16205656 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
16205671 AA
1 AA
16205673 ATAATAGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:16205664 original size:21 final size:22
Alignment explanation
Indices: 16205616--16205678 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
16205606 TATTAAATGG
* * *
16205616 AAATAAAAAGTAATTACAAAATAT
1 AAATAAAAA-TAAATA-ATAATAA
*
16205640 AAATAAAGATAAA-AATAATAA
1 AAATAAAAATAAATAATAATAA
16205661 AAATAAAAATAAATAATA
1 AAATAAAAATAAATAATA
16205679 GGTGTTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 17 0.52
22 5 0.15
23 3 0.09
24 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (22 bp):
AAATAAAAATAAATAATAATAA
Found at i:16206071 original size:14 final size:14
Alignment explanation
Indices: 16206052--16206079 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16206042 TGGCAACTTA
16206052 TCGCATCTCGTGTT
1 TCGCATCTCGTGTT
16206066 TCGCATCTCGTGTT
1 TCGCATCTCGTGTT
16206080 GGGGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.21, T:0.43
Consensus pattern (14 bp):
TCGCATCTCGTGTT
Found at i:16219509 original size:21 final size:20
Alignment explanation
Indices: 16219480--16219521 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
16219470 TGTAAAAGTT
*
16219480 ATTTATCTATCATGAATATTTC
1 ATTTATCTACCAT-AA-ATTTC
16219502 ATTT-TCTACCATAAATTTC
1 ATTTATCTACCATAAATTTC
16219521 A
1 A
16219522 AATTTTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 7 0.37
22 4 0.21
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTATCTACCATAAATTTC
Found at i:16222642 original size:42 final size:43
Alignment explanation
Indices: 16222535--16222702 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 43
16222525 CAAAAAGCTC
* * * * * *
16222535 ATACAATGCCAACGTCCTAGAC-GAGGTCTTAAATGTAATCAA
1 ATACGATGCCAACGTCCTAGACAGAGGTCTTACACGAAATTAT
16222577 ATATCGATGCC-ACTGT-CTCAGACAG-GGTCTTACACGAAATTAT
1 ATA-CGATGCCAAC-GTCCT-AGACAGAGGTCTTACACGAAATTAT
* * *
16222620 ATACGATGCCAATGTCCTAGACATA-GTCTTACATGTAAATCTCAT
1 ATACGATGCCAACGTCCTAGACAGAGGTCTTACACG-AAAT-T-AT
*
16222665 AT-CGATGCCAACGTTCC-AGA-TGAGGTCTTACACGAAAT
1 ATACGATGCCAACG-TCCTAGACAGAGGTCTTACACGAAAT
16222703 CACATATCGG
Statistics
Matches: 101, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
42 30 0.30
43 40 0.40
44 24 0.24
45 7 0.07
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATACGATGCCAACGTCCTAGACAGAGGTCTTACACGAAATTAT
Found at i:16223839 original size:13 final size:13
Alignment explanation
Indices: 16223821--16223845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16223811 ACAAACGATA
16223821 AAATTTTCACACG
1 AAATTTTCACACG
16223834 AAATTTTCACAC
1 AAATTTTCACAC
16223846 ATATCACATA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:16230863 original size:20 final size:20
Alignment explanation
Indices: 16230838--16230883 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
16230828 TAGGGACTAA
*
16230838 AATGAAAAGTTGTAAAATTT
1 AATGAAAAGTTCTAAAATTT
*
16230858 AATGAAAATTTCTAAAATTT
1 AATGAAAAGTTCTAAAATTT
*
16230878 TATGAA
1 AATGAA
16230884 TACATGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (20 bp):
AATGAAAAGTTCTAAAATTT
Found at i:16232744 original size:21 final size:21
Alignment explanation
Indices: 16232718--16232766 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
16232708 TAGTACAGGT
*
16232718 GTGTCCCAGGGTCACATGGCC
1 GTGTCCCAGGGTCACACGGCC
*
16232739 GTGTCCCAGGGTCACACGGGC
1 GTGTCCCAGGGTCACACGGCC
16232760 GTGTCCC
1 GTGTCCC
16232767 TTGGACCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.18
Consensus pattern (21 bp):
GTGTCCCAGGGTCACACGGCC
Found at i:16235291 original size:5 final size:5
Alignment explanation
Indices: 16235281--16235308 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16235271 CCAAAAATAA
16235281 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
16235309 GGTTGCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:16244492 original size:16 final size:15
Alignment explanation
Indices: 16244467--16244498 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16244457 GTTATAATTC
16244467 TAATAATTACTATCA
1 TAATAATTACTATCA
16244482 TAATCAATTACTATCA
1 TAAT-AATTACTATCA
16244498 T
1 T
16244499 GCATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATTACTATCA
Found at i:16251001 original size:29 final size:29
Alignment explanation
Indices: 16250957--16251044 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
16250947 GCTAAGTATT
*
16250957 GTTCTAGAAAAAATAATTTTGACAAGATGG
1 GTTCT-GAAAAAATAATTTTGATAAGATGG
* ** *
16250987 GTTCTGAAAAAATAAATTTGATGTGATGT
1 GTTCTGAAAAAATAATTTTGATAAGATGG
* * *
16251016 GTTTTGAAAAAATTATTTTAATAAGATGG
1 GTTCTGAAAAAATAATTTTGATAAGATGG
16251045 ATTTTGTTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.36
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTGATAAGATGG
Found at i:16258387 original size:3 final size:3
Alignment explanation
Indices: 16258379--16258405 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16258369 TAGCGAGAGT
16258379 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
16258406 GCTCCTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:16259567 original size:28 final size:28
Alignment explanation
Indices: 16259527--16259583 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
16259517 ATCAGAACCT
*
16259527 TCACTTTCACTTTAAGAGCGTTATTGAC
1 TCACTTTCACTTTAAAAGCGTTATTGAC
16259555 TCACTTTCACTTTAAAAGCGTTATTGAC
1 TCACTTTCACTTTAAAAGCGTTATTGAC
16259583 T
1 T
16259584 TGATTTTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (28 bp):
TCACTTTCACTTTAAAAGCGTTATTGAC
Found at i:16260660 original size:14 final size:13
Alignment explanation
Indices: 16260634--16260677 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
16260624 TTTAAAATGT
16260634 ATAATATAATTAA
1 ATAATATAATTAA
16260647 ATAATATAAATTAA
1 ATAATAT-AATTAA
*
16260661 ATTAA-ATAATTTA
1 A-TAATATAATTAA
16260674 ATAA
1 ATAA
16260678 AGTATTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 9 0.32
15 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:16262141 original size:13 final size:13
Alignment explanation
Indices: 16262123--16262147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16262113 AAATGCAGGG
16262123 GTCACACGGCCAA
1 GTCACACGGCCAA
16262136 GTCACACGGCCA
1 GTCACACGGCCA
16262148 TGTGCTGGGC
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:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (13 bp):
GTCACACGGCCAA
Found at i:16271084 original size:40 final size:40
Alignment explanation
Indices: 16271029--16271113 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
16271019 CCCCCCAACC
*
16271029 AGTGCTATTTATAGCCGAAGCTATCTTGAAATGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
16271069 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
16271109 AGTGC
1 AGTGC
16271114 CAAACATAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (40 bp):
AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
Found at i:16271670 original size:22 final size:22
Alignment explanation
Indices: 16271645--16271686 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
16271635 CAAACATTCA
16271645 AAAACTCA-AACATTCATCAATG
1 AAAACTCACAA-ATTCATCAATG
16271667 AAAACTCACAAATTCATCAA
1 AAAACTCACAAATTCATCAA
16271687 AAAATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAACTCACAAATTCATCAATG
Found at i:16275067 original size:12 final size:12
Alignment explanation
Indices: 16275050--16275076 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16275040 TACAATGAGA
16275050 AATTTGATTCAT
1 AATTTGATTCAT
16275062 AATTTGATTCAT
1 AATTTGATTCAT
16275074 AAT
1 AAT
16275077 GAAGAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTTGATTCAT
Found at i:16275990 original size:27 final size:27
Alignment explanation
Indices: 16275948--16276084 Score: 165
Period size: 27 Copynumber: 5.1 Consensus size: 27
16275938 AGGAAGCGTC
*
16275948 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
16275975 CTGGTGGCTCTACCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
16276001 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
16276029 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
16276056 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
16276083 CT
1 CT
16276085 AGTGACTTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.12
27 80 0.84
28 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:16276027 original size:54 final size:54
Alignment explanation
Indices: 16275945--16276084 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
16275935 TGGAGGAAGC
16275945 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
*
16275999 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* * *
16276053 GTTCTGGTGGCTCTACCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
16276085 AGTGACTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:16283375 original size:20 final size:21
Alignment explanation
Indices: 16283325--16283366 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16283315 CAATCAATTA
16283325 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
*
16283346 CAAAAAGTATCGATGCCTTTT
1 CAAAAAGTATCGATACCTTTT
16283367 ACCAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:16287795 original size:590 final size:591
Alignment explanation
Indices: 16286671--16287832 Score: 1972
Period size: 590 Copynumber: 2.0 Consensus size: 591
16286661 AATGTATATG
* *
16286671 ATCCTCAGACTTGATAACATCATTATCCCAACATCATGAGTCATATATTTTGATACAATTAAATG
1 ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
* ** * * *
16286736 TTTACCGTAACAGGTTATACTACGAAGACTGATGTTAGGTATGCCATAATCTGTGTAATGAGATA
66 TCTACCGTAACAAATTATACTACAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
* *
16286801 TGATTGATCAAGATAAGGTTTGTACCTCCTACATAATGAGTGCAATATCTCAGGCCACTTGATGG
131 TGATTGATCAAGATAAGGGTTGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
16286866 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
196 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
16286931 ATTATAGCCTACTCAAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
261 ATTATAGCCTACTCAAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
* *
16286996 CTTGTGTCCAATCTAGATATAAAGGATAAAATGATATAATACATGAAAAATTTATCATAGAAAAG
326 CTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAAG
*
16287061 TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATGCATTGCTAGATGCCACACATTT
391 TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATTT
* *
16287126 CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAGAGCCTACAGGGTCATACTGT
456 CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTGT
*
16287191 AACAGCCTATTTTTTA-GTGGTGTAAGAAACAGTGGTTTTGGAGCCACCAAATCCAACGAGTAAA
521 AACAGCCTATTTTTTAGGT-GTGTAAGAAACAGTGGTTTCGGAGCCACCAAATCCAACGAGTAAA
16287255 TTCATAA
585 TTCATAA
* *
16287262 ATCCTCAGACTTGAGATCATCATTATCCCAACATCTTAAGTCATATATTTTGATACAATTAAATG
1 ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
* * *
16287327 TCTACCGTAACAAATTGTACTATAAAGACTAATGTTGGGTATGCCACAATCTGTGTAATGAGATA
66 TCTACCGTAACAAATTATACTACAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
* *
16287392 TGATTGATCAAGAT-AGGGTTGTACCTCCTACATAATGAGAGTAATATCTTAGGCCACTTGATGG
131 TGATTGATCAAGATAAGGGTTGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
* * *
16287456 AGTGAGACTAGAAATGCATGACCATGCTCAAATACGTTGATATGAGATATCACATTTATTTGTTT
196 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
16287521 ATTATAGCCTACTCAGAAA-ATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATG
261 ATTATAGCCTACTCA-AAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATG
16287585 ACTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAA
325 ACTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAA
* * *
16287650 GTTATGTCGAATCATGACTTTTTGTAACTTGGGTAGCAATGATACATTGCTAGATGCCACTCATT
390 GTTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATT
16287715 TCTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTG
455 TCTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTG
* ** *
16287780 TAATAGGCC-ATTTTTTAGGTGTGTCGGAAACAGTGGTTTCGGGGCCACCAAAT
520 TAACA-GCCTATTTTTTAGGTGTGTAAGAAACAGTGGTTTCGGAGCCACCAAAT
16287833 GTAATAATTT
Statistics
Matches: 535, Mismatches: 33, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
590 396 0.74
591 139 0.26
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (591 bp):
ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
TCTACCGTAACAAATTATACTACAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
TGATTGATCAAGATAAGGGTTGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
ATTATAGCCTACTCAAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
CTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAAG
TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATTT
CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTGT
AACAGCCTATTTTTTAGGTGTGTAAGAAACAGTGGTTTCGGAGCCACCAAATCCAACGAGTAAAT
TCATAA
Found at i:16295836 original size:18 final size:18
Alignment explanation
Indices: 16295793--16295830 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16295783 TGGTATGTTT
*
16295793 ATAATTTGGATTAACATG
1 ATAATTTGGATTAAAATG
16295811 ATAATTTGGATTAAAATG
1 ATAATTTGGATTAAAATG
16295829 AT
1 AT
16295831 GCTTTGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (18 bp):
ATAATTTGGATTAAAATG
Found at i:16300850 original size:24 final size:24
Alignment explanation
Indices: 16300816--16300867 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16300806 TTTCTAGAAG
* * *
16300816 ATTTAGTATTTGTGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
16300840 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
16300864 ATTT
1 ATTT
16300868 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:16305197 original size:24 final size:24
Alignment explanation
Indices: 16305169--16305220 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16305159 TTTCTATAAA
* *
16305169 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
16305193 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
16305217 ATTT
1 ATTT
16305221 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:16305231 original size:24 final size:24
Alignment explanation
Indices: 16305169--16305232 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
16305159 TTTCTATAAA
* * *
16305169 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
16305193 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
16305217 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
16305233 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:16305553 original size:28 final size:29
Alignment explanation
Indices: 16305523--16305629 Score: 103
Period size: 28 Copynumber: 3.7 Consensus size: 29
16305513 AATTTTTTCT
* *
16305523 TAAAAATTA-TAAAAATAATT-AAATCTA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
* * *
16305550 TTAAAAATTATTAGAAACTAATTGAAAACCA
1 -TAAAAATTAGTA-AAAATAATTAAAAACCA
* *
16305581 TAAAAATTA-TAAAAAAAATTAAAACCCA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
*
16305609 TAAAAATTAGAAAAAATAATT
1 TAAAAATTAGTAAAAATAATT
16305630 TATAAAATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 31 0.47
29 13 0.20
30 17 0.26
31 5 0.08
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.28
Consensus pattern (29 bp):
TAAAAATTAGTAAAAATAATTAAAAACCA
Found at i:16305676 original size:19 final size:19
Alignment explanation
Indices: 16305647--16305698 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
16305637 TTATTAGAAA
16305647 TTAATTAAGAATCATAAATT
1 TTAA-TAAGAATCATAAATT
16305667 TTAATAAGAATCATAAATT
1 TTAATAAGAATCATAAATT
16305686 TTAATAAGAATCA
1 TTAATAAGAATCA
16305699 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (19 bp):
TTAATAAGAATCATAAATT
Found at i:16308499 original size:3 final size:3
Alignment explanation
Indices: 16308487--16308646 Score: 100
Period size: 3 Copynumber: 53.3 Consensus size: 3
16308477 AATATACAAT
* * * * *
16308487 ATA A-A ATA ATA ATA TTA ATA GAAA ATA ATA ATA GTA CTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
16308532 ATA ATA ATG ATA ACA ATA ATA AAA AAA ATA ATA A-A AAA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
16308579 TTA ATA CATAA ATA GA-A ATA GA-A AT- ATA ATA CATA GA-A AT- ATA
1 ATA ATA -AT-A ATA -ATA ATA -ATA ATA ATA ATA -ATA -ATA ATA ATA
16308622 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
16308647 AAGTTTTAAA
Statistics
Matches: 123, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
2 11 0.09
3 99 0.80
4 12 0.10
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16308569 original size:11 final size:12
Alignment explanation
Indices: 16308546--16308574 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
16308536 TAATGATAAC
16308546 AATAATAAAAAA
1 AATAATAAAAAA
16308558 AATAAT-AAAAA
1 AATAATAAAAAA
16308569 AATAAT
1 AATAAT
16308575 GATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:16308775 original size:31 final size:30
Alignment explanation
Indices: 16308711--16308790 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
16308701 TATAAGACAA
* * *
16308711 ATAAAAAT-GAAAATAATATTAGTATATAC
1 ATAAAAATAGAAAATAATAATAGTAGAGAC
*
16308740 ATAAAAATAGAAATATAATAATAGTAGAGAG
1 ATAAAAATAGAAA-ATAATAATAGTAGAGAC
16308771 AT--AAATAGATAAATAATAAT
1 ATAAAAATAGA-AAATAATAAT
16308791 TAGATAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 23 0.52
30 6 0.14
31 15 0.34
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (30 bp):
ATAAAAATAGAAAATAATAATAGTAGAGAC
Found at i:16308805 original size:15 final size:15
Alignment explanation
Indices: 16308771--16308805 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
16308761 TAGTAGAGAG
*
16308771 ATAAATAGATAAATA
1 ATAATTAGATAAATA
16308786 ATAATTAGATAAATA
1 ATAATTAGATAAATA
16308801 ATAAT
1 ATAAT
16308806 AGTATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAATTAGATAAATA
Found at i:16310597 original size:45 final size:45
Alignment explanation
Indices: 16310534--16310627 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
16310524 AAGGTTTGTA
* * *
16310534 ATTTG-TAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAG
1 ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
* * *
16310578 GTTTGCTATCTTTATTCTGCTACACTGTAACTTCAGGGAGATAAG
1 ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
16310623 ATTTG
1 ATTTG
16310628 TGATTCACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (45 bp):
ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
Found at i:16322469 original size:3 final size:3
Alignment explanation
Indices: 16322457--16322594 Score: 87
Period size: 3 Copynumber: 47.0 Consensus size: 3
16322447 AATATACCAT
* * * *
16322457 ATA A-A ATA ATA ATA GTA CTA ATA GTA ATA ATA ATG ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
16322503 ATA A-A AAA ATA A-A AAA ATA ATG ATA TTA ATA CATAA ATA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA -ATA ATA
16322548 GA-A ATA A-A ATA CATA GA-A AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16322592 ATA
1 ATA
16322595 GTTTTAAAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
2 15 0.14
3 81 0.76
4 10 0.09
5 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16322753 original size:15 final size:15
Alignment explanation
Indices: 16322733--16322778 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
16322723 ATATAAATAG
16322733 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
16322748 AAATAGAAAAATAAT
1 AAATAGAAATATAAT
16322763 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
16322779 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:16322793 original size:15 final size:14
Alignment explanation
Indices: 16322733--16322793 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 14
16322723 ATATAAATAG
16322733 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
16322748 AAATAGAAAAATAAT
1 AAATAG-AAAATAAT
16322763 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
16322777 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
16322792 AA
1 AA
16322794 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 13 0.32
15 24 0.60
16 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:16327512 original size:15 final size:15
Alignment explanation
Indices: 16327474--16327513 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16327464 TAATTGGCTA
16327474 ATTATATTAATC-AT
1 ATTATATTAATCAAT
16327488 -TTA-A-TAATCAAT
1 ATTATATTAATCAAT
16327500 ATTATATTAATCAA
1 ATTATATTAATCAA
16327514 ATTTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 6 0.27
14 1 0.05
15 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTAATCAAT
Found at i:16335576 original size:17 final size:15
Alignment explanation
Indices: 16335539--16335583 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
16335529 ATGAGAGTGA
16335539 AATTTTAAAAATAAT
1 AATTTTAAAAATAAT
* *
16335554 ATTTTTAAGATAATAGT
1 AATTTTAA-A-AATAAT
16335571 AATTTTAAAAATA
1 AATTTTAAAAATA
16335584 GAGATGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 11 0.44
16 2 0.08
17 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (15 bp):
AATTTTAAAAATAAT
Found at i:16336624 original size:20 final size:21
Alignment explanation
Indices: 16336599--16336643 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16336589 TTTCCTCTTG
*
16336599 AAAAGTT-CAAATCAA-ACAGA
1 AAAAGTTAAAAATCAAGA-AGA
16336619 AAAAGTTAAAAATCAAGAAGA
1 AAAAGTTAAAAATCAAGAAGA
16336640 AAAA
1 AAAA
16336644 TCTAATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 14 0.64
22 1 0.05
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAGTTAAAAATCAAGAAGA
Found at i:16340102 original size:15 final size:15
Alignment explanation
Indices: 16340082--16340111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16340072 TTAGTGATTG
16340082 TTCTTCTTCCTCTTC
1 TTCTTCTTCCTCTTC
16340097 TTCTTCTTCCTCTTC
1 TTCTTCTTCCTCTTC
16340112 CTCTGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTTCTTCCTCTTC
Found at i:16340193 original size:21 final size:21
Alignment explanation
Indices: 16340167--16340208 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16340157 CAACGTGGCA
16340167 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
16340188 AGTTAACTTGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
16340209 GTTTTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:16340307 original size:30 final size:31
Alignment explanation
Indices: 16340242--16340310 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
16340232 ACTGTTAGTC
* *
16340242 AGTGACTGTTTTGTCACTTTTTTATAATGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
16340273 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
16340302 GAGTGACTG
1 -AGTGACTG
16340311 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:16341044 original size:9 final size:10
Alignment explanation
Indices: 16341016--16341047 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16341006 TTTTTATTTT
16341016 TATATTAAAA
1 TATATTAAAA
16341026 TATATTAAAA
1 TATATTAAAA
16341036 TAT-TTAAAA
1 TATATTAAAA
16341045 TAT
1 TAT
16341048 CTTTGTACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATTAAAA
Found at i:16342349 original size:21 final size:21
Alignment explanation
Indices: 16342323--16342366 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16342313 TTCATCATTC
* *
16342323 TTTTATTTTCTTTTATATTAT
1 TTTTATCTTCTATTATATTAT
*
16342344 TTTTATCTTCTATTATTTTAT
1 TTTTATCTTCTATTATATTAT
16342365 TT
1 TT
16342367 CATGAATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTATCTTCTATTATATTAT
Found at i:16348856 original size:8 final size:8
Alignment explanation
Indices: 16348814--16348838 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16348804 ATATAGACTA
16348814 AATAAAAT
1 AATAAAAT
16348822 AATAAAAT
1 AATAAAAT
16348830 AATAAAAT
1 AATAAAAT
16348838 A
1 A
16348839 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:16348862 original size:29 final size:31
Alignment explanation
Indices: 16348811--16348883 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
16348801 TATATATAGA
*
16348811 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
16348840 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
16348871 CTAATT-AAATAAT
1 CTAATTAAAATAAT
16348884 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:16348888 original size:29 final size:30
Alignment explanation
Indices: 16348818--16348889 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
16348808 AGACTAAATA
*
16348818 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
16348846 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
16348877 AAATAATTATAAA
1 AAATAATTATAAA
16348890 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:16356730 original size:32 final size:32
Alignment explanation
Indices: 16356669--16356757 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
16356659 ACTAAGTGTG
**
16356669 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
16356701 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
16356733 TATCTAGGTGTAGTTTGATATAGCC
1 TATATATGTGTAGTTGGATAAAGCC
16356758 AATTGAGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:16356927 original size:27 final size:27
Alignment explanation
Indices: 16356896--16356990 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 27
16356886 TTTGAGGGAT
16356896 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGATACTGA
* * * *
16356923 GCACTAAGTGTGCGAGTTGGAT-TTAA
1 GCACTAAGTGTGCGAATTTGATACTGA
* *
16356949 GCACTATGTGTACGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGATACTGA
*
16356976 GCACTAAGTTTGCGA
1 GCACTAAGTGTGCGA
16356991 GTTGGATTTA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 20 0.37
27 34 0.63
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTTGATACTGA
Found at i:16356959 original size:26 final size:26
Alignment explanation
Indices: 16356896--16357013 Score: 101
Period size: 27 Copynumber: 4.5 Consensus size: 26
16356886 TTTGAGGGAT
* * * *
16356896 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAGTTGGAT-TTAA
16356923 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * * *
16356949 GCACTATGTGTACGAATTTGATACTGA
1 GCACTAAGTGTGCGAGTTGGAT-TTAA
*
16356976 GCACTAAGTTTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* *
16357002 GAACTATGTGTG
1 GCACTAAGTGTG
16357014 TGAATTAATT
Statistics
Matches: 70, Mismatches: 20, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
26 31 0.44
27 39 0.56
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGGATTTAA
Found at i:16356976 original size:53 final size:53
Alignment explanation
Indices: 16356896--16357041 Score: 213
Period size: 53 Copynumber: 2.8 Consensus size: 53
16356886 TTTGAGGGAT
*
16356896 GCACTAAGTGTGCGAATTTGATACTGAGCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTGTGCGAGTTGGATTTAA
* *
16356949 GCACTATGTGTACGAATTTGATACTGAGCACTAAGTTTGCGAGTTGGATTTAA
1 GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTGTGCGAGTTGGATTTAA
* * * *
16357002 GAACTATGTGTGTGAA-TTAATTTCTGAGCACTAAGTGTGC
1 GCACTATGTGTGCGAATTTGA-TACTGAGCACTAAGTGTGC
16357042 AAAATCAGTT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 3 0.04
53 80 0.96
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (53 bp):
GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTGTGCGAGTTGGATTTAA
Found at i:16361049 original size:8 final size:8
Alignment explanation
Indices: 16361036--16361195 Score: 82
Period size: 8 Copynumber: 19.0 Consensus size: 8
16361026 ACATTTTTCT
16361036 AGGGAGGG
1 AGGGAGGG
16361044 AGGGAGGG
1 AGGGAGGG
16361052 AGGGAGGAAG
1 AGGGAGG--G
16361062 AGGGA--G
1 AGGGAGGG
16361068 AGGGAGAGG
1 AGGGAG-GG
16361077 -GGGAGAGAG
1 AGGGAG-G-G
*
16361086 AGAGAGGG
1 AGGGAGGG
16361094 AGGGAGAGG
1 AGGGAG-GG
*
16361103 -GAGAGGCAG
1 AGGGAGG--G
16361112 AGGGAGAGG
1 AGGGAG-GG
*
16361121 GGGAGAGGG
1 AGG-GAGGG
*
16361130 AGAGAGGG
1 AGGGAGGG
*
16361138 AGAGAGAGAG
1 AG-G-GAGGG
16361148 AGGGA--G
1 AGGGAGGG
*
16361154 AGGGAGAG
1 AGGGAGGG
16361162 AGGGAGAGG
1 AGGGAG-GG
16361171 -GGGAGTGAG
1 AGGGAG-G-G
16361180 AGGGAGGG
1 AGGGAGGG
16361188 AGGGAGGG
1 AGGGAGGG
16361196 GGAGAGAGAG
Statistics
Matches: 121, Mismatches: 11, Indels: 40
0.70 0.06 0.23
Matches are distributed among these distances:
6 12 0.10
7 1 0.01
8 63 0.52
9 16 0.13
10 28 0.23
11 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.66, T:0.01
Consensus pattern (8 bp):
AGGGAGGG
Found at i:16361066 original size:14 final size:14
Alignment explanation
Indices: 16361036--16361199 Score: 152
Period size: 14 Copynumber: 12.4 Consensus size: 14
16361026 ACATTTTTCT
16361036 AGGGAGGGA-GG-G
1 AGGGAGGGAGGGAG
*
16361048 AGGGAGGGAGGAAG
1 AGGGAGGGAGGGAG
16361062 AGGGA--GAGGGAG
1 AGGGAGGGAGGGAG
*
16361074 A-GG-GGGAGAGAG
1 AGGGAGGGAGGGAG
*
16361086 AGAGAGGGAGGGAG
1 AGGGAGGGAGGGAG
*
16361100 AGGGA--GAGGCAG
1 AGGGAGGGAGGGAG
16361112 AGGGAGAGG-GGGAG
1 AGGGAG-GGAGGGAG
*
16361126 AGGGAGAGAGGGAG
1 AGGGAGGGAGGGAG
* *
16361140 AGAGAGAGAGGGAG
1 AGGGAGGGAGGGAG
*
16361154 AGGGAGAGAGGGAG
1 AGGGAGGGAGGGAG
*
16361168 A-GG-GGGAGTGAG
1 AGGGAGGGAGGGAG
16361180 AGGGAGGGAGGGAG
1 AGGGAGGGAGGGAG
*
16361194 GGGGAG
1 AGGGAG
16361200 AGAGAGAGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
11 2 0.02
12 42 0.34
13 7 0.06
14 73 0.58
15 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.66, T:0.01
Consensus pattern (14 bp):
AGGGAGGGAGGGAG
Found at i:16361076 original size:26 final size:26
Alignment explanation
Indices: 16361047--16361207 Score: 134
Period size: 26 Copynumber: 6.1 Consensus size: 26
16361037 GGGAGGGAGG
16361047 GAGGGAGGGAGGAAGAGGGAGAGGGA
1 GAGGGAGGGAGGAAGAGGGAGAGGGA
16361073 GA-GG-GGGAGAGAGAGAGAGG-GAGGGA
1 GAGGGAGGGAG-GA-AGAG-GGAGAGGGA
*
16361099 GAGGGA--GAGGCAGAGGGAGAGGGGGA
1 GAGGGAGGGAGGAAGAGGGAGA--GGGA
* *
16361125 GAGGGAGAGAGGGAGAGAGAGAGAGGGA
1 GAGGGAGGGA-GGA-AGAGGGAGAGGGA
* * * *
16361153 GAGGGAGAGAGGGAGAGGGGGAGTGA
1 GAGGGAGGGAGGAAGAGGGAGAGGGA
* * *
16361179 GAGGGAGGGAGGGAGGGGGAGAGAGA
1 GAGGGAGGGAGGAAGAGGGAGAGGGA
16361205 GAG
1 GAG
16361208 ATAGAGATAG
Statistics
Matches: 112, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
23 2 0.02
24 11 0.10
25 5 0.04
26 62 0.55
27 6 0.05
28 16 0.14
29 2 0.02
30 8 0.07
ACGTcount: A:0.34, C:0.01, G:0.65, T:0.01
Consensus pattern (26 bp):
GAGGGAGGGAGGAAGAGGGAGAGGGA
Found at i:16361204 original size:4 final size:4
Alignment explanation
Indices: 16361197--16361250 Score: 90
Period size: 4 Copynumber: 13.5 Consensus size: 4
16361187 GAGGGAGGGG
* *
16361197 GAGA GAGA GAGA TAGA GATA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
16361245 GAGA GA
1 GAGA GA
16361251 AACCTATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.46, T:0.04
Consensus pattern (4 bp):
GAGA
Found at i:16361208 original size:8 final size:8
Alignment explanation
Indices: 16361060--16361250 Score: 141
Period size: 8 Copynumber: 23.9 Consensus size: 8
16361050 GGAGGGAGGA
*
16361060 AGAGGGAG
1 AGAGAGAG
*
16361068 AGGGAGAG
1 AGAGAGAG
* *
16361076 GGGGAGAG
1 AGAGAGAG
16361084 AGAGAGAG
1 AGAGAGAG
* *
16361092 GGAGGGAG
1 AGAGAGAG
*
16361100 AGGGAGAG
1 AGAGAGAG
*
16361108 -GCAGAGGG
1 AG-AGAGAG
* *
16361116 AGAGGGGG
1 AGAGAGAG
*
16361124 AGAGGGAG
1 AGAGAGAG
*
16361132 AGAGGGAG
1 AGAGAGAG
16361140 AGAGAGAG
1 AGAGAGAG
*
16361148 AGGGAGAG
1 AGAGAGAG
*
16361156 GGAGAGAG
1 AGAGAGAG
* *
16361164 GGAGAGGG
1 AGAGAGAG
* *
16361172 GGAGTGAG
1 AGAGAGAG
* *
16361180 AGGGAGGG
1 AGAGAGAG
* *
16361188 AGGGAGGG
1 AGAGAGAG
*
16361196 GGAGAGAG
1 AGAGAGAG
*
16361204 AGAGATAG
1 AGAGAGAG
*
16361212 AGATAGAG
1 AGAGAGAG
16361220 AGAGAGAG
1 AGAGAGAG
16361228 AGAGAGAG
1 AGAGAGAG
16361236 AGAGAGAG
1 AGAGAGAG
16361244 AGAGAGA
1 AGAGAGA
16361251 AACCTATAAT
Statistics
Matches: 148, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
7 1 0.01
8 146 0.99
9 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.60, T:0.02
Consensus pattern (8 bp):
AGAGAGAG
Found at i:16361250 original size:6 final size:6
Alignment explanation
Indices: 16361060--16361250 Score: 141
Period size: 6 Copynumber: 31.8 Consensus size: 6
16361050 GGAGGGAGGA
* * * * * * *
16361060 AGAGGG AGAGGG AGAGGG GGAGAG AGAGAG AGGGAG GGAGAG GGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
16361108 -GCAGAG GGAGAG GGGGAG AGGGAG AGAGGG AGAGAG AGAGAG GGAGAG
1 AG-AGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * * * * *
16361156 GGAGAG AGGGAG AGGGGG AGTGAG AGGGAG GGAGGG AGGGGG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* *
16361204 AGAGAT AGAGAT AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGA
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGA
16361251 AACCTATAAT
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
5 1 0.01
6 154 0.99
7 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.60, T:0.02
Consensus pattern (6 bp):
AGAGAG
Found at i:16361866 original size:27 final size:27
Alignment explanation
Indices: 16361836--16361895 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
16361826 AATGTTTAAA
16361836 AAATAAATATA-ATGATTA-ATGATATTT
1 AAATAAATATATATG--TAGATGATATTT
*
16361863 AAATAAATATATTTGTAGATGATATTT
1 AAATAAATATATATGTAGATGATATTT
16361890 AAATAA
1 AAATAA
16361896 TTAAATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (27 bp):
AAATAAATATATATGTAGATGATATTT
Found at i:16367205 original size:15 final size:15
Alignment explanation
Indices: 16367187--16367216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16367177 AAATTTTAAC
*
16367187 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
16367202 TTTTTATAATTTATA
1 TTTTTATAATTTATA
16367217 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:16370259 original size:22 final size:22
Alignment explanation
Indices: 16370233--16370275 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16370223 TAACGTGTGT
16370233 CACATATA-TCATAAGCTCAGAC
1 CACATA-ACTCATAAGCTCAGAC
16370255 CACATAACTCATAAGCTCAGA
1 CACATAACTCATAAGCTCAGA
16370276 TCGCTTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (22 bp):
CACATAACTCATAAGCTCAGAC
Found at i:16370657 original size:26 final size:26
Alignment explanation
Indices: 16370628--16370709 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
16370618 TGGTACAAAT
* *
16370628 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
16370654 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
16370680 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
16370706 TGAT
1 TGAT
16370710 GAGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:16372389 original size:54 final size:54
Alignment explanation
Indices: 16372303--16372446 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
16372293 TGGAGGAAGC
* *
16372303 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
16372357 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
16372411 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16372447 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:16372457 original size:27 final size:27
Alignment explanation
Indices: 16372306--16372463 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
16372296 AGGAAGCGTC
* *
16372306 CTGGTGGCTATGCCACAATTATCT-AAT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
16372333 CTGGTGGCTCTGCCATATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
16372360 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
16372387 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
16372414 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16372441 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGGCTCT-GCCACAATATCT
16372464 AGCAGCCTCG
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16372458 original size:81 final size:80
Alignment explanation
Indices: 16372306--16372463 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
16372296 AGGAAGCGTC
* *
16372306 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCATATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
16372371 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* ** *
16372387 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
16372450 -TCGTCACAATATCT
64 AT-GCCACAATATCT
16372464 AGCAGCCTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:16384135 original size:51 final size:50
Alignment explanation
Indices: 16384049--16384400 Score: 438
Period size: 51 Copynumber: 6.9 Consensus size: 50
16384039 ACAGATACCC
* * * *
16384049 AGTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTA-TTTATTCACAA
* ** * *
16384100 AGTGGCCTTCACATAGTACCACACTTCTAACCAAAGCTATCTTTCTTGACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA--TTTATTCACAA
* * ** * *
16384152 AGTGGCCTTCACATGGTACCACACTTGTGACC-AAGCTAGCTCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
16384201 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTCACAA
16384252 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
* *
16384303 AGTGGCCTTTACATAGTACCACACTTGTGTCCAAAGCTATTATATTCAAAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
* * *
16384354 AATAGCCTTCACATAGTACCATACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTC
16384401 TTAAGGTTCA
Statistics
Matches: 269, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
49 37 0.14
50 8 0.03
51 183 0.68
52 41 0.15
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
Found at i:16384340 original size:152 final size:153
Alignment explanation
Indices: 16384049--16384400 Score: 467
Period size: 152 Copynumber: 2.3 Consensus size: 153
16384039 ACAGATACCC
* * ** *
16384049 AGTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTCTTCACAAAGTGGCCTTCACA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACA
* * * *
16384113 TAGTACCACACTTCTAACCAAAGCTATCTTTCTTGACAAAGTGGCCTTCACATGGTACCACACTT
65 TAGTACCACACTTCTAACCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTT
* * **
16384178 GTGACCAAGCTA-GCTCTTCTCAA
130 GTGACCAAGCTATGATATTCAAAA
16384201 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
* ** *
16384266 AGTACCACACTTGTGTCCAAAGCTAT-TATATTCACAAAGTGGCCTTTACATAGTACCACACTTG
66 AGTACCACACTTCTAACCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTTG
* *
16384330 TGTCCAAAGCTATTATATTCAAAA
131 TGACC-AAGCTATGATATTCAAAA
* * *
16384354 AATAGCCTTCACATAGTACCATACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
16384401 TTAAGGTTCA
Statistics
Matches: 175, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
151 39 0.22
152 86 0.49
153 50 0.29
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (153 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
AGTACCACACTTCTAACCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTTG
TGACCAAGCTATGATATTCAAAA
Found at i:16384456 original size:28 final size:28
Alignment explanation
Indices: 16384424--16384518 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16384414 GGGAAATTTC
16384424 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
16384452 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
16384480 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
16384504 TCACTTAGTACAATG
1 TCACTTAGCACAATG
16384519 TCATATCCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 22 0.37
28 38 0.63
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:16385141 original size:13 final size:13
Alignment explanation
Indices: 16385123--16385150 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16385113 GTTATTCATA
16385123 ATTAATATGAATT
1 ATTAATATGAATT
16385136 ATTAATATGAATT
1 ATTAATATGAATT
16385149 AT
1 AT
16385151 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:16386438 original size:20 final size:22
Alignment explanation
Indices: 16386415--16386469 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
16386405 CTAATACTTG
16386415 CAAACATAT-ACCAA-CCAATT
1 CAAACATATAACCAAGCCAATT
*
16386435 CAAACATTATAACTAAGCCAATT
1 CAAACA-TATAACCAAGCCAATT
* *
16386458 CTAACATCTAAC
1 CAAACATATAAC
16386470 ATGATATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 6 0.21
21 3 0.10
22 9 0.31
23 11 0.38
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (22 bp):
CAAACATATAACCAAGCCAATT
Found at i:16395163 original size:57 final size:58
Alignment explanation
Indices: 16395074--16395191 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 58
16395064 ATCAAAGCAT
16395074 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
1 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
16395132 ATTAAA-TCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
1 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
16395189 ATT
1 ATT
16395192 TCACTTGGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 54 0.90
58 6 0.10
ACGTcount: A:0.45, C:0.27, G:0.04, T:0.24
Consensus pattern (58 bp):
ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
Found at i:16396337 original size:43 final size:44
Alignment explanation
Indices: 16396272--16396386 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 44
16396262 AGCTCGTACA
16396272 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCACAA-ATCG
* * * * *
16396315 ATGCCAATGTCCTAGACATGGTCTTAGATGTAAATCACCAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCACAAATCG
*
16396359 ATGCCAACGTCCCAAACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16396387 CGATAACACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 27 0.45
44 32 0.53
45 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCACAAATCG
Found at i:16398603 original size:15 final size:14
Alignment explanation
Indices: 16398577--16398663 Score: 79
Period size: 15 Copynumber: 6.0 Consensus size: 14
16398567 TATTCTAATA
*
16398577 CTATTATTATTTAT
1 CTATTTTTATTTAT
16398591 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
*
16398606 CTATTTATATTTAT
1 CTATTTTTATTTAT
*
16398620 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
16398635 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
16398650 CTATTTCTATTTAT
1 CTATTTTTATTTAT
16398664 TTACTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.03
14 22 0.35
15 36 0.58
16 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:16398609 original size:29 final size:28
Alignment explanation
Indices: 16398577--16398663 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
16398567 TATTCTAATA
16398577 CTATTATTATTTATCTAATTTTTATTTAT
1 CTATTATTATTTATCT-ATTTTTATTTAT
*
16398606 CTATT-TATATTTATACTATTATTATATT-T
1 CTATTAT-TATTTAT-CTATTTTTAT-TTAT
*
16398635 CTATTTATTATATT-TCTATTTCTATTTAT
1 CTA-TTATTAT-TTATCTATTTTTATTTAT
16398664 TTACTAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
28 3 0.06
29 32 0.67
30 10 0.21
31 3 0.06
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (28 bp):
CTATTATTATTTATCTATTTTTATTTAT
Found at i:16398622 original size:44 final size:43
Alignment explanation
Indices: 16398574--16398694 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
16398564 TGTTATTCTA
16398574 ATACTATTATTATTTATCTAATTT-TTAT-TTATCTATTTATATTT
1 ATACTATTATTATTT-TCT-ATTTATTATATT-TCTATTTATATTT
*
16398618 ATACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTT
1 ATACTATTATTAT-TTTCTATTTATTATATTTCTATTTATATTT
* *
16398662 ATTTACTAATATTATTTTC-A-TTATTATTTTTCT
1 A--TACTATTATTATTTTCTATTTATTATATTTCT
16398695 TATATATGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
43 16 0.23
44 34 0.49
45 8 0.12
46 11 0.16
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (43 bp):
ATACTATTATTATTTTCTATTTATTATATTTCTATTTATATTT
Found at i:16398689 original size:29 final size:31
Alignment explanation
Indices: 16398597--16398690 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
16398587 TTATCTAATT
* * * *
16398597 TTTATTTATCTAT-TTATATTTATACTATTA
1 TTTATTTCTATATATTATATTTCTATTATTA
*
16398627 TTATATTTCTATTTATTATATTTCTATT-TCTA
1 TT-TATTTCTATATATTATATTTCTATTAT-TA
16398659 TTTATTTACTA-ATATTAT-TTTC-ATTATTA
1 TTTATTT-CTATATATTATATTTCTATTATTA
16398688 TTT
1 TTT
16398691 TTCTTATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
29 8 0.15
30 7 0.13
31 20 0.38
32 18 0.34
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTATTTCTATATATTATATTTCTATTATTA
Found at i:16398802 original size:3 final size:3
Alignment explanation
Indices: 16398794--16398963 Score: 145
Period size: 3 Copynumber: 56.7 Consensus size: 3
16398784 TTTAAAACTT
16398794 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA
** * *
16398840 -TA TTTA TGTA TTA GCA TCA TTA TT- TT- TTA TTC TT- TTA -TA TTA
1 TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
16398882 TTA TTA TTA TTA TTA TTA TCA TTC TTA TTA CTA TTA GTA CTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
16398931 TTA TTA TTA TTA TTA TTTA TAA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
16398964 TTTTAAAACC
Statistics
Matches: 140, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
2 11 0.08
3 114 0.81
4 15 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:16399311 original size:3 final size:3
Alignment explanation
Indices: 16399275--16399326 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
16399265 TAAGCTTTAG
* *
16399275 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16399321 ATT ATT
1 ATT ATT
16399327 TAGACTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.88
4 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:16404080 original size:14 final size:13
Alignment explanation
Indices: 16404053--16404094 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
16404043 CATCAAAGGC
16404053 AAAAAGAAACAAA
1 AAAAAGAAACAAA
*
16404066 AAAAGAGAAA-GAA
1 AAAA-AGAAACAAA
16404079 AAAAA-AAACAAA
1 AAAAAGAAACAAA
16404091 AAAA
1 AAAA
16404095 TTGTGGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.12
12 7 0.28
13 10 0.40
14 5 0.20
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAGAAACAAA
Found at i:16405493 original size:44 final size:44
Alignment explanation
Indices: 16405445--16405631 Score: 153
Period size: 44 Copynumber: 4.2 Consensus size: 44
16405435 ATGATTGCAG
* *
16405445 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* * * * * ** *
16405489 ATCTTATCTCCATGTAGCAGCAATGGAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACGGCGA
** * * * ** **
16405533 GCCTTATCTCCCTAAGTAGTAGTGGAACGGGCTGAAGATTGC-A
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* *
16405576 GATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
16405621 ATCTTATCTCC
1 ATCTTATCTCC
16405632 ATATAGTAAC
Statistics
Matches: 103, Mismatches: 36, Indels: 8
0.70 0.24 0.05
Matches are distributed among these distances:
43 16 0.16
44 67 0.65
45 20 0.19
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
Found at i:16405653 original size:132 final size:132
Alignment explanation
Indices: 16405397--16406073 Score: 980
Period size: 132 Copynumber: 5.1 Consensus size: 132
16405387 ACAAATTTCG
* *
16405397 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCGGATGATTGCAGATCTTATCTCCCTAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * *
16405462 AGTAGTGGAGTAGATTGAAGATGGCGAATCTTATCTCCATGTAGCAGCAATGGAGCAGATTTAAG
66 AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCATGTAGCAACAATGGAGCAGATTTAAG
16405527 CC
131 CC
*
16405529 ACTAGCCTTATCTCCCTAAGTAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * * *
16405594 AGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATATAGTAACAATTGAACAGATTTAAG
66 AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCATGTAGCAACAATGGAGCAGATTTAAG
16405659 CC
131 CC
* * * ** *
16405661 ACTAGCCTTATCTCCCTAAGCAATAGTGGAATGGGCTGAAGATTGCAGATTTTATCTCTTTACGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * *
16405726 AATAGTGGAGCAAATCGAAGATGGCGAATTTTATCTCCATGTAGCAGCAATGGAGCAGATTTAAT
66 AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCATGTAGCAACAATGGAGCAGATTTAAG
16405791 CC
131 CC
* * * *
16405793 ACTAACCTTATCTCCCTAAGCAGTAGTGGAACGGGCTAAAAATTGCAGATCTTATCTCCATAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * *
16405858 AGTAGTGGA-CAAGATCAAAGATGGTGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAA
66 AGTAGTGGAGCAA-ATCGAAGATGGCGAATCTTATCTCCATGTAGCAACAATGGAGCAGATTTAA
16405922 GCC
130 GCC
* * * *
16405925 ACTAGCCTTATCTCCTTAAGCAGTAGTGGAACGGGCTAAAAATTGCAGATCTTATCTCCCTAAGA
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * *
16405990 AGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTAGCGGA-AATGGAGCAGATTTAA
66 AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCATGTAGC-AACAATGGAGCAGATTTAA
16406054 GCC
130 GCC
*
16406057 ACCAGCCTTATCTCCCT
1 ACTAGCCTTATCTCCCT
16406074 GAAGTTGCAG
Statistics
Matches: 487, Mismatches: 55, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
131 3 0.01
132 481 0.99
133 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (132 bp):
ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCATGTAGCAACAATGGAGCAGATTTAAG
CC
Found at i:16406111 original size:44 final size:44
Alignment explanation
Indices: 16406040--16406349 Score: 200
Period size: 44 Copynumber: 7.0 Consensus size: 44
16406030 GTAGCGGAAA
* ** * *
16406040 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
16406084 TGGAACAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGTAG
1 TGGAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * * ** *
16406128 TGGAGCTGACTGAAAATTGCATA-TCTTATCTCTCT-AAGCAGTAG
1 TGGAGCAGATTGAAGA-TACA-AGTCTTATCTCCCTGAAGTTGCAG
* * * * * * * *
16406172 TGGAGTAGATTGAAGACGAGGAA-TATTATCTCCATGTAG-CGACAA
1 TGGAGCAGATTGAAGA-TA-CAAGTCTTATCTCCCTGAAGTTG-CAG
* * * *
16406217 TGGAGCAAATTTAAG-TCACCAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTGAAGAT-ACAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
16406261 TGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAG
1 TGGAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
*
16406305 TGGAGCAGACTGAAGATAGC-AGATCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTGAAGATA-CAAG-TCTTATCTCCCTGAAGTTGCAG
16406350 CAGAGTAGAT
Statistics
Matches: 198, Mismatches: 57, Indels: 21
0.72 0.21 0.08
Matches are distributed among these distances:
43 1 0.01
44 143 0.72
45 53 0.27
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TGGAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
Found at i:16406174 original size:177 final size:177
Alignment explanation
Indices: 16405963--16406339 Score: 596
Period size: 177 Copynumber: 2.1 Consensus size: 177
16405953 GAACGGGCTA
* *
16405963 AAAATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGATG-GCAAATCTTATCTC
1 AAAATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGAG-AAATATTATCTC
*
16406027 CATGTAGCGGA-AATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACA
65 CATGTAGC-GACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACA
* *
16406091 GGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCTGACTG
129 GGTTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
* * * * *
16406140 AAAATTGCATATCTTATCTCTCTAAGCAGTAGTGGAGTAGATTGAAGACGAGGAATATTATCTCC
1 AAAATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGAGAAATATTATCTCC
* *
16406205 ATGTAGCGACAATGGAGCAAATTTAAGTCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGG
66 ATGTAGCGACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAGG
16406270 TTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
131 TTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
* *
16406317 AAGATAGCAGATCTTATCTCCCT
1 AAAATTGCAGATCTTATCTCCCT
16406340 GAAGTTGCAG
Statistics
Matches: 182, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
176 2 0.01
177 179 0.98
178 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (177 bp):
AAAATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGAGAAATATTATCTCC
ATGTAGCGACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAGG
TTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
Found at i:16407357 original size:15 final size:15
Alignment explanation
Indices: 16407339--16407367 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16407329 ATTTATCTAT
16407339 TTATATTTCTATTTA
1 TTATATTTCTATTTA
16407354 TTATATTTCTATTT
1 TTATATTTCTATTT
16407368 CTCTTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:16407366 original size:21 final size:20
Alignment explanation
Indices: 16407328--16407369 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16407318 ACACTATTAT
*
16407328 TATTTATCTATTTATATTTC
1 TATTTATATATTTATATTTC
*
16407348 TATTTATTATATTTCTATTTC
1 TATTTA-TATATTTATATTTC
16407369 T
1 T
16407370 CTTAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTATATATTTATATTTC
Found at i:16407453 original size:3 final size:3
Alignment explanation
Indices: 16407445--16407623 Score: 179
Period size: 3 Copynumber: 58.7 Consensus size: 3
16407435 TTTAAAACTT
*
16407445 TTA TTA TTA CTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TTTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA -TTA T-TA
* * * * *
16407491 TTA GTA TCA TTA CTT- TT- TTA TTC TTC TATA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
16407536 TTA TTA CTA TTA TTA CTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
16407582 TTA TTA TTA TTA TTA CTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
16407624 TAAAACCATT
Statistics
Matches: 150, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
2 9 0.06
3 122 0.81
4 19 0.13
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:16407640 original size:40 final size:39
Alignment explanation
Indices: 16407519--16407626 Score: 145
Period size: 37 Copynumber: 2.9 Consensus size: 39
16407509 TATTCTTCTA
* *
16407519 TATTA-TTATTATCATTATTATTACTATTA-TT-ACTAT
1 TATTACTTATTATTATTATTATTATTATTATTTAACTAT
* *
16407555 TATTATTTATTATTATTATTATTATTATTA-TT-ATTAT
1 TATTACTTATTATTATTATTATTATTATTATTTAACTAT
16407592 TATTACTTATTATTATTATTATTATTATTATTTAA
1 TATTACTTATTATTATTATTATTATTATTATTTAA
16407627 AACCATTTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
36 5 0.08
37 57 0.88
38 2 0.03
39 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (39 bp):
TATTACTTATTATTATTATTATTATTATTATTTAACTAT
Found at i:16408898 original size:23 final size:23
Alignment explanation
Indices: 16408868--16408919 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
16408858 ACACATGCCA
16408868 TTATACCAAAACGAGTTTACTAT
1 TTATACCAAAACGAGTTTACTAT
*
16408891 TTATACCAAAATGAGTTTACTAT
1 TTATACCAAAACGAGTTTACTAT
16408914 TTATAC
1 TTATAC
16408920 TAAGACGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TTATACCAAAACGAGTTTACTAT
Found at i:16411065 original size:57 final size:57
Alignment explanation
Indices: 16410957--16411083 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 57
16410947 CTCATTACTG
* * * * *
16410957 AAAGGATTTAGCCCAGACGGGTAATCCTGATATAAGTCCTCTTGAGCTATGTTATAG
1 AAAGGATTTAGCCCAGACGGGTAATCCAGATACAAGTCCTCTAGAGCTATGTCATAA
**
16411014 ATTGGATTTAGCCCTA-ACGGGTAATCCAGAT-CAAGCTCCT-TAGAGCATATGTCATAA
1 AAAGGATTTAGCCC-AGACGGGTAATCCAGATACAAG-TCCTCTAGAGC-TATGTCATAA
16411071 AAAGGATTTAGCC
1 AAAGGATTTAGCC
16411084 TGGACTGGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
56 8 0.14
57 49 0.84
58 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (57 bp):
AAAGGATTTAGCCCAGACGGGTAATCCAGATACAAGTCCTCTAGAGCTATGTCATAA
Found at i:16416401 original size:23 final size:22
Alignment explanation
Indices: 16416371--16416413 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16416361 AAAGCAACTA
*
16416371 AAATAAAATTAAAAAGAAAGGT
1 AAATAAAAATAAAAAGAAAGGT
*
16416393 AAATAAAAAATAAAATGAAAG
1 AAAT-AAAAATAAAAAGAAAG
16416414 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAAAGAAAGGT
Found at i:16416407 original size:22 final size:22
Alignment explanation
Indices: 16416349--16416413 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
16416339 TTTAAGAAAA
*
16416349 TAAATAAAAAAT-AAAGCAA-C
1 TAAATAAAAAATAAAAGAAAGC
* *
16416369 TAAA-ATAAAATTAAAAAGAAAGG
1 TAAATA-AAAAAT-AAAAGAAAGC
16416392 TAAATAAAAAATAAAATGAAAG
1 TAAATAAAAAATAAAA-GAAAG
16416414 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.03
20 9 0.26
22 10 0.29
23 14 0.40
24 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAATAAAAAATAAAAGAAAGC
Found at i:16416579 original size:5 final size:5
Alignment explanation
Indices: 16416571--16416623 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
16416561 AAAAATTAGG
*
16416571 AAAAT AAAA- ATAAAT AATAT AAAA- AATAAT -AAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT A-AAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT
16416620 AAAA
1 AAAA
16416624 GGGGTAGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 6 0.15
5 34 0.83
6 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:16416601 original size:19 final size:19
Alignment explanation
Indices: 16416571--16416622 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
16416561 AAAAATTAGG
*
16416571 AAAATAAAAATAAATAATAT
1 AAAAT-AAAATAAATAAAAT
16416591 AAAA-AATAATAAATAAAAT
1 AAAATAA-AATAAATAAAAT
16416610 AAAATAAAATAAA
1 AAAATAAAATAAA
16416623 AGGGGTAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 21 0.72
20 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAATAAAATAAATAAAAT
Found at i:16416616 original size:24 final size:23
Alignment explanation
Indices: 16416548--16416618 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
16416538 TAAGAAGAAC
* *
16416548 AAATAAAAAATAAAA-AAATTAGGA
1 AAAT-AAAAATAAAATAAAATA-AA
*
16416572 AAATAAAAAT-AAATAATATAAA
1 AAATAAAAATAAAATAAAATAAA
16416594 AAATAATAAATAAAATAAAATAAA
1 AAATAA-AAATAAAATAAAATAAA
16416618 A
1 A
16416619 TAAAAGGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.25
23 14 0.35
24 16 0.40
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (23 bp):
AAATAAAAATAAAATAAAATAAA
Found at i:16421026 original size:19 final size:19
Alignment explanation
Indices: 16421002--16421041 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
16420992 TCCTCTCCAC
16421002 AGGGATTGTATTTGTGCTA
1 AGGGATTGTATTTGTGCTA
16421021 AGGGATTGTATTTGTGCTA
1 AGGGATTGTATTTGTGCTA
16421040 AG
1 AG
16421042 TCACTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.40
Consensus pattern (19 bp):
AGGGATTGTATTTGTGCTA
Found at i:16423395 original size:39 final size:39
Alignment explanation
Indices: 16423341--16423453 Score: 217
Period size: 39 Copynumber: 2.9 Consensus size: 39
16423331 TAATGGAGAA
*
16423341 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
16423380 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
16423419 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
16423454 CCCGAAGGCA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Done.