Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 51 of 168
Found at i:14243059 original size:13 final size:14
Alignment explanation
Indices: 14243041--14243069 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14243031 TATATATATA
14243041 TTCTTTTA-TTCTT
1 TTCTTTTATTTCTT
14243054 TTCTTTTATTTCTT
1 TTCTTTTATTTCTT
14243068 TT
1 TT
14243070 AAACGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTTATTTCTT
Found at i:14247696 original size:18 final size:18
Alignment explanation
Indices: 14247673--14247724 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
14247663 AAAATGTGAG
* *
14247673 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
14247691 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
14247709 AAATGATGTTCACATT
1 AAATGATGTTCACATT
14247725 GATGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:14250075 original size:14 final size:14
Alignment explanation
Indices: 14250056--14250085 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14250046 ATTTTATAAA
14250056 TAATTAATATTCAT
1 TAATTAATATTCAT
14250070 TAATTAATATTCAT
1 TAATTAATATTCAT
14250084 TA
1 TA
14250086 CTTAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTAATATTCAT
Found at i:14250135 original size:30 final size:30
Alignment explanation
Indices: 14250071--14250135 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
14250061 AATATTCATT
*
14250071 AATTAATATTCATTACTTAGAAATATTTAA
1 AATTAATATTCATTACTTAGAAACATTTAA
14250101 AATTAATATTTCATATA-TTA-AAACA-TTAA
1 AATTAATA-TTCAT-TACTTAGAAACATTTAA
14250130 CAATTA
1 -AATTA
14250136 GTTATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 4 0.13
30 17 0.55
31 8 0.26
32 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
AATTAATATTCATTACTTAGAAACATTTAA
Found at i:14250359 original size:13 final size:13
Alignment explanation
Indices: 14250306--14250371 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
14250296 CTTAAATCAA
*
14250306 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
14250319 A-TTTCTCAAAAGC
1 ACTTT-TCAAAAGC
* **
14250332 ACTTTTCCACTGC
1 ACTTTTCAAAAGC
*
14250345 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
14250358 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
14250371 A
1 A
14250372 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:14252033 original size:52 final size:51
Alignment explanation
Indices: 14251955--14252058 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
14251945 CGAAGCAATC
*
14251955 TAATCACCCATAAAAAGATTTGATTTACTCTACCCTTCTATCTCTTGAATT
1 TAATCACCCATAAAAAGATTTGATTTACTCTACCCTTCTATCTCCTGAATT
* * *
14252006 TAATCACCCATAATCAAGATTTGATTTACTTTACTCTTCTATCTCCTGAATT
1 TAATCACCCATAA-AAAGATTTGATTTACTCTACCCTTCTATCTCCTGAATT
14252058 T
1 T
14252059 TATTTACTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 13 0.27
52 35 0.73
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (51 bp):
TAATCACCCATAAAAAGATTTGATTTACTCTACCCTTCTATCTCCTGAATT
Found at i:14259037 original size:48 final size:48
Alignment explanation
Indices: 14258966--14259069 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
14258956 CATGAGAGGC
* * *
14258966 TCGATGTCGCAATATAGCAAGCGAAGTAGAA-AAAGTACAAAACTATCT
1 TCGATGTCGCAACATAGAAAGCGAAAT-GAAGAAAGTACAAAACTATCT
*
14259014 TCGATGTCGCAACATAGAAAGCGAAATGAAGAAAGTACGAAACTATCT
1 TCGATGTCGCAACATAGAAAGCGAAATGAAGAAAGTACAAAACTATCT
14259062 TCGATGTC
1 TCGATGTC
14259070 ACGACACACA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 3 0.06
48 48 0.94
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (48 bp):
TCGATGTCGCAACATAGAAAGCGAAATGAAGAAAGTACAAAACTATCT
Found at i:14268362 original size:7 final size:7
Alignment explanation
Indices: 14268350--14268375 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14268340 TTAATTTTAT
14268350 TTAAATA
1 TTAAATA
14268357 TTAAATA
1 TTAAATA
14268364 TTAAATA
1 TTAAATA
14268371 TTAAA
1 TTAAA
14268376 AGAAATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAATA
Found at i:14268382 original size:45 final size:46
Alignment explanation
Indices: 14268296--14268384 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 46
14268286 AGACCATTAA
* *
14268296 AATTTTCATTTAAATATTTAATAGTCATAATATATAAAAATATTTT
1 AATTTTCATTTAAATATTAAATAGTCATAATATAAAAAAATATTTT
*
14268342 AATTTT-ATTTAAATATTAAATA-TTA-AATATTAAAAGAAATATT
1 AATTTTCATTTAAATATTAAATAGTCATAATA-TAAAA-AAATATT
14268385 CTAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
43 4 0.11
44 6 0.16
45 22 0.58
46 6 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (46 bp):
AATTTTCATTTAAATATTAAATAGTCATAATATAAAAAAATATTTT
Found at i:14276886 original size:15 final size:15
Alignment explanation
Indices: 14276857--14276889 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14276847 GATAGGGTGA
14276857 GAAAATAAATAATTG
1 GAAAATAAATAATTG
14276872 GAAAA-AAATAGATTG
1 GAAAATAAATA-ATTG
14276887 GAA
1 GAA
14276890 TGAGTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (15 bp):
GAAAATAAATAATTG
Found at i:14280397 original size:21 final size:22
Alignment explanation
Indices: 14280307--14280402 Score: 70
Period size: 22 Copynumber: 4.4 Consensus size: 22
14280297 TACACCACAC
* *
14280307 TAGTAGGCACCGAAGTGCTTAAG
1 TAGTAGGCACCGAAGTAC-TAAA
* * ** * *
14280330 CAGTAGGCACCAAAGTGTTGAG
1 TAGTAGGCACCGAAGTACTAAA
* * *
14280352 TAGTAGGTATCGAAGTGCTAAA
1 TAGTAGGCACCGAAGTACTAAA
14280374 TAGTAGGCACCGAAGTAC-AAA
1 TAGTAGGCACCGAAGTACTAAA
14280395 TAGT-GGCA
1 TAGTAGGCA
14280403 AGAAAGTACA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 4 0.07
21 7 0.12
22 33 0.56
23 15 0.25
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (22 bp):
TAGTAGGCACCGAAGTACTAAA
Found at i:14281646 original size:25 final size:25
Alignment explanation
Indices: 14281618--14281673 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
14281608 TTTTCCAAAT
*
14281618 AGGCTTCACAGAGATTTCACCACAA
1 AGGCTTCACAGAGAATTCACCACAA
*
14281643 AGGCTTCATAGAGAATTCACCACAA
1 AGGCTTCACAGAGAATTCACCACAA
*
14281668 AAGCTT
1 AGGCTT
14281674 GGTTTGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (25 bp):
AGGCTTCACAGAGAATTCACCACAA
Found at i:14283884 original size:50 final size:49
Alignment explanation
Indices: 14283781--14283957 Score: 192
Period size: 50 Copynumber: 3.4 Consensus size: 49
14283771 GGGAATGAGA
*
14283781 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-TTGGGA-C--TGAG---ATGAGAGG
* *
14283837 TCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGGACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-TTGGGACTGAGATGAGAGG
* * * **
14283887 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTGGG-ACTGAGATGAGAGG
*
14283937 TCCCATGTAAGACCATATCTG
1 TCCCATGTAAGACCATGTCTG
14283958 AGATATGTCA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 4 0.04
50 65 0.61
53 3 0.03
55 1 0.01
56 34 0.32
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCTTGGGACTGAGATGAGAGG
Found at i:14287015 original size:22 final size:22
Alignment explanation
Indices: 14286987--14287030 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14286977 TTTTGAACCA
14286987 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
14287009 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
14287031 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:14292574 original size:50 final size:50
Alignment explanation
Indices: 14292455--14292579 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
14292445 TCATTGAGAT
* * * * *
14292455 TATGAGAGGTCCCAGGTAAGACCATGTCTGGGACCTGGCGTTGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTAGGACCTGGCATGGGCACCAA
* * * *
14292505 GATGCGAGGTCCCCCGTAAGACCATGTCTAGGACGTGGCATGGGCACCAA
1 TATGAGAGGTCCCACGTAAGACCATGTCTAGGACCTGGCATGGGCACCAA
** *
14292555 TATGAGAACTCCCATGTAAGACCAT
1 TATGAGAGGTCCCACGTAAGACCAT
14292580 ATCTGGGATA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTAGGACCTGGCATGGGCACCAA
Found at i:14296835 original size:25 final size:24
Alignment explanation
Indices: 14296801--14296852 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
14296791 ATATGTTTAC
14296801 TTTTTAAA-TTTATTAAATAATATA
1 TTTTTAAATTTTATTAAA-AATATA
*
14296825 TTTTTATAATTTTTTTAAAAATATA
1 TTTTTA-AATTTTATTAAAAATATA
14296850 TTT
1 TTT
14296853 ACTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTAAATTTTATTAAAAATATA
Found at i:14297394 original size:22 final size:23
Alignment explanation
Indices: 14297344--14297387 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14297334 GTTCTTTTGG
14297344 TAAAATATCATTTAGAAACATTA
1 TAAAATATCATTTAGAAACATTA
*
14297367 TAAAATAT-ATTTAGAACCATT
1 TAAAATATCATTTAGAAACATT
14297388 CTCAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (23 bp):
TAAAATATCATTTAGAAACATTA
Found at i:14300027 original size:75 final size:75
Alignment explanation
Indices: 14299904--14300052 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
14299894 CCAAGCTATT
* *
14299904 TCCTAGCAACTTATAACAAATTTCAAGTTAGGACGTTGGAACACACCATTACTAACCTTTATGAA
1 TCCTAGCAACTTATAACAAATTTCAAGTTAGGAAGTTGGAAAACACCATTACTAACCTTTATGAA
14299969 GCTTTCTCTC
66 GCTTTCTCTC
14299979 TCCTAGCAACTTATAACAAATTTCAAGTTAGGAAGTTGGAAAACACCATTACTAACCTTTATGAA
1 TCCTAGCAACTTATAACAAATTTCAAGTTAGGAAGTTGGAAAACACCATTACTAACCTTTATGAA
14300044 GCTTTCTCT
66 GCTTTCTCT
14300053 ATCTAAATTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (75 bp):
TCCTAGCAACTTATAACAAATTTCAAGTTAGGAAGTTGGAAAACACCATTACTAACCTTTATGAA
GCTTTCTCTC
Found at i:14300605 original size:8 final size:8
Alignment explanation
Indices: 14300592--14300616 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14300582 TTGTGAAGAC
14300592 TACACTTT
1 TACACTTT
14300600 TACACTTT
1 TACACTTT
14300608 TACACTTT
1 TACACTTT
14300616 T
1 T
14300617 CCTAGCAAAA
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TACACTTT
Found at i:14302213 original size:23 final size:23
Alignment explanation
Indices: 14302184--14302305 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
14302174 ATAAGTGCCA
*
14302184 CACTGATATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14302207 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
14302230 CACTGAAATGTAGCCGAAGATAC
1 CACTGATATGTAGCCGAAGCTAC
*
14302253 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14302276 CACTGA-ATTGTAGCCAAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
14302299 CACTGAT
1 CACTGAT
14302306 TAATAACATT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.99
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:14302254 original size:46 final size:46
Alignment explanation
Indices: 14302184--14302305 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
14302174 ATAAGTGCCA
* *
14302184 CACTGATATGTAACCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
14302230 CACTGAAATGTAGCCGAAGATACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
14302276 CACTGAATTGTAGCCAAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
14302306 TAATAACATT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:14302549 original size:18 final size:17
Alignment explanation
Indices: 14302523--14302561 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14302513 ATTTTCCTTC
14302523 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
14302540 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
14302558 CACA
1 CACA
14302562 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:14304809 original size:22 final size:21
Alignment explanation
Indices: 14304769--14304809 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14304759 CTCCCCTTTC
* *
14304769 TAAAATAAAGGTTTCTTTTTT
1 TAAAAAAAAGGTTTATTTTTT
*
14304790 TAAAAAAAAGGTTTAATTTT
1 TAAAAAAAAGGTTTATTTTT
14304810 AGGAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (21 bp):
TAAAAAAAAGGTTTATTTTTT
Found at i:14304904 original size:8 final size:8
Alignment explanation
Indices: 14304891--14304918 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14304881 ATTTTAAAGG
14304891 AAATTTTA
1 AAATTTTA
14304899 AAATTTTA
1 AAATTTTA
14304907 AAATTTTA
1 AAATTTTA
14304915 AAAT
1 AAAT
14304919 AAAGTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATTTTA
Found at i:14305688 original size:10 final size:10
Alignment explanation
Indices: 14305673--14305746 Score: 67
Period size: 10 Copynumber: 7.1 Consensus size: 10
14305663 CACTTGTATG
14305673 ATTTTTATTT
1 ATTTTTATTT
14305683 ATTTTTATTT
1 ATTTTTATTT
*
14305693 ATTCTTATTT
1 ATTTTTATTT
*
14305703 CGTTTTTATTT
1 -ATTTTTATTT
*
14305714 ATTTTCATATAT
1 ATTTT--TATTT
* *
14305726 ATTTATATAT
1 ATTTTTATTT
*
14305736 ATTTATATTT
1 ATTTTTATTT
14305746 A
1 A
14305747 CACATTCCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
10 38 0.70
11 8 0.15
12 8 0.15
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:14325887 original size:4 final size:4
Alignment explanation
Indices: 14325878--14325947 Score: 70
Period size: 4 Copynumber: 17.5 Consensus size: 4
14325868 GTGCCCCAAT
* * *
14325878 TTCA TTCA TTCA TCCA TCCA TTCA TTCA -TCTA TTCA TTCA TTCA TCCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC-A TTCA TTCA TTCA TTCA
* * *
14325926 TTCG TTCA CTCA TTCG TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TT
14325948 TGTTTATTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 2 0.04
4 50 0.93
5 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.03, T:0.46
Consensus pattern (4 bp):
TTCA
Found at i:14325928 original size:16 final size:16
Alignment explanation
Indices: 14325878--14325938 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
14325868 GTGCCCCAAT
14325878 TTCATTCATTCATCCA
1 TTCATTCATTCATCCA
* *
14325894 TCCATTCATTCATCTA
1 TTCATTCATTCATCCA
14325910 TTCATTCATTCATCCA
1 TTCATTCATTCATCCA
* *
14325926 TTCGTTCACTCAT
1 TTCATTCATTCAT
14325939 TCGTTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (16 bp):
TTCATTCATTCATCCA
Found at i:14336285 original size:42 final size:42
Alignment explanation
Indices: 14336221--14336565 Score: 519
Period size: 42 Copynumber: 8.2 Consensus size: 42
14336211 AAGGAAAACA
14336221 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
14336263 TTCATTACATTTAGAGGTCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
14336305 TTCAGTGCATATAGAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
14336347 TCCATTGCATTTAGAGGCCCAGATGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
14336389 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCTTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
14336431 TTCATTGCATATAAAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
**
14336473 TTCATTGCATTTAGAGGCCCAAATGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
14336515 TTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCAATTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
14336557 TTCATTGCA
1 TTCATTGCA
14336566 CTGTATATGA
Statistics
Matches: 268, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 268 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:14336449 original size:126 final size:126
Alignment explanation
Indices: 14336223--14336565 Score: 578
Period size: 126 Copynumber: 2.7 Consensus size: 126
14336213 GGAAAACATT
* * *
14336223 CATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTACATTTAGAGGTCCAGGTG
1 CATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTG
* * *
14336288 TGGAGGTCCATTCACTTTTCAGTGCATATAGAGACCCAGGTGTGGAGGTCCATTCACTTTC
66 TGGAGGTCCATTTACTTTTCATTGCATATAAAGACCCAGGTGTGGAGGTCCATTCACTTTC
*
14336349 CATTGCATTTAGAGGCCCAGATGTGGAGGTTCATTTACTTTTCATTGCATTTAGAGGCCCAGGTG
1 CATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTG
* *
14336414 TGGAGGTCCTTTTACTTTTCATTGCATATAAAGACCCAGGTGTGGAGGTCCATTCACTTTT
66 TGGAGGTCCATTTACTTTTCATTGCATATAAAGACCCAGGTGTGGAGGTCCATTCACTTTC
* *
14336475 CATTGCATTTAGAGGCCCAAATGTGGAGGTCCATTTACTTTTCATTGTATTTAGAGGCCCAGGTG
1 CATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTG
*
14336540 TGGAGGTCCAATTACTTTTCATTGCA
66 TGGAGGTCCATTTACTTTTCATTGCA
14336566 CTGTATATGA
Statistics
Matches: 203, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 203 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (126 bp):
CATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTG
TGGAGGTCCATTTACTTTTCATTGCATATAAAGACCCAGGTGTGGAGGTCCATTCACTTTC
Found at i:14337645 original size:150 final size:149
Alignment explanation
Indices: 14337424--14337829 Score: 559
Period size: 150 Copynumber: 2.7 Consensus size: 149
14337414 TAAAAAAAAA
* * *
14337424 GAGAAAGTTTAGATTTT-AACAAATAAAAATATATTTTTTTTAGTTATTTTAAAGGAAGGTTTAA
1 GAGAAAGTTTAGATTTTGAA-AAATAAAAATAT-TTTTTTTTAGTCATTTTAAAAGAAAGTTTAA
* * *
14337488 AATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAGTAAAAGGTTTAATCTTTAAGAAA
64 AATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGCTTTAACCTTTAAGAAA
14337553 AATAGTGTTTTTTTTT-AAA-G
129 AATAGT-TTTTTTTTTAAAAGG
*
14337573 GAGAAAGTTTAGATTTTGAAAACTAAAAATATGTATTTTTTTAGTCATTTTAAAAGAAAGTTTAA
1 GAGAAAGTTTAGATTTTGAAAAATAAAAATAT-T-TTTTTTTAGTCATTTTAAAAGAAAGTTTAA
* *
14337638 AATTTTAAAACAAAATTTTGATTTTTTTTTTTAGCTATTTCAAAATAAAAGCTTTAACCTTTAAG
64 AATTTTAAAACAAAGTTTTGA---TTTTTTTTAACTATTTCAAAATAAAAGCTTTAACCTTTAAG
14337703 AAAAATAGTTTTTTTTTTAAAAAAAAGG
126 AAAAATAGTTTTTTTTTT----AAAAGG
* * *
14337731 GAGAAAGTTTAGATTTTGAAAAATAAAAATA-TTTTTTTAAGTCATTTTAAATGAAAGTTTATAA
1 GAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTTTTTAGTCATTTTAAAAGAAAGTTTAAAA
*
14337795 TTTTAAAATAAAGTTTTGATTTTTTTTAACTATTT
66 TTTTAAAACAAAGTTTTGATTTTTTTTAACTATTT
14337830 TGAAATAAGG
Statistics
Matches: 229, Mismatches: 17, Indels: 19
0.86 0.06 0.07
Matches are distributed among these distances:
149 29 0.13
150 49 0.21
152 24 0.10
153 46 0.20
155 46 0.20
156 1 0.00
157 3 0.01
158 31 0.14
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (149 bp):
GAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTTTTTAGTCATTTTAAAAGAAAGTTTAAAA
TTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGCTTTAACCTTTAAGAAAAA
TAGTTTTTTTTTTAAAAGG
Found at i:14337667 original size:53 final size:54
Alignment explanation
Indices: 14337565--14337665 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 54
14337555 TAGTGTTTTT
*
14337565 TTTTAAAGGAGAAAGTTTAGATTTTGAAAACTAAAAATATGTATTTTTTTAGTCA
1 TTTTAAA-GAGAAAGTTTAAATTTTGAAAACTAAAAATATGTATTTTTTTAGTCA
* *
14337620 TTTTAAA-AGAAAGTTTAAAATTTT-AAAAC-AAAATTTTG-ATTTTTTT
1 TTTTAAAGAGAAAGTTT-AAATTTTGAAAACTAAAAATATGTATTTTTTT
14337666 TTTTAGCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 8 0.19
52 7 0.17
53 14 0.33
54 6 0.14
55 7 0.17
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (54 bp):
TTTTAAAGAGAAAGTTTAAATTTTGAAAACTAAAAATATGTATTTTTTTAGTCA
Found at i:14338472 original size:10 final size:10
Alignment explanation
Indices: 14338439--14338505 Score: 55
Period size: 10 Copynumber: 6.4 Consensus size: 10
14338429 ACTAGTATAA
14338439 TTTTATTTAT
1 TTTTATTTAT
* *
14338449 TCTTATTTCGT
1 TTTTATTT-AT
14338460 TTTTATTTAT
1 TTTTATTTAT
*
14338470 TTTCATGTCTAT
1 TTTTAT-T-TAT
*
14338482 TTATATTTAT
1 TTTTATTTAT
14338492 TTATTA-TTAT
1 TT-TTATTTAT
14338502 TTTT
1 TTTT
14338506 TACACATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
9 2 0.04
10 24 0.53
11 12 0.27
12 7 0.16
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:14346229 original size:24 final size:23
Alignment explanation
Indices: 14346186--14346232 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14346176 ATTTATTTTA
*
14346186 AAAATAATATATTATTAAATAAT
1 AAAATAATATATTATAAAATAAT
14346209 AAAATAAT-TAATCTATAAAATAAT
1 AAAATAATAT-AT-TATAAAATAAT
14346233 GAATTAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 10 0.48
24 10 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAATATATTATAAAATAAT
Found at i:14354004 original size:17 final size:17
Alignment explanation
Indices: 14353960--14354007 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14353950 ATACTTACAG
*
14353960 AAGAGTTCGCCAAACCA
1 AAGAGTTCGCCAAAACA
* ***
14353977 CAGAACACGCCAAAACA
1 AAGAGTTCGCCAAAACA
14353994 AAGAGTTCGCCAAA
1 AAGAGTTCGCCAAA
14354008 TGACGCATCA
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (17 bp):
AAGAGTTCGCCAAAACA
Found at i:14354562 original size:14 final size:14
Alignment explanation
Indices: 14354543--14354582 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14354533 TTGTTTGGCA
*
14354543 GTAAAATGTTTTCC
1 GTAAAATGATTTCC
*
14354557 GTAAAATGATTTCT
1 GTAAAATGATTTCC
*
14354571 GGAAAATGATTT
1 GTAAAATGATTT
14354583 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
GTAAAATGATTTCC
Found at i:14354591 original size:20 final size:20
Alignment explanation
Indices: 14354566--14354605 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14354556 CGTAAAATGA
14354566 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
14354586 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14354606 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14354595 original size:34 final size:34
Alignment explanation
Indices: 14354551--14354616 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
14354541 CAGTAAAATG
14354551 TTTTCCGTAAAATGATTT-CTGGAAAATGATTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAAT-ATTTAC
*
14354585 TTTTCTGTAAAATGATTTACTGGAAAATATTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTT
14354617 TCTGCTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTAC
Found at i:14354676 original size:32 final size:31
Alignment explanation
Indices: 14354598--14354679 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
14354588 TCTGTAAAAT
* *
14354598 GATTTACTGGAAAATATTTTCTGCTGTTTGGTA
1 GATTT-CT-GAAAATATTATCTGCTGTTTGGCA
* * *
14354631 AATCTGTGTAAAATATTATCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTATCTGCTGTTTGGCA
14354663 GATTTCCTGAAAATATT
1 GATTT-CTGAAAATATT
14354680 TTCCGGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
31 1 0.03
32 33 0.85
33 5 0.13
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (31 bp):
GATTTCTGAAAATATTATCTGCTGTTTGGCA
Found at i:14354734 original size:14 final size:14
Alignment explanation
Indices: 14354715--14354742 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14354705 ATTTTACATA
14354715 TATTAATATATATT
1 TATTAATATATATT
14354729 TATTAATATATATT
1 TATTAATATATATT
14354743 AATAAATTAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:14354743 original size:24 final size:25
Alignment explanation
Indices: 14354712--14354764 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
14354702 TATATTTTAC
*
14354712 ATATATTAATATA-TATTTATTA-AT
1 ATATATTAATAAATTATTT-TTACAT
14354736 ATATATTAATAAATTATTTTTACAT
1 ATATATTAATAAATTATTTTTACAT
14354761 ATAT
1 ATAT
14354765 TGTTAAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATTAATAAATTATTTTTACAT
Found at i:14356045 original size:35 final size:36
Alignment explanation
Indices: 14355999--14356067 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
14355989 ATTCAACCAT
14355999 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
14356034 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
14356068 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:14356065 original size:27 final size:28
Alignment explanation
Indices: 14356035--14356104 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
14356025 AATAATAAAT
*
14356035 TCAATATCCAACAAGCTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
14356062 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
14356090 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
14356105 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:14357772 original size:27 final size:26
Alignment explanation
Indices: 14357742--14357803 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
14357732 AGTTATAATT
14357742 TTTAATATCAAAATTTATAGAGACCAA
1 TTTAATATCAAAA-TTATAGAGACCAA
* * *
14357769 TTTAAAATCTAGATTATAGAGACCAA
1 TTTAATATCAAAATTATAGAGACCAA
*
14357795 TTTGATATC
1 TTTAATATC
14357804 TAGATTCTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTAATATCAAAATTATAGAGACCAA
Found at i:14357789 original size:26 final size:26
Alignment explanation
Indices: 14357756--14357809 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
14357746 ATATCAAAAT
14357756 TTATAGAGACCAATTTAAAATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
* *
14357782 TTATAGAGACCAATTTGATATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
14357808 TT
1 TT
14357810 CTAGTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (26 bp):
TTATAGAGACCAATTTAAAATCTAGA
Found at i:14358930 original size:14 final size:13
Alignment explanation
Indices: 14358901--14358927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14358891 AGAAGGTAAG
14358901 ACAGATACTTAAA
1 ACAGATACTTAAA
14358914 ACAGATACTTAAA
1 ACAGATACTTAAA
14358927 A
1 A
14358928 ACATGAACCA
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:14360726 original size:12 final size:12
Alignment explanation
Indices: 14360709--14360741 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
14360699 AAACCAAATC
*
14360709 AAGGGAGAACGA
1 AAGGGAGAACAA
14360721 AAGGGAGAACAA
1 AAGGGAGAACAA
14360733 AAGGGAGAA
1 AAGGGAGAA
14360742 GGGAGAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.06, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACAA
Found at i:14360979 original size:14 final size:14
Alignment explanation
Indices: 14360960--14360987 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14360950 TGGAAAAGGT
14360960 GGAAAATATTTTCC
1 GGAAAATATTTTCC
14360974 GGAAAATATTTTCC
1 GGAAAATATTTTCC
14360988 ACCAAACAAA
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:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:14365899 original size:30 final size:30
Alignment explanation
Indices: 14365844--14365905 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
14365834 CACTAAGCAA
14365844 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
14365873 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
14365904 GT
1 GT
14365906 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:14366141 original size:50 final size:49
Alignment explanation
Indices: 14366064--14366181 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
14366054 GTATGCCCAA
* *
14366064 ACGAGCTGTGAATCA-GTATGCTCTCACGAGCTGTAAACCGGTAAGCTCAT
1 ACGAGCTGAGAAT-AGGTAAGCTCTCACGAGCTG-AAACCGGTAAGCTCAT
* **
14366114 ATGAGCTGAGAATAGGTAAGCTCTCACGAGCTGAAATTGGTAAGCTCAT
1 ACGAGCTGAGAATAGGTAAGCTCTCACGAGCTGAAACCGGTAAGCTCAT
* *
14366163 ACGAACTGAGAATCGGTAA
1 ACGAGCTGAGAATAGGTAA
14366182 TCCCTAATGA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
49 31 0.53
50 28 0.47
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
ACGAGCTGAGAATAGGTAAGCTCTCACGAGCTGAAACCGGTAAGCTCAT
Found at i:14366166 original size:24 final size:25
Alignment explanation
Indices: 14366064--14366181 Score: 109
Period size: 25 Copynumber: 4.8 Consensus size: 25
14366054 GTATGCCCAA
* * *
14366064 ACGAGCTGTGAATCAGTATGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
14366088 CACGAGCTGTA-AACCGGTAAGCTCAT
1 -ACGAGCTG-AGAATCGGTAAGCTCAT
* *
14366114 ATGAGCTGAGAATAGGTAAGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
14366138 CACGAGCTGA-AATTGGTAAGCTCAT
1 -ACGAGCTGAGAATCGGTAAGCTCAT
*
14366163 ACGAACTGAGAATCGGTAA
1 ACGAGCTGAGAATCGGTAA
14366182 TCCCTAATGA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
24 22 0.29
25 53 0.70
26 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCAT
Found at i:14368038 original size:18 final size:18
Alignment explanation
Indices: 14368007--14368041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14367997 ACTTAGTTGT
* *
14368007 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
14368025 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
14368042 AGGACAAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:14376580 original size:18 final size:18
Alignment explanation
Indices: 14376557--14376597 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14376547 TTTAGATTAA
14376557 TTAGAGTTCTAGTACACT
1 TTAGAGTTCTAGTACACT
* *
14376575 TTAGAGTTTTAGTATACT
1 TTAGAGTTCTAGTACACT
14376593 TTAGA
1 TTAGA
14376598 ATTTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (18 bp):
TTAGAGTTCTAGTACACT
Found at i:14376602 original size:18 final size:18
Alignment explanation
Indices: 14376566--14376603 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14376556 ATTAGAGTTC
*
14376566 TAGTACACTTTAGAGTTT
1 TAGTACACTTTAGAATTT
*
14376584 TAGTATACTTTAGAATTT
1 TAGTACACTTTAGAATTT
14376602 TA
1 TA
14376604 TTTGGGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (18 bp):
TAGTACACTTTAGAATTT
Found at i:14377233 original size:25 final size:22
Alignment explanation
Indices: 14377180--14377233 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 22
14377170 AAAAAAAGTG
14377180 ATAAAAATATAGAAAAAGAAAA
1 ATAAAAATATAGAAAAAGAAAA
14377202 A-AGAAAATATGATGAAAAAAGAAAA
1 ATA-AAAATAT-A-G-AAAAAGAAAA
14377227 ATAAAAA
1 ATAAAAA
14377234 AATATTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 1 0.04
24 1 0.04
25 15 0.56
26 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (22 bp):
ATAAAAATATAGAAAAAGAAAA
Found at i:14383599 original size:64 final size:64
Alignment explanation
Indices: 14383519--14383639 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
14383509 GAAAAAAAAA
* ** *
14383519 TTTTTGGTGCTGGCCTATCAATGGCCGGCACCAGTA-TATGAAAAACAAATTTTGGGAAATTTT
1 TTTTTGGTGCTAGCCTATCAATGGCCGGCACCACCAGTATGAAAAAAAAATTTTGGGAAATTTT
*
14383582 TTTTTGTGTGCTAGCCTATCAATGGCTGGCACCACCAGTATGAAAAAAAAATTTTGGG
1 TTTTTG-GTGCTAGCCTATCAATGGCCGGCACCACCAGTATGAAAAAAAAATTTTGGG
14383640 TGCTGGCCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 6 0.12
64 26 0.51
65 19 0.37
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (64 bp):
TTTTTGGTGCTAGCCTATCAATGGCCGGCACCACCAGTATGAAAAAAAAATTTTGGGAAATTTT
Found at i:14383677 original size:114 final size:114
Alignment explanation
Indices: 14383468--14383677 Score: 321
Period size: 114 Copynumber: 1.8 Consensus size: 114
14383458 AAAAAATAAA
* * *
14383468 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTTTGGTGCTGGC
1 TTTTTGGGTGCTAGCCTATCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTTGGGTGCTGGC
**
14383533 CTATCAATGGCCGGCACCAGTATATGAAAAACAAATTTTGGGAAATTTT
66 CTATCAATGGCCGGCACCAGTATACAAAAAACAAATTTTGGGAAATTTT
* * *
14383582 TTTTTGTGTGCTAGCCTATCAATGGCTGGCACCACCAGTATGAAAAAAAAATTTTGGGTGCTGGC
1 TTTTTGGGTGCTAGCCTATCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTTGGGTGCTGGC
* * *
14383647 CTGTCAATGGTCGGCAGCAGTATACAAAAAA
66 CTATCAATGGCCGGCACCAGTATACAAAAAA
14383678 AATAGGTGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 85 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (114 bp):
TTTTTGGGTGCTAGCCTATCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTTGGGTGCTGGC
CTATCAATGGCCGGCACCAGTATACAAAAAACAAATTTTGGGAAATTTT
Found at i:14384565 original size:21 final size:22
Alignment explanation
Indices: 14384524--14384566 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14384514 TTGTATTTTA
*
14384524 TTGTGTATGTAAATTTAATTTG
1 TTGTGTATGTAAACTTAATTTG
14384546 TTGTGTA-GTAATACTT-ATTTG
1 TTGTGTATGTAA-ACTTAATTTG
14384567 AATTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGTGTATGTAAACTTAATTTG
Found at i:14387831 original size:52 final size:52
Alignment explanation
Indices: 14387748--14387863 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
14387738 AGCCAATACC
* * *
14387748 AAATTTTTTTTTGTACTAGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
1 AAATTTTTTTTTGTACTACTGGTGCCAGCCATTGACAAGCCAGCACCCAAAA
*
14387800 AAATTTTGTTTTTGTA-TACTGGTGCTAGCCATTGACAAGCCAGCACCCAAAA
1 AAATTTT-TTTTTGTACTACTGGTGCCAGCCATTGACAAGCCAGCACCCAAAA
*
14387852 AATTTTTTTTTT
1 AAATTTTTTTTT
14387864 TAAATTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
51 5 0.09
52 45 0.78
53 8 0.14
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTTTTTTTGTACTACTGGTGCCAGCCATTGACAAGCCAGCACCCAAAA
Found at i:14388307 original size:14 final size:14
Alignment explanation
Indices: 14388284--14388343 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
14388274 TCAATTCTGA
14388284 ATTTTAATTTTAAT
1 ATTTTAATTTTAAT
* *
14388298 ATTTTTATTTTAAA
1 ATTTTAATTTTAAT
* * *
14388312 ATCTAAATTTAAAT
1 ATTTTAATTTTAAT
14388326 -TTATTAATTTTAAT
1 ATT-TTAATTTTAAT
14388340 ATTT
1 ATTT
14388344 AGTTTAAAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
13 1 0.03
14 31 0.91
15 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTTAAT
Found at i:14388531 original size:28 final size:30
Alignment explanation
Indices: 14388492--14388551 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
14388482 CATTTATCAT
14388492 AAAAATAAATA-TT-ATTATCATAAAAATA
1 AAAAATAAATATTTAATTATCATAAAAATA
* *
14388520 AAAAATATATATTTAATTATCATAAATATA
1 AAAAATAAATATTTAATTATCATAAAAATA
14388550 AA
1 AA
14388552 TATTATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 2 0.07
30 16 0.57
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAATAAATATTTAATTATCATAAAAATA
Found at i:14396350 original size:16 final size:16
Alignment explanation
Indices: 14396329--14396360 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14396319 ATTAAAGACA
*
14396329 GAATTTTGGTCTTCTT
1 GAATTTTGATCTTCTT
14396345 GAATTTTGATCTTCTT
1 GAATTTTGATCTTCTT
14396361 ACAAGTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (16 bp):
GAATTTTGATCTTCTT
Found at i:14400109 original size:29 final size:30
Alignment explanation
Indices: 14400054--14400112 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
14400044 ATCTCAAAAT
* *
14400054 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-AGGTGCAATTG
14400085 TATACATGAACTTTAATTT-GGTGCAATT
1 TATACATGAACTTTAATTTAGGTGCAATT
14400113 ATTCAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTG
Found at i:14402254 original size:2 final size:2
Alignment explanation
Indices: 14402247--14402295 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14402237 AAACTGCCAT
14402247 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14402289 AG AG AG A
1 AG AG AG A
14402296 ATCACACCTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14405837 original size:21 final size:19
Alignment explanation
Indices: 14405815--14405869 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
14405805 TAAAAAAATA
14405815 TATAAAT-TTTTGTAATTTT
1 TATAAATATTTTG-AATTTT
14405834 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
14405852 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
14405870 CTTTGTTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 18 0.56
20 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:14409878 original size:21 final size:21
Alignment explanation
Indices: 14409829--14409888 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
14409819 ATGCTTTTAC
* *
14409829 ATCAGAATT-AGATTATACTT
1 ATCAAAATTCAGATCATACTT
* *
14409849 ATCATAATTCCGATCATACTT
1 ATCAAAATTCAGATCATACTT
* *
14409870 ATTAAAATTCAGATTATAC
1 ATCAAAATTCAGATCATAC
14409889 AGAGCATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (21 bp):
ATCAAAATTCAGATCATACTT
Found at i:14410812 original size:3 final size:3
Alignment explanation
Indices: 14410806--14410891 Score: 163
Period size: 3 Copynumber: 28.7 Consensus size: 3
14410796 AACAAATCAA
14410806 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
14410854 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14410892 AAGGTAATAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14413223 original size:25 final size:25
Alignment explanation
Indices: 14413145--14413216 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
14413135 CAAGCCTATT
* *
14413145 TTCACAGGTCGTGTGAGCATATTGA
1 TTCACAGCTCGTGTGAGCATACTGA
* * * *
14413170 TTTACAACTCGTGTAAGCATACCGA
1 TTCACAGCTCGTGTGAGCATACTGA
14413195 TTCACAGCTCGTGTGAGCATAC
1 TTCACAGCTCGTGTGAGCATAC
14413217 ATGTTCAAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATACTGA
Found at i:14422497 original size:103 final size:103
Alignment explanation
Indices: 14422311--14422508 Score: 231
Period size: 103 Copynumber: 1.9 Consensus size: 103
14422301 TTTTGTAAGT
* * * * * **
14422311 TTTGTGAGAAATATAATGCTATTTTGGTACCGTTTTTAAGATGGGGTATTGATATTTTTGAAAAT
1 TTTGTGAAAAATAGAATGCCATTTTGGTACCGCTTTTAAGATAGGGTATTGATATTCATGAAAAT
*
14422376 ATCAATACTTTACCAAAAGGTATCAATACTGAATTGGG
66 ATCAATACTTGACCAAAAGGTATCAATACTGAATTGGG
* *
14422414 TTTGTGAAAAATAGAATGCCGTTTTGGTATCGCTTTTAAGA-AGGGTATTGATAATTCAT-AAAA
1 TTTGTGAAAAATAGAATGCCATTTTGGTACCGCTTTTAAGATAGGGTATTGAT-ATTCATGAAAA
* * *
14422477 TATTAATA-TTGGGCCGAAAAGGTATCGATACT
65 TATCAATACTT-GACC-AAAAGGTATCAATACT
14422509 TTTTGGCCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
101 2 0.03
102 23 0.29
103 54 0.68
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (103 bp):
TTTGTGAAAAATAGAATGCCATTTTGGTACCGCTTTTAAGATAGGGTATTGATATTCATGAAAAT
ATCAATACTTGACCAAAAGGTATCAATACTGAATTGGG
Found at i:14424185 original size:5 final size:5
Alignment explanation
Indices: 14424164--14424199 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
14424154 TAAAAGAAAG
*
14424164 AAGAA CAAGAA AGGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
14424200 TAAAGGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:14424275 original size:3 final size:3
Alignment explanation
Indices: 14424267--14424292 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14424257 AACCAATCAA
14424267 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14424293 CTAAAGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14426311 original size:538 final size:538
Alignment explanation
Indices: 14425293--14426360 Score: 1572
Period size: 538 Copynumber: 2.0 Consensus size: 538
14425283 GGATGATTAA
* *
14425293 TTTTCCAGCCAAGGACAGTCCAAATGATGACTATTTTATTTACTTTATATTTAATTTTTATCCAA
1 TTTTCCACCCAAGGACAGTCCAAATGATGACTATTTTATTCACTTTATATTTAATTTTTATCCAA
* * * * * *
14425358 AATTAATTGGGTTCAAACTTAATATAAAGCTTGAAAGAGAAAGTGGTCCAGTATGTTAAATATAG
66 AATTAATTAGGTTCAAAATTAATATAAAGCCTGAAAGAGAAAATGGCCCAGTATGCTAAATATAG
*
14425423 AAGACTAATCCACCAAGCAAATTGGCAGTCCAAAATCGTCCCTATAGTAGATCCAATCAGTTATT
131 AAGACTAATCCACCAAGCAAATTGGCAGTCCAAAATCATCCCTATAGTAGATCCAATCAGTTATT
* * * *
14425488 TTTGCTGATTTTTATGCTTGCAAAATAGCCCTTGAGCTATCCCTAAATTCTATTCAAGCCCCTTC
196 TTTGCTGATTTTTATACTTGCAAAATAACCCTTGAGCTATCCCTAAATCCTATTCAAGCCCCTCC
*
14425553 ACTTTCTATGCCTTTGAATATTTGCCCCAAGCTAAATATAACAAAGTTTGAATTATTCAAACTTG
261 ACTTTCTATGCCTTTGAATATTTGCCCCAAGCTAAATATAACAAAGTTTGAATTATTCAAAATTG
* *
14425618 CTCCTTTCATGGCCAGCCAAGGAAGAGTGTATGACTGCTAATTATTTGCTATTTTTAGTAGCCAC
326 CTCCTTTCATGGCCAGCCAAGGAAGAGTGTATGACTACTAATTATTTGCTATTTTTAGCAGCCAC
* * *
14425683 TCCCACCTATAAATACCCCCTTTGTCACCTCACTCAACACACCTTCATCTCCCACAAATTTCTTA
391 TCCCACCTATAAATACCCCATTTGTCACCTCACTCAACACACATTCATCTCCCACAAATCTCTTA
* * * *
14425748 TTTCCTCTTTTTCGTTTCCCTTTGTTTTTCCCATTTCCCTTATCCATTTCCTTGTTGATTTTCCC
456 TTTCCTCTTTTCCGTTTCACTTTG-TTTTCCCATTTCCCTTATCCATTTCCTTGTCGATTTCCCC
*
14425813 TCTTGGTAAAGCTGAATAT
520 TCTTGGAAAAGCTGAATAT
** * *
14425832 TTTTCCACCCAAGGATGGTCCAAATTATGATTATTTTATTCACTTTATATTTAATTTTTATCCAA
1 TTTTCCACCCAAGGACAGTCCAAATGATGACTATTTTATTCACTTTATATTTAATTTTTATCCAA
**
14425897 AATTAATTAGGTT-AGAAATTAATATAAAGCCT-AAAGGAGAAAATGGCCCAGTATGCTATGTAT
66 AATTAATTAGGTTCA-AAATTAATATAAAGCCTGAAA-GAGAAAATGGCCCAGTATGCTAAATAT
* * * *
14425960 AGAAGATTGATCCACCAAGCAAATTTGCAGTCCAAAA-CATCCCTATAGTTGATCCAATCAGTTT
129 AGAAGACTAATCCACCAAGCAAATTGGCAGTCCAAAATCATCCCTATAGTAGATCCAATCAG-TT
**
14426024 ATTTTT-CTGATTTTTATACTTTTAAAATAACCCTTGAGCTATCCCTAAATCCTATTCAAGCCCC
193 ATTTTTGCTGATTTTTATACTTGCAAAATAACCCTTGAGCTATCCCTAAATCCTATTCAAGCCCC
* * *
14426088 TCCATTTTCTATGCCTTTGAATATTTTCCCCAAGCTAAATATAGCAAAGTTTGAATTATTCAAAA
258 TCCACTTTCTATGCCTTTGAATATTTGCCCCAAGCTAAATATAACAAAGTTTGAATTATTCAAAA
* ** * * *
14426153 TTGCTTCTTTTGTGG-CTGACCAAGGAAGAGTGTATGGCTACTAATTATTTTCTATTTTTAGCAG
323 TTGCTCCTTTCATGGCCAG-CCAAGGAAGAGTGTATGACTACTAATTATTTGCTATTTTTAGCAG
* ** * *
14426217 CCACTCCCACCTATAAATACCCCATTTGTTATGTCATTCAACACACATTCATTTCCCACAAATCT
387 CCACTCCCACCTATAAATACCCCATTTGTCACCTCACTCAACACACATTCATCTCCCACAAATCT
* *
14426282 CTTATTTCCT-TTCTTCCGTTTCACTTTGTTTTCCCATTTCCCTTGTCCATTTTCTTGTCGATTT
452 CTTATTTCCTCTT-TTCCGTTTCACTTTGTTTTCCCATTTCCCTTATCCATTTCCTTGTCGATTT
14426346 CCCCTCTTGGAAAAG
516 CCCCTCTTGGAAAAG
14426361 AGCTTCCATC
Statistics
Matches: 472, Mismatches: 52, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
537 50 0.11
538 272 0.58
539 150 0.32
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (538 bp):
TTTTCCACCCAAGGACAGTCCAAATGATGACTATTTTATTCACTTTATATTTAATTTTTATCCAA
AATTAATTAGGTTCAAAATTAATATAAAGCCTGAAAGAGAAAATGGCCCAGTATGCTAAATATAG
AAGACTAATCCACCAAGCAAATTGGCAGTCCAAAATCATCCCTATAGTAGATCCAATCAGTTATT
TTTGCTGATTTTTATACTTGCAAAATAACCCTTGAGCTATCCCTAAATCCTATTCAAGCCCCTCC
ACTTTCTATGCCTTTGAATATTTGCCCCAAGCTAAATATAACAAAGTTTGAATTATTCAAAATTG
CTCCTTTCATGGCCAGCCAAGGAAGAGTGTATGACTACTAATTATTTGCTATTTTTAGCAGCCAC
TCCCACCTATAAATACCCCATTTGTCACCTCACTCAACACACATTCATCTCCCACAAATCTCTTA
TTTCCTCTTTTCCGTTTCACTTTGTTTTCCCATTTCCCTTATCCATTTCCTTGTCGATTTCCCCT
CTTGGAAAAGCTGAATAT
Found at i:14433655 original size:39 final size:39
Alignment explanation
Indices: 14433569--14433655 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
14433559 TCTTGAGCGT
* * * *
14433569 CCTGCTGCACACGCACCAACCCCGTATCTTGCCTTGCTC
1 CCTGCTGCTCACGCACCAAACCCGCATCCTGCCTTGCTC
* *
14433608 CCTACTGCTCACGCACCAAACCTGCATCCTGCCTTGC-C
1 CCTGCTGCTCACGCACCAAACCCGCATCCTGCCTTGCTC
14433646 CACTGCTGCT
1 C-CTGCTGCT
14433656 ACTACTACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.16, C:0.46, G:0.15, T:0.23
Consensus pattern (39 bp):
CCTGCTGCTCACGCACCAAACCCGCATCCTGCCTTGCTC
Found at i:14440171 original size:12 final size:12
Alignment explanation
Indices: 14440150--14440212 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
14440140 CAGATTCAAT
14440150 AAAA-AAAATCA
1 AAAACAAAATCA
14440161 AAAACAAAATCA
1 AAAACAAAATCA
*
14440173 AAAACAAAA-AA
1 AAAACAAAATCA
*
14440184 AAAGAAAAAATCA
1 AAA-ACAAAATCA
** *
14440197 AAGTCAAAAGCA
1 AAAACAAAATCA
14440209 AAAA
1 AAAA
14440213 AGAGAAATCA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 8 0.20
12 29 0.73
13 3 0.08
ACGTcount: A:0.78, C:0.11, G:0.05, T:0.06
Consensus pattern (12 bp):
AAAACAAAATCA
Found at i:14440186 original size:30 final size:31
Alignment explanation
Indices: 14440150--14440241 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 31
14440140 CAGATTCAAT
14440150 AAAAAAAATCAAAAA-CAAAATCAAAAACAA
1 AAAAAAAATCAAAAATCAAAATCAAAAACAA
* *
14440180 AAAAAAAGA--AAAAATCAAAGTCAAAAGCAA
1 AAAAAAA-ATCAAAAATCAAAATCAAAAACAA
14440210 AAAAGAGAAATCAATCAAAGTCAAAAT-AAAAA
1 AAAA-A-AAATCAA--AAA-TCAAAATCAAAAA
14440242 TATGAAAAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
29 5 0.10
30 24 0.49
31 3 0.06
32 2 0.04
33 2 0.04
35 7 0.14
36 6 0.12
ACGTcount: A:0.74, C:0.11, G:0.07, T:0.09
Consensus pattern (31 bp):
AAAAAAAATCAAAAATCAAAATCAAAAACAA
Found at i:14440638 original size:15 final size:14
Alignment explanation
Indices: 14440614--14440669 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
14440604 AATGGATTTC
14440614 AAAAA-AAAAAGATG
1 AAAAAGAAAAA-ATG
*
14440628 AAAAAG-GAAAATG
1 AAAAAGAAAAAATG
*
14440641 AAAAATAAAAAAATG
1 AAAAA-GAAAAAATG
*
14440656 AAAAAGTAAAAATG
1 AAAAAGAAAAAATG
14440670 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 8 0.24
14 15 0.44
15 11 0.32
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (14 bp):
AAAAAGAAAAAATG
Found at i:14440656 original size:28 final size:27
Alignment explanation
Indices: 14440614--14440666 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14440604 AATGGATTTC
*
14440614 AAAAAAAAAAGATGAAAAAGGAAAATG
1 AAAAAAAAAAAATGAAAAAGGAAAATG
*
14440641 AAAAATAAAAAAATGAAAAAGTAAAA
1 AAAAA-AAAAAAATGAAAAAGGAAAA
14440667 ATGGAGAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAAAATGAAAAAGGAAAATG
Found at i:14442112 original size:44 final size:44
Alignment explanation
Indices: 14442046--14442446 Score: 262
Period size: 44 Copynumber: 8.7 Consensus size: 44
14442036 AGAAATGGTG
14442046 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGTCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGTCAGA
* *
14442090 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC-AGA
* * * *
14442134 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT-A-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGA
*
14442176 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGTCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGTCAGA
* *
14442232 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC-AGA
* * ** * *
14442276 AATCCTATCTCCCTGAGATTACAGTGAAGTGGATTAAAAT-A-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGA
* * *
14442318 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGTCAGA
*** * *
14442374 AATCTTATCTCCCTGAGATTACAACAGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGA
*
14442418 AATCCTATCTCCCTGAGATTACAGTGGAG
1 AATCTTATCTCCCTGAGATTACAGTGGAG
14442447 TGGATTAAAA
Statistics
Matches: 277, Mismatches: 43, Indels: 74
0.70 0.11 0.19
Matches are distributed among these distances:
42 2 0.01
43 8 0.03
44 193 0.70
47 4 0.01
49 7 0.03
51 3 0.01
54 51 0.18
55 5 0.02
56 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGA
Found at i:14442242 original size:142 final size:142
Alignment explanation
Indices: 14442075--14442500 Score: 771
Period size: 142 Copynumber: 3.0 Consensus size: 142
14442065 TACAGTGGAG
14442075 CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
14442140 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
14442205 AGTAGATCGCAT
131 AGTAGATCGCAT
14442217 CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
14442282 ATCTCCCTGAGATTACAGTGAAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
14442347 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
14442359 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACAGAGCAGATTGAAGCCAGTAATCCT
1 CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
14442424 ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAATGATCATATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
14442489 AGTAGATCGCAT
131 AGTAGATCGCAT
14442501 TAGGTTTTTT
Statistics
Matches: 273, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 273 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:14442298 original size:98 final size:97
Alignment explanation
Indices: 14442119--14442300 Score: 217
Period size: 98 Copynumber: 1.9 Consensus size: 97
14442109 TACAGCGGAG
* * * * *
14442119 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
14442184 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
14442217 CAGATTGAAG-TCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATC
1 CAGATTGAAGCT-AGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATC
14442280 CTATCTCCCTG-AGATTACAGT
63 CTATCTCCCTGAAG-TTACAGT
14442301 GAAGTGGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
97 5 0.07
98 63 0.89
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (97 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:14442623 original size:50 final size:50
Alignment explanation
Indices: 14442569--14443268 Score: 300
Period size: 50 Copynumber: 14.0 Consensus size: 50
14442559 TCCCAAGTGG
* * *
14442569 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * *
14442619 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCGCAGGAGA-
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCC-C-CGACAT
** * * * * *
14442669 TGCAACGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * * * *
14442719 TGCAGTTAAAAATATTAACGCTACAACAGCGAATCTTAC-TCCCCAGGCAA
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCC-GACAT
* * * * * * * *
14442769 TGTAGCGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * * * *
14442819 TGTAGTTAAAAATATTAAAGCTACAACAACGAATCTTAC-TCCCCAGGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCC-GAC-AT
* * * * *** * *
14442869 TGTAGCGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * * ** * * *
14442919 TGCAGTTAAAAAGATTAAAGCTATAACGGTGAATCTT-AATCGCCAGGCAA
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTC-CCCGACAT
* * * * * * * **
14442969 TGCAGCGGAACAGATTAAAGCCATAACGGTGAATCTTGCTTTCTTGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * *** * * * ** * *
14443019 TGCAGTTAAAAAGACTAAAGCCACAGTGGCGAGTGTTACTTCCTTGGCAC
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * ** * * * * *
14443069 AGCAGTGGAGTAGATTAAAACCACTACGGCGTATCTTGCTTCCCCGAAAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * * * *
14443119 TGCAGTTAAAAAGACTAAAGCCACAACGGCGAGTGTTACTT-CCCTAGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGA-C-AT
**** * * * * * *
14443169 TGCAGTGGGGCAGATTAAAGCCACGACGGCGTATCTTGCTTTCTCGATAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * *
14443219 TGCAGTTAAAAAGATCAAAGCTACAACAGCGAATCTTACTTCCTCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
14443269 CACAGTTAAA
Statistics
Matches: 460, Mismatches: 174, Indels: 32
0.69 0.26 0.05
Matches are distributed among these distances:
49 24 0.05
50 415 0.90
51 21 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
Found at i:14442748 original size:100 final size:100
Alignment explanation
Indices: 14442569--14443258 Score: 732
Period size: 100 Copynumber: 6.9 Consensus size: 100
14442559 TCCCAAGTGG
* * * * *
14442569 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
14442634 TAAAGCTACAACAGCGAATCTTACTCCGCAGG-AGA
66 TAAAGCTACAACAGCGAATCTTACTCC-CAGGCAGA
* *
14442669 TGCAACGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAATAT
1 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
*
14442734 TAACGCTACAACAGCGAATCTTACTCCCCAGGCA-A
66 TAAAGCTACAACAGCGAATCTTACT-CCCAGGCAGA
* * * *
14442769 TGTAGCGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAATAT
1 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
*
14442834 TAAAGCTACAACAACGAATCTTACTCCCCAGGC-GA
66 TAAAGCTACAACAGCGAATCTTACT-CCCAGGCAGA
* * *
14442869 TGTAGCGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGAT
1 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * *
14442934 TAAAGCTATAACGGTGAATCTTAATCGCCAGGCA-A
66 TAAAGCTACAACAGCGAATCTTACTC-CCAGGCAGA
* * * ** *
14442969 TGCAGCGGAACAGATTAAAGCCATAACGGTGAATCTTGCTTTCTTGACATTGCAGTTAAAAAGAC
1 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* *** * * ** *
14443034 TAAAGCCACAGTGGCGAGTGTTACTTCCTTGGCACA
66 TAAAGCTACAACAGCGAATCTTAC-TCCCAGGCAGA
* ** * * * *
14443070 -GCAGTGGAGTAGATTAAAACCAC-TACGGCGTATCTTGCTTCCCCGAAATTGCAGTTAAAAAGA
1 TGCAGCGGAACAGATTAAAGCCACAT-CGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* * * * *
14443133 CTAAAGCCACAACGGCGAGTGTTACTTCCCTA-GC-GA
65 TTAAAGCTACAACAGCGAATCTTAC-TCCC-AGGCAGA
* ** * * * * *
14443169 TGCAGTGGGGCAGATTAAAGCCACGA-CGGCGTATCTTGCTTTCTCGATATTGCAGTTAAAAAGA
1 TGCAGCGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
*
14443233 TCAAAGCTACAACAGCGAATCTTACT
65 TTAAAGCTACAACAGCGAATCTTACT
14443259 TCCTCGACAT
Statistics
Matches: 508, Mismatches: 70, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
99 3 0.01
100 499 0.98
101 6 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTACTCCCAGGCAGA
Found at i:14443610 original size:10 final size:10
Alignment explanation
Indices: 14443595--14443623 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
14443585 AAAAATAATT
14443595 AAATGTCCAA
1 AAATGTCCAA
14443605 AAATGTCCAA
1 AAATGTCCAA
14443615 AAATGTCCA
1 AAATGTCCA
14443624 GTTACAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (10 bp):
AAATGTCCAA
Found at i:14443802 original size:27 final size:28
Alignment explanation
Indices: 14443771--14443843 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
14443761 CCTGCGCCGC
*
14443771 TGCCACG-CACGCCTCTCCCTACGTACG
1 TGCCACGCCACGCCTCTCCCAACGTACG
*
14443798 TGCCACGTCCGCGCCTCTCCCAACGTACG
1 TGCCACG-CCACGCCTCTCCCAACGTACG
*
14443827 TGCCACGTCCGCGCCTC
1 TGCCACG-CCACGCCTC
14443844 AGTACATGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 7 0.17
29 35 0.83
ACGTcount: A:0.12, C:0.49, G:0.21, T:0.18
Consensus pattern (28 bp):
TGCCACGCCACGCCTCTCCCAACGTACG
Found at i:14443815 original size:29 final size:29
Alignment explanation
Indices: 14443780--14443843 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
14443770 CTGCCACGCA
*
14443780 CGCCTCTCCCTACGTACGTGCCACGTCCG
1 CGCCTCTCCCAACGTACGTGCCACGTCCG
14443809 CGCCTCTCCCAACGTACGTGCCACGTCCG
1 CGCCTCTCCCAACGTACGTGCCACGTCCG
14443838 CGCCTC
1 CGCCTC
14443844 AGTACATGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.11, C:0.50, G:0.20, T:0.19
Consensus pattern (29 bp):
CGCCTCTCCCAACGTACGTGCCACGTCCG
Found at i:14452292 original size:50 final size:51
Alignment explanation
Indices: 14452224--14452328 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 51
14452214 GACCACTTAT
* *
14452224 CACTTGTCCCTGATCAGATAAGTGTAG-CTAAGCTACCACTTATCACTTGC
1 CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
* *
14452274 CACTTGTCAGTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
14452325 CACT
1 CACT
14452329 AATCAGAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 25 0.50
51 25 0.50
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (51 bp):
CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
Found at i:14454240 original size:4 final size:4
Alignment explanation
Indices: 14454231--14454256 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14454221 AATAAACTAA
14454231 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
14454257 ATCTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:14456345 original size:47 final size:48
Alignment explanation
Indices: 14456174--14456348 Score: 237
Period size: 49 Copynumber: 3.6 Consensus size: 48
14456164 TTCGTTTTCT
* * *
14456174 CGATGCCATAGTCCA-ACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGA-TATGGTCTTACACGGAATCACATATCAC-TAC
*
14456223 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGGAATCACATATCAC-TAC
*
14456272 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCAC-AC
1 CGATGCCATAGCCCAGATATGGTCTTACACGGAATCACATATCACTAC
* * *
14456319 TGATGCCATATCCCAGATATGATCTTACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC
14456349 AAAAATCACA
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 28 0.24
49 88 0.76
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (48 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGGAATCACATATCACTAC
Found at i:14458491 original size:84 final size:84
Alignment explanation
Indices: 14458383--14458596 Score: 410
Period size: 84 Copynumber: 2.5 Consensus size: 84
14458373 CAAAGGATCC
14458383 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
14458448 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
14458467 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGAGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
14458532 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
14458551 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
14458597 TTCACATAGT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:14458502 original size:42 final size:42
Alignment explanation
Indices: 14458338--14458595 Score: 317
Period size: 42 Copynumber: 6.1 Consensus size: 42
14458328 TAACCGTTAC
* **
14458338 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGAT
* *
14458381 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* *
14458424 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
*
14458466 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * *
14458508 ACGG-AGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
14458550 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
14458592 ACGG
1 ACGG
14458596 GTTCACATAG
Statistics
Matches: 185, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
40 4 0.02
41 41 0.22
42 59 0.32
43 45 0.24
44 36 0.19
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
Found at i:14458679 original size:51 final size:51
Alignment explanation
Indices: 14458603--14458789 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
14458593 CGGGTTCACA
* * *
14458603 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCCGGTACACG
* * *
14458654 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCCGGTACACG
* * * * *
14458705 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
*
14458755 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
14458790 CACTTTCACT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
50 43 0.37
51 70 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
Found at i:14458809 original size:101 final size:101
Alignment explanation
Indices: 14458595--14458785 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
14458585 CAATGATACG
*
14458595 GGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAG
* *
14458660 CCTGCACATAGTACTACACACGTGATCGAAGCTATCC
65 CCTGCACATAGTACTACACACATGATCCAAGCTATCC
* * * * * *
14458697 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAG
14458761 CCTGCACATAGTACTACACACATGA
65 CCTGCACATAGTACTACACACATGA
14458786 CCATCACTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 42 0.52
102 37 0.46
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACATGATCCAAGCTATCC
Found at i:14461176 original size:7 final size:7
Alignment explanation
Indices: 14461160--14461203 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
14461150 GCTAAGCTAC
14461160 CACTTAT
1 CACTTAT
*
14461167 CACTTGT
1 CACTTAT
14461174 CACTTAT
1 CACTTAT
14461181 CACTTAT
1 CACTTAT
*
14461188 CACTTGT
1 CACTTAT
*
14461195 CACTAAT
1 CACTTAT
14461202 CA
1 CA
14461204 GATAAGTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.39
Consensus pattern (7 bp):
CACTTAT
Found at i:14461186 original size:21 final size:21
Alignment explanation
Indices: 14461160--14461203 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14461150 GCTAAGCTAC
*
14461160 CACTTATCACTTGTCACTTAT
1 CACTTATCACTTGTCACTAAT
14461181 CACTTATCACTTGTCACTAAT
1 CACTTATCACTTGTCACTAAT
14461202 CA
1 CA
14461204 GATAAGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.39
Consensus pattern (21 bp):
CACTTATCACTTGTCACTAAT
Found at i:14461216 original size:64 final size:65
Alignment explanation
Indices: 14461115--14461254 Score: 210
Period size: 64 Copynumber: 2.2 Consensus size: 65
14461105 CATACGTATG
* * *
14461115 ATCACTTATCACTTATCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCACTT
1 ATCACTTATCACTTATCACTAATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTGCCACTT
* *
14461179 ATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCACTT
1 ATCACTTATCACTTATCACTAATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTGCCACTT
* *
14461244 GTCACTGATCA
1 ATCACTTATCA
14461255 GATAAGTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
64 35 0.51
65 33 0.49
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (65 bp):
ATCACTTATCACTTATCACTAATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTGCCACTT
Found at i:14461249 original size:51 final size:51
Alignment explanation
Indices: 14461173--14461344 Score: 299
Period size: 51 Copynumber: 3.4 Consensus size: 51
14461163 TTATCACTTG
** *
14461173 TCACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTA
1 TCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA
14461224 TCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA
1 TCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA
*
14461275 TCACTTATCACTTGCCACTTTTCACTGATCAGATAAGTGTAGCTGAAGCTA
1 TCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA
*
14461326 TCACTTATCACTTGTCACT
1 TCACTTATCACTTGCCACT
14461345 AACCAGAAGT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 116 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (51 bp):
TCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA
Found at i:14464299 original size:12 final size:13
Alignment explanation
Indices: 14464269--14464296 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14464259 TATTTTAATA
14464269 TTTATTAAATTTT
1 TTTATTAAATTTT
14464282 TTTATTAAATTTT
1 TTTATTAAATTTT
14464295 TT
1 TT
14464297 ATTTTAATAA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:14464408 original size:15 final size:15
Alignment explanation
Indices: 14464385--14464422 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14464375 ATATATATAC
*
14464385 ATAATATTA-TTTCAA
1 ATAAAATTAGTTTC-A
14464400 ATAAAATTAGTTTCA
1 ATAAAATTAGTTTCA
14464415 ATAAAATT
1 ATAAAATT
14464423 TAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAAATTAGTTTCA
Found at i:14469988 original size:18 final size:19
Alignment explanation
Indices: 14469948--14469991 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
14469938 AAATAAAACC
14469948 TTTTGAAATTGAATAATGA
1 TTTTGAAATTGAATAATGA
14469967 -TTTGTAAA-TGAATAAT-A
1 TTTTG-AAATTGAATAATGA
14469984 TTTTGAAA
1 TTTTGAAA
14469992 ACGAACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTTGAAATTGAATAATGA
Found at i:14477803 original size:29 final size:28
Alignment explanation
Indices: 14477764--14477832 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
14477754 CAAAATTTGA
14477764 CATATATAATTATA-TCAAATTAAAATT
1 CATATATAATTATAGTCAAATTAAAATT
*
14477791 CATATATTAAATTATATGTTAAATTAAAATT
1 CATATA-T-AATTATA-GTCAAATTAAAATT
* *
14477822 AATGTATAATT
1 CATATATAATT
14477833 TTAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
28 1 0.03
29 11 0.31
30 1 0.03
31 16 0.46
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (28 bp):
CATATATAATTATAGTCAAATTAAAATT
Found at i:14486880 original size:21 final size:20
Alignment explanation
Indices: 14486833--14486888 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
14486823 TTTTTAATAT
*
14486833 TATATATAATATATTATTTAAA
1 TATATA-AATA-ATTATATAAA
*
14486855 AATATAAATAATTATATACAA
1 TATATAAATAATTATATA-AA
14486876 TATATAAATAATT
1 TATATAAATAATT
14486889 CAAAAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 18 0.60
22 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATAAATAATTATATAAA
Found at i:14487030 original size:29 final size:29
Alignment explanation
Indices: 14486959--14487031 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
14486949 ATAAAAATAA
*
14486959 AATTTTTCATAAAAAATTTAAAAAAAGTATTT
1 AATTTTTC--AAAAAATTTAAAAAAAG-ACTT
*
14486991 AACTTTT-AAAAAATTATAAAAAAA-ACTT
1 AATTTTTCAAAAAATT-TAAAAAAAGACTT
14487019 AATTTTTCAAAAA
1 AATTTTTCAAAAA
14487032 TATATATTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 9 0.25
29 13 0.36
30 8 0.22
32 6 0.17
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (29 bp):
AATTTTTCAAAAAATTTAAAAAAAGACTT
Found at i:14487037 original size:29 final size:30
Alignment explanation
Indices: 14486959--14487037 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 30
14486949 ATAAAAATAA
* * *
14486959 AATTTTTCATAAAAAATTTAAAAAAAGTATTT
1 AATTTTTCA-AAAATATATAAAAAAAG-ACTT
* *
14486991 AACTTTTAAAAAAT-TATAAAAAAA-ACTT
1 AATTTTTCAAAAATATATAAAAAAAGACTT
14487019 AATTTTTCAAAAATATATA
1 AATTTTTCAAAAATATATA
14487038 TTCTAGAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 15 0.38
29 4 0.10
30 9 0.23
31 4 0.10
32 7 0.18
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTTTTCAAAAATATATAAAAAAAGACTT
Found at i:14491880 original size:35 final size:35
Alignment explanation
Indices: 14491822--14491893 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
14491812 ATAAATGTTT
* * *
14491822 TACTAGCTCTACGGAGTGGCACCATGGAAATAGTC
1 TACTAGCTCTACGAAGTGACACCATGAAAATAGTC
* * *
14491857 TACTGGCTCTATGAAGTGACACCATGAAAATGGTC
1 TACTAGCTCTACGAAGTGACACCATGAAAATAGTC
14491892 TA
1 TA
14491894 TTGACTTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (35 bp):
TACTAGCTCTACGAAGTGACACCATGAAAATAGTC
Found at i:14492362 original size:28 final size:28
Alignment explanation
Indices: 14492319--14492393 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
14492309 GAAAAGGGAA
*
14492319 GTCCGCCAAGGACTATCTTAGGTGAAAT
1 GTCCGCCAAGGACTATCTTAGATGAAAT
* * *
14492347 GTTCGCCAAGGACTATCTTATATGGAAT
1 GTCCGCCAAGGACTATCTTAGATGAAAT
*
14492375 GTCCGCCAAGCACTATCTT
1 GTCCGCCAAGGACTATCTT
14492394 GACTACTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
GTCCGCCAAGGACTATCTTAGATGAAAT
Found at i:14495207 original size:21 final size:22
Alignment explanation
Indices: 14495182--14495230 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
14495172 TTAAGGCTTG
*
14495182 TAATTGACCTAATTAGGCCAAC
1 TAATTAACCTAATTAGGCCAAC
*
14495204 -AATTAACCTAATTAGGGCAAC
1 TAATTAACCTAATTAGGCCAAC
14495225 TAATTA
1 TAATTA
14495231 TGCCTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (22 bp):
TAATTAACCTAATTAGGCCAAC
Found at i:14497875 original size:23 final size:24
Alignment explanation
Indices: 14497826--14497876 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14497816 TTATTAATTA
* * *
14497826 AATTTTTAAATAATATATCTTTAT
1 AATTTTAAAAAAAAATATCTTTAT
*
14497850 AATTTTAAAAAAAAATAT-TTTCT
1 AATTTTAAAAAAAAATATCTTTAT
14497873 AATT
1 AATT
14497877 AAATGAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTTAAAAAAAAATATCTTTAT
Found at i:14498135 original size:16 final size:16
Alignment explanation
Indices: 14498114--14498147 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14498104 CACAATCATT
* *
14498114 TAAATATTATTAAAAC
1 TAAATAATAGTAAAAC
14498130 TAAATAATAGTAAAAC
1 TAAATAATAGTAAAAC
14498146 TA
1 TA
14498148 TCAAATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAATAATAGTAAAAC
Found at i:14499018 original size:13 final size:14
Alignment explanation
Indices: 14499000--14499036 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
14498990 TTTTAGTTTC
14499000 ATTAATTATAAAA-
1 ATTAATTATAAAAT
14499013 ATTAATTATAAAATT
1 ATTAATTATAAAA-T
14499028 ATTAATTAT
1 ATTAATTAT
14499037 TATCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
15 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAATTATAAAAT
Found at i:14499656 original size:2 final size:2
Alignment explanation
Indices: 14499649--14499689 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14499639 TTTTAAACTT
14499649 TA TA TA TA TA 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 TA TA TA TA TA T
14499690 GGCATAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14500499 original size:42 final size:42
Alignment explanation
Indices: 14500423--14500502 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
14500413 AACTATGGGG
* *
14500423 ACTTCTACCCAGACATCTTGTCTGATATATCGATACAATTCC
1 ACTTCTACCCAGACATCTTGTCAGATATACCGATACAATTCC
* * * *
14500465 ACTTCTACCCATACATCTTGTGAGTTGTACCGATACAA
1 ACTTCTACCCAGACATCTTGTCAGATATACCGATACAA
14500503 GTCTGTCTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (42 bp):
ACTTCTACCCAGACATCTTGTCAGATATACCGATACAATTCC
Found at i:14500931 original size:16 final size:16
Alignment explanation
Indices: 14500892--14500932 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
14500882 ATCTTAGCCT
*
14500892 TTGTAAAAGATAAAGA
1 TTGTAAATGATAAAGA
* *
14500908 TTGTAAATGATAGATA
1 TTGTAAATGATAAAGA
14500924 TTGTAAATG
1 TTGTAAATG
14500933 TTATACCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (16 bp):
TTGTAAATGATAAAGA
Found at i:14503274 original size:6 final size:6
Alignment explanation
Indices: 14503263--14503296 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
14503253 AATAAACGAG
14503263 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
14503297 GAAGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:14503314 original size:24 final size:24
Alignment explanation
Indices: 14503263--14503337 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
14503253 AATAAACGAG
* * *
14503263 AAAAATAAAAATAAAAATAAAAAT-
1 AAAAAT-AAAAGAAAATTAAAATTA
**
14503287 AAAAATAAAAGAAGTTTAAAATTA
1 AAAAATAAAAGAAAATTAAAATTA
* **
14503311 AAAACTAAATTAAAATTAAAATTA
1 AAAAATAAAAGAAAATTAAAATTA
14503335 AAA
1 AAA
14503338 TAAAGTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 12 0.30
24 28 0.70
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (24 bp):
AAAAATAAAAGAAAATTAAAATTA
Found at i:14520741 original size:26 final size:26
Alignment explanation
Indices: 14520712--14520771 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
14520702 CGAAATCATT
*
14520712 TGGAAATGAATTTAGGTTTCCAAAAA
1 TGGAAATGAATGTAGGTTTCCAAAAA
**
14520738 TGGAAATGAATGTAGGTTTCCAAGTA
1 TGGAAATGAATGTAGGTTTCCAAAAA
14520764 TGGAAATG
1 TGGAAATG
14520772 GAAATGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (26 bp):
TGGAAATGAATGTAGGTTTCCAAAAA
Found at i:14521881 original size:5 final size:5
Alignment explanation
Indices: 14521871--14521899 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14521861 GGAGTTAATA
14521871 AATTG AATTG AATTG AATTG AATTG AATT
1 AATTG AATTG AATTG AATTG AATTG AATT
14521900 ATCGTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
AATTG
Found at i:14530301 original size:11 final size:11
Alignment explanation
Indices: 14530287--14530330 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
14530277 AAATGATATT
*
14530287 TTATTATTTTA
1 TTATTAATTTA
14530298 TTATTAA--T-
1 TTATTAATTTA
14530306 TTATTAATTTA
1 TTATTAATTTA
14530317 TTATTAATTTA
1 TTATTAATTTA
14530328 TTA
1 TTA
14530331 ATTTATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 7 0.24
9 1 0.03
10 1 0.03
11 20 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:14530310 original size:19 final size:19
Alignment explanation
Indices: 14530286--14530337 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
14530276 TAAATGATAT
*
14530286 TTTATTATTTTATTATTAA
1 TTTATTAATTTATTATTAA
14530305 TTTATTAATTTATTATTAA
1 TTTATTAATTTATTATTAA
14530324 TTTATTAATTTATT
1 TTTATTAATTTATT
14530338 TAGTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTAATTTATTATTAA
Found at i:14530328 original size:8 final size:8
Alignment explanation
Indices: 14530298--14530337 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
14530288 TATTATTTTA
14530298 TTATTAAT
1 TTATTAAT
14530306 TTATTAATTT
1 TTATTAA--T
14530316 ATTATTAAT
1 -TTATTAAT
14530325 TTATTAAT
1 TTATTAAT
14530333 TTATT
1 TTATT
14530338 TAGTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 20 0.69
9 1 0.03
10 1 0.03
11 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTAAT
Found at i:14539064 original size:17 final size:18
Alignment explanation
Indices: 14539037--14539070 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14539027 TAGTGTGATA
14539037 TAACTCCGAACAAGCTTC
1 TAACTCCGAACAAGCTTC
*
14539055 TAAC-CCGAACGAGCTT
1 TAACTCCGAACAAGCTT
14539071 TCAATGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (18 bp):
TAACTCCGAACAAGCTTC
Found at i:14548275 original size:50 final size:50
Alignment explanation
Indices: 14548153--14548324 Score: 173
Period size: 50 Copynumber: 3.3 Consensus size: 50
14548143 TATCCCTGAT
* * * *
14548153 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTCCCAGAC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * *
14548203 ATGGTCTTACATAGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGGC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * ** *
14548253 ATGGTCTTACATGGGAGGTCTCATAATGTCAATGATGCCATTGCCATGTCCCAGAT
1 ATGGTCTTACATGGGAGCTCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGAC
14548309 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
14548325 TCTCATTCCC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 63 0.64
53 2 0.02
56 34 0.34
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Done.