Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 46 of 198
Found at i:13789512 original size:131 final size:132
Alignment explanation
Indices: 13789211--13789624 Score: 580
Period size: 132 Copynumber: 3.1 Consensus size: 132
13789201 CTCTGAGTTT
*
13789211 GCAGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGTAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGTAGTAGTGGAGCAAATCAAAGAC
* * * *
13789276 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCTACTAGTCCTATCTCCCTGAG
66 GGTCAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
13789341 TA
131 TA
* * * * *
13789343 GCAATGGAGTAGGTTGAAGATTGTAGATCCTGTTTCCCTAAGCAGTAGTGGAACAAATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGTAGTAGTGGAGCAAATCAAAGAC
* * *
13789408 GGTTAATCTTATCTTCCCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAG
66 GGTCAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
13789472 TA
131 TA
* * * *
13789474 GTAGTGGAGTAGGTTGAAGATTGTATATCTTGTCTCCCTAAGTAATAGTGGAGCAAATCAAAGA-
1 GCAGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGTAGTAGTGGAGCAAATCAAAGAC
* * * * *
13789538 TGACAATTCTTATCTTCCTGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCTTATCTCCCTGA
66 GGTCAA-TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTG-
*
13789603 AGTT
129 AGTA
*
13789607 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
13789625 ATTACCAATT
Statistics
Matches: 248, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
130 3 0.01
131 111 0.45
132 115 0.46
133 19 0.08
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGTAGTAGTGGAGCAAATCAAAGAC
GGTCAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
TA
Found at i:13790091 original size:22 final size:23
Alignment explanation
Indices: 13790063--13790107 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13790053 ATACAATCTT
13790063 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
* *
13790085 AGATATGATTTTTTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
13790108 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:13790117 original size:22 final size:23
Alignment explanation
Indices: 13790075--13790117 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13790065 ATATGATATG
*
13790075 TAATCTTAGAAGATATGATTTTT
1 TAATCTTAGAAGATATAATTTTT
*
13790098 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
13790118 GTAAATGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTT
Found at i:13792899 original size:25 final size:24
Alignment explanation
Indices: 13792871--13792957 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 24
13792861 TGTGAAGATA
*
13792871 TAAAATAATATTACATAATGAATTT
1 TAAAATAATAATACATAAT-AATTT
* *
13792896 TAAAGTAATAATACATGATAAGTTT
1 TAAAATAATAATACATAATAA-TTT
*
13792921 TAAAATACA-AATACATAATAAATT
1 TAAAATA-ATAATACATAATAATTT
*
13792945 CAAAATAATAATA
1 TAAAATAATAATA
13792958 TAAAATGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 36 0.69
26 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (24 bp):
TAAAATAATAATACATAATAATTT
Found at i:13798931 original size:20 final size:20
Alignment explanation
Indices: 13798892--13798931 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13798882 GTTTGATTTC
*
13798892 ATTTTAACATAATTAGTAAT
1 ATTTTAACATAATTAATAAT
* *
13798912 ATTTTAATATATTTAATAAT
1 ATTTTAACATAATTAATAAT
13798932 TTATATCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTTAACATAATTAATAAT
Found at i:13801861 original size:18 final size:18
Alignment explanation
Indices: 13801838--13801880 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
13801828 GTTGTTTGGA
13801838 GTCCCAAGGTAAGCTATC
1 GTCCCAAGGTAAGCTATC
*
13801856 GTCCCAAGGTAAGTTATC
1 GTCCCAAGGTAAGCTATC
13801874 GTCCCAA
1 GTCCCAA
13801881 ACTGAACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (18 bp):
GTCCCAAGGTAAGCTATC
Found at i:13813966 original size:17 final size:17
Alignment explanation
Indices: 13813944--13813983 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
13813934 GACTCGAAAG
13813944 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
13813961 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
13813978 AAAAAT
1 AAAAAT
13813984 CATAAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:13813983 original size:9 final size:8
Alignment explanation
Indices: 13813944--13813981 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
13813934 GACTCGAAAG
13813944 AAAAATAA
1 AAAAATAA
13813952 AAAAATAAA
1 AAAAAT-AA
13813961 AAAAATAA
1 AAAAATAA
13813969 AAAAATAA
1 AAAAATAA
13813977 AAAAA
1 AAAAA
13813982 ATCATAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:13814010 original size:9 final size:9
Alignment explanation
Indices: 13813950--13814026 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
13813940 AAAGAAAAAT
*
13813950 AAAAAAATA
1 AAAAAAAGA
*
13813959 AAAAAAA-T
1 AAAAAAAGA
*
13813967 AAAAAAATA
1 AAAAAAAGA
*
13813976 AAAAAAA-T
1 AAAAAAAGA
* * *
13813984 CATAAGAGA
1 AAAAAAAGA
13813993 AAAATAAAGA
1 AAAA-AAAGA
13814003 AAAAAAAGAA
1 AAAAAAAG-A
13814013 AAGAAAAAGA
1 AA-AAAAAGA
13814023 AAAA
1 AAAA
13814027 GGAGAAGTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
8 11 0.21
9 22 0.42
10 14 0.26
11 6 0.11
ACGTcount: A:0.83, C:0.01, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:13814032 original size:20 final size:19
Alignment explanation
Indices: 13813987--13814032 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
13813977 AAAAAATCAT
*
13813987 AAGAGAAAAATAAAGAAAA
1 AAGAGAAAAAAAAAGAAAA
*
13814006 AAAAGAAAAGAAAAAGAAAA
1 AAGAGAAAA-AAAAAGAAAA
*
13814026 AGGAGAA
1 AAGAGAA
13814033 GTCAAGGCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGAGAAAAAAAAAGAAAA
Found at i:13815039 original size:11 final size:11
Alignment explanation
Indices: 13815011--13815071 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
13815001 TAAAAAATAC
* *
13815011 AAAAAACAAAA
1 AAAAAAGAAAG
13815022 AAAAAAGAAAG
1 AAAAAAGAAAG
13815033 AAAAAAGAAAG
1 AAAAAAGAAAG
*
13815044 AGAAGAAG-AAG
1 A-AAAAAGAAAG
*
13815055 AAGAAGAGAAAAG
1 AA-AAAAG-AAAG
13815068 AAAA
1 AAAA
13815072 GGAAAAAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 1 0.02
11 28 0.68
12 7 0.17
13 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:13815246 original size:44 final size:44
Alignment explanation
Indices: 13815158--13815267 Score: 134
Period size: 43 Copynumber: 2.5 Consensus size: 44
13815148 AGGGCGGCTC
* *
13815158 AAATTTTGGAACAAAATGGGGCA-CGAAGTGATCAGAGCAACTT
1 AAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCAACTT
* ** *
13815201 AAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGAGCAGCTT
1 AAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCAACTT
* *
13815245 AAATTTT-GATCAGATCGGGGCAT
1 AAATTTTGGATCAAATTGGGGCAT
13815268 ATGATGATCT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 35 0.60
44 23 0.40
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (44 bp):
AAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCAACTT
Found at i:13816565 original size:100 final size:100
Alignment explanation
Indices: 13816391--13817435 Score: 1482
Period size: 100 Copynumber: 10.5 Consensus size: 100
13816381 AAAACCATAG
* * * * * * *
13816391 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
*
13816456 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGA-
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * **
13816490 AGTTGCAATTCAGAATATTGAAGCCACAATAGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCA
1 A-TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCA
*
13816555 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
13816591 ATTGCAATTCAAAATATTGAAGCCACAATGGTGGATCTTACTTCCCAGGCGATGTAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* *
13816656 ATTGAAGCTACAATGGCGAATCTCACTTCCCCTAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
13816691 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAGTAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * *
13816756 ATTGAAGCTACAACGACGACTCTCACTTCCCCTAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * *
13816791 ATTGCAATTCAAAAGATTGAAGCCACAACGTTGAATCTTACTTCCCAGGCGATGCAGCAGAGCAT
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
*
13816856 ATTGAAGCTACAACGGCAAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *
13816891 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCAAGGTGATGCAGCAGAGAAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
*
13816956 ATTGAAGCTACAACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
13816991 ATTGCAATTCAAAAGATTGAAGCCACCATGGTGAATCTTACTTCCTAGGCGATGTAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * *
13817056 ATTGAAGCTACAACGACAAATCTCACTTCCCCAAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *
13817091 ATTGCAATTCAAAATATTCAAGCCACCACCGTGAATCTTACTTCCCAGGCGATGTAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
** *
13817156 ATTGAAGCTACAACAACAAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
13817191 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCAGGTGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
13817256 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
13817291 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * ** *
13817355 ATTGAAGCTACAACAGTGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * *
13817390 ATTGTAATTCAAAAGATCGAAGCCACAACGGTGAATCTCACTTCCC
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCC
13817436 CGACATTGCA
Statistics
Matches: 852, Mismatches: 91, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
99 87 0.10
100 764 0.90
101 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
Found at i:13817424 original size:50 final size:50
Alignment explanation
Indices: 13816456--13817761 Score: 587
Period size: 50 Copynumber: 26.1 Consensus size: 50
13816446 AGCGGAACAA
* * * * *
13816456 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGA-AGTTGCAATTCAGAAT
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACA-TTGCAATTCAAAAG
* * * * * **** **
13816506 ATTGAAGCCACAATAGTGAATCTTACTTCCCAGGCGA-TGCAGCGGAGCAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCAAAAG
* *
13816556 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAT
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* ** * * * * * **** **
13816606 ATTGAAGCCACAATGGTGGATCTTACTTCCCAGGCGA-TGTAGCGGAGCAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCAAAAG
** * *
13816656 ATTGAAGCTACAATGGCGAATCTCACTTCCCCTACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * * * *
13816706 ATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGC-A-GCAGAGTAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCA-A-AAG
* * *
13816756 ATTGAAGCTACAAC-GACGACTCTCACTTCCCCTACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAG-TGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * * * *
13816806 ATTGAAGCCACAAC-GTTGAATCTTACTTCCCAGGCGA-TGC-A-GCAGAGCAT
1 ATTGAAGCTACAACAG-TGAATCTCACTTCCCCGAC-ATTGCAATTCA-A-AAG
* **
13816856 ATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * *** ** *
13816906 ATTGAAGCCACAACGGTGAATCTTACTTTCAAGGTGA-TGC-A-GCAGAGAAG
1 ATTGAAGCTACAACAGTGAATCTCAC-TTCCCCGACATTGCAATTCA-A-AAG
*
13816956 ATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * ** * ** * * **** **
13817006 ATTGAAGCCACCATGGTGAATCTTACTTCCTAGGCGA-TGTAGCGGAGCAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCAAAAG
** * *
13817056 ATTGAAGCTACAAC-GACAAATCTCACTTCCCCAACATTGCAATTCAAAAT
1 ATTGAAGCTACAACAG-TGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * * * * * **** **
13817106 ATTCAAGCCACCACCGTGAATCTTACTTCCCAGGCGA-TGTAGCGGAGCAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCAAAAG
***
13817156 ATTGAAGCTACAACAACAAATCTCACTTCCCCGACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * ** ** **** **
13817206 ATTGAAGCCACAACGGTGAATCTTACTTTCCAGGTGA-TGCAGCGGAGCAG
1 ATTGAAGCTACAACAGTGAATCTCAC-TTCCCCGACATTGCAATTCAAAAG
* * * *
13817256 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAGTTTAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * * * **** *
13817306 ATCGAAGCCACAACAGCGAATCTTACTT-CCAGGCGA-TGCAGCGGAACAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCAAAAG
** * *
13817355 ATTGAAGCTACAACAGTGAATCTTGCTTCCTCGACATTGTAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * *
13817405 ATCGAAGCCACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * * *
13817455 ATTGAAGCTACAACAGCGAATCTCACCTCCCTGGCGA-TGC-A-GCAGAACAA
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-ATTGCAATTCA-AA-AG
* * * * * *
13817505 ATCGAAGCTACGACGGCGAATCTCACTTCCCCGACATTGTAATTTAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * *
13817555 ATTGAAGCTACAACAGCGAATCTCACCTCCCTGACGATGGAGCAA---AATAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGAC-AT--TGCAATTCAAAAG
** * * * *
13817605 ATCAAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAGTTTAAAAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
** * * * * * * * * * * *
13817655 ATCAAAGCCACAACGGCGAATCTTATTTCCCAGGCAGTGCAGTTGAACAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
* * * * *
13817705 ATTGAAGCTACGACGGTGAATCTTACTTCCTCGACATTGCAGTT-AAACAG
1 ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAA-AG
13817755 ATTGAAG
1 ATTGAAG
13817762 ATAACAAATC
Statistics
Matches: 912, Mismatches: 295, Indels: 98
0.70 0.23 0.08
Matches are distributed among these distances:
47 3 0.00
48 8 0.01
49 71 0.08
50 789 0.87
51 30 0.03
52 8 0.01
53 3 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
ATTGAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTCAAAAG
Found at i:13817790 original size:45 final size:51
Alignment explanation
Indices: 13817741--13817843 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
13817731 TTCCTCGACA
*
13817741 TTGCAGTTA-AACAGATTGAAG-AT-AA-CA-A-ATCTTATCTCTCTGAAG
1 TTGCAGTTAGAACAGATTAAAGCATAAACCACAGATCTTATCTCTCTGAAG
*
13817786 TTGCAG-TAGAGCAGATTAAAGCTATAAACCACAGATCTTATCTCTCTGAAG
1 TTGCAGTTAGAACAGATTAAAGC-ATAAACCACAGATCTTATCTCTCTGAAG
13817837 TTGCAGT
1 TTGCAGT
13817844 AGAGTAGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
44 2 0.04
45 16 0.33
47 2 0.04
48 2 0.04
49 2 0.04
50 1 0.02
51 23 0.48
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (51 bp):
TTGCAGTTAGAACAGATTAAAGCATAAACCACAGATCTTATCTCTCTGAAG
Found at i:13821202 original size:40 final size:40
Alignment explanation
Indices: 13821133--13821297 Score: 140
Period size: 40 Copynumber: 4.1 Consensus size: 40
13821123 AAACAGGCTT
**
13821133 TTAGCGGCGTTTGGATAAAAAACGCCGCTATAGATCGCA-CA
1 TTAGCGGCGTTTCTA-AAAAAACGCCGCTATAGATCG-AGCA
* *
13821174 TTAGTGGCGCTTT-TAAAAAAACGCCGCTATAAGGT-GAGCA
1 TTAGCGGCG-TTTCTAAAAAAACGCCGCTAT-AGATCGAGCA
* *
13821214 TTAGCGGCGTTTCTGAAAAAGCGCCGCTATAGATCGATG-A
1 TTAGCGGCGTTTCTAAAAAAACGCCGCTATAGATCGA-GCA
* * ** * * *
13821254 TTAGCGGTGTTTTTCGAAAAATGCCACTATAGTTCGAGCA
1 TTAGCGGCGTTTCTAAAAAAACGCCGCTATAGATCGAGCA
13821294 TTAG
1 TTAG
13821298 AAAACGCAGC
Statistics
Matches: 102, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
39 8 0.08
40 78 0.76
41 13 0.13
42 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTCTAAAAAAACGCCGCTATAGATCGAGCA
Found at i:13821274 original size:80 final size:80
Alignment explanation
Indices: 13821149--13821297 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 80
13821139 GCGTTTGGAT
* *
13821149 AAAAAACGCCGCTATAGATCGCACATTAGTGGCGCTTTTAAAAAAACGCCGCTATAAGGT-GAGC
1 AAAAAACGCCGCTATAGATCGCACATTAGCGGCGCTTTTAAAAAAACGCCACTAT-AGGTCGAGC
13821213 ATTAGCGGCGTTTCTG
65 ATTAGCGGCGTTTCTG
* * * * ** * *
13821229 AAAAAGCGCCGCTATAGATCG-ATGATTAGCGGTGTTTTTCGAAAAATGCCACTATAGTTCGAGC
1 AAAAAACGCCGCTATAGATCGCA-CATTAGCGGCGCTTTTAAAAAAACGCCACTATAGGTCGAGC
13821293 ATTAG
65 ATTAG
13821298 AAAACGCAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
79 4 0.07
80 53 0.93
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (80 bp):
AAAAAACGCCGCTATAGATCGCACATTAGCGGCGCTTTTAAAAAAACGCCACTATAGGTCGAGCA
TTAGCGGCGTTTCTG
Found at i:13821424 original size:40 final size:41
Alignment explanation
Indices: 13821356--13821453 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
13821346 AGCTTTGGTG
* *
13821356 GCATTAGCGGCGCTTCT-TGAAGAACGCCGCT-ATAGATCGA
1 GCATTAGCGGCGCTTTTCTAAAGAACGCCGCTGA-AGATCGA
*
13821396 GCATTAGCGGCGCTTTTCTAAAG-GCGCCGCTGAAGATCGA
1 GCATTAGCGGCGCTTTTCTAAAGAACGCCGCTGAAGATCGA
* *
13821436 GCATTAGTGGCGTTTTTC
1 GCATTAGCGGCGCTTTTC
13821454 ATTAAGCGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 46 0.90
41 5 0.10
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTCTAAAGAACGCCGCTGAAGATCGA
Found at i:13821792 original size:195 final size:195
Alignment explanation
Indices: 13821326--13821801 Score: 581
Period size: 196 Copynumber: 2.4 Consensus size: 195
13821316 AACTAAGTAA
* * *
13821326 AACGACATCGTTTTATGTTAAGCTTTGGTGGCATTAGCGGCGCTTCTTGAAGAACGCCGCTATAG
1 AACGCCATCGTTTTATGTTGAGC-TTGGTGGCATTAGCGGCGCTTTTTGAAGAACGCCGCTATAG
** * *
13821391 ATCGAGCATTAGCGGCGCTTTTCTAAAGGCGCCGCTGAAGATCGAGCATTAGTGGCGTTTTTCAT
65 ATCGAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTGAAAATCGAGCATTAGCGGCGTTTTTCAT
* ** *
13821456 TAAGCGTCGCTAATGCTTTGACATATAGCGGCATTTTTATAAAGCGCCGCAAAAAATATTAAGCA
130 AAAGCGTCGCTAATGCTTCAACATATAGCGGCATTTCTATAAAGCGCCGCAAAAAATATTAAGCA
13821521 G
195 G
* ** *
13821522 AACGCCGTCGTTCCATGTTGAGCCTTGGTGGCATTAGCGACG-TTTTT-AAGAAAACGCCGCTAT
1 AACGCCATCGTTTTATGTTGAG-CTTGGTGGCATTAGCGGCGCTTTTTGAAG--AACGCCGCTAT
* *
13821585 AGTTCAAGCATTAGCGGCGCTTTTCTAAAAACGCCGCT-ATAAATCGAGCATTAGCGGCGTTTAT
63 AGATCGAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTGA-AAATCGAGCATTAGCGGCGTTT-T
* * * *
13821649 T-A-AAATGCG-CTGCTAATGC-TCAACATATAGCGGCGTTTCCTA-AAAGTGCTGCAAAAAGTA
126 TCATAAA-GCGTC-GCTAATGCTTCAACATATAGCGGCATTT-CTATAAAGCGCCGCAAAAAATA
*
13821709 TTAAGCAT
188 TTAAGCAG
* * *
13821717 AATGCCATCGTTTTATGTCGAGCTATGTTGGCATTAGCGGCGCTTTTTGAAGAACGCCGCTATAG
1 AACGCCATCGTTTTATGTTGAGCT-TGGTGGCATTAGCGGCGCTTTTTGAAGAACGCCGCTATAG
13821782 ATCGAGCATTAGCGGCGCTT
65 ATCGAGCATTAGCGGCGCTT
13821802 ATTTCATAAA
Statistics
Matches: 238, Mismatches: 31, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
194 5 0.02
195 109 0.46
196 118 0.50
197 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (195 bp):
AACGCCATCGTTTTATGTTGAGCTTGGTGGCATTAGCGGCGCTTTTTGAAGAACGCCGCTATAGA
TCGAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTGAAAATCGAGCATTAGCGGCGTTTTTCATA
AAGCGTCGCTAATGCTTCAACATATAGCGGCATTTCTATAAAGCGCCGCAAAAAATATTAAGCAG
Found at i:13822234 original size:15 final size:14
Alignment explanation
Indices: 13822209--13822245 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
13822199 TTTAATTAAT
*
13822209 GTTTGGGGATTATG
1 GTTTAGGGATTATG
13822223 GATTTAGGGATTATG
1 G-TTTAGGGATTATG
13822238 GTTTAGGG
1 GTTTAGGG
13822246 GTTAGGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:13822342 original size:23 final size:26
Alignment explanation
Indices: 13822316--13822366 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
13822306 GAGTTTAGGG
*
13822316 TTTAGATTAATTA-GTT-TTAT-TAA
1 TTTAGATTAAATATGTTCTTATATAA
*
13822339 TTTATATTAAATATGTTCTTATATAA
1 TTTAGATTAAATATGTTCTTATATAA
13822365 TT
1 TT
13822367 GTAAAAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 4 0.17
26 5 0.22
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTAGATTAAATATGTTCTTATATAA
Found at i:13822578 original size:15 final size:15
Alignment explanation
Indices: 13822543--13822585 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
13822533 TGGGATTTAA
**
13822543 GGTTTAGGGGTTAAT
1 GGTTTAGGGGTTAGG
13822558 GG-TTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
*
13822572 GGTTTAGGGTTTAG
1 GGTTTAGGGGTTAG
13822586 AATTTTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:13825096 original size:9 final size:9
Alignment explanation
Indices: 13825082--13825146 Score: 57
Period size: 9 Copynumber: 7.7 Consensus size: 9
13825072 AAAGTCATAA
13825082 TACATAACT
1 TACATAACT
*
13825091 TACATATCT
1 TACATAACT
**
13825100 TTTATAA--
1 TACATAACT
13825107 TACATAACT
1 TACATAACT
*
13825116 TACATAATT
1 TACATAACT
*
13825125 TACTTAA--
1 TACATAACT
13825132 TACATAACT
1 TACATAACT
13825141 TACATA
1 TACATA
13825147 TATTATATCT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
7 11 0.26
9 32 0.74
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (9 bp):
TACATAACT
Found at i:13825112 original size:25 final size:24
Alignment explanation
Indices: 13825078--13825167 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 24
13825068 AGTCAAAGTC
*
13825078 ATAATACATAACTTACATATCTTTT
1 ATAATACATAACTTACATAT-ATTT
13825103 ATAATACATAACTTACATA-ATTT
1 ATAATACATAACTTACATATATTT
13825126 ACTTAATACATAACTTACATATA-TT
1 A--TAATACATAACTTACATATATTT
*
13825151 AT-AT-CTTAACTTACATA
1 ATAATACATAACTTACATA
13825168 ATAACTTACA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.20
22 2 0.03
23 5 0.08
25 40 0.67
26 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAATACATAACTTACATATATTT
Found at i:13825174 original size:12 final size:12
Alignment explanation
Indices: 13825110--13825179 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
13825100 TTTATAATAC
13825110 ATAACTTACATA
1 ATAACTTACATA
*
13825122 ATTTACTTA-ATA
1 A-TAACTTACATA
13825134 CATAACTTACAT-
1 -ATAACTTACATA
* *
13825146 AT-A-TTATATC
1 ATAACTTACATA
*
13825156 TTAACTTACATA
1 ATAACTTACATA
13825168 ATAACTTACATA
1 ATAACTTACATA
13825180 GCTTAGTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
9 5 0.11
10 2 0.04
11 3 0.07
12 26 0.58
13 9 0.20
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:13830303 original size:21 final size:21
Alignment explanation
Indices: 13830277--13830369 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
13830267 CTATAACTTA
* *
13830277 AAGCAGAGGTAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
* * *
13830298 AAGCAGAGGCAACAGTGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
13830319 AAGCAGAGGCAGCATCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
13830340 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
13830361 AAGCTGAGG
1 AAGCAGAGG
13830370 TTCAAAGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.37, C:0.16, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:13830449 original size:129 final size:129
Alignment explanation
Indices: 13830219--13830455 Score: 339
Period size: 129 Copynumber: 1.8 Consensus size: 129
13830209 TAAAGCGGAT
* * *
13830219 GCAGCATCGAGAGAAGCTGAGGTCCAAAAAAAATATGAAGAACTCCAACTATAACTTAAAGCAGA
1 GCAGCAGCGAGAGAAGCTGAGGTCCAAAAAAAATATGAAAAACTCCAACTACAACTTAAAGCAGA
* * *
13830284 GGTAGCAGCGAGGGAAGCAGAGGCAACAGTGAGGGAAGCAGAGGCAGCATCGAGAGAAGCAGAG
66 GGCAGCAGCGAGAGAAGCAGAGGCAACAGCGAGGGAAGCAGAGGCAGCATCGAGAGAAGCAGAG
* * * * * *
13830348 GCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAAAACTTCAGCTACAACTTAAATCTGA
1 GCAGCAGCGAGAGAAGCTGAGGTCCAAAAAAAATATGAAAAACTCCAACTACAACTTAAAGCAGA
* **
13830413 TGCAGCAGCGAGAGAAGCAGAGGCTGCAGCGAGGGAAGCAGAG
66 GGCAGCAGCGAGAGAAGCAGAGGCAACAGCGAGGGAAGCAGAG
13830456 CAGAGGAGAA
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 93 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.11
Consensus pattern (129 bp):
GCAGCAGCGAGAGAAGCTGAGGTCCAAAAAAAATATGAAAAACTCCAACTACAACTTAAAGCAGA
GGCAGCAGCGAGAGAAGCAGAGGCAACAGCGAGGGAAGCAGAGGCAGCATCGAGAGAAGCAGAG
Found at i:13830941 original size:42 final size:43
Alignment explanation
Indices: 13830782--13830970 Score: 274
Period size: 43 Copynumber: 4.4 Consensus size: 43
13830772 TTGTGTTCTT
* *
13830782 TAGCGGCGTTTGTGGGAAAAGCACTGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
* *
13830825 TAGCGGCGCTTGTGGGAAAAGCGCCGCTAAATGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
* * * **
13830868 TAGCGGCATTTTTGGGAAAAGCGCCGC-AAAGGTATTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
*
13830910 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
13830952 TAGCGGCGTTTGTGGGAAA
1 TAGCGGCGTTTGTGGGAAA
13830971 TAAGAATAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 13 0.10
42 48 0.37
43 68 0.53
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
Found at i:13831294 original size:43 final size:43
Alignment explanation
Indices: 13831246--13831345 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
13831236 ATGTCTTTAG
13831246 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTGC-CGAT
1 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT-CACGAT
* * * * * *
13831289 TTATAGCTGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATGAT
1 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCACGAT
13831332 CTATAGCGGCGTTT
1 CTATAGCGGCGTTT
13831346 ATTTCTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCACGAT
Found at i:13832492 original size:3 final size:3
Alignment explanation
Indices: 13832478--13832598 Score: 93
Period size: 3 Copynumber: 40.7 Consensus size: 3
13832468 TTTAGTCTTG
* * **
13832478 TTA TTG TTA TTA TTA TTA TTA -AA CTTA TTA TTA TTA TTA TTA TCC
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * * *
13832523 TTA TTA TCA TTA CTA GTA TTA TTA TTA ATG TTA TTA CT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
13832570 TTA TTT TTA ATA CTA TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13832599 GCCCTTATGT
Statistics
Matches: 89, Mismatches: 26, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
2 2 0.02
3 86 0.97
4 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:13837210 original size:12 final size:12
Alignment explanation
Indices: 13837193--13837220 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13837183 AGCATGGGCT
13837193 TGTGGCTGGCCG
1 TGTGGCTGGCCG
13837205 TGTGGCTGGCCG
1 TGTGGCTGGCCG
13837217 TGTG
1 TGTG
13837221 ACAGGTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.50, T:0.29
Consensus pattern (12 bp):
TGTGGCTGGCCG
Found at i:13842866 original size:29 final size:29
Alignment explanation
Indices: 13842824--13842887 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
13842814 AAATAATAAG
* *
13842824 TCTAAATAAAGAAAGGCTCATAGTATCTC
1 TCTAAATAAAGAAAGACTCATAATATCTC
* *
13842853 TCTAAATAAAGAAAGACTCCTAATATTTC
1 TCTAAATAAAGAAAGACTCATAATATCTC
13842882 TCTAAA
1 TCTAAA
13842888 ATATTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (29 bp):
TCTAAATAAAGAAAGACTCATAATATCTC
Found at i:13843451 original size:25 final size:25
Alignment explanation
Indices: 13843423--13843480 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
13843413 TTGGAAGGTG
13843423 AATTATTTTCGTTATTTGGCCATAC
1 AATTATTTTCGTTATTTGGCCATAC
*
13843448 AATTATTTTGGTTATTTGGCCATAC
1 AATTATTTTCGTTATTTGGCCATAC
13843473 AATTATTT
1 AATTATTT
13843481 GTTCATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (25 bp):
AATTATTTTCGTTATTTGGCCATAC
Found at i:13844815 original size:19 final size:19
Alignment explanation
Indices: 13844774--13844821 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13844764 ATTCAGTCAT
*
13844774 TTTTTATTTTAATATTTTTA
1 TTTTTA-TTTAATATTTTCA
13844794 TTTTTATTTAAT-TTTTACA
1 TTTTTATTTAATATTTT-CA
*
13844813 TTTTAATTT
1 TTTTTATTT
13844822 TTCATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTAATATTTTCA
Found at i:13844819 original size:14 final size:13
Alignment explanation
Indices: 13844787--13844828 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
13844777 TTATTTTAAT
*
13844787 ATTTTTATTTTT-
1 ATTTTAATTTTTC
13844799 A-TTTAATTTTTAC
1 ATTTTAATTTTT-C
13844812 ATTTTAATTTTTC
1 ATTTTAATTTTTC
13844825 ATTT
1 ATTT
13844829 GTTACTTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.35
12 1 0.04
13 6 0.23
14 10 0.38
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTAATTTTTC
Found at i:13847464 original size:16 final size:16
Alignment explanation
Indices: 13847435--13847468 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13847425 CTGTGGATTA
13847435 TGGGTTTTATAAAAAT
1 TGGGTTTTATAAAAAT
13847451 TGGGCTTTTA-AAAAAT
1 TGGG-TTTTATAAAAAT
13847467 TG
1 TG
13847469 ATTGATTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (16 bp):
TGGGTTTTATAAAAAT
Found at i:13858023 original size:22 final size:22
Alignment explanation
Indices: 13857944--13858015 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
13857934 ATTGTTCAAA
* **
13857944 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
13857966 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
13857988 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
13858010 CATGAG
1 CATGAG
13858016 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:13869034 original size:14 final size:14
Alignment explanation
Indices: 13869015--13869051 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13869005 TCAGGTATAT
*
13869015 TTTATTATATTTTC
1 TTTATTATATTATC
*
13869029 TTTATTATATTATG
1 TTTATTATATTATC
13869043 TTTATTATA
1 TTTATTATA
13869052 ATTGGAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTATTATATTATC
Found at i:13875989 original size:104 final size:104
Alignment explanation
Indices: 13875809--13876016 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
13875799 AGGTGTAAAC
13875809 ATTATAGCTTTGTAAAAGAACCTTAAAAATGATTTGAAAAGTATTTTAAGAGCTCAAAAAATGAT
1 ATTATAGCTTTGTAAAAGAACCTTAAAAATGATTTGAAAAGTATTTTAAGAGCTCAAAAAATGAT
13875874 TGTTTAATGAATAAAAATGGGAAGTGACCTTGATTTCAA
66 TGTTTAATGAATAAAAATGGGAAGTGACCTTGATTTCAA
13875913 ATTATAGCTTTGTAAAAGAACCTTAAAAATGATTTGAAAAGTATTTTAAGAGCTCAAAAAATGAT
1 ATTATAGCTTTGTAAAAGAACCTTAAAAATGATTTGAAAAGTATTTTAAGAGCTCAAAAAATGAT
13875978 TGTTTAATGAATAAAAATGGGAAGTGACCTTGATTTCAA
66 TGTTTAATGAATAAAAATGGGAAGTGACCTTGATTTCAA
13876017 GGGAGATCTC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (104 bp):
ATTATAGCTTTGTAAAAGAACCTTAAAAATGATTTGAAAAGTATTTTAAGAGCTCAAAAAATGAT
TGTTTAATGAATAAAAATGGGAAGTGACCTTGATTTCAA
Found at i:13880443 original size:28 final size:29
Alignment explanation
Indices: 13880404--13880465 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
13880394 TTAATATACA
* *
13880404 AATAATTGAACACATTTATTCAA-AAAAT
1 AATAATTAAACAAATTTATTCAATAAAAT
*
13880432 AATAATTAAACAAATTTATTCAATATAAT
1 AATAATTAAACAAATTTATTCAATAAAAT
13880461 AATAA
1 AATAA
13880466 GTTGTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AATAATTAAACAAATTTATTCAATAAAAT
Found at i:13883757 original size:9 final size:9
Alignment explanation
Indices: 13883740--13883776 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13883730 TAAGTTTTCG
13883740 AATTCGAAT
1 AATTCGAAT
*
13883749 AACTCGAAT
1 AATTCGAAT
13883758 AATTCGAAT
1 AATTCGAAT
13883767 AATTCGAAT
1 AATTCGAAT
13883776 A
1 A
13883777 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13884039 original size:30 final size:30
Alignment explanation
Indices: 13883986--13884044 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13883976 AACCTTTTAT
*
13883986 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
13884015 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
13884045 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:13884729 original size:5 final size:5
Alignment explanation
Indices: 13884719--13884744 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13884709 GAACAAATAT
13884719 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
13884745 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:13886320 original size:26 final size:26
Alignment explanation
Indices: 13886291--13886380 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
13886281 TAGTCCTCAT
13886291 GGACTTCCACAAAAGATAGTTCTGAC
1 GGACTTCCACAAAAGATAGTTCTGAC
*
13886317 GGACTTTCCGA-ACAAGATAG-TCTTGAC
1 GGAC-TTCC-ACAAAAGATAGTTC-TGAC
* * * * * * *
13886344 AGACTTCCATATAAGATCGTACTAAT
1 GGACTTCCACAAAAGATAGTTCTGAC
13886370 GGACTTCCACA
1 GGACTTCCACA
13886381 TTCACGGTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
25 1 0.02
26 28 0.56
27 20 0.40
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (26 bp):
GGACTTCCACAAAAGATAGTTCTGAC
Found at i:13886468 original size:24 final size:24
Alignment explanation
Indices: 13886423--13886469 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13886413 TCATCCCATT
* *
13886423 AAGGGGCTATCACATGTTCTACAC
1 AAGGGGCTATCACACGTCCTACAC
* *
13886447 AAGGGGCTCTCATACGTCCTACA
1 AAGGGGCTATCACACGTCCTACA
13886470 TAAAGGCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (24 bp):
AAGGGGCTATCACACGTCCTACAC
Found at i:13890466 original size:14 final size:13
Alignment explanation
Indices: 13890447--13890476 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
13890437 TTCCAGGTCA
13890447 TTTTCATTTTCCAT
1 TTTTCATTTT-CAT
13890461 TTTTCATTTTCAT
1 TTTTCATTTTCAT
13890474 TTT
1 TTT
13890477 AGAGAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTCAT
Found at i:13890554 original size:57 final size:57
Alignment explanation
Indices: 13890420--13890579 Score: 191
Period size: 57 Copynumber: 2.7 Consensus size: 57
13890410 AATTTAATTT
** *
13890420 AGAAAACATAAATTCATTTCCAGGTCATTTTCATTTTCCATTTTTCATTTTCATTTTAG
1 AGAAAACAT-AA-TCATTTCCAAATGATTTTCATTTTCCATTTTTCATTTTCATTTTAG
* *
13890479 AGAAAATCATATTCATTTCCAAATGATTTT-ATTTCTCCATTTTT-ATTTTCATTTTGG
1 AGAAAA-CATAATCATTTCCAAATGATTTTCATTT-TCCATTTTTCATTTTCATTTTAG
13890536 AGAAAACCATAATCATTTCCAAATG-TTTCTCATTTATCCATTTT
1 AGAAAA-CATAATCATTTCCAAATGATTT-TCATTT-TCCATTTT
13890580 CACCATTCCT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
56 3 0.03
57 40 0.45
58 36 0.40
59 7 0.08
60 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (57 bp):
AGAAAACATAATCATTTCCAAATGATTTTCATTTTCCATTTTTCATTTTCATTTTAG
Found at i:13901254 original size:27 final size:27
Alignment explanation
Indices: 13901218--13901279 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
13901208 TAAACATTGA
13901218 AATGAGTTAGTCTTCCATTTGCTTATTC
1 AATGA-TTAGTCTTCCATTTGCTTATTC
*
13901246 AATGATTAGTCTTCCGTTTGCTTATTC
1 AATGATTAGTCTTCCATTTGCTTATTC
13901273 AATGATT
1 AATGATT
13901280 TGCGATTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.47
Consensus pattern (27 bp):
AATGATTAGTCTTCCATTTGCTTATTC
Found at i:13904313 original size:3 final size:3
Alignment explanation
Indices: 13904305--13904366 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
13904295 GAAAAGCACA
13904305 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
*
13904353 AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AA
13904367 CGTGTCAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13906249 original size:2 final size:2
Alignment explanation
Indices: 13906238--13906272 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13906228 TTTTAATACC
13906238 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13906273 GTTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13909218 original size:14 final size:15
Alignment explanation
Indices: 13909187--13909219 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13909177 TATTGAAATA
*
13909187 ATATTTATTATTAGT
1 ATATTTATTATTAAT
13909202 ATATTTA-TATTAAT
1 ATATTTATTATTAAT
13909216 ATAT
1 ATAT
13909220 ATTTCCCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:13910934 original size:29 final size:29
Alignment explanation
Indices: 13910899--13910956 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13910889 TTTTAAAATA
13910899 TAAAAAATTCAAAAATTATAAAAATTATTT
1 TAAAAAATT-AAAAATTATAAAAATTATTT
* * *
13910929 TAAAAAATTGAAAATTATTAAACTTATT
1 TAAAAAATTAAAAATTATAAAAATTATT
13910957 AAAAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (29 bp):
TAAAAAATTAAAAATTATAAAAATTATTT
Found at i:13913380 original size:40 final size:41
Alignment explanation
Indices: 13913302--13913382 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
13913292 TGCTACTGAA
* * *
13913302 TACTGCATGATTGCTACTGATATTGTGATGGGCTAAGGCCC
1 TACTGCATGATTGATACTGATACTGAGATGGGCTAAGGCCC
13913343 TACTGCAT-ATTTGATACTG-TACTGAGATGGGCTAAGGCCC
1 TACTGCATGA-TTGATACTGATACTGAGATGGGCTAAGGCCC
13913383 AAACTGTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 20 0.56
41 16 0.44
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TACTGCATGATTGATACTGATACTGAGATGGGCTAAGGCCC
Found at i:13917010 original size:18 final size:17
Alignment explanation
Indices: 13916982--13917028 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13916972 TACCATTTCA
13916982 TATTT-CATTTCACATC
1 TATTTCCATTTCACATC
**
13916998 TCATTTCCATTTCTTATC
1 T-ATTTCCATTTCACATC
*
13917016 TTTTTCCATTTCA
1 TATTTCCATTTCA
13917029 ATATCAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 14 0.56
18 10 0.40
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTCCATTTCACATC
Found at i:13927810 original size:86 final size:85
Alignment explanation
Indices: 13927651--13927848 Score: 238
Period size: 86 Copynumber: 2.3 Consensus size: 85
13927641 GGGTTACCAA
* * * *
13927651 GATTACGTGTAAGACCATATCTGGGATGTGGCATTGATATGAGACTTCGTGTAAGACCATGTCTG
1 GATTACGTGTAAGACCATATCTGGGATGTGACATCGATATGAGACTTCGTGTAAGACCATGGCTC
13927716 GGACATTGGCATCGATATGT
66 GGACATTGGCATCGATATGT
* * * *
13927736 GATTTCGTGTAAGACCATGTCTGGGACAT-TGACATCGATATGTGATTTCGTGTAAGACCATGGC
1 GATTACGTGTAAGACCATATCTGGG--ATGTGACATCGATATGAGACTTCGTGTAAGACCATGGC
***
13927800 TCGG-CTATTGGCATCGATACAA
64 TCGGAC-ATTGGCATCGATATGT
* *
13927822 GATTACATGTAAGACCATATCTAGGAT
1 GATTACGTGTAAGACCATATCTGGGAT
13927849 ATGGCATTGT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
84 2 0.02
85 24 0.25
86 67 0.71
87 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (85 bp):
GATTACGTGTAAGACCATATCTGGGATGTGACATCGATATGAGACTTCGTGTAAGACCATGGCTC
GGACATTGGCATCGATATGT
Found at i:13927839 original size:43 final size:43
Alignment explanation
Indices: 13927651--13927818 Score: 225
Period size: 43 Copynumber: 3.9 Consensus size: 43
13927641 GGGTTACCAA
* * * *
13927651 GATTACGTGTAAGACCATATCTGGG--ATGTGGCATTGATATGA
1 GATTTCGTGTAAGACCATGTCTGGGACAT-TGGCATCGATATGT
*
13927693 GACTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
*
13927736 GATTTCGTGTAAGACCATGTCTGGGACATTGACATCGATATGT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
* *
13927779 GATTTCGTGTAAGACCATGGCTCGG-CTATTGGCATCGATA
1 GATTTCGTGTAAGACCATGTCTGGGAC-ATTGGCATCGATA
13927819 CAAGATTACA
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 23 0.20
43 88 0.78
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
Found at i:13931727 original size:23 final size:24
Alignment explanation
Indices: 13931696--13931740 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13931686 CCATTTAGCT
* *
13931696 AATTTATT-ATTTTTATTTTTTTA
1 AATTAATTAATTTATATTTTTTTA
13931719 AATTAATTAATTTATATTTTTT
1 AATTAATTAATTTATATTTTTT
13931741 AAGAGCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
AATTAATTAATTTATATTTTTTTA
Found at i:13931815 original size:24 final size:25
Alignment explanation
Indices: 13931758--13931813 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13931748 CCTCTATTAT
* *
13931758 TATTGTTTATTTTAAGTTTTACGTA
1 TATTATTTATTTTAAGTTTTACCTA
*
13931783 TATTATTTATTTTAATTTTTTACCTAA
1 TATTATTTATTTTAA-GTTTTACCT-A
13931810 TATT
1 TATT
13931814 TACTTAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 14 0.54
26 7 0.27
27 5 0.19
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (25 bp):
TATTATTTATTTTAAGTTTTACCTA
Found at i:13933112 original size:20 final size:18
Alignment explanation
Indices: 13933069--13933116 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
13933059 TAAATTTACG
13933069 ATCATTTTGTTGCATTTC
1 ATCATTTTGTTGCATTTC
*
13933087 ATTCATTTTGTTGTGATTTTC
1 A-TCATTTTGTTG-CA-TTTC
13933108 ATCATTTTG
1 ATCATTTTG
13933117 GTCTATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 11 0.42
20 9 0.35
21 5 0.19
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.58
Consensus pattern (18 bp):
ATCATTTTGTTGCATTTC
Found at i:13938509 original size:45 final size:44
Alignment explanation
Indices: 13938220--13938704 Score: 232
Period size: 41 Copynumber: 10.8 Consensus size: 44
13938210 TAAATTACAT
* * *
13938220 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T--A-ATATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
*
13938260 AGTCCTATAC-CCCTGAAGTTGCAGTGTGATG--GATTGAAGTCATCATGGCGA
1 A-TCTTAT-CTCCCTGAAGTTGCAGTG-GA-GCAGATTGAAG--AT-AT--C-A
* * *
13938311 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATCA
* * * * * *
13938356 ATCTTATTTCCCT-AAGTTACAATGGAACAGATTAAAGCTAAATAACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATATCA
* *
13938403 GATCTTATC-CCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA
1 -ATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * *
13938444 AGCATTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-TCA
* * * * * *
13938490 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGGTTGAACCTATAAATTGAAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA--GAT--A-T--CA
* * * *
13938541 ATCTTATCTACCTGACGTTGCAGTAGAGCAGA-T---CATATCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATC-A
* * * * *
13938582 ACCTTATCTCCCTAAAATTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * *
13938626 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGATGTTA-CTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATC-A
* * *
13938670 ATCCTATCTCCCTGAAAGTTGTAGTGGAGCGGATT
1 ATCTTATCTCCCTG-AAGTTGCAGTGGAGCAGATT
13938705 AAAACAATAA
Statistics
Matches: 334, Mismatches: 67, Indels: 83
0.69 0.14 0.17
Matches are distributed among these distances:
40 3 0.01
41 77 0.23
42 8 0.02
43 3 0.01
44 69 0.21
45 67 0.20
46 4 0.01
47 8 0.02
48 19 0.06
49 19 0.06
50 30 0.09
51 27 0.08
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
Found at i:13938591 original size:137 final size:134
Alignment explanation
Indices: 13938313--13938659 Score: 425
Period size: 137 Copynumber: 2.6 Consensus size: 134
13938303 CATGGCGAGT
* *
13938313 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAATGAATCTTATTTCCCT-AAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATGAATCTTATTTCCCTGAAGTTGCA
* * *
13938377 ATGGAACAGATTAAAGCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAT
65 GTGGAACAGATTAAACCTAAATAACAGATCTTATCACTCTGAAGTTGCAGTAGAGCAGATCATAT
*
13938442 CAAGC
130 CAAAC
* * *
13938447 ATTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-TGAATCTTATTTCCCTGAAGTTGCA
* * *
13938512 GTGGAACAGGTTGAACCTATAAATTGAA-A-ATCTTATCTAC-CTGACGTTGCAGTAGAGCAGAT
65 GTGGAACAGATTAAACC--TAAA-T-AACAGATCTTATC-ACTCTGAAGTTGCAGTAGAGCAGAT
13938574 CATATCAAAC
125 CATATCAAAC
* * * ** *
13938584 CTTATCTCCCTAAAATTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATGAATCTTATTTCCCTGAAGTTGCAG
13938649 T-GAAGCAGATT
66 TGGAA-CAGATT
13938660 GATGTTACTA
Statistics
Matches: 183, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
133 1 0.01
134 51 0.28
135 22 0.12
136 28 0.15
137 76 0.42
138 3 0.02
139 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (134 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATGAATCTTATTTCCCTGAAGTTGCAG
TGGAACAGATTAAACCTAAATAACAGATCTTATCACTCTGAAGTTGCAGTAGAGCAGATCATATC
AAAC
Found at i:13938605 original size:321 final size:328
Alignment explanation
Indices: 13937929--13938607 Score: 902
Period size: 321 Copynumber: 2.1 Consensus size: 328
13937919 AACCACAAAT
* *
13937929 CCTATACCCC-AGAAGTTGCAGTGGGATGGATTGAAGTCATCATGGCGAGTCTTATCTCCTTGAA
1 CCTATACCCCTA-AAATTGCAGTGGGATGGATTGAAGTCATCATGGCGAGTCTTATCTCCCTGAA
* * *
13937993 GTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCAATGGAACGAATTAA
65 GTTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTACAATGGAACGAATTAA
* *
13938058 AGCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAGGTCGGATCAAATCTATTGAAGTTACA
130 AGCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAGGTCAGATC-AA-CTATTCAAG-T-CA
* *
13938123 AGTCTTATCTTCCTGAAGTTGTAGTGGAGCGGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
191 A--CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
* * *
13938188 ACAGTGGAACAGATTGAAGCTATAAATTACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
254 ACAGTGGAACAGATTGAACCTATAAATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
*
13938253 AATATCAAGT
319 AATATCAAGA
* * *
13938263 CCTATACCCCTGAAGTTGCAGTGTGATGGATTGAAGTCATCATGGCGAGTCTTATCTCCCTGAAG
1 CCTATACCCCTAAAATTGCAGTGGGATGGATTGAAGTCATCATGGCGAGTCTTATCTCCCTGAAG
* *
13938328 TTGCAGTGGAGCAGACTGAAGATAATGAATCTTATTTCCCT-AAGTTACAATGGAAC-AGATTAA
66 TTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTACAATGGAACGA-ATTAA
13938391 AGCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAGAG-CAGATC-A-TA-TCAAG-C-A-T
130 AGCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAG-GTCAGATCAACTATTCAAGTCAACT
* * **
13938449 TATC-TCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTGTAG
194 TATCTTC-CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTACAG
* * *
13938513 TGGAACAGGTTGAACCTATAAATTGA-AAATCTTATCTAC-CTGACGTTGCAGTAGAGCAGATCA
258 TGGAACAGATTGAACCTATAAATT-ACAAATCTTATCT-CTCTGAAGTTGCAGTAGAGCAGATAA
13938576 TATCAA-A
321 TATCAAGA
13938583 CCT-TATCTCCCTAAAATTGCAGTGG
1 CCTATA-C-CCCTAAAATTGCAGTGG
13938608 AGCAGGTTGA
Statistics
Matches: 311, Mismatches: 26, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
319 2 0.01
320 6 0.02
321 129 0.41
322 2 0.01
324 1 0.00
325 1 0.00
328 4 0.01
329 2 0.01
331 1 0.00
332 1 0.00
333 63 0.20
334 99 0.32
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (328 bp):
CCTATACCCCTAAAATTGCAGTGGGATGGATTGAAGTCATCATGGCGAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTACAATGGAACGAATTAAA
GCTAAATAACAGATCTTATCCCTCTGAAGTTGCAGTAGGTCAGATCAACTATTCAAGTCAACTTA
TCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
AACAGATTGAACCTATAAATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAATATCA
AGA
Found at i:13938647 original size:44 final size:44
Alignment explanation
Indices: 13938540--13938704 Score: 147
Period size: 44 Copynumber: 3.8 Consensus size: 44
13938530 ATAAATTGAA
* * * * * *
13938540 AATCTTATCTACCTGACGTTGCAGTAGAGCAGA-T-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* * * *
13938581 AACCTTATCTCCCTAAAATTGCAGTGGAGCAGGTTGAAGATACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* * * *
13938625 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGATGTTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* * *
13938669 AATCCTATCTCCCTGAAAGTTGTAGTGGAGCGGATT
1 AATCTTATCTCCCTG-AAGTTGCAGTGGAGCAGATT
13938705 AAAACAATAA
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 26 0.27
42 1 0.01
43 3 0.03
44 51 0.52
45 17 0.17
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
Found at i:13938841 original size:39 final size:41
Alignment explanation
Indices: 13938761--13938841 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 41
13938751 ATCTACCATA
* *
13938761 GCAAGTCTTATCTCCCTTAAGTTGCAGTGGAGTAGACTAAAAAT
1 GCAAGTCTTATCTCCCTAAAGTGGCAGTGGAGT--A-TAAAAAT
13938805 GCAAGTCTTATCTCCCTAAAGTGGCAGTGG-GT-TAAAA
1 GCAAGTCTTATCTCCCTAAAGTGGCAGTGGAGTATAAAA
13938842 CAAGGATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 5 0.14
43 2 0.06
44 28 0.80
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
GCAAGTCTTATCTCCCTAAAGTGGCAGTGGAGTATAAAAAT
Found at i:13940217 original size:22 final size:23
Alignment explanation
Indices: 13940192--13940235 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13940182 CCATTTAGCT
* *
13940192 AATTTATT-ATTTTTATTTTTTA
1 AATTAATTAATTTATATTTTTTA
13940214 AATTAATTAATTTATATTTTTT
1 AATTAATTAATTTATATTTTTT
13940236 TAAGATCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
AATTAATTAATTTATATTTTTTA
Found at i:13952138 original size:15 final size:15
Alignment explanation
Indices: 13952118--13952154 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13952108 ATATTTAACT
*
13952118 AAAACTTTAAATTTG
1 AAAACTTTAAAGTTG
13952133 AAAACTTTAAAGTTG
1 AAAACTTTAAAGTTG
*
13952148 ACAACTT
1 AAAACTT
13952155 CAAAACCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (15 bp):
AAAACTTTAAAGTTG
Found at i:13955168 original size:105 final size:105
Alignment explanation
Indices: 13954986--13955360 Score: 494
Period size: 105 Copynumber: 3.6 Consensus size: 105
13954976 ATAGATGTTG
*
13954986 ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAATAT
1 ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGAT
* **
13955051 CGTAACTCCTAAATAGCTCGTTGACCTACGTTCACAACTA
66 CGCAACTCCTAAATAGCTCAATGACCTACGTTCACAACTA
* *
13955091 ATTTTATAAAGTTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGTTGATTTAAGAT
1 ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGAT
* *
13955156 CGCAACTCCTAAATAGCTCAATGACCTACGTTCATAGCTA
66 CGCAACTCCTAAATAGCTCAATGACCTACGTTCACAACTA
* * * * *
13955196 ATTTTATAAAGGTTAGCTAATTTAATATCGCAACCTATCCATCTTT-ATGTTTA-CTGATTTAAA
1 ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGA-G-TTAGCTGATTTAAG
* * * * *
13955259 ATCACAACTCCTAAATAGCTCACTAACCTACGTTCACAATTG
64 ATCGCAACTCCTAAATAGCTCAATGACCTACGTTCACAACTA
* * *
13955301 ATTTTATAAA-G---GTT-ATTTAAGATCGCAACCTATTCACCTTTGAGATAGCTTATTTAAGAT
1 ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGAT
13955361 TACGATGCTA
Statistics
Matches: 237, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
99 2 0.01
100 35 0.15
101 3 0.01
104 2 0.01
105 192 0.81
106 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (105 bp):
ATTTTATAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGAT
CGCAACTCCTAAATAGCTCAATGACCTACGTTCACAACTA
Found at i:13961225 original size:63 final size:63
Alignment explanation
Indices: 13961081--13961216 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 63
13961071 AAAAAGAGCA
* * * * * *
13961081 AGAATAATTTGTCTAAAAGTGGAAAATTTAAGCAATTGTAATTGGTAATTATTTTTTTAAGCG
1 AGAATAATATGTCAAAAAGTAGAAAAGTTAAGCAATTGCAATTGGTAAATATTTTTTTAAGCG
13961144 AGAATAATATGTCAAAAAGTAGAAAAGTTAAGCAATTGCAATT-G-AACAT-TTTTTTTAAGCTG
1 AGAATAATATGTCAAAAAGTAGAAAAGTTAAGCAATTGCAATTGGTAA-ATATTTTTTTAAGC-G
13961206 -GAATAATATGT
1 AGAATAATATGT
13961217 TTGGAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
61 24 0.37
62 3 0.05
63 38 0.58
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (63 bp):
AGAATAATATGTCAAAAAGTAGAAAAGTTAAGCAATTGCAATTGGTAAATATTTTTTTAAGCG
Found at i:13961550 original size:31 final size:30
Alignment explanation
Indices: 13961501--13961582 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
13961491 TTTTTTGGAT
* * * *
13961501 CTAATTTGATACCCAAACTTGATACTTTTTC
1 CTAA-TTGGTACCTAAACTTAACACTTTTTC
*
13961532 CTAATTCGGTACCTAAACTTAACATTTTTTC
1 CTAATT-GGTACCTAAACTTAACACTTTTTC
* *
13961563 TTAAGTTGGTACTTAAACTT
1 CTAA-TTGGTACCTAAACTT
13961583 TTGAGGGGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (30 bp):
CTAATTGGTACCTAAACTTAACACTTTTTC
Found at i:13961981 original size:31 final size:30
Alignment explanation
Indices: 13961945--13962051 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 30
13961935 CTAAAAAAAG
13961945 TTAGGTATCAAATTAGGAAAAAATGTCAAGT
1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGT
* *
13961976 TTAGGTACTAAATTGGGACCAAAA----AAGT
1 TTAGGTAC-AAATTAGGA-AAAAATGTCAAGT
* *
13962004 TTAGTTACCAAATTAGGAAAAAGTGTCAAGT
1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGT
* *
13962035 TCAGGTACTGAATTAGG
1 TTAGGTAC-AAATTAGG
13962052 CCAAAAAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
27 3 0.05
28 18 0.31
29 1 0.02
30 2 0.03
31 31 0.53
32 4 0.07
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (30 bp):
TTAGGTACAAATTAGGAAAAAATGTCAAGT
Found at i:13962016 original size:59 final size:58
Alignment explanation
Indices: 13961916--13962108 Score: 187
Period size: 59 Copynumber: 3.2 Consensus size: 58
13961906 CTTTAATAAA
* *
13961916 TTTAGGTACCAAATTGAACCTAAAAAAAG-TTAGGTATCAAATTAGGAAAAAATGTCAAG
1 TTTAGGTACCAAATTGGACC-AAAAAAAGTTTA-GTACCAAATTAGGAAAAAATGTCAAG
* *
13961975 TTTAGGTACTAAATTGGGACC-AAAAAAGTTTAGTTACCAAATTAGGAAAAAGTGTCAAG
1 TTTAGGTACCAAATT-GGACCAAAAAAAGTTTAG-TACCAAATTAGGAAAAAATGTCAAG
* ** * * *
13962034 TTCAGGTACTGAATTAGG-CCAAAAAAAGTTAAAGTACCAAATTTTA-GAAAAAAGTTTCAAA
1 TTTAGGTACCAAATT-GGACCAAAAAAAGTT-TAGTACCAAA--TTAGGAAAAAA-TGTCAAG
13962095 TTTAGGTACCAAAT
1 TTTAGGTACCAAAT
13962109 GTTATATTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
58 10 0.09
59 71 0.63
60 12 0.11
61 19 0.17
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (58 bp):
TTTAGGTACCAAATTGGACCAAAAAAAGTTTAGTACCAAATTAGGAAAAAATGTCAAG
Found at i:13964317 original size:294 final size:297
Alignment explanation
Indices: 13963983--13964575 Score: 1102
Period size: 296 Copynumber: 2.0 Consensus size: 297
13963973 TGGCTAAAAG
13963983 GTGAAAATTTAAATGGATAGTTTTTTTTTTTTAAGTTGGAGAGCCAAATGAATTATTATACCTAT
1 GTGAAAATTTAAATGGATAG-TTTTTTTTTTTAAGTTGGAGAGCCAAATGAATTATTATACCTAT
13964048 AA-TTTTTTTAATTCATTAGTTAGATTTTGACTGAATTTTTGAAAAATATCCATTTAAAAAAATT
65 AATTTTTTTTAATTCATTAGTTAGATTTTGACTGAATTTTTGAAAAATATCCATTTAAAAAAATT
13964112 TACTGGATTAGGCTGAAATAACGAAAACCTTCCAACTGGAAGCATTTTCAACTGATTTGTAGCAA
130 TACTGGATTAGGCTGAAATAACGAAAACCTTCCAACTGGAAGCATTTTCAACTGATTTGTAGCAA
*
13964177 AACACTGCCAAGCGCTTTCTGCCACATCAACTGAACATGCTTCCAGCTGAAAGTATTTTCCTTCC
195 AACACTGCCAAGCGCTTTCTGCCACATCAACTGAACATGCTTCCAGCTGAAAGCATTTTCCTTCC
13964242 GTTTTTTTTAAAGTAGGGTTAGAG-TTTTGTGATTTTT
260 GTTTTTTTTAAAGTAGGGTTAGAGTTTTTGTGATTTTT
*
13964279 GTGAAAATTTAAATGGATAG-TTTTTTTTTTAAGTTGGAGAGCCAAATGAATTATTATGCCTATA
1 GTGAAAATTTAAATGGATAGTTTTTTTTTTTAAGTTGGAGAGCCAAATGAATTATTATACCTATA
13964343 ATTTTTTTTTAATTCATTAGTTAGATTTTGACTGAATTTTTGAAAAATATCCATTTAAAAAAATT
66 A-TTTTTTTTAATTCATTAGTTAGATTTTGACTGAATTTTTGAAAAATATCCATTTAAAAAAATT
13964408 TACTGGATTAGGCTGAAATAACGAAAACCTTCCAACTGGAAGCATTTTCAACTGATTTGTAGCAA
130 TACTGGATTAGGCTGAAATAACGAAAACCTTCCAACTGGAAGCATTTTCAACTGATTTGTAGCAA
* * *
13964473 AACACTTCCAAGCGCTTTCTGCCACATCAATTGAACATGCTTCCAGCTGGAAGCATTTTCCTTCC
195 AACACTGCCAAGCGCTTTCTGCCACATCAACTGAACATGCTTCCAGCTGAAAGCATTTTCCTTCC
13964538 GTTTTTTTTAAAGTAGGGTTAGAGTTTTTGTGATTTTT
260 GTTTTTTTTAAAGTAGGGTTAGAGTTTTTGTGATTTTT
13964576 AGGATTTTGA
Statistics
Matches: 289, Mismatches: 5, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
294 44 0.15
296 232 0.80
297 13 0.04
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (297 bp):
GTGAAAATTTAAATGGATAGTTTTTTTTTTTAAGTTGGAGAGCCAAATGAATTATTATACCTATA
ATTTTTTTTAATTCATTAGTTAGATTTTGACTGAATTTTTGAAAAATATCCATTTAAAAAAATTT
ACTGGATTAGGCTGAAATAACGAAAACCTTCCAACTGGAAGCATTTTCAACTGATTTGTAGCAAA
ACACTGCCAAGCGCTTTCTGCCACATCAACTGAACATGCTTCCAGCTGAAAGCATTTTCCTTCCG
TTTTTTTTAAAGTAGGGTTAGAGTTTTTGTGATTTTT
Found at i:13968708 original size:11 final size:12
Alignment explanation
Indices: 13968674--13968740 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 12
13968664 TATAAACACC
13968674 AATTAATTATTT
1 AATTAATTATTT
*
13968686 AA-TCATTATTT
1 AATTAATTATTT
13968697 AATTAATT-TTT
1 AATTAATTATTT
* *
13968708 -ATATAAATA-CT
1 AAT-TAATTATTT
*
13968719 AATTAATTATTA
1 AATTAATTATTT
13968731 AATT-ATTATT
1 AATTAATTATT
13968741 AGAGACTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
10 2 0.05
11 29 0.67
12 12 0.28
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTAATTATTT
Found at i:13975098 original size:45 final size:46
Alignment explanation
Indices: 13975005--13975107 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 46
13974995 TTTGACTTTC
*
13975005 TTTT-TCTCTTTTTT-TCCTTCTTAGTCGTCTGGCCTTTTCTCTATTT
1 TTTTCTCTCTTTTTTTTCCTTCTTAGTCGTCTGGCCTTTTCTC-A-CT
* *
13975051 TTTTCTCTCTTTTTTTTCCTT-TTGGTCGTTTGGCCTATTT-TC-CT
1 TTTTCTCTCTTTTTTTTCCTTCTTAGTCGTCTGGCCT-TTTCTCACT
13975095 TTTTCTCTTCTTT
1 TTTTCTC-TCTTT
13975108 GGGTCGTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
44 8 0.16
45 5 0.10
46 4 0.08
47 25 0.50
48 8 0.16
ACGTcount: A:0.03, C:0.23, G:0.09, T:0.65
Consensus pattern (46 bp):
TTTTCTCTCTTTTTTTTCCTTCTTAGTCGTCTGGCCTTTTCTCACT
Found at i:13979838 original size:12 final size:12
Alignment explanation
Indices: 13979821--13979845 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13979811 CAAAACAGGC
13979821 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13979833 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13979845 T
1 T
13979846 CGGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:13980094 original size:41 final size:41
Alignment explanation
Indices: 13980023--13980226 Score: 252
Period size: 41 Copynumber: 5.0 Consensus size: 41
13980013 TGAGTTTTCG
* *
13980023 GGGCTTTAGCGGCGATTTTT-AAAAACCGCCGCTAATGCTCA
1 GGGCTTTAGCGGC-ATTTTTGAAGAAGCGCCGCTAATGCTCA
*
13980064 GGGCTTTAGCGGTATTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
* *
13980105 GGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 -GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
* *
13980147 GGGCTTTAACGGCATTTTTGAATAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC-A
** * * *
13980189 --TTTTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTC
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC
13980227 TATTTTTAGC
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 37 0.26
41 68 0.48
42 38 0.27
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:13980164 original size:83 final size:83
Alignment explanation
Indices: 13980022--13980226 Score: 274
Period size: 83 Copynumber: 2.5 Consensus size: 83
13980012 TTGAGTTTTC
* * * *
13980022 GGGGCTTTAGCGGCGATTTTTAAAAACCGCCGCTAATGCTCAGGGCTTTAGCGGTATTTTTGAAG
1 GGGGCTTTAGCGGCG-TTTTTAAGAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTTGAAG
13980087 AAGCGCCGCTAATGCTC-A
65 AAGCGCCGCTAATGCTCTA
* *
13980105 GGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGCTTTAACGGCATTTTTGAAT
1 GGGGCTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTTGAAG
13980170 AAGCGCCGCTAATGCTCTA
65 AAGCGCCGCTAATGCTCTA
** *
13980189 ---TTTTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTC
1 GGGGCTTTAGCGGCG-TTTTTAAGAAGCGCCGCTAATGCTC
13980227 TATTTTTAGC
Statistics
Matches: 110, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
81 29 0.26
82 10 0.09
83 70 0.64
84 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (83 bp):
GGGGCTTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTTGAAGA
AGCGCCGCTAATGCTCTA
Found at i:13980216 original size:40 final size:39
Alignment explanation
Indices: 13980025--13980258 Score: 218
Period size: 40 Copynumber: 5.8 Consensus size: 39
13980015 AGTTTTCGGG
* *
13980025 GCTTTAGCGGCGATTTTT-AAAAACCGCCGCTAATGCTCA
1 GCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCA
**
13980064 GGGCTTTAGCGGTATTTTTGAAGAAGCGCCGCTAATGCTCA
1 --GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
13980105 GGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGG
1 ---GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC--A
* * *
13980149 GCTTTAACGGCATTTTTGAATAAGCGCCGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
** * *
13980189 TTTTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTCTA
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
** * * *
13980229 TTTTTAGCAGCGTTTTTTAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
13980259 AAAAAATATT
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 65 0.39
41 64 0.38
42 38 0.23
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (39 bp):
GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:13980501 original size:15 final size:14
Alignment explanation
Indices: 13980478--13980520 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13980468 TCTAAGGTAA
13980478 TTTAAGGATTATGTG
1 TTTAAGGATTATG-G
*
13980493 TTTAGGGATTATGG
1 TTTAAGGATTATGG
* *
13980507 ATTATGGATTATGG
1 TTTAAGGATTATGG
13980521 ATTATGTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTAAGGATTATGG
Found at i:13980510 original size:7 final size:7
Alignment explanation
Indices: 13980483--13980526 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
13980473 GGTAATTTAA
13980483 GGATTAT
1 GGATTAT
* *
13980490 GTGTTTAG
1 G-GATTAT
13980498 GGATTAT
1 GGATTAT
13980505 GGATTAT
1 GGATTAT
13980512 GGATTAT
1 GGATTAT
13980519 GGATTAT
1 GGATTAT
13980526 G
1 G
13980527 TGGTTTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (7 bp):
GGATTAT
Found at i:13981224 original size:22 final size:21
Alignment explanation
Indices: 13981199--13981252 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
13981189 ATTAAATGAT
13981199 TTTAAGGTTTAGGGATTATGTG
1 TTTAAGGTTTAGGGATTATG-G
* * *
13981221 TTTAGGGATTATGGATTATGG
1 TTTAAGGTTTAGGGATTATGG
*
13981242 TTTATGGTTTA
1 TTTAAGGTTTA
13981253 AAGGTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTAGGGATTATGG
Found at i:13981225 original size:15 final size:15
Alignment explanation
Indices: 13981205--13981233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13981195 TGATTTTAAG
13981205 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
13981220 GTTTAGGGATTATG
1 GTTTAGGGATTATG
13981234 GATTATGGTT
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:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:13981264 original size:21 final size:21
Alignment explanation
Indices: 13981240--13981279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13981230 TATGGATTAT
*
13981240 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTTAAAGGTTGG
*
13981261 GGTTTAAGGTTTAAGGGTT
1 GGTTTAAGGTTTAAAGGTT
13981280 ATAAAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAAGGTTGG
Found at i:13981939 original size:24 final size:24
Alignment explanation
Indices: 13981894--13981941 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13981884 TAATTTACTT
* *
13981894 TAAAATAATTTTTAGCAGACAAAA
1 TAAAATAAATTTTAGCAAACAAAA
13981918 TAAAA-AAATTTTAGCATAACAAAA
1 TAAAATAAATTTTAGCA-AACAAAA
13981942 CGGTGTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (24 bp):
TAAAATAAATTTTAGCAAACAAAA
Found at i:13984187 original size:17 final size:17
Alignment explanation
Indices: 13984165--13984197 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13984155 TGTTAGTACC
*
13984165 TAGGGTTTTTTTTAATG
1 TAGGGTTGTTTTTAATG
13984182 TAGGGTTGTTTTTAAT
1 TAGGGTTGTTTTTAAT
13984198 TTTAGTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (17 bp):
TAGGGTTGTTTTTAATG
Found at i:13986509 original size:43 final size:43
Alignment explanation
Indices: 13986395--13986641 Score: 279
Period size: 43 Copynumber: 5.8 Consensus size: 43
13986385 AGATTATGTT
* ** * *
13986395 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
13986437 TTTAGTGGC-ATTGTGATAAAAGCGCCGCTAAAGGTCATGGT-
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
13986478 TTATAGCGGCGTTTGTGATAAAAGAGTCGCTAAAGGTCTTGCTC
1 TT-TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
13986522 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
13986565 TTTAGCGCCGTTTGT-AGGGAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCTTGGTC
13986608 TTTAGCGGCGTTTGT-AGAAGAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGAGAA-AAGCGCCGCTAAAG
13986642 TTAGCGACAC
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
41 24 0.14
42 19 0.11
43 129 0.74
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:13986733 original size:22 final size:22
Alignment explanation
Indices: 13986705--13986746 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13986695 GCGGCGCTAG
*
13986705 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
13986727 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
13986747 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:13990610 original size:21 final size:21
Alignment explanation
Indices: 13990586--13990646 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
13990576 TTGATACACT
13990586 TCTTCTGTCCCTTATTTACAA
1 TCTTCTGTCCCTTATTTACAA
* *
13990607 TCTTTCT-TACCTTGA---A-AC
1 TC-TTCTGTCCCTT-ATTTACAA
13990625 TCTTCTGTCCCTTATTTACAA
1 TCTTCTGTCCCTTATTTACAA
13990646 T
1 T
13990647 TTTTTTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 1 0.03
20 1 0.03
21 9 0.31
22 5 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.48
Consensus pattern (21 bp):
TCTTCTGTCCCTTATTTACAA
Found at i:13997754 original size:5 final size:5
Alignment explanation
Indices: 13997744--13997781 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
13997734 TTTCGATTCA
*
13997744 AATCG AATCG AATCG AATCA AATC- ACATCG AATCG AAT
1 AATCG AATCG AATCG AATCG AATCG A-ATCG AATCG AAT
13997782 GAAAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (5 bp):
AATCG
Found at i:13997764 original size:20 final size:20
Alignment explanation
Indices: 13997736--13997781 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
13997726 TAAATTTTTT
*
13997736 TCGATTCAAATCGA-ATCGAA
1 TCGAATCAAATC-ACATCGAA
13997756 TCGAATCAAATCACATCGAA
1 TCGAATCAAATCACATCGAA
13997776 TCGAAT
1 TCGAAT
13997782 GAAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (20 bp):
TCGAATCAAATCACATCGAA
Found at i:13998748 original size:23 final size:23
Alignment explanation
Indices: 13998722--13998767 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13998712 TTCAACAATG
13998722 AATGCTTGAATGGCCTATTCATC
1 AATGCTTGAATGGCCTATTCATC
13998745 AATGCTTGAATGGCCTATTCATC
1 AATGCTTGAATGGCCTATTCATC
13998768 TGTGACCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
AATGCTTGAATGGCCTATTCATC
Found at i:13998876 original size:28 final size:28
Alignment explanation
Indices: 13998833--13998888 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
13998823 AGGGATTTGT
13998833 TTGCTCATTGGCGGATGGTCATAAGATA
1 TTGCTCATTGGCGGATGGTCATAAGATA
* *
13998861 TTGCTTATTGGTGGATGGTCATAAGATA
1 TTGCTCATTGGCGGATGGTCATAAGATA
13998889 AGTTAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.36
Consensus pattern (28 bp):
TTGCTCATTGGCGGATGGTCATAAGATA
Found at i:14001286 original size:14 final size:16
Alignment explanation
Indices: 14001256--14001293 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
14001246 ATGATCCCCT
14001256 TTTCATATTTTATTTA
1 TTTCATATTTTATTTA
14001272 TTTCAT-TTTTA-TTA
1 TTTCATATTTTATTTA
14001286 -TTCATATT
1 TTTCATATT
14001294 AAAATGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 5 0.24
15 5 0.24
16 6 0.29
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCATATTTTATTTA
Found at i:14001447 original size:10 final size:10
Alignment explanation
Indices: 14001432--14001456 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14001422 TTTTGTGCAA
14001432 TGTTTTAAAT
1 TGTTTTAAAT
14001442 TGTTTTAAAT
1 TGTTTTAAAT
14001452 TGTTT
1 TGTTT
14001457 ATTACAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (10 bp):
TGTTTTAAAT
Found at i:14007477 original size:125 final size:125
Alignment explanation
Indices: 14007255--14007543 Score: 463
Period size: 125 Copynumber: 2.3 Consensus size: 125
14007245 ATTTTTTAAG
* * *
14007255 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGAAGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
14007320 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACT
* *
14007380 GAAATAGCTCCCACGTGGAAGTGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGAAGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
* * *
14007445 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACT
* *
14007505 AAAATCGCTCCCATGT-GAACGCGCTTTTGCTACAGTAGC
1 GAAATCGCTCCCACGTGGAA-GCGCTTTTGCTACAGTAGC
14007544 ACATGTTTGG
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
124 3 0.02
125 147 0.98
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGAAGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACT
Found at i:14009177 original size:13 final size:14
Alignment explanation
Indices: 14009159--14009200 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
14009149 GTGATTTATA
14009159 GTTTGTTTTCTTT-
1 GTTTGTTTTCTTTC
*
14009172 GTTTGTTTTTTTTC
1 GTTTGTTTTCTTTC
*
14009186 GTTTCTTTTCATTTC
1 GTTTGTTTTC-TTTC
14009201 TGATCTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 8 0.33
15 4 0.17
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.74
Consensus pattern (14 bp):
GTTTGTTTTCTTTC
Found at i:14012538 original size:21 final size:21
Alignment explanation
Indices: 14012512--14012551 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
14012502 TTGTCTAGCT
14012512 TCCGGCGAGGG-TTCTGGTTGC
1 TCCGGCG-GGGATTCTGGTTGC
14012533 TCCGGCGGGGATTCTGGTT
1 TCCGGCGGGGATTCTGGTT
14012552 CCTCTGGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.05, C:0.23, G:0.42, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTGC
Found at i:14013513 original size:7 final size:7
Alignment explanation
Indices: 14013497--14013535 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
14013487 TATTAGTTAT
*
14013497 ATACAAA
1 ATACATA
14013504 ATACATA
1 ATACATA
14013511 ATAC-TAA
1 ATACAT-A
14013518 ATACATA
1 ATACATA
14013525 ATACATA
1 ATACATA
14013532 ATAC
1 ATAC
14013536 TAAATACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
ATACATA
Found at i:14013519 original size:14 final size:14
Alignment explanation
Indices: 14013497--14013549 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
14013487 TATTAGTTAT
*
14013497 ATACAAAATACATA
1 ATACTAAATACATA
14013511 ATACTAAATACATA
1 ATACTAAATACATA
14013525 ATAC-ATAATAC-TAA
1 ATACTA-AATACAT-A
14013539 ATACTAAATAC
1 ATACTAAATAC
14013550 CAATCGACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 2 0.06
14 32 0.91
15 1 0.03
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
ATACTAAATACATA
Found at i:14013522 original size:21 final size:21
Alignment explanation
Indices: 14013497--14013549 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14013487 TATTAGTTAT
14013497 ATACAAAATACATAATACTAA
1 ATACAAAATACATAATACTAA
*
14013518 ATACATAATACATAATACTAA
1 ATACAAAATACATAATACTAA
*
14013539 ATACTAAATAC
1 ATACAAAATAC
14013550 CAATCGACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.26
Consensus pattern (21 bp):
ATACAAAATACATAATACTAA
Found at i:14014663 original size:13 final size:14
Alignment explanation
Indices: 14014644--14014678 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14014634 AATTTTTAAG
14014644 ATTTAAAAAA-AAA
1 ATTTAAAAAATAAA
*
14014657 TTTTAAAAAATAAA
1 ATTTAAAAAATAAA
14014671 ATTTAAAA
1 ATTTAAAA
14014679 CTTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATTTAAAAAATAAA
Found at i:14014751 original size:11 final size:11
Alignment explanation
Indices: 14014729--14014776 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
14014719 TAGGAATTTA
*
14014729 AGAGGAATTTG
1 AGAGGAAATTG
14014740 AGAGGAAATTG
1 AGAGGAAATTG
14014751 AGA-GAATATT-
1 AGAGGAA-ATTG
14014761 AGAGAGAAATTG
1 AGAG-GAAATTG
14014773 AGAG
1 AGAG
14014777 AAAGGATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.19
11 19 0.59
12 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:14014754 original size:22 final size:22
Alignment explanation
Indices: 14014720--14014776 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14014710 TTTTTTAAAT
* *
14014720 AGGAATTTAAGAGGAAT-TTGAG
1 AGGAAATTGAGAGGAATATT-AG
14014742 AGGAAATTGAGA-GAATATTAG
1 AGGAAATTGAGAGGAATATTAG
14014763 AGAGAAATTGAGAG
1 AG-GAAATTGAGAG
14014777 AAAGGATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (22 bp):
AGGAAATTGAGAGGAATATTAG
Found at i:14014775 original size:10 final size:10
Alignment explanation
Indices: 14014737--14014779 Score: 59
Period size: 11 Copynumber: 4.0 Consensus size: 10
14014727 TAAGAGGAAT
14014737 TTGAGAGGAAA
1 TTGAGA-GAAA
14014748 TTGAGAGAATA
1 TTGAGAGAA-A
14014759 TTAGAGAGAAA
1 TT-GAGAGAAA
14014770 TTGAGAGAAA
1 TTGAGAGAAA
14014780 GGATTAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.37
11 12 0.40
12 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:14015819 original size:13 final size:13
Alignment explanation
Indices: 14015801--14015825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14015791 ATTTAGTAAT
14015801 TTTTTAAAAAATG
1 TTTTTAAAAAATG
14015814 TTTTTAAAAAAT
1 TTTTTAAAAAAT
14015826 ATGTGCAAAA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTTAAAAAATG
Found at i:14016553 original size:40 final size:40
Alignment explanation
Indices: 14016464--14016569 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 40
14016454 ATATACAAAT
*
14016464 ATTATTTATTAAATTTATTCAAAATTCTTTATTCTATCTAG
1 ATTATTTATTAAATTTATT-GAAATTCTTTATTCTATCTAG
*
14016505 ATTATTTATTAAATTTAGTTGAAATTCTTTATT-TATCTCG
1 ATTATTTATTAAATTTA-TTGAAATTCTTTATTCTATCTAG
14016545 -TTAATTTATTAAATTTATTTGAAAT
1 ATT-ATTTATTAAATTTA-TTGAAAT
14016570 AATCTAATCA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
39 2 0.03
40 27 0.45
41 29 0.48
42 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (40 bp):
ATTATTTATTAAATTTATTGAAATTCTTTATTCTATCTAG
Found at i:14020037 original size:21 final size:21
Alignment explanation
Indices: 14020007--14020046 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14019997 TGGGCTTGCG
*
14020007 GGAGATAAAGG-ATTTGATTGA
1 GGAGACAAAGGTA-TTGATTGA
14020028 GGAGACAAAGGTATTGATT
1 GGAGACAAAGGTATTGATT
14020047 TACGTAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.28
Consensus pattern (21 bp):
GGAGACAAAGGTATTGATTGA
Found at i:14028276 original size:25 final size:22
Alignment explanation
Indices: 14028258--14028302 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 22
14028248 ATTATAAATA
14028258 AAAATGTATAAATAAA-TTAAT
1 AAAATGTATAAATAAATTTAAT
14028279 AAAATGTATAAATAAATTCTAAT
1 AAAATGTATAAATAAATT-TAAT
14028302 A
1 A
14028303 CTAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 16 0.73
22 1 0.05
23 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATGTATAAATAAATTTAAT
Found at i:14029646 original size:16 final size:16
Alignment explanation
Indices: 14029625--14029706 Score: 84
Period size: 16 Copynumber: 5.4 Consensus size: 16
14029615 TATTAATTTG
14029625 GGTTTTAGGTTTTTAA
1 GGTTTTAGGTTTTTAA
* *
14029641 GGTTTT--GTTATTAG
1 GGTTTTAGGTTTTTAA
14029655 GGTTTTAGGTTTTTAA
1 GGTTTTAGGTTTTTAA
* *
14029671 GGTTTTA--TTATTAG
1 GGTTTTAGGTTTTTAA
14029685 GGTTTTAGGTTGTTTAA
1 GGTTTTAGGTT-TTTAA
14029702 -GTTTT
1 GGTTTT
14029707 TTAGGGTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 24 0.45
16 26 0.49
17 3 0.06
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (16 bp):
GGTTTTAGGTTTTTAA
Found at i:14029691 original size:14 final size:14
Alignment explanation
Indices: 14029607--14029691 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 14
14029597 TTTAGGGTTT
14029607 TTAGGG-TTTATTAA
1 TTAGGGTTTTATT-A
* *
14029621 TTTGGGTTTTAGGTTT
1 TTAGGGTTTTA--TTA
* *
14029637 TTAAGGTTTTGTTA
1 TTAGGGTTTTATTA
*
14029651 TTAGGGTTTTAGGTTT
1 TTAGGGTTTTA--TTA
*
14029667 TTAAGGTTTTATTA
1 TTAGGGTTTTATTA
14029681 TTAGGGTTTTA
1 TTAGGGTTTTA
14029692 GGTTGTTTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
14 28 0.52
15 4 0.07
16 20 0.37
17 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (14 bp):
TTAGGGTTTTATTA
Found at i:14029692 original size:8 final size:8
Alignment explanation
Indices: 14029624--14029724 Score: 54
Period size: 8 Copynumber: 13.0 Consensus size: 8
14029614 TTATTAATTT
14029624 GGGTTTTA
1 GGGTTTTA
*
14029632 GGTTTTTA
1 GGGTTTTA
*
14029640 AGGTTTT-
1 GGGTTTTA
14029647 --GTTATTA
1 GGGTT-TTA
14029654 GGGTTTTA
1 GGGTTTTA
*
14029662 GGTTTTTA
1 GGGTTTTA
*
14029670 AGGTTTTA
1 GGGTTTTA
14029678 ---TTATTA
1 GGGTT-TTA
14029684 GGGTTTTA
1 GGGTTTTA
*
14029692 GGTTGTTTAA
1 GG--GTTTTA
**
14029702 GTTTTTTA
1 GGGTTTTA
14029710 GGG-TTTA
1 GGGTTTTA
14029717 GGGTTTTA
1 GGGTTTTA
14029725 AGTTGATAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
5 5 0.07
6 5 0.07
7 7 0.10
8 42 0.60
9 5 0.07
10 6 0.09
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (8 bp):
GGGTTTTA
Found at i:14029706 original size:30 final size:30
Alignment explanation
Indices: 14029597--14029707 Score: 152
Period size: 30 Copynumber: 3.6 Consensus size: 30
14029587 TTCTATAAAG
* *
14029597 TTTAGGGTTTTT-AGGGTTTATTAATTTGGGT
1 TTTA-GGTTTTTAAGGTTTTATT-ATTAGGGT
*
14029628 TTTAGGTTTTTAAGGTTTTGTTATTAGGGT
1 TTTAGGTTTTTAAGGTTTTATTATTAGGGT
14029658 TTTAGGTTTTTAAGGTTTTATTATTAGGGT
1 TTTAGGTTTTTAAGGTTTTATTATTAGGGT
*
14029688 TTTAGGTTGTTTAAGTTTTT
1 TTTAGGTT-TTTAAGGTTTT
14029708 TAGGGTTTAG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 51 0.70
31 22 0.30
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (30 bp):
TTTAGGTTTTTAAGGTTTTATTATTAGGGT
Found at i:14034762 original size:13 final size:13
Alignment explanation
Indices: 14034746--14034770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14034736 TAACATAATA
14034746 AGATATACAGAAC
1 AGATATACAGAAC
14034759 AGATATACAGAA
1 AGATATACAGAA
14034771 TCCTACCCCC
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AGATATACAGAAC
Found at i:14037108 original size:44 final size:43
Alignment explanation
Indices: 14037030--14037182 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
14037020 ACATAAGATT
* * * *
14037030 TCGATATGTGATTACATGTAAGATCACGTTTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCA
* *
14037073 TCGATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGA-TTACGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
14037117 TCG-TATATGAGTT-CGTGTAAGACCCTGTCGGGGACAG-TGGCA
1 TCGATATGTGA-TTACGTGTAAGACCATGTCTGGGAC-GTTGGCA
** * * *
14037159 TTAATATTTGATTTCATGTAAGAC
1 TCGATATGTGATTACGTGTAAGAC
14037183 TACTCTGGGG
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.31
43 32 0.36
44 30 0.33
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:14037151 original size:42 final size:44
Alignment explanation
Indices: 14037030--14037159 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
14037020 ACATAAGATT
* * * * ** *
14037030 TCGATATGTGA-TTACATGTAAGATCACGTTTGGGACGTTGGCA
1 TCGATATATGAGTTACGTGTAAGACCATGTCGGGGACATTGGCA
* * * *
14037073 TCGATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATATGAGTTACGTGTAAGACCATGTCGGGGACATTGGCA
* *
14037117 TCG-TATATGAGTT-CGTGTAAGACCCTGTCGGGGACAGTGGCA
1 TCGATATATGAGTTACGTGTAAGACCATGTCGGGGACATTGGCA
14037159 T
1 T
14037160 TAATATTTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
42 27 0.36
43 17 0.23
44 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (44 bp):
TCGATATATGAGTTACGTGTAAGACCATGTCGGGGACATTGGCA
Found at i:14042145 original size:23 final size:24
Alignment explanation
Indices: 14042100--14042145 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14042090 TTAAATACGT
* **
14042100 TTTTAGAATTTTTCTAATTATATA
1 TTTTAGAATTTTTATAAAAATATA
14042124 TTTTAGAA-TTTTATAAAAATAT
1 TTTTAGAATTTTTATAAAAATAT
14042146 TGTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTTAGAATTTTTATAAAAATATA
Found at i:14042172 original size:9 final size:9
Alignment explanation
Indices: 14042160--14042202 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
14042150 TTTAAACATT
14042160 TTTTTTACA
1 TTTTTTACA
*
14042169 TTTTTTATA
1 TTTTTTACA
*
14042178 ATTTTTACAA
1 TTTTTTAC-A
14042188 TTTTTTCACA
1 TTTTTT-ACA
14042198 TTTTT
1 TTTTT
14042203 GTCATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.50
10 12 0.43
11 2 0.07
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTTACA
Found at i:14044115 original size:21 final size:20
Alignment explanation
Indices: 14044073--14044116 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14044063 AATTAGGTTT
**
14044073 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATAGAAA
*
14044093 ATTTAAATTTAAAAATAGAAA
1 ATTTAAA-ATAAAAATAGAAA
14044114 ATT
1 ATT
14044117 ATAATATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTTAAAATAAAAATAGAAA
Found at i:14044129 original size:7 final size:7
Alignment explanation
Indices: 14044084--14044141 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
14044074 TTTAAAATAA
14044084 AAATATT
1 AAATATT
14044091 AAAT-TT
1 AAATATT
14044097 AAAT-TT
1 AAATATT
*
14044103 AAA-AAT
1 AAATATT
*
14044109 AGAAAATT
1 A-AATATT
14044117 ATAATATT
1 A-AATATT
14044125 AAATATTT
1 AAATA-TT
14044133 AAATATT
1 AAATATT
14044140 AA
1 AA
14044142 TAACCACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 13 0.30
7 14 0.33
8 16 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:14044267 original size:24 final size:23
Alignment explanation
Indices: 14044240--14044317 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
14044230 TGTCTTTATT
* *
14044240 TTAATATTATATATATTATATTGA
1 TTAATATTATAAATATT-TATTAA
* *
14044264 TTAAAAATATAAAATATTTATTAA
1 TTAATATTAT-AAATATTTATTAA
*
14044288 TTATTATTATAAAT-TTTATTAA
1 TTAATATTATAAATATTTATTAA
*
14044310 TTTATATT
1 TTAATATT
14044318 GTTTTTCTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 14 0.32
23 4 0.09
24 20 0.45
25 6 0.14
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TTAATATTATAAATATTTATTAA
Done.