Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 206 of 218
Found at i:61039883 original size:63 final size:63
Alignment explanation
Indices: 61039763--61040156 Score: 396
Period size: 63 Copynumber: 6.2 Consensus size: 63
61039753 CATACAAAAT
* * *
61039763 TACAATATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATAT
1 TACAAAATTATAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAAAAATTACAATAT
61039828 TCA
61 TCA
* * * *
61039831 TACAAAATTATAATATTCATTCAAAAAAATTAAAATATTCGTACAAAAAAATTAAAATATTCA
1 TACAAAATTATAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATTACAATATTCA
* * *
61039894 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAAAATTGCAATATTCA
1 TACAAAATTATAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATTACAATATTCA
* *
61039957 CACAAAAAAATTAGAATATTCATAC-AAAAAATTACAATATTCATAC-AAAAAATTACAATATTC
1 TAC---AAAATTATAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATTACAATATTC
61040020 A
63 A
* * * * *
61040021 TACAAAA-TACT-A-ATCCA-A-AACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATAT
1 TACAAAATTA-TAATATTCATACAA--AAAAATTACAATA-TTCA-TACAAAAAAATTACAATAT
61040079 TCA
61 TCA
* * * *
61040082 TACAACATTACAATATTCAT--AAAAAAATTACAATATTCATACAAAAAAGTTAGAATATTCA
1 TACAAAATTATAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATTACAATATTCA
*
61040143 TACAAAATTCTAAT
1 TACAAAATTATAAT
61040157 CTAAACTATA
Statistics
Matches: 273, Mismatches: 37, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
58 3 0.01
59 12 0.04
60 9 0.03
61 60 0.22
62 11 0.04
63 96 0.35
64 21 0.08
65 21 0.08
66 18 0.07
67 3 0.01
68 19 0.07
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (63 bp):
TACAAAATTATAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATTACAATATTCA
Found at i:61040138 original size:22 final size:21
Alignment explanation
Indices: 61039742--61040149 Score: 315
Period size: 22 Copynumber: 19.0 Consensus size: 21
61039732 ATATCCCGAC
61039742 ATTACAATATTCATAC--AAA
1 ATTACAATATTCATACAAAAA
61039761 ATTACAATATTACAATATTCATACAAA
1 ATTACAATATT-C-ATA--CA-A-AAA
61039788 ATTACAATATTACAATATTCATACAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA
*
61039816 AAATTGCAATATTCATAC--AAA
1 --ATTACAATATTCATACAAAAA
* *
61039837 ATTATAATATTCATTCAAAAAA
1 ATTACAATATTCATAC-AAAAA
* *
61039859 ATTAAAATATTCGTACAAAAAA
1 ATTACAATATTCATAC-AAAAA
*
61039881 ATTAAAATATTCATAC--AAA
1 ATTACAATATTCATACAAAAA
61039900 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAAAA
*
61039922 ATTGCAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAAAA
* *
61039944 ATTGCAATATTCACACAAAAAA
1 ATTACAATATTCATAC-AAAAA
*
61039966 ATTAGAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
61039987 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
61040008 ATTACAATATTCATAC--AAA
1 ATTACAATATTCATACAAAAA
* * * * *
61040027 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATACAAAAA
* *
61040047 A-TACAA-ATTTAATTATAAAATA
1 ATTACAATA-TTCA-TACAAAA-A
*
61040069 ATTACAATATTCATAC--AAC
1 ATTACAATATTCATACAAAAA
61040088 ATTACAATATTCATA-AAAAA
1 ATTACAATATTCATACAAAAA
61040108 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
*
61040129 AGTTAGAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
61040150 TTCTAATCTA
Statistics
Matches: 327, Mismatches: 32, Indels: 57
0.79 0.08 0.14
Matches are distributed among these distances:
17 3 0.01
18 7 0.02
19 61 0.19
20 29 0.09
21 57 0.17
22 117 0.36
23 9 0.03
24 1 0.00
26 1 0.00
27 23 0.07
28 6 0.02
29 3 0.01
30 10 0.03
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:61040194 original size:122 final size:122
Alignment explanation
Indices: 61039812--61040185 Score: 348
Period size: 122 Copynumber: 3.0 Consensus size: 122
61039802 ATATTCATAC
* * * * * * *
61039812 AAAAAAATTGCAATATTCATACAAAATTATAATATTCATTCAAAAAAATTAAAATATTCGTACAA
1 AAAATAATTACAATATTCATACAACATTACAATATTCATAC-AAAAAATTACAATATTCATAC-A
* * * * ** *
61039877 AAAAATTAAAATATTCATACAAAATTACAATATTCATACAA--AAAAATTGC-AATATTCATACA
64 AAAAATTACAATATTCATACAAAA-TACTA-ATCCA-A-AACTATAAA-CACAAATA-TAATA-A
61039939 -
122 T
* * * *
61039939 AAAA-AATTGCAATATTCACACAAAAAAATTAGAATATTCATACAAAAAATTACAATATTCATAC
1 AAAATAATTACAATATTCATAC---AACATTACAATATTCATACAAAAAATTACAATATTCATAC
* * *
61040003 AAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAATTTAATTAT
63 AAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAACACAAATATAATAAT
61040063 AAAATAATTACAATATTCATACAACATTACAATATTCATA-AAAAAATTACAATATTCATACAAA
1 AAAATAATTACAATATTCATACAACATTACAATATTCATACAAAAAATTACAATATTCATACAAA
* * *
61040127 AAAGTTAGAATATTCATACAAAATTCTAAT-CTAAACTATAAACACTAAATATAGATAAT
66 AAA-TTACAATATTCATACAAAATACTAATCCAAAACTATAAACAC-AAATATA-ATAAT
61040186 TTATAATTAA
Statistics
Matches: 213, Mismatches: 23, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
121 40 0.19
122 46 0.22
123 7 0.03
124 10 0.05
125 26 0.12
126 20 0.09
127 28 0.13
128 19 0.09
129 17 0.08
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (122 bp):
AAAATAATTACAATATTCATACAACATTACAATATTCATACAAAAAATTACAATATTCATACAAA
AAATTACAATATTCATACAAAATACTAATCCAAAACTATAAACACAAATATAATAAT
Found at i:61040235 original size:12 final size:12
Alignment explanation
Indices: 61040218--61040243 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61040208 AAAAATTCAC
61040218 AATATCTTCTAA
1 AATATCTTCTAA
61040230 AATATCTTCTAA
1 AATATCTTCTAA
61040242 AA
1 AA
61040244 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:61042780 original size:14 final size:14
Alignment explanation
Indices: 61042761--61042787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61042751 AAACCCATTA
61042761 ATCAAAAGTAAGAC
1 ATCAAAAGTAAGAC
61042775 ATCAAAAGTAAGA
1 ATCAAAAGTAAGA
61042788 TTTGTCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (14 bp):
ATCAAAAGTAAGAC
Found at i:61045078 original size:17 final size:18
Alignment explanation
Indices: 61045056--61045091 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61045046 GAGACTTTAA
61045056 TGAAAGAGGTGA-AATGT
1 TGAAAGAGGTGACAATGT
*
61045073 TGAAAGTGGTGACAATGT
1 TGAAAGAGGTGACAATGT
61045091 T
1 T
61045092 TCCCTCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (18 bp):
TGAAAGAGGTGACAATGT
Found at i:61050930 original size:18 final size:18
Alignment explanation
Indices: 61050901--61050935 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
61050891 ATTGCTACAA
61050901 ATAAAAATTT-AATATTT
1 ATAAAAATTTAAATATTT
61050918 ATAAAATATTTAAATATT
1 ATAAAA-ATTTAAATATT
61050936 AAATATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAAAATTTAAATATTT
Found at i:61054835 original size:14 final size:13
Alignment explanation
Indices: 61054811--61054851 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
61054801 CCTTTATTGC
61054811 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
*
61054824 TTTTCTTTTT-TC
1 TTTTCTTTTTCTT
61054836 TTTT-TTTTTCTT
1 TTTTCTTTTTCTT
61054848 TTTT
1 TTTT
61054852 TGGGAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 10 0.40
13 10 0.40
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:61054851 original size:7 final size:7
Alignment explanation
Indices: 61054811--61054841 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
61054801 CCTTTATTGC
61054811 TTTTC-T
1 TTTTCTT
61054817 TTTTCTT
1 TTTTCTT
61054824 TTTTCTT
1 TTTTCTT
61054831 TTTTCTT
1 TTTTCTT
61054838 TTTT
1 TTTT
61054842 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:61055275 original size:36 final size:36
Alignment explanation
Indices: 61055228--61055300 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
61055218 GAATTAGGAG
61055228 TTAGAATTCAAGGCCAATTTGGGGATTTTAGTCTAT
1 TTAGAATTCAAGGCCAATTTGGGGATTTTAGTCTAT
61055264 TTAGAATTCAAGGCCAATTTGGGGATTTTAGTCTAT
1 TTAGAATTCAAGGCCAATTTGGGGATTTTAGTCTAT
61055300 T
1 T
61055301 CCCACATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (36 bp):
TTAGAATTCAAGGCCAATTTGGGGATTTTAGTCTAT
Found at i:61055543 original size:13 final size:13
Alignment explanation
Indices: 61055525--61055558 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
61055515 ATAGAGAGTT
61055525 ACACGGCCTATTC
1 ACACGGCCTATTC
61055538 ACACGGCCTATTC
1 ACACGGCCTATTC
61055551 ACACGGCC
1 ACACGGCC
61055559 ATGTCCCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.41, G:0.18, T:0.18
Consensus pattern (13 bp):
ACACGGCCTATTC
Found at i:61057408 original size:7 final size:7
Alignment explanation
Indices: 61057396--61057421 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61057386 ATAATTGTTT
61057396 TTATTAA
1 TTATTAA
61057403 TTATTAA
1 TTATTAA
61057410 TTATTAA
1 TTATTAA
61057417 TTATT
1 TTATT
61057422 GATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:61064084 original size:20 final size:21
Alignment explanation
Indices: 61064046--61064094 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
61064036 TTTTAAAAAT
61064046 ATTTTTATATTTACTTTTAAA
1 ATTTTTATATTTACTTTTAAA
61064067 ATTTTTA-ATTTA-TATTT-AA
1 ATTTTTATATTTACT-TTTAAA
*
61064086 CTTTTTATA
1 ATTTTTATA
61064095 ATCCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTATATTTACTTTTAAA
Found at i:61065163 original size:14 final size:15
Alignment explanation
Indices: 61065144--61065175 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
61065134 CATGTTTCTC
61065144 TTTA-TTTTTAAATA
1 TTTATTTTTTAAATA
61065158 TTTATTTTTTAAATA
1 TTTATTTTTTAAATA
61065173 TTT
1 TTT
61065176 TACTATACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTTAAATA
Found at i:61065848 original size:21 final size:21
Alignment explanation
Indices: 61065807--61065851 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
61065797 AATTTTAAAA
61065807 TTTTTAATTTATATTTAACTT
1 TTTTTAATTTATATTTAACTT
61065828 TTTTATAATTTATATTT-ACTT
1 TTTT-TAATTTATATTTAACTT
61065849 TTT
1 TTT
61065852 CTCATCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTAATTTATATTTAACTT
Found at i:61073409 original size:21 final size:21
Alignment explanation
Indices: 61073383--61073423 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61073373 AGACGAGCAA
* *
61073383 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61073404 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61073424 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61079724 original size:36 final size:35
Alignment explanation
Indices: 61079647--61079725 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
61079637 GACAACTTGC
* *
61079647 ACTTAGTCAATCCTCCAGGCTTAAACAATACACCG
1 ACTTAGTCAATCCACCAGGCTTAAACAATACACAG
* * * *
61079682 AGCTTAGTCAATGCACTAGGCTTAGACAATACGTCAG
1 A-CTTAGTCAATCCACCAGGCTTAAACAATAC-ACAG
61079719 ACTTAGT
1 ACTTAGT
61079726 AAATACAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.03
36 32 0.89
37 3 0.08
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (35 bp):
ACTTAGTCAATCCACCAGGCTTAAACAATACACAG
Found at i:61082567 original size:9 final size:9
Alignment explanation
Indices: 61082550--61082586 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
61082540 TGAGTTTTCG
61082550 AATTCGAAT
1 AATTCGAAT
*
61082559 AACTCGAAT
1 AATTCGAAT
*
61082568 AATTCAAAT
1 AATTCGAAT
61082577 AATTCGAAT
1 AATTCGAAT
61082586 A
1 A
61082587 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:61084020 original size:13 final size:13
Alignment explanation
Indices: 61084002--61084026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61083992 TGGTGGCAAA
61084002 TTGCATCAATTAG
1 TTGCATCAATTAG
61084015 TTGCATCAATTA
1 TTGCATCAATTA
61084027 ATGTGAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGCATCAATTAG
Found at i:61084703 original size:18 final size:18
Alignment explanation
Indices: 61084677--61084731 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
61084667 AGAGCAACAA
*
61084677 ATCTTAATAGAAAATCAT
1 ATCTCAATAGAAAATCAT
*
61084695 ATCTCAATAGGAAATCAT
1 ATCTCAATAGAAAATCAT
*
61084713 ATC-CAAACAGAAAATCAT
1 ATCTC-AATAGAAAATCAT
61084731 A
1 A
61084732 ACAAAAACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.25
Consensus pattern (18 bp):
ATCTCAATAGAAAATCAT
Found at i:61088117 original size:18 final size:18
Alignment explanation
Indices: 61088074--61088124 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
61088064 CAGCACTTCT
61088074 ACCTCTACCACG---ACC
1 ACCTCTACCACGATAACC
*
61088089 TCCTCTACCACGATAACC
1 ACCTCTACCACGATAACC
*
61088107 ACCTCTGCCACGATAACC
1 ACCTCTACCACGATAACC
61088125 TCTTCTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.37
18 19 0.63
ACGTcount: A:0.27, C:0.47, G:0.08, T:0.18
Consensus pattern (18 bp):
ACCTCTACCACGATAACC
Found at i:61088131 original size:18 final size:18
Alignment explanation
Indices: 61088086--61088131 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
61088076 CTCTACCACG
*
61088086 ACCTCCTCTACCACGATA
1 ACCTCCTCTGCCACGATA
*
61088104 ACCACCTCTGCCACGATA
1 ACCTCCTCTGCCACGATA
*
61088122 ACCTCTTCTG
1 ACCTCCTCTG
61088132 TATGTGGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.43, G:0.09, T:0.24
Consensus pattern (18 bp):
ACCTCCTCTGCCACGATA
Found at i:61089044 original size:18 final size:18
Alignment explanation
Indices: 61089018--61089072 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
61089008 AGAGCAACAA
*
61089018 ATCTTAATAGAAAATCAT
1 ATCTCAATAGAAAATCAT
*
61089036 ATCTCAATAGGAAATCAT
1 ATCTCAATAGAAAATCAT
* *
61089054 ATCCCAACAGAAAATCAT
1 ATCTCAATAGAAAATCAT
61089072 A
1 A
61089073 ACAAAAATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (18 bp):
ATCTCAATAGAAAATCAT
Found at i:61091744 original size:31 final size:30
Alignment explanation
Indices: 61091709--61091802 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
61091699 TTTTATTATG
* *
61091709 CCAATATCTCGGTACCCATATCTTTTACTTT
1 CCAATAT-TCGATACCCATATCTTTGACTTT
*
61091740 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
* * * * *
61091770 CTATTATTTGATACCTATATCTTTGATTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
61091800 CCA
1 CCA
61091803 TAAATATGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 48 0.87
31 7 0.13
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.46
Consensus pattern (30 bp):
CCAATATTCGATACCCATATCTTTGACTTT
Found at i:61091757 original size:30 final size:30
Alignment explanation
Indices: 61091721--61091802 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
61091711 AATATCTCGG
*
61091721 TACCCATATCTTTTACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
61091751 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
61091781 TACCTATATCTTTGATTTTCCA
1 TACCCATATCTTTGACTTTCCA
61091803 TAAATATGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:61091794 original size:15 final size:15
Alignment explanation
Indices: 61091746--61091796 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
61091736 CTTTCCAATA
*
61091746 TTTGATACCCATATC
1 TTTGATACCTATATC
** *
61091761 TTTGACTTTCTAT-TA
1 TTTGA-TACCTATATC
61091776 TTTGATACCTATATC
1 TTTGATACCTATATC
61091791 TTTGAT
1 TTTGAT
61091797 TTTCCATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.19
15 18 0.67
16 4 0.15
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.51
Consensus pattern (15 bp):
TTTGATACCTATATC
Found at i:61096423 original size:30 final size:30
Alignment explanation
Indices: 61096387--61096468 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
61096377 AATATCTCGG
61096387 TACCCATATCTTTGACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
61096417 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
61096447 TACCCATATATTTGATTTTCCA
1 TACCCATATCTTTGACTTTCCA
61096469 TAAATATGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:61096430 original size:15 final size:15
Alignment explanation
Indices: 61096387--61096462 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
61096377 AATATCTCGG
*
61096387 TACCCATATCTTTGA
1 TACCCATATATTTGA
**
61096402 CTTTCCA-ATATTTGA
1 -TACCCATATATTTGA
*
61096417 TACCCATATCTTTGA
1 TACCCATATATTTGA
** *
61096432 CTTTCTAT-TATTTGA
1 -TACCCATATATTTGA
61096447 TACCCATATATTTGA
1 TACCCATATATTTGA
61096462 T
1 T
61096463 TTTCCATAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (15 bp):
TACCCATATATTTGA
Found at i:61107558 original size:3 final size:3
Alignment explanation
Indices: 61107550--61107586 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
61107540 AATTAAACAC
61107550 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61107587 GAAATGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61110889 original size:20 final size:20
Alignment explanation
Indices: 61110866--61110903 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61110856 AAAAAATCTA
61110866 AAAATAAGGTTTAAAAGGGG
1 AAAATAAGGTTTAAAAGGGG
*
61110886 AAAATAAGGTTTGAAAGG
1 AAAATAAGGTTTAAAAGG
61110904 AGATGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAAATAAGGTTTAAAAGGGG
Found at i:61113411 original size:20 final size:21
Alignment explanation
Indices: 61113373--61113412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61113363 TTTAAAATTT
*
61113373 TAATTTATATTTAACTTTTTA
1 TAATTCATATTTAACTTTTTA
61113394 TAATTCATATTT-ACTTTTT
1 TAATTCATATTTAACTTTTT
61113413 CTTATCAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTCATATTTAACTTTTTA
Found at i:61115624 original size:28 final size:30
Alignment explanation
Indices: 61115588--61115647 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
61115578 TTTTTTACTC
*
61115588 AAATAATATAAAAAATA-ATTAATTACGAA
1 AAATAATATAAAAAATAGAATAATTACGAA
*
61115617 AAAT-ATATAGAAAATAGAATAATTACGAA
1 AAATAATATAAAAAATAGAATAATTACGAA
61115646 AA
1 AA
61115648 TAGACATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (30 bp):
AAATAATATAAAAAATAGAATAATTACGAA
Found at i:61121734 original size:16 final size:17
Alignment explanation
Indices: 61121713--61121745 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61121703 ATCCACTAAT
61121713 CCACTACC-ACAACAAC
1 CCACTACCAACAACAAC
61121729 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61121746 AATCCACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61121746 original size:20 final size:20
Alignment explanation
Indices: 61121721--61121758 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61121711 ATCCACTACC
61121721 ACAACAACCCACTACCAACA
1 ACAACAACCCACTACCAACA
*
61121741 ACAACAATCCACTACCAA
1 ACAACAACCCACTACCAA
61121759 TTTTAGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.42, G:0.00, T:0.08
Consensus pattern (20 bp):
ACAACAACCCACTACCAACA
Found at i:61126634 original size:17 final size:17
Alignment explanation
Indices: 61126612--61126645 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61126602 ATCCACTAAT
*
61126612 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61126629 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61126646 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61127900 original size:20 final size:21
Alignment explanation
Indices: 61127862--61127910 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
61127852 TTTTAAAAAT
61127862 ATTTTTATATTTACTTTTAAA
1 ATTTTTATATTTACTTTTAAA
61127883 ATTTTTA-ATTTA-TATTT-AA
1 ATTTTTATATTTACT-TTTAAA
*
61127902 CTTTTTATA
1 ATTTTTATA
61127911 ATCCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTATATTTACTTTTAAA
Found at i:61128978 original size:14 final size:15
Alignment explanation
Indices: 61128959--61128990 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
61128949 CATGTTTCTC
61128959 TTTA-TTTTTAAATA
1 TTTATTTTTTAAATA
61128973 TTTATTTTTTAAATA
1 TTTATTTTTTAAATA
61128988 TTT
1 TTT
61128991 TACTATACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTTAAATA
Found at i:61129666 original size:21 final size:21
Alignment explanation
Indices: 61129625--61129669 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
61129615 AATTTTAAAA
61129625 TTTTTAATTTATATTTAACTT
1 TTTTTAATTTATATTTAACTT
61129646 TTTTATAATTTATATTT-ACTT
1 TTTT-TAATTTATATTTAACTT
61129667 TTT
1 TTT
61129670 CTCATCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTAATTTATATTTAACTT
Found at i:61132747 original size:13 final size:14
Alignment explanation
Indices: 61132711--61132745 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
61132701 AAATATCTTT
*
61132711 ATAAATAATATTTAA
1 ATAAA-AATATTAAA
61132726 ATAAAAATATTAAA
1 ATAAAAATATTAAA
61132740 ATAAAA
1 ATAAAA
61132746 TAATCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAAATATTAAA
Found at i:61136558 original size:19 final size:19
Alignment explanation
Indices: 61136534--61136573 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61136524 CAATATGCCA
*
61136534 GGTGTAGCCAATTACGTTG
1 GGTGTAGCCAATTACATTG
**
61136553 GGTGTAGTTAATTACATTG
1 GGTGTAGCCAATTACATTG
61136572 GG
1 GG
61136574 CTTAGTCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.35
Consensus pattern (19 bp):
GGTGTAGCCAATTACATTG
Found at i:61137218 original size:20 final size:20
Alignment explanation
Indices: 61137193--61137242 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61137183 TGGCTTAAAA
61137193 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61137213 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61137230 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61137243 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61141857 original size:20 final size:20
Alignment explanation
Indices: 61141832--61141881 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61141822 TGGCTTAAAA
61141832 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61141852 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61141869 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61141882 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61144696 original size:13 final size:13
Alignment explanation
Indices: 61144678--61144702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61144668 TGGTGGCAAA
61144678 TTGCATCAATTAG
1 TTGCATCAATTAG
61144691 TTGCATCAATTA
1 TTGCATCAATTA
61144703 ATGTGAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGCATCAATTAG
Found at i:61156963 original size:27 final size:27
Alignment explanation
Indices: 61156931--61156990 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
61156921 TATTGCACTG
61156931 AAATTATTTATATATGTATTTTGTGAC
1 AAATTATTTATATATGTATTTTGTGAC
61156958 AAATTATTTATATATGTATTTTGTGAC
1 AAATTATTTATATATGTATTTTGTGAC
61156985 AAATTA
1 AAATTA
61156991 ATTGTAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (27 bp):
AAATTATTTATATATGTATTTTGTGAC
Found at i:61159956 original size:3 final size:3
Alignment explanation
Indices: 61159948--61159978 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
61159938 AATTGAACAC
61159948 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61159979 GAAATGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61163284 original size:20 final size:20
Alignment explanation
Indices: 61163261--61163298 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61163251 AAAAAATCTA
61163261 AAAATAAGGTTTAAAAGGGG
1 AAAATAAGGTTTAAAAGGGG
*
61163281 AAAATAAGGTTTGAAAGG
1 AAAATAAGGTTTAAAAGG
61163299 AGATGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAAATAAGGTTTAAAAGGGG
Found at i:61165809 original size:20 final size:21
Alignment explanation
Indices: 61165771--61165810 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61165761 TTTAAAATTT
*
61165771 TAATTTATATTTAACTTTTTA
1 TAATTCATATTTAACTTTTTA
61165792 TAATTCATATTT-ACTTTTT
1 TAATTCATATTTAACTTTTT
61165811 CTTATCAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTCATATTTAACTTTTTA
Found at i:61168031 original size:28 final size:30
Alignment explanation
Indices: 61167995--61168054 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
61167985 TTTTTTACTC
*
61167995 AAATAATATAAAAAATA-ATTAATTACGAA
1 AAATAATATAAAAAATAGAATAATTACGAA
*
61168024 AAAT-ATATAGAAAATAGAATAATTACGAA
1 AAATAATATAAAAAATAGAATAATTACGAA
61168053 AA
1 AA
61168055 TAGACATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (30 bp):
AAATAATATAAAAAATAGAATAATTACGAA
Found at i:61168744 original size:112 final size:111
Alignment explanation
Indices: 61168594--61168835 Score: 294
Period size: 112 Copynumber: 2.2 Consensus size: 111
61168584 TAAACTTTGG
* * *
61168594 TGCCGCCATAC-TGTCAGGC-GGCACCCTTAAGCGCTTTTTC-GATTGCCAATTAAGAAAGGAAA
1 TGCCGCCA-ACATGTCAAGCAGG-ACCCTTAAGCGCTTTTTCAG-TTGCCAATTAAAAAAGAAAA
* * * * *
61168656 TTTGCATATGAGGTCCCTAGAATTTTTAGATCATCACATTTTAGTCA-A
63 TTTACAGATAAGGTCCCTAAAATTTTTAGATCATCAAATTTTAGTCAGA
* *
61168704 GTGCTGCCAACATGTCAAGCAGGACCCTTCAAGCGTTTTTTCAGTTGCCAATTAAAAAAGAAAAT
1 -TGCCGCCAACATGTCAAGCAGGACCCTT-AAGCGCTTTTTCAGTTGCCAATTAAAAAAGAAAAT
* *
61168769 TTACAGATAAGGTCTCTAAAATTTTTAGATCATCAAATTTTAGTCTGA
64 TTACAGATAAGGTCCCTAAAATTTTTAGATCATCAAATTTTAGTCAGA
*
61168817 TGCCGCCAATATGTCAAGC
1 TGCCGCCAACATGTCAAGC
61168836 GACACCGTCA
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
110 2 0.02
111 20 0.18
112 88 0.79
113 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (111 bp):
TGCCGCCAACATGTCAAGCAGGACCCTTAAGCGCTTTTTCAGTTGCCAATTAAAAAAGAAAATTT
ACAGATAAGGTCCCTAAAATTTTTAGATCATCAAATTTTAGTCAGA
Found at i:61174246 original size:20 final size:21
Alignment explanation
Indices: 61174208--61174256 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
61174198 TTTTAAAAAT
61174208 ATTTTTATATTTACTTTTAAA
1 ATTTTTATATTTACTTTTAAA
61174229 ATTTTTA-ATTTA-TATTT-AA
1 ATTTTTATATTTACT-TTTAAA
*
61174248 CTTTTTATA
1 ATTTTTATA
61174257 ATCCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTATATTTACTTTTAAA
Found at i:61175324 original size:14 final size:15
Alignment explanation
Indices: 61175305--61175336 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
61175295 CATGTTTCTC
61175305 TTTA-TTTTTAAATA
1 TTTATTTTTTAAATA
61175319 TTTATTTTTTAAATA
1 TTTATTTTTTAAATA
61175334 TTT
1 TTT
61175337 TACTATACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTTAAATA
Found at i:61176013 original size:21 final size:21
Alignment explanation
Indices: 61175972--61176016 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
61175962 AATTTTAAAA
61175972 TTTTTAATTTATATTTAACTT
1 TTTTTAATTTATATTTAACTT
61175993 TTTTATAATTTATATTT-ACTT
1 TTTT-TAATTTATATTTAACTT
61176014 TTT
1 TTT
61176017 CTCGTCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTAATTTATATTTAACTT
Found at i:61177443 original size:3 final size:3
Alignment explanation
Indices: 61177432--61177522 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
61177422 ATTATTTTGT
*
61177432 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
61177477 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
61177523 ATTTACACCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:61177452 original size:12 final size:12
Alignment explanation
Indices: 61177438--61177522 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
61177428 TTGTTTATTT
*
61177438 TATTATTATTAT
1 TATTATTATTAC
61177450 TATTATTATTTAC
1 TATTATTA-TTAC
61177463 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
61177478 TATTATTGTTAG
1 TATTATTATTAC
*
61177490 TATTATTACTAC
1 TATTATTATTAC
61177502 TATTATTATTAC
1 TATTATTATTAC
*
61177514 TATCATTAT
1 TATTATTAT
61177523 ATTTACACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:61177723 original size:34 final size:36
Alignment explanation
Indices: 61177658--61177724 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
61177648 CATATTTTCG
* *
61177658 TATTTTTTAATTTGTATATACATATACTTATATCTA
1 TATTTTCTAATTTGTATATAAATATACTTATATCTA
*
61177694 TATTTTCTAATTT-T-TATAAATATATTTATAT
1 TATTTTCTAATTTGTATATAAATATACTTATAT
61177725 GTACATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 15 0.54
35 1 0.04
36 12 0.43
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (36 bp):
TATTTTCTAATTTGTATATAAATATACTTATATCTA
Found at i:61177841 original size:13 final size:13
Alignment explanation
Indices: 61177820--61177853 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61177810 AATATCACTA
*
61177820 TTTACTTTTTATT
1 TTTATTTTTTATT
61177833 TTTATTTTTTATT
1 TTTATTTTTTATT
*
61177846 ATTATTTT
1 TTTATTTT
61177854 CAAATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:61190147 original size:46 final size:44
Alignment explanation
Indices: 61190080--61190744 Score: 417
Period size: 44 Copynumber: 15.6 Consensus size: 44
61190070 ATTATACAGG
* *
61190080 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-A-TTCAGA
*
61190126 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAG--A
* * * * *
61190170 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAGA
* * * * *
61190209 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATTCAGA
*
61190250 TCTTATCT-CCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-A-TTCAGA
* * *
61190295 TCTTATCTCCCTGAG-TTACAGCGGAGCAGATCGAAGA--CATA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAGA
* * * *
61190336 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-A-TAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATTCA-GA
* * * *
61190379 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG-ATTCAGA
* *
61190420 TCTTATCT-CCTGAGATTACAGTGGAGCAGA-CGAAGAATCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAGA
* *
61190462 TCTTATCTCCCTGAG-TTACAGCGGAGCAGAT--AAGA--CATAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCA-GA
* * * **
61190502 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATTCA-GA
* * * *
61190546 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG-ATTCAGA
** *
61190587 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCA-GA
* *
61190630 TCTTAT-TCCCTGAGATTACAGTGGAGCAGACCGAAGATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-TTCAGA
** *
61190674 TCTTATCTCCCT-AGATTACAACGGAGCAGATCAAATA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAG--A
* *
61190717 TCCTATTTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
61190745 GGATTGAATG
Statistics
Matches: 488, Mismatches: 83, Indels: 98
0.73 0.12 0.15
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 27 0.06
40 49 0.10
41 87 0.18
42 85 0.17
43 57 0.12
44 103 0.21
45 38 0.08
46 40 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATTCAGA
Found at i:61190363 original size:42 final size:41
Alignment explanation
Indices: 61190075--61190939 Score: 408
Period size: 44 Copynumber: 20.5 Consensus size: 41
61190065 GGTTTATTAT
* * * *
61190075 ACAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG
1 ACAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* *
61190117 AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
1 -A---CAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* * * * * *
61190163 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGAT-TAA-
1 ACAG--ATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* * * *
61190205 A-GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC-ACA-
1 ACAGATCTTATCTCCCTG-AGTTACAGTGGAGCAGATCGA-AG
* * * *
61190245 TCAGGTCTTATCT-CCTGAGATTACAGTGGAGCAGACCAAAG
1 ACAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
*
61190286 AATTTCAGATCTTATCTCCCTGAGTTACAGCGGAGCAGATCGAAG
1 -A---CAGATCTTATCTCCCTGAGTTACAGTGGAGCAGATCGAAG
* * * * *
61190331 ACATATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAA
1 ACAGATCTTATCTCCCTG-AGTTACAGTGGAGCAGATCGAAG
* * * * *
61190372 ATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-
1 A-CA-GATCTTATCTCCCTG-AGTTACAGTGGAGCAGATCGAAG
* *
61190415 TCAGGTCTTATCT-CCTGAGATTACAGTGGAGCAGA-CGAAG
1 ACAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
*
61190455 AATCAGATCTTATCTCCCTGAGTTACAGCGGAGCAGAT--AAG
1 -A-CAGATCTTATCTCCCTGAGTTACAGTGGAGCAGATCGAAG
* * * ** *
61190496 ACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
1 ACA-GATCTTATCTCCCTG-AGTTACAGTGGAGCAGA-TCGAAG
* * * * *
61190540 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-
1 ACA-GATCTTATCTCCCTG-AGTTACAGTGGAGCAGATCGAAG
* * *
61190582 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
1 ACAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* *
61190624 ACACTATCTTAT-TCCCTGAGATTACAGTGGAGCAGACCGAAG
1 ACA-GATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
** * *
61190666 ATTTCAGATCTTATCTCCCT-AGATTACAACGGAGCAGATCAAAT
1 A---CAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* * * * *
61190710 ATAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTG-A-
1 ACAG--ATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* * ** * *
61190752 A-TGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCG-CG
1 ACAGATCTTATCTCCCTG-AGTTACAGTGGAGCAGATCGAAG
* * * * * *
61190792 TCA-AGCTTATTTCCCTGGGTTACAGTGGAACAGACCGAAG
1 ACAGATCTTATCTCCCTGAGTTACAGTGGAGCAGATCGAAG
* * *
61190832 AATTTCAGATCTTATCT-CCTGAGATTACGGCGGAGCAGATTGAAG
1 -A---CAGATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* * * *
61190877 CCAGAGAAT-TTATCTCCCTAAGATTACAGCGGAGCAAATC-AAG
1 --ACAG-ATCTTATCTCCCTGAG-TTACAGTGGAGCAGATCGAAG
* *
61190920 ACACTATCCTATCTCCCTGA
1 ACA-GATCTTATCTCCCTGA
61190940 ATTAGGTGGA
Statistics
Matches: 625, Mismatches: 140, Indels: 115
0.71 0.16 0.13
Matches are distributed among these distances:
39 71 0.11
40 67 0.11
41 92 0.15
42 90 0.14
43 68 0.11
44 133 0.21
45 60 0.10
46 44 0.07
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
ACAGATCTTATCTCCCTGAGTTACAGTGGAGCAGATCGAAG
Found at i:61190405 original size:170 final size:171
Alignment explanation
Indices: 61190076--61190617 Score: 883
Period size: 167 Copynumber: 3.2 Consensus size: 171
61190066 GTTTATTATA
*
61190076 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* * *
61190141 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGATT--
66 -TTACAGCGGAGCAGATC-AAGACA-TAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAA
* *
61190203 -A-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
127 AATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
61190246 CAGGTCTTATCT-CCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
61190310 TTACAGCGGAGCAGATCGAAGACAT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATC-AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
61190374 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
130 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
61190416 CAGGTCTTATCT-CCTGAGATTACAGTGGAGCAGA-CGAAGAA--TCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
61190477 TTACAGCGGAGCAGAT-AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
66 TTACAGCGGAGCAGATCAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT-
61190541 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
130 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
61190583 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
61190618 TTGAAGACAC
Statistics
Matches: 356, Mismatches: 8, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
165 7 0.02
166 68 0.19
167 93 0.26
168 44 0.12
169 58 0.16
170 86 0.24
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (171 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
TTACAGCGGAGCAGATCAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:61190644 original size:210 final size:210
Alignment explanation
Indices: 61190414--61191009 Score: 657
Period size: 210 Copynumber: 2.8 Consensus size: 210
61190404 AGTAGATCGC
*
61190414 ATCAGGTCTTATCTCCTGAGATTACAGTGGAGCAGA-CGAAGAATCAGATCTTATCTCCCT-GAG
1 ATCAGATCTTATCTCCTGAGATTACAGTGGAGCAGACCGAAGAATCAGATCTTATCTCCCTAGA-
61190477 TTACAGCGGAGCAGAT-AAGACA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
65 TTACAGCGGAGCAGATCAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAT
*
61190540 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATT
129 AAA-GATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCGCATCAGG-CTTATCTCCCTG-GATT
* **
61190605 ACAGTGGAGCAGATTGAAG-
191 ACAGTGGAACAGACCGAAGA
* *
61190624 A-CACTATCTTAT-TCCCTGAGATTACAGTGGAGCAGACCGAAGATTTCAGATCTTATCTCCCTA
1 ATCA-GATCTTATCT-CCTGAGATTACAGTGGAGCAGACCGAAGA-ATCAGATCTTATCTCCCTA
* * * * * *
61190687 GATTACAACGGAGCAGATCAAATATAGTAATCCTATTTCCCTG-AGATTACAGTGGAGCGGATTG
63 GATTACAGCGGAGCAGATC-AAGACACTAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTA
* * * * *
61190751 AAT---GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAAGCTTATTTCCCTGGGTT
126 AATAAAGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCGCATCAGGCTTATCTCCCTGGATT
61190813 ACAGTGGAACAGACCGAAGA
191 ACAGTGGAACAGACCGAAGA
* * ** * *
61190833 ATTTCAGATCTTATCTCCTGAGATTACGGCGGAGCAGATTGAAGCCA-GAGAAT-TTATCTCCCT
1 A--TCAGATCTTATCTCCTGAGATTACAGTGGAGCAGACCGAAG-AATCAG-ATCTTATCTCCCT
* *
61190896 AAGATTACAGCGGAGCAAATCAAGACACT-ATCCTATCTCCCTGAA-TTA-GGTGGAGCGGATTG
62 -AGATTACAGCGGAGCAGATCAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-
* *
61190958 AAATAAAAGATCTTATCTCTCTAAAGTTACAGCAAGAGCTAGATCGTATCAG
125 AAAT-AAAGATCTTATCTCTCTGAAGTTACAG-AAGAG-TAGATCGCATCAG
61191010 ATTGAAGCCA
Statistics
Matches: 324, Mismatches: 37, Indels: 46
0.80 0.09 0.11
Matches are distributed among these distances:
207 12 0.04
208 25 0.08
209 28 0.09
210 87 0.27
211 57 0.18
212 58 0.18
213 6 0.02
214 19 0.06
215 32 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (210 bp):
ATCAGATCTTATCTCCTGAGATTACAGTGGAGCAGACCGAAGAATCAGATCTTATCTCCCTAGAT
TACAGCGGAGCAGATCAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAATAA
AGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCGCATCAGGCTTATCTCCCTGGATTACAGT
GGAACAGACCGAAGA
Found at i:61192658 original size:15 final size:15
Alignment explanation
Indices: 61192635--61192679 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
61192625 TTTTATTTTG
61192635 TTTATTTTATTATTAT
1 TTTA-TTTATTATTAT
61192651 TTTATTTATTATTA-
1 TTTATTTATTATTAT
*
61192665 -TTATTTACTATTAT
1 TTTATTTATTATTAT
61192679 T
1 T
61192680 ACCTTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.46
15 10 0.38
16 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATTATTAT
Found at i:61192676 original size:16 final size:16
Alignment explanation
Indices: 61192641--61192695 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
61192631 TTTGTTTATT
*
61192641 TTATTATTATTTTATTTA
1 TTATTATTA-TTTA-CTA
61192659 TTATTATTATTTACTA
1 TTATTATTATTTACTA
*
61192675 TTATTACCT-TTTACTA
1 TTATTA-TTATTTACTA
61192691 TTATT
1 TTATT
61192696 TTGTTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 20 0.59
17 5 0.15
18 9 0.26
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATTATTTACTA
Found at i:61192677 original size:13 final size:13
Alignment explanation
Indices: 61192648--61192734 Score: 65
Period size: 13 Copynumber: 6.7 Consensus size: 13
61192638 ATTTTATTAT
*
61192648 TATT-TTATTTAT
1 TATTATTATTTAC
61192660 TATTATTATTTAC
1 TATTATTATTTAC
61192673 TATTATTACCTTTTAC
1 TATTATTA---TTTAC
* *
61192689 TATTATTTTGTTAG
1 TATTATTAT-TTAC
*
61192703 TATT-TTA-CTAC
1 TATTATTATTTAC
61192714 TA-TATTATTTAC
1 TATTATTATTTAC
*
61192726 TATCATTAT
1 TATTATTAT
61192735 ATTTAACCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
10 1 0.02
11 7 0.12
12 9 0.15
13 23 0.39
14 7 0.12
16 12 0.20
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATTTAC
Found at i:61208214 original size:3 final size:3
Alignment explanation
Indices: 61208198--61208234 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
61208188 CTTCTTATGT
61208198 TTA TT- TTA -TA TTA TTA TTA TTTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
61208235 TATCTATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:61208217 original size:16 final size:17
Alignment explanation
Indices: 61208198--61208235 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
61208188 CTTCTTATGT
61208198 TTATTTTA-TATTATTA
1 TTATTTTATTATTATTA
61208214 TTA-TTTATTATTATTA
1 TTATTTTATTATTATTA
61208230 TTATTT
1 TTATTT
61208236 ATCTATATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 14 0.70
17 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTATTATTATTA
Found at i:61208236 original size:16 final size:16
Alignment explanation
Indices: 61208202--61208237 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
61208192 TTATGTTTAT
61208202 TTTA-TATTATTATTA
1 TTTATTATTATTATTA
61208217 TTTATTATTATTATTA
1 TTTATTATTATTATTA
61208233 TTTAT
1 TTTAT
61208238 CTATATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:61208237 original size:13 final size:13
Alignment explanation
Indices: 61208206--61208231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61208196 GTTTATTTTA
61208206 TATTATTATTATT
1 TATTATTATTATT
61208219 TATTATTATTATT
1 TATTATTATTATT
61208232 ATTTATCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:61221023 original size:46 final size:44
Alignment explanation
Indices: 61220941--61221829 Score: 440
Period size: 46 Copynumber: 20.6 Consensus size: 44
61220931 ATTATACAGG
* * * *
61220941 TCTTATCTCCCTGAGATTACAGTGAAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
* *
61220987 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-AT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCAG--A
* * * * *
61221031 TCCTATCTCCTTGAGATTACAATGGAGC-GAAT--TA-AA--GGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATCAGA
* * * * *
61221070 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--A-CATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* * * *
61221111 TCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAGTTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA--ATCAGA
* *
61221157 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATCAGA
* * * * *
61221200 TCCTATCTCCCTGA-AGTTATAGTGGAGCGGAT-TAA-AATAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCA-GA
* * * * * *
61221243 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCACCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* * *
61221284 TCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
* *
61221330 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATCAGA
* * * *
61221373 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAAT-CA-GA
* * * * *
61221417 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* *
61221458 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A-CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCA-GA
* *
61221501 TCTTATTTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
**
61221547 TCTTATCTCCCTGAGATTACAACGGAGCAGATC-AA-ATAT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATCAG--A
* * * *
61221591 TCCTATTTCCCTGAGATTACAGTGGAGCGGATTGAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCAGA
* ** * *
61221630 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG--TCA-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* * * *
61221670 GTCTTATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
* * * * *
61221717 TCTTATCTCCCTGAGATTACGGCGGAGCAGATTGAAGCCA-GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATCAGA
* * * * *
61221761 T-TTATCTCCCTAAGATTACAGCGGAGCAAATCAAAG-A-CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCA-GA
*
61221803 TCCTATCTCCCTGA-ATTA-AGGTGGAGC
1 TCTTATCTCCCTGAGATTACA-GTGGAGC
61221830 GGATTGAAAT
Statistics
Matches: 643, Mismatches: 135, Indels: 134
0.71 0.15 0.15
Matches are distributed among these distances:
38 3 0.00
39 50 0.08
40 6 0.01
41 113 0.18
42 32 0.05
43 163 0.25
44 94 0.15
45 8 0.01
46 169 0.26
47 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCAGA
Found at i:61221227 original size:43 final size:43
Alignment explanation
Indices: 61220986--61221829 Score: 312
Period size: 43 Copynumber: 19.7 Consensus size: 43
61220976 AGAATTTCAG
* * *
61220986 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGATAGTA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-TA
* * * * **
61221030 ATCCTATCTCCTTG-AGATTACAATGGAGC-GAAT--TA-A-AGG
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAG-ATCGAAGACATA
* * *
61221069 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC----ACATCA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAT-A
* * * * **
61221109 GGTCTTATCTCCTTG-AGATTATAGTGGAGCAGACCGAAGAGTTTCA
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGA-CAT-A
* *
61221155 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA
1 -ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* * * *
61221199 ATCCTATCTCCCTGAAGTTATAGTGGAGCGGAT-TAA-A-ATAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAT-A
* * * * * *
61221240 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-CCA-G
1 --ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* * * *
61221283 GTCTTATCTCCTTG-AGATTATAGTGGAGCAGACCGAAGA-ATTTCA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA--T-A
* *
61221328 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA
1 -ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* * * * * *
61221372 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* * * * * *
61221414 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCA-G
1 --ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* *
61221457 GTCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAAGACACT-
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-TA
* *
61221500 ATCTTATTTCCCTG-AGATTACAGTGGAGCAGACCGAAGA-ATTTCA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA--T-A
** * * *
61221545 GATCTTATCTCCCTG-AGATTACAACGGAGCAGATCAAATATAGTA
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-TA
* * * * *
61221590 ATCCTATTTCCCTG-AGATTACAGTGGAGCGGATTGAAG----G
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACATA
* ** * * *
61221629 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCG-CGTCA-A
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
* * * * *
61221670 GTCTTATTTCCCTGAGGTTACAGTGGAACAGACCGAAGA-ATTTCA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA--T-A
* * * * *
61221715 GATCTTATCTCCCTG-AGATTACGGCGGAGCAGATTGAAGCCAGA
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACATA
* * *
61221759 GAT-TTATCTCCCT-AAGATTACAGCGGAGCAAATCAAAGACACT-
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-TA
*
61221802 ATCCTATCTCCCTGAA-TTA-AGGTGGAGC
1 ATCTTATCTCCCTGAAGTTACA-GTGGAGC
61221830 GGATTGAAAT
Statistics
Matches: 594, Mismatches: 149, Indels: 116
0.69 0.17 0.14
Matches are distributed among these distances:
38 2 0.00
39 47 0.08
40 14 0.02
41 110 0.19
42 23 0.04
43 162 0.27
44 95 0.16
45 8 0.01
46 128 0.22
47 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACATA
Found at i:61221294 original size:173 final size:173
Alignment explanation
Indices: 61220937--61221538 Score: 880
Period size: 173 Copynumber: 3.5 Consensus size: 173
61220927 GTTTATTATA
* * *
61220937 CAGGTCTTATCTCCCTGAGATTACAGTGAAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * * * *
61221002 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGAATT--
66 ATTACAGCGGAGCAGATCGAAGACA-TAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAA
* *
61221064 -A-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
129 AATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * *
61221107 CAGGTCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAGTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
61221172 GTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAA
66 ATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
*
61221237 TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* *
61221280 CAGGTCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
61221345 GTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
66 ATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
61221410 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 T-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
** * *
61221454 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A---CACTATCTTATTTCCCTGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-GATCTTATCTCCCTGA
* *
61221515 GATTACAGTGGAGCAGACCGAAGA
65 GATTACAGCGGAGCAGATCGAAGA
61221539 ATTTCAGATC
Statistics
Matches: 397, Mismatches: 28, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
169 29 0.07
170 85 0.21
171 35 0.09
172 1 0.00
173 169 0.43
174 78 0.20
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (173 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:61221362 original size:87 final size:85
Alignment explanation
Indices: 61221060--61221488 Score: 373
Period size: 87 Copynumber: 5.0 Consensus size: 85
61221050 CAATGGAGCG
* * * *
61221060 AATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCTTGA
1 AATT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAACAGGTCTTATCTCCCTGA
61221125 GATTATAGTGGAGCAGACCGAA
65 GATTATAGTGGAGCAGA-CGAA
* * * * ** * ** *
61221147 GAGTTTCA-GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCC
1 -A-ATTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-ACA-GGTCTTATCTCCC
* **
61221211 TGA-AGTTATAGTGGAGCGGATTAA
62 TGAGA-TTATAGTGGAGCAGACGAA
* * *
61221235 AA-TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCTTGAG
1 AATTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAACAGGTCTTATCTCCCTGAG
61221299 ATTATAGTGGAGCAGACCGAA
66 ATTATAGTGGAGCAGA-CGAA
* * * ** * ** *
61221320 GAATTTCA-GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCC
1 -AA-TTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-ACA-GGTCTTATCTCCC
* * **
61221384 TGA-AGTTACAGTGGAGCGGATTAA
62 TGAGA-TTATAGTGGAGCAGACGAA
* * *
61221408 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
1 AATTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAACAGGTCTTATCTCCCTGAG
*
61221473 ATTACAGTGGAGCAGA
66 ATTATAGTGGAGCAGA
61221489 TTGAAGACAC
Statistics
Matches: 264, Mismatches: 62, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
84 26 0.10
85 34 0.13
86 39 0.15
87 98 0.37
88 14 0.05
89 53 0.20
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (85 bp):
AATTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAACAGGTCTTATCTCCCTGAG
ATTATAGTGGAGCAGACGAA
Found at i:61221693 original size:213 final size:212
Alignment explanation
Indices: 61221284--61221884 Score: 705
Period size: 213 Copynumber: 2.8 Consensus size: 212
61221274 TCGCACCAGG
* * *
61221284 TCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* *
61221349 CAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA
66 CAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAA-TTACAGTGGAGCGGA-T----TGAA
* *
61221414 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACA
125 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACA
* ** *
61221479 GTGGAGCAGATTGAAG-A-CACTA
190 GTGGAACAGACCGAAGAATCA-GA
*
61221501 TCTTATTTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* * * *
61221566 CAACGGAGCAGATCAAATATAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTGAAGGAT
66 CAGCGGAGCAGATCAAAGACA-TAATCCTATCTCCCTGA-ATTACAGTGGAGCGGATTGAAGGAT
* * *
61221631 CTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAAGTCTTATTTCCCTGAGGTTACAGTGG
129 CTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACAGTGG
61221696 AACAGACCGAAGAATTTCAGA
194 AACAGACCGAAGAA--TCAGA
* * ** * * *
61221717 TCTTATCTCCCTGAGATTACGGCGGAGCAGATTGAAGCCA---GAGAT-TTATCTCCCTAAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATT
*
61221778 ACAGCGGAGCAAATCAAAGACACT-ATCCTATCTCCCTGAATTA-AGGTGGAGCGGATTGAAATA
65 ACAGCGGAGCAGATCAAAGACA-TAATCCTATCTCCCTGAATTACA-GTGGAGCGGATTG-----
* * *
61221841 AAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGTATCA
123 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
61221885 GATTGAAGCC
Statistics
Matches: 334, Mismatches: 37, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
210 1 0.00
211 17 0.05
212 14 0.04
213 110 0.33
214 5 0.01
216 73 0.22
217 82 0.25
218 31 0.09
219 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (212 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAATTACAGTGGAGCGGATTGAAGGATCT
TATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACAGTGGAA
CAGACCGAAGAATCAGA
Found at i:61223518 original size:3 final size:3
Alignment explanation
Indices: 61223507--61223603 Score: 90
Period size: 3 Copynumber: 32.3 Consensus size: 3
61223497 ATTATTTTGT
*
61223507 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * *
61223552 TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
61223597 TCA TTA T
1 TTA TTA T
61223604 ATTTACACCT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 69 0.91
4 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:61227602 original size:13 final size:14
Alignment explanation
Indices: 61227566--61227600 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
61227556 AAATATCTTT
*
61227566 ATAAATAATATTTAA
1 ATAAA-AATATTAAA
61227581 ATAAAAATATTAAA
1 ATAAAAATATTAAA
61227595 ATAAAA
1 ATAAAA
61227601 TAATCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAAATATTAAA
Found at i:61233740 original size:21 final size:22
Alignment explanation
Indices: 61233711--61233757 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61233701 CAGAAGGAGT
*
61233711 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61233733 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61233754 GAGT
1 GAGT
61233758 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:61236506 original size:19 final size:19
Alignment explanation
Indices: 61236482--61236521 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61236472 CAATATGCCA
*
61236482 GGTGTAGCCAATTACGTTG
1 GGTGTAGCCAATTACATTG
**
61236501 GGTGTAGTTAATTACATTG
1 GGTGTAGCCAATTACATTG
61236520 GG
1 GG
61236522 CTTAGTCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.35
Consensus pattern (19 bp):
GGTGTAGCCAATTACATTG
Found at i:61239533 original size:13 final size:13
Alignment explanation
Indices: 61239515--61239539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61239505 TGGTGGCAAA
61239515 TTGCATCAATTAG
1 TTGCATCAATTAG
61239528 TTGCATCAATTA
1 TTGCATCAATTA
61239540 ATGTGAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGCATCAATTAG
Found at i:61244177 original size:23 final size:22
Alignment explanation
Indices: 61244125--61244177 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 22
61244115 GTTTTTTTTG
*
61244125 GTTGTTTTCTTATTGTTTTGAT
1 GTTGTTTTCTTATTGTTTTCAT
* * * *
61244147 GCTATTTTCTTTTTTGTTTTCTT
1 GTTGTTTTC-TTATTGTTTTCAT
61244170 GTTGTTTT
1 GTTGTTTT
61244178 GCTACTATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.06, C:0.08, G:0.15, T:0.72
Consensus pattern (22 bp):
GTTGTTTTCTTATTGTTTTCAT
Found at i:61245469 original size:20 final size:20
Alignment explanation
Indices: 61245444--61245493 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61245434 TGGCTTAAAA
61245444 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61245464 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61245481 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61245494 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61250108 original size:20 final size:20
Alignment explanation
Indices: 61250083--61250132 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61250073 TGGCTTAAAA
61250083 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61250103 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61250120 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61250133 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61255161 original size:9 final size:9
Alignment explanation
Indices: 61255147--61255213 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
61255137 ATTAATATCC
*
61255147 AAATAAGTA
1 AAATAAATA
61255156 AAATAAAATA
1 AAAT-AAATA
61255166 AAATAAAT-
1 AAATAAATA
* *
61255174 TAATAAAGA
1 AAATAAATA
*
61255183 AAATAAAGA
1 AAATAAATA
61255192 AAA-ATAA-A
1 AAATA-AATA
61255200 AAATAAAATA
1 AAAT-AAATA
61255210 AAAT
1 AAAT
61255214 TGGGTTGCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
8 11 0.23
9 23 0.48
10 14 0.29
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:61255164 original size:5 final size:5
Alignment explanation
Indices: 61255154--61255213 Score: 50
Period size: 5 Copynumber: 11.2 Consensus size: 5
61255144 TCCAAATAAG
* *
61255154 TAAAA TAAAA TAAAA TAAAT TAATAAA GAAAA TAAAGA -AAAA TAAAAAA
1 TAAAA TAAAA TAAAA TAAAA T-A-AAA TAAAA TAAA-A TAAAA T--AAAA
61255203 TAAAA TAAAA T
1 TAAAA TAAAA T
61255214 TGGGTTGCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
4 1 0.02
5 34 0.76
6 3 0.07
7 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:61255185 original size:22 final size:22
Alignment explanation
Indices: 61255160--61255213 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
61255150 TAAGTAAAAT
* *
61255160 AAAATAAAATAAATTAATAAAG
1 AAAATAAAATAAAATAAAAAAG
*
61255182 AAAATAAAGA-AAAATAAAAAAT
1 AAAATAAA-ATAAAATAAAAAAG
61255204 AAAATAAAAT
1 AAAATAAAAT
61255214 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAAAAG
Found at i:61255212 original size:27 final size:27
Alignment explanation
Indices: 61255147--61255213 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
61255137 ATTAATATCC
*
61255147 AAATAAGTAAAATAAAATAAAATAAAT
1 AAATAAATAAAATAAAATAAAATAAAT
* *
61255174 TAATAAAGAAAATAAAGA-AAAATAAA-
1 AAATAAATAAAATAAA-ATAAAATAAAT
61255200 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
61255214 TGGGTTGCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (27 bp):
AAATAAATAAAATAAAATAAAATAAAT
Found at i:61268198 original size:71 final size:71
Alignment explanation
Indices: 61268082--61268241 Score: 239
Period size: 71 Copynumber: 2.3 Consensus size: 71
61268072 AATACTTCGT
* * *
61268082 TTTTGTCTTCGCATCATAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTATGATGAAGTCAGACTATAAATAACAAT
61268147 GTTGAA
66 GTTGAA
* * *
61268153 TTTTGTCTTTGCATCTTAACTCATGAGCTAGTAGATTATGATGAAGTCAGACTTTAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTATGATGAAGTCAGACTATAAATAACAAT
*
61268218 GTTGGA
66 GTTGAA
**
61268224 TTTTAACTTTGCATCTTA
1 TTTTGTCTTTGCATCTTA
61268242 TTGTATCAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 80 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (71 bp):
TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTATGATGAAGTCAGACTATAAATAACAAT
GTTGAA
Found at i:61277148 original size:15 final size:16
Alignment explanation
Indices: 61277128--61277157 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61277118 ACCAAAATAT
61277128 TTTTTTTAT-ATTTAC
1 TTTTTTTATAATTTAC
61277143 TTTTTTTATAATTTA
1 TTTTTTTATAATTTA
61277158 TATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTATAATTTAC
Found at i:61277519 original size:20 final size:20
Alignment explanation
Indices: 61277494--61277543 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
61277484 TTTTGGTTAC
*
61277494 AAATTTTTTAAAAAAAATTT
1 AAATTTTTTAAAAAAAATTA
**
61277514 AAATTTTTTTTAAAAAATTA
1 AAATTTTTTAAAAAAAATTA
61277534 AAATTTTTTA
1 AAATTTTTTA
61277544 TAATTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTTTTTAAAAAAAATTA
Found at i:61285523 original size:24 final size:24
Alignment explanation
Indices: 61285495--61285542 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61285485 CTTGATGATG
61285495 AGCCACAAACTCTCAAATACGAAT
1 AGCCACAAACTCTCAAATACGAAT
61285519 AGCCACAAACTCTCAAATACGAAT
1 AGCCACAAACTCTCAAATACGAAT
61285543 CAATCTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.29, G:0.08, T:0.17
Consensus pattern (24 bp):
AGCCACAAACTCTCAAATACGAAT
Found at i:61289528 original size:71 final size:71
Alignment explanation
Indices: 61289399--61289558 Score: 266
Period size: 71 Copynumber: 2.3 Consensus size: 71
61289389 AATACTTCGT
* * *
61289399 TTTTTTCTTGGCATCATAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
61289464 GTTGGA
66 GTTGGA
* *
61289470 TTTTGTCTTTGCATCTTAACTCATAAGCTAGTAGATTGTGATGAAGTCAGACTTTAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
61289535 GTTGGA
66 GTTGGA
*
61289541 TTTTGACTTTGCATCTTA
1 TTTTGTCTTTGCATCTTA
61289559 TTGTATCAGT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 83 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (71 bp):
TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
GTTGGA
Found at i:61291301 original size:3 final size:3
Alignment explanation
Indices: 61291293--61291335 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
61291283 AATTAAACAC
*
61291293 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61291336 GAAATGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61301845 original size:71 final size:71
Alignment explanation
Indices: 61301716--61301875 Score: 266
Period size: 71 Copynumber: 2.3 Consensus size: 71
61301706 AATACTTCGT
* * *
61301716 TTTTTTCTTGGCATCATAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
61301781 GTTGGA
66 GTTGGA
* *
61301787 TTTTGTCTTTGCATCTTAACTCATAAGCTAGTAGATTGTGATGAAGTCAGACTTTAAATAACAAT
1 TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
61301852 GTTGGA
66 GTTGGA
*
61301858 TTTTGACTTTGCATCTTA
1 TTTTGTCTTTGCATCTTA
61301876 TTGTATCAGT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 83 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (71 bp):
TTTTGTCTTTGCATCTTAACTCATAAGCTACTAGATTGTGATGAAGTCAGACTATAAATAACAAT
GTTGGA
Found at i:61303619 original size:3 final size:3
Alignment explanation
Indices: 61303611--61303653 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
61303601 AATTAAACAC
*
61303611 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61303654 GAAATGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61309747 original size:17 final size:17
Alignment explanation
Indices: 61309725--61309758 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61309715 ATCCACTAAT
*
61309725 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61309742 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61309759 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61314386 original size:17 final size:17
Alignment explanation
Indices: 61314364--61314397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61314354 ATCCACTAAT
*
61314364 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61314381 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61314398 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61320188 original size:21 final size:21
Alignment explanation
Indices: 61320162--61320225 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
61320152 AGAACATGTC
61320162 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTGAGAGCTG
61320183 AACAGAAGCTCGTGAGAGCT-
1 AACAGAAGCTCGTGAGAGCTG
* *
61320203 AACCAAAAGCTCGTAAGAGCTG
1 AA-CAGAAGCTCGTGAGAGCTG
61320225 A
1 A
61320226 TCCACCCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTGAGAGCTG
Found at i:61334271 original size:10 final size:10
Alignment explanation
Indices: 61334234--61334264 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
61334224 AAGTTGTAAA
61334234 AAAAATATAT
1 AAAAATATAT
61334244 AAAAATATAT
1 AAAAATATAT
61334254 AAAAATATAT
1 AAAAATATAT
61334264 A
1 A
61334265 CATATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:61335184 original size:11 final size:11
Alignment explanation
Indices: 61335158--61335190 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
61335148 AAACGATTAC
61335158 AGAAAAAT-AA
1 AGAAAAATAAA
*
61335168 ACAAAAATAAA
1 AGAAAAATAAA
61335179 AGAAAAATAAA
1 AGAAAAATAAA
61335190 A
1 A
61335191 TGAATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:61336200 original size:44 final size:43
Alignment explanation
Indices: 61336151--61336519 Score: 202
Period size: 44 Copynumber: 8.6 Consensus size: 43
61336141 ATCTACTCTG
* * * *
61336151 CTGTAACCTCAGAGAGATAAGATCCTTTAGTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTCT-GTTCAATCTGCTCCA
* * ** * * * *
61336195 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTCTGTTCAATCTGCTCCA
* *
61336238 CTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATTTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTCT-G-TTCAATCTGCTCCA
* ** *
61336282 CTGTAACCTCAGGGAGATAAGAT-CTGAAAT-TCTCCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT---CTGT-T-CAATCTGCTCCA
* * * * *
61336328 CTGTAACCTCAGGGAAATAAGA-CCTGATG-T-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCT-CTGTTCAATCTGCTCCA
* * *
61336369 CTGTAACTTCAGAGAGATAAGAT-C-CT-TT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTCTGTTCAATCTGCTCCA
* * * * * * * ** *
61336408 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCTCTGTTCAATCTGCTCCA
* * *
61336452 CTGTAATCTCAGGGAGATAAGA-ACTCTAGCTTCAATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTCT-G-TTCAATCTGCTCCA
61336496 CTGTAACCTCAGGGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
61336520 TGAAATTCTT
Statistics
Matches: 248, Mismatches: 58, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
39 25 0.10
40 1 0.00
41 29 0.12
42 7 0.03
43 33 0.13
44 120 0.48
45 1 0.00
46 31 0.12
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTCTGTTCAATCTGCTCCA
Found at i:61336255 original size:87 final size:87
Alignment explanation
Indices: 61336139--61336300 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
61336129 AGACTTGATG
* * * *
61336139 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTAG-TTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGAT-CTCTAGCTTCAATCCGCTCCACTGTAACC
61336203 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * **
61336226 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATTTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTAGCTTCAATCCGCTCCACTGTAACCT
61336291 CAGGGAGATA
66 CAGGGAGATA
61336301 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 4 0.06
87 60 0.94
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTAGCTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:61336504 original size:214 final size:214
Alignment explanation
Indices: 61336100--61336567 Score: 661
Period size: 214 Copynumber: 2.2 Consensus size: 214
61336090 GTTGTTTTCA
* * * * *
61336100 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * *
61336165 AGATAAGATCCTTTAGTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC--T--TTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
* * *
61336230 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATTTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGAACTCTAGCTTCAATCTGCTCCACTGTAACCTCAGG
61336295 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * *
61336318 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
61336383 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCT
*
61336446 GCTCCGCTGTAATCTCAGGGAGATAAGAACTCTAGCTTCAATCTGCTCCGCTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGAACTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGA
**
61336511 GATAAGATCTGAAATTCTTTG
194 GATAAGATCTGAAATTCTCCG
* * *
61336532 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
61336568 TATAATAAAC
Statistics
Matches: 224, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
212 1 0.00
213 32 0.14
214 124 0.55
218 67 0.30
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGAACTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:61348942 original size:10 final size:10
Alignment explanation
Indices: 61348790--61348944 Score: 63
Period size: 10 Copynumber: 15.6 Consensus size: 10
61348780 TAAAATATGT
61348790 ATATATATAA
1 ATATATATAA
*
61348800 AT-TA-ACAA
1 ATATATATAA
61348808 A-ATATATAA
1 ATATATATAA
*
61348817 AGTATATTTAA
1 A-TATATATAA
61348828 ATATATA-AA
1 ATATATATAA
* * *
61348837 AGAAAAAATAA
1 A-TATATATAA
* *
61348848 ATATGTATAT
1 ATATATATAA
*
61348858 ATTTATGA-AA
1 ATATAT-ATAA
*
61348868 ATGA-ATATAT
1 AT-ATATATAA
61348878 ATATATATAGA
1 ATATATATA-A
*
61348889 TATGTATATAA
1 -ATATATATAA
* * *
61348900 GT-TGTAAAA
1 ATATATATAA
*
61348909 AAATATATAA
1 ATATATATAA
*
61348919 AAATATATAA
1 ATATATATAA
*
61348929 ATATATATAC
1 ATATATATAA
61348939 ATATAT
1 ATATAT
61348945 GTTACAAAAA
Statistics
Matches: 104, Mismatches: 28, Indels: 26
0.66 0.18 0.16
Matches are distributed among these distances:
8 6 0.06
9 16 0.15
10 61 0.59
11 13 0.12
12 8 0.08
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
ATATATATAA
Found at i:61348989 original size:23 final size:22
Alignment explanation
Indices: 61348948--61348991 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
61348938 CATATATGTT
* *
61348948 ACAAAAATAATGTATATATATC
1 ACAAAAATAATGCACATATATC
61348970 ACAAAAATATATGCACATATAT
1 ACAAAAATA-ATGCACATATAT
61348992 ATACATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (22 bp):
ACAAAAATAATGCACATATATC
Found at i:61349043 original size:3 final size:3
Alignment explanation
Indices: 61349035--61349067 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
61349025 AAATAAGTAG
61349035 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61349068 GGACTAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61349866 original size:11 final size:11
Alignment explanation
Indices: 61349840--61349872 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
61349830 AAACGATTGC
61349840 AGAAAAAT-AA
1 AGAAAAATAAA
*
61349850 ACAAAAATAAA
1 AGAAAAATAAA
61349861 AGAAAAATAAA
1 AGAAAAATAAA
61349872 A
1 A
61349873 TGAATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:61351227 original size:23 final size:22
Alignment explanation
Indices: 61351176--61351220 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
61351166 GGTAAAGTGC
*
61351176 AATTTAACTATATATTAATTTGT
1 AATTTAACTATATATT-ATTTAT
61351199 AATTTAACTATATATT-TTTAT
1 AATTTAACTATATATTATTTAT
61351220 A
1 A
61351221 TGATTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
AATTTAACTATATATTATTTAT
Found at i:61354713 original size:8 final size:8
Alignment explanation
Indices: 61354700--61354725 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
61354690 TGAATGGCTT
61354700 TTTGGTAA
1 TTTGGTAA
61354708 TTTGGTAA
1 TTTGGTAA
61354716 TTTGGTAA
1 TTTGGTAA
61354724 TT
1 TT
61354726 AAAATGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTTGGTAA
Found at i:61359020 original size:16 final size:16
Alignment explanation
Indices: 61358999--61359062 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
61358989 ATAATTATTC
61358999 ATTTAATATTATAATT
1 ATTTAATATTATAATT
*
61359015 ATTTAATATTATAACT
1 ATTTAATATTATAATT
*
61359031 ATTTAA-ATAAT-ATT
1 ATTTAATATTATAATT
61359045 ATTTAAATAGTTATAATT
1 ATTT-AATA-TTATAATT
61359063 CTTTTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 6 0.15
15 6 0.15
16 22 0.55
17 3 0.08
18 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTAATATTATAATT
Found at i:61359769 original size:10 final size:11
Alignment explanation
Indices: 61359743--61359768 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61359733 ATGAAAAATA
61359743 AAAAATATTTT
1 AAAAATATTTT
61359754 AAAAATATTTT
1 AAAAATATTTT
61359765 AAAA
1 AAAA
61359769 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:61370157 original size:23 final size:22
Alignment explanation
Indices: 61370106--61370150 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
61370096 GGTAAAGTGC
*
61370106 AATTTAACTATATATTAATTTGT
1 AATTTAACTATATATT-ATTTAT
61370129 AATTTAACTATATATT-TTTAT
1 AATTTAACTATATATTATTTAT
61370150 A
1 A
61370151 TGATTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
AATTTAACTATATATTATTTAT
Found at i:61372089 original size:17 final size:17
Alignment explanation
Indices: 61372046--61372133 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
61372036 TTTTTTTGTT
*
61372046 TTTTA-AAAGACG-AAA
1 TTTTAGAAACACGAAAA
61372061 TTTTAG-AACACGAAAA
1 TTTTAGAAACACGAAAA
**
61372077 TTTTAGAAACACGAATTTTT
1 TTTTAGAAACACGAA---AA
*
61372097 TTTTA-AAACACGACAA
1 TTTTAGAAACACGAAAA
* *
61372113 TTTTTGAAACACGAGAA
1 TTTTAGAAACACGAAAA
61372130 TTTT
1 TTTT
61372134 TCAAAACACA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
15 10 0.17
16 13 0.22
17 22 0.38
19 8 0.14
20 5 0.09
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (17 bp):
TTTTAGAAACACGAAAA
Found at i:61372134 original size:17 final size:17
Alignment explanation
Indices: 61372096--61372469 Score: 155
Period size: 17 Copynumber: 21.3 Consensus size: 17
61372086 CACGAATTTT
* *
61372096 TTTTTAAAACACGACAA
1 TTTTTGAAACACGAGAA
61372113 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAGAA
* *
61372130 TTTTTCAAA-AC-ACAA
1 TTTTTGAAACACGAGAA
*** * *
61372145 TTTAAAAAAAAACATGACAA
1 TTT---TTGAAACACGAGAA
* ** *
61372165 TTTGTGAAACATTAGAG
1 TTTTTGAAACACGAGAA
**
61372182 TCATTGAAAACACG-GAAA
1 TTTTTG-AAACACGAG-AA
* *
61372200 TTTGTGAAAAAACGA-AA
1 TTTTTG-AAACACGAGAA
61372217 TTTTTTGAAACAC-AGAAA
1 T-TTTTGAAACACGAG-AA
61372235 TTTTTAGAAAACACGA-AA
1 TTTTT-G-AAACACGAGAA
* * *
61372253 ATTTTGAATCACCG-TAA
1 TTTTTGAAACA-CGAGAA
61372270 TTTTTGAAAACACGA-AGA
1 TTTTTG-AAACACGAGA-A
61372288 TTTTTGAAACATCGA-AA
1 TTTTTGAAACA-CGAGAA
*
61372305 TTTTTGAAAACACGTGAA
1 TTTTTG-AAACACGAGAA
61372323 TTTTTGAAACAC-A-AA
1 TTTTTGAAACACGAGAA
* *
61372338 TTTTTTTTTGAAAATACGAAAA
1 ----TTTTTG-AAACACGAGAA
61372360 TTTTTGAAAACACG-GAAA
1 TTTTTG-AAACACGAG-AA
* * *
61372378 TTTTTAAAACAAGGGAA
1 TTTTTGAAACACGAGAA
61372395 TTTTTGAAACACTGA-AA
1 TTTTTGAAACAC-GAGAA
61372412 TTTTTGAAAACACGAGAA
1 TTTTTG-AAACACGAGAA
* * *
61372430 TTTTTTAAAACACAAAAA
1 -TTTTTGAAACACGAGAA
61372448 TTTTTGAAACAC-AGGAA
1 TTTTTGAAACACGA-GAA
61372465 TTTTT
1 TTTTT
61372470 TTTTACACAA
Statistics
Matches: 276, Mismatches: 45, Indels: 72
0.70 0.11 0.18
Matches are distributed among these distances:
15 8 0.03
16 8 0.03
17 126 0.46
18 100 0.36
19 18 0.07
20 13 0.05
21 1 0.00
22 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAGAA
Found at i:61372134 original size:36 final size:35
Alignment explanation
Indices: 61372061--61372142 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
61372051 AAAGACGAAA
* *
61372061 TTTTAGAACACGAAAATTTTAGAAACACGAATTTTT
1 TTTTAAAACACGAAAATTTTAGAAACACGAA-TATT
* *
61372097 TTTTAAAACACGACAATTTTTGAAACACGAGA-ATT
1 TTTTAAAACACGAAAATTTTAGAAACACGA-ATATT
*
61372132 TTTCAAAACAC
1 TTTTAAAACAC
61372143 AATTTAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 12 0.30
36 27 0.68
37 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (35 bp):
TTTTAAAACACGAAAATTTTAGAAACACGAATATT
Found at i:61372141 original size:35 final size:34
Alignment explanation
Indices: 61372045--61372469 Score: 255
Period size: 35 Copynumber: 12.1 Consensus size: 34
61372035 TTTTTTTTGT
* * * *
61372045 TTTTTAAAAGACGAAA-TTTT-AGAACACGAAAA
1 TTTTTGAAACACGAAATTTTTGAAAACACGAGAA
* * * *
61372077 TTTTAGAAACACGAATTTTTTTTTAAAACACGACAA
1 TTTTTGAAACACGAA--ATTTTTGAAAACACGAGAA
*
61372113 TTTTTGAAACACGAGAATTTTTCAAAACAC---AA
1 TTTTTGAAACACGA-AATTTTTGAAAACACGAGAA
*** * * ** *
61372145 TTTAAAAAAAAACATGACAATTTGTG-AAACATTAGAG
1 TTT---TTGAAACACGA-AATTTTTGAAAACACGAGAA
** * *
61372182 TCATTGAAAACACGGAAATTTGTGAAAAAACGA-AA
1 TTTTTG-AAACAC-GAAATTTTTGAAAACACGAGAA
61372217 TTTTTTGAAACACAGAAATTTTTAGAAAACACGA-AA
1 -TTTTTGAAACAC-GAAATTTTT-GAAAACACGAGAA
* * *
61372253 ATTTTGAATCACCGTAATTTTTGAAAACACGA-AGA
1 TTTTTGAAACA-CGAAATTTTTGAAAACACGAGA-A
*
61372288 TTTTTGAAACATCGAAATTTTTGAAAACACGTGAA
1 TTTTTGAAACA-CGAAATTTTTGAAAACACGAGAA
* *
61372323 TTTTTGAAACAC-AAATTTTTTTTTGAAAATACGAAAA
1 TTTTTGAAACACGAAA----TTTTTGAAAACACGAGAA
* *
61372360 TTTTTGAAAACACGGAAATTTTT-AAAACAAGGGAA
1 TTTTTG-AAACAC-GAAATTTTTGAAAACACGAGAA
61372395 TTTTTGAAACACTGAAATTTTTGAAAACACGAGAA
1 TTTTTGAAACAC-GAAATTTTTGAAAACACGAGAA
* *
61372430 TTTTTTAAAACACAAAAATTTTTG-AAACAC-AGGAA
1 -TTTTTGAAACAC-GAAATTTTTGAAAACACGA-GAA
61372465 TTTTT
1 TTTTT
61372470 TTTTACACAA
Statistics
Matches: 310, Mismatches: 54, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
32 17 0.05
33 3 0.01
34 38 0.12
35 147 0.47
36 72 0.23
37 24 0.08
38 6 0.02
40 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTTTGAAACACGAAATTTTTGAAAACACGAGAA
Found at i:61372207 original size:18 final size:18
Alignment explanation
Indices: 61372185--61372469 Score: 224
Period size: 18 Copynumber: 16.1 Consensus size: 18
61372175 ATTAGAGTCA
61372185 TTGAAAACACGGAAATTT
1 TTGAAAACACGGAAATTT
* *
61372203 GTGAAAAAAC-GAAATTTT
1 TTGAAAACACGGAAA-TTT
*
61372221 TTG-AAACACAGAAATTT
1 TTGAAAACACGGAAATTT
*
61372238 TTAGAAAACAC-GAAAATT
1 TT-GAAAACACGGAAATTT
* * *
61372256 TTG-AATCACCGTAATTT
1 TTGAAAACACGGAAATTT
61372273 TTGAAAACAC-GAAGATTT
1 TTGAAAACACGGAA-ATTT
61372291 TTG-AAACATC-GAAATTT
1 TTGAAAACA-CGGAAATTT
61372308 TTGAAAACACGTG-AATTT
1 TTGAAAACACG-GAAATTT
61372326 TTG-AAACAC--AAATTTTTTT
1 TTGAAAACACGGAAA----TTT
* *
61372345 TTGAAAATACGAAAATTT
1 TTGAAAACACGGAAATTT
61372363 TTGAAAACACGGAAATTT
1 TTGAAAACACGGAAATTT
* *
61372381 TT-AAAACAAGGGAATTT
1 TTGAAAACACGGAAATTT
*
61372398 TTG-AAACACTGAAATTT
1 TTGAAAACACGGAAATTT
61372415 TTGAAAACAC-GAGAATTT
1 TTGAAAACACGGA-AATTT
* **
61372433 TTTAAAACACAAAAATTT
1 TTGAAAACACGGAAATTT
61372451 TTG-AAACACAGG-AATTT
1 TTGAAAACAC-GGAAATTT
61372468 TT
1 TT
61372470 TTTTACACAA
Statistics
Matches: 220, Mismatches: 23, Indels: 49
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.01
16 5 0.02
17 88 0.40
18 103 0.47
19 14 0.06
20 5 0.02
22 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
TTGAAAACACGGAAATTT
Found at i:61372631 original size:19 final size:19
Alignment explanation
Indices: 61372589--61372635 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
61372579 TCGTTGCCTT
**
61372589 ATTTTTGAAAACACGACTA
1 ATTTTTGAAAACACGAAAA
* *
61372608 TTTTTTGAAGACACGAAAA
1 ATTTTTGAAAACACGAAAA
61372627 A-TTTTGAAA
1 ATTTTTGAAA
61372636 GATAGAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (19 bp):
ATTTTTGAAAACACGAAAA
Found at i:61372850 original size:14 final size:15
Alignment explanation
Indices: 61372833--61372878 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
61372823 AATTGAATTG
61372833 AATTAAAAAT-TAAA
1 AATTAAAAATATAAA
61372847 AATTAAAAATATAAA
1 AATTAAAAATATAAA
* *
61372862 TA-CAAAAATATAAA
1 AATTAAAAATATAAA
61372876 AAT
1 AAT
61372879 GCACAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AATTAAAAATATAAA
Found at i:61373042 original size:17 final size:16
Alignment explanation
Indices: 61373002--61373044 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
61372992 AATTGAACCT
*
61373002 TTTTTTTCCTTTTTCC
1 TTTTTTTCTTTTTTCC
61373018 TTTTTTTCTTTTTTCTC
1 TTTTTTTCTTTTTTC-C
61373035 TTTTTTTCTT
1 TTTTTTTCTT
61373045 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTTTTTCC
Found at i:61373053 original size:15 final size:13
Alignment explanation
Indices: 61373034--61373067 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
61373024 TCTTTTTTCT
61373034 CTTTTTTTCTTCC
1 CTTTTTTTCTTCC
*
61373047 CTTTTTTTCTTCT
1 CTTTTTTTCTTCC
61373060 CTTTTTTT
1 CTTTTTTT
61373068 TTCTGGCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTCC
Found at i:61373064 original size:10 final size:8
Alignment explanation
Indices: 61373002--61373044 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
61372992 AATTGAACCT
61373002 TTTTTTTC
1 TTTTTTTC
* *
61373010 CTTTTTCC
1 TTTTTTTC
61373018 TTTTTTTC
1 TTTTTTTC
61373026 TTTTTTCTC
1 TTTTTT-TC
61373035 TTTTTTTC
1 TTTTTTTC
61373043 TT
1 TT
61373045 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:61373373 original size:4 final size:4
Alignment explanation
Indices: 61373364--61373432 Score: 60
Period size: 4 Copynumber: 18.5 Consensus size: 4
61373354 TTTTCTCCTT
* *
61373364 TTTC TTTC -TTC -TTC -TTC -TTC TTTC -TTC TTTC TCTC TTTT TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC
*
61373408 TTT- TTTC TTTC TTAC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
61373433 CCTCCCCGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
3 18 0.33
4 34 0.62
5 3 0.05
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Done.