Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 21 of 93
Found at i:9284706 original size:21 final size:20
Alignment explanation
Indices: 9284665--9284733 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
9284655 ATATTCAAAT
* * *
9284665 TGCCACATTAGCCTAGTCAA
1 TGCCACATCAGCTTGGTCAA
9284685 TGCCACATCAGCTTTGGTCAA
1 TGCCACATCAGC-TTGGTCAA
* *
9284706 TACCACATCATCTTGGTCAAA
1 TGCCACATCAGCTTGGTC-AA
9284727 TGCCACA
1 TGCCACA
9284734 CCAACAACTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.26
Consensus pattern (20 bp):
TGCCACATCAGCTTGGTCAA
Found at i:9289181 original size:21 final size:20
Alignment explanation
Indices: 9289155--9289197 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
9289145 GATTTAACTT
9289155 ATTATTTTATTTAAAATTAAA
1 ATTATTTTATTT-AAATTAAA
9289176 ATTATTTTATTTAAATTAAA
1 ATTATTTTATTTAAATTAAA
9289196 AT
1 AT
9289198 GTAATCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTTTATTTAAATTAAA
Found at i:9289406 original size:13 final size:13
Alignment explanation
Indices: 9289388--9289412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9289378 TTTGGGACAT
9289388 TTTAAAAATAATC
1 TTTAAAAATAATC
9289401 TTTAAAAATAAT
1 TTTAAAAATAAT
9289413 ATGTTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTAAAAATAATC
Found at i:9289677 original size:45 final size:45
Alignment explanation
Indices: 9289622--9289769 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
9289612 TAATTGACAA
* * *
9289622 GTCATATACAAAAACTTGTAACAAGCTATGGCTAGCTTATTACAC
1 GTCATGTACAAAAACTTGTAACAAGCTATGGTTAGCTTGTTACAC
* * *
9289667 GTCATGTACAAAAACCTGTAACAAG-TCATGGTTAACGTGTTACAC
1 GTCATGTACAAAAACTTGTAACAAGCT-ATGGTTAGCTTGTTACAC
* * * * *
9289712 G-CTATGTACAAAAA-TATGTGACAAGCCATCGTTAGCTTGTTGCAT
1 GTC-ATGTACAAAAACT-TGTAACAAGCTATGGTTAGCTTGTTACAC
*
9289757 GCCATGTACAAAA
1 GTCATGTACAAAA
9289770 TATGTGATAA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
45 81 0.96
46 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
GTCATGTACAAAAACTTGTAACAAGCTATGGTTAGCTTGTTACAC
Found at i:9289859 original size:45 final size:45
Alignment explanation
Indices: 9289789--9289903 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 45
9289779 AACCAAATAC
* * * *
9289789 AAAAACATGTGACAAGTTATGGTTAGCTTGTTATACGTCATGTAT
1 AAAAACATGTGACAAGTCATGGTTAGATTGTTACACGTCATGTAA
* * * *
9289834 AAAAACCTGTGATAAGTCATTGTTAGATTGTTACACGTTATGTAA
1 AAAAACATGTGACAAGTCATGGTTAGATTGTTACACGTCATGTAA
* * * *
9289879 AAAAATATGTTACACGTCATAGTTA
1 AAAAACATGTGACAAGTCATGGTTA
9289904 AAAAAAGTTA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (45 bp):
AAAAACATGTGACAAGTCATGGTTAGATTGTTACACGTCATGTAA
Found at i:9289876 original size:158 final size:159
Alignment explanation
Indices: 9289499--9289888 Score: 505
Period size: 160 Copynumber: 2.5 Consensus size: 159
9289489 CATGCTATTA
* * *
9289499 TGTTACACGCCATGTACAAAAACCTGTAACAAGTTATGGTTAACGTGTTACACGCTATGTATAAA
1 TGTTACACGTCATGTACAAAAACCTGTAACAAGTCATGGTTAACGTGTTACACGCTATGTAAAAA
* * * * * ** *
9289564 AATATGTGATAAGCCATGGTTAGCTTGTTACATGCTAGGTATAAAATATAATTGACAAGTCATAT
66 AATATGTGACAAGCCATCGTTAGCTTGTTACATGCCAGGTACAAAATAT-AGTGACAAACCAAAT
*
9289629 ACAAAAACTTGTAACAAGCTATGGCTAGCT
130 ACAAAAACATGTAACAAGCTATGGCTAGCT
* *
9289659 TATTACACGTCATGTACAAAAACCTGTAACAAGTCATGGTTAACGTGTTACACGCTATGTACAAA
1 TGTTACACGTCATGTACAAAAACCTGTAACAAGTCATGGTTAACGTGTTACACGCTATGTAAAAA
* * *
9289724 AATATGTGACAAGCCATCGTTAGCTTGTTGCATGCCATGTACAAAATAT-GTGATAAACCAAATA
66 AATATGTGACAAGCCATCGTTAGCTTGTTACATGCCAGGTACAAAATATAGTGACAAACCAAATA
* * *
9289788 CAAAAACATGTGACAAGTTATGGTTAGCT
131 CAAAAACATGTAACAAGCTATGGCTAGCT
* * * * * * *
9289817 TGTTATACGTCATGTATAAAAACCTGTGATAAGTCATTGTTAGA-TTGTTACACGTTATGTAAAA
1 TGTTACACGTCATGTACAAAAACCTGTAACAAGTCATGGTTA-ACGTGTTACACGCTATGTAAAA
9289881 AAATATGT
65 AAATATGT
9289889 TACACGTCAT
Statistics
Matches: 201, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
158 96 0.48
159 1 0.00
160 104 0.52
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (159 bp):
TGTTACACGTCATGTACAAAAACCTGTAACAAGTCATGGTTAACGTGTTACACGCTATGTAAAAA
AATATGTGACAAGCCATCGTTAGCTTGTTACATGCCAGGTACAAAATATAGTGACAAACCAAATA
CAAAAACATGTAACAAGCTATGGCTAGCT
Found at i:9289877 original size:113 final size:114
Alignment explanation
Indices: 9289673--9289888 Score: 247
Period size: 113 Copynumber: 1.9 Consensus size: 114
9289663 ACACGTCATG
* *
9289673 TACAAAAACCTGTAACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAATATGTGACAAGC
1 TACAAAAACATGTAACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAACATGTGACAAGC
* * * *
9289738 CATCGTTAGCTTGTTGCATGCCATGT-ACAAAATATGTGATAAACCAAA
66 CATCGTTAGATTGTTACACGCCATGTAAAAAAATATGTGATAAACCAAA
* * * * * * * *
9289786 TACAAAAACATGTGACAAGTTATGGTTAGCTTGTTATACG-TCATGTATAAAAACCTGTGATAAG
1 TACAAAAACATGTAACAAGTCATGGTTAACGTGTTACACGCT-ATGTACAAAAACATGTGACAAG
* * **
9289850 TCATTGTTAGATTGTTACACGTTATGTAAAAAAATATGT
65 CCATCGTTAGATTGTTACACGCCATGTAAAAAAATATGT
9289889 TACACGTCAT
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
112 1 0.01
113 72 0.87
114 10 0.12
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (114 bp):
TACAAAAACATGTAACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAACATGTGACAAGC
CATCGTTAGATTGTTACACGCCATGTAAAAAAATATGTGATAAACCAAA
Found at i:9289917 original size:26 final size:25
Alignment explanation
Indices: 9289864--9289942 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 25
9289854 TGTTAGATTG
* *
9289864 TTACACGTTATG-TAAAAAAATATG
1 TTACACGTCATGTTAAAAAAATATA
9289888 TTACACGTCATAGTTAAAAAAAGT-TA
1 TTACACGTCAT-GTTAAAAAAA-TATA
* *
9289914 TTACACGCCATGTTGAAAAAAAAATA
1 TTACACGTCATGTT-AAAAAAATATA
9289940 TTA
1 TTA
9289943 TTGTTACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.22
25 4 0.09
26 31 0.67
27 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (25 bp):
TTACACGTCATGTTAAAAAAATATA
Found at i:9289986 original size:29 final size:30
Alignment explanation
Indices: 9289931--9290003 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
9289921 CCATGTTGAA
*
9289931 AAAAAAATATTATTGTTACAAACCATATT-
1 AAAAAAATATTGTTGTTACAAACCATATTC
* *
9289960 AAAAAAATATTGTTGTTGCACGA-CATATTC
1 AAAAAAATATTGTTGTTACA-AACCATATTC
* *
9289990 AAAAACATTTTGTT
1 AAAAAAATATTGTT
9290004 ATACTTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (30 bp):
AAAAAAATATTGTTGTTACAAACCATATTC
Found at i:9292174 original size:7 final size:7
Alignment explanation
Indices: 9292162--9292202 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
9292152 TTCACTTCAA
9292162 CTTTTCC
1 CTTTTCC
9292169 CTTTTCC
1 CTTTTCC
9292176 CTTTTCC
1 CTTTTCC
9292183 CTTTTCC
1 CTTTTCC
9292190 CTTTTCC
1 CTTTTCC
9292197 CTTTTC
1 CTTTTC
9292203 TCTCTCCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (7 bp):
CTTTTCC
Found at i:9292930 original size:29 final size:29
Alignment explanation
Indices: 9292894--9292953 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
9292884 CAAAAAAGAT
9292894 TTGTTATATTTAAAAGAAGTCCTAAAAGG
1 TTGTTATATTTAAAAGAAGTCCTAAAAGG
9292923 TTGTTATATTTAAAAGAAGTCCTAAAAGG
1 TTGTTATATTTAAAAGAAGTCCTAAAAGG
9292952 TT
1 TT
9292954 TTTGGCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (29 bp):
TTGTTATATTTAAAAGAAGTCCTAAAAGG
Found at i:9299709 original size:103 final size:106
Alignment explanation
Indices: 9299596--9299852 Score: 294
Period size: 102 Copynumber: 2.4 Consensus size: 106
9299586 AATGATTAAG
*
9299596 GCATATATCTTCTAATTAATTTAAAAAATTAAGTTTCAATATCTTTTCTAAATTTAACAAAAAAA
1 GCATATATCTTCTAATTAATTTAAAAAATTAAGTTTCAAT-TCTTTTCTAAA-TTAAAAAAAAAA
*
9299661 AACTATTTAACACTCGAA-T-ATTTG-G-T-TCTA-TGATAAAT
64 AACTATTTAACACTC-AAGTAATTGGCGTTATCTAGTGATAAAT
* * * *
9299699 GCTTATATCTTTTAATTAATTT-AAAAATTAAGTTTCAATCCCCTCTTCTAAATTAAAAAAAAAA
1 GCATATATCTTCTAATTAATTTAAAAAATTAAGTTTCAAT--TCTTTTCTAAATTAAAAAAAAAA
** * * *
9299763 AACTATTTGGCATTCAAGTAATTGGCGTTGATTTAGTGATAGAT
64 AACTATTTAACACTCAAGTAATTGGCGTT-ATCTAGTGATAAAT
* *
9299807 GCATATATCTTCTAATTAGTTTAAAAAATTAAGTTTGAATTCTTTT
1 GCATATATCTTCTAATTAATTTAAAAAATTAAGTTTCAATTCTTTT
9299853 TTTTAAATAA
Statistics
Matches: 127, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
101 2 0.02
102 41 0.32
103 33 0.26
104 1 0.01
105 1 0.01
107 7 0.06
108 26 0.20
109 16 0.13
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (106 bp):
GCATATATCTTCTAATTAATTTAAAAAATTAAGTTTCAATTCTTTTCTAAATTAAAAAAAAAAAA
CTATTTAACACTCAAGTAATTGGCGTTATCTAGTGATAAAT
Found at i:9300013 original size:96 final size:94
Alignment explanation
Indices: 9299790--9300061 Score: 233
Period size: 96 Copynumber: 2.8 Consensus size: 94
9299780 GTAATTGGCG
* * * *
9299790 TTGATTTAGTGATAGATGCATATATCTTCTAATTAGTTTAAAAAATTAAGTTTGAATTCTTTTTT
1 TTGATTTAATGATA-ATGCATATATCTTCTAATAAGTTT-AAAAATTAAATTTGAA-TC-TTCTT
*
9299855 TTAAA-TAAAAAAACTATTTGATGCCTGAGTAT
62 TTAAATTAAAAAAACTATTTAATGCCTGAGTAT
* * * * * *
9299887 TTGACTCAATAATAAATACATATATTTTCTAATCAGTTTAAAAAGTTAAATTTGAATCTTCTTTT
1 TTGATTTAATGAT-AATGCATATATCTTCTAATAAGTTTAAAAA-TTAAATTTGAATCTTCTTTT
* **
9299952 AAATTAAAAAAATTATTTAACT-TTTGAGTAT
64 AAATTAAAAAAACTATTTAA-TGCCTGAGTAT
* * * * * * *
9299983 TTGATTTAATGATGAATGTATGTATGTTCTAATTAAATTGAAAAATTAAATTTAAATCTCCTTTT
1 TTGATTTAATGAT-AATGCATATATCTTCTAA-TAAGTTTAAAAATTAAATTTGAATCTTC-TTT
*
9300048 CTAACTTAAAAAAA
63 -TAAATTAAAAAAA
9300062 ATTAACACTC
Statistics
Matches: 141, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
95 9 0.06
96 66 0.47
97 53 0.38
98 13 0.09
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (94 bp):
TTGATTTAATGATAATGCATATATCTTCTAATAAGTTTAAAAATTAAATTTGAATCTTCTTTTAA
ATTAAAAAAACTATTTAATGCCTGAGTAT
Found at i:9308835 original size:23 final size:22
Alignment explanation
Indices: 9308778--9308822 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9308768 CCTCAAAGAT
9308778 AATTTTTTTTAAAAATAATCATC
1 AATTTTTTTT-AAAATAATCATC
9308801 AATTTTTTTTAAAATAATCATC
1 AATTTTTTTTAAAATAATCATC
9308823 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTTTTTTAAAATAATCATC
Found at i:9308951 original size:28 final size:28
Alignment explanation
Indices: 9308920--9309009 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
9308910 GAAAAATATG
9308920 TTATTACACGCTATGTTAGAAAAAAAAA
1 TTATTACACGCTATGTTAGAAAAAAAAA
* * *
9308948 TTATTACACACCATGTTGAAAAAAAAAAA
1 TTATTACACGCTATGTT-AGAAAAAAAAA
**
9308977 TTATTACGTG-TCATGTT-GAAAAAAAAA
1 TTATTACACGCT-ATGTTAGAAAAAAAAA
9309004 TTATTA
1 TTATTA
9309010 GCAACATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 15 0.29
28 15 0.29
29 22 0.42
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (28 bp):
TTATTACACGCTATGTTAGAAAAAAAAA
Found at i:9308971 original size:29 final size:29
Alignment explanation
Indices: 9308920--9309028 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
9308910 GAAAAATATG
* * *
9308920 TTATTACACGCTATGTT-AGAAAAAAAAA
1 TTATTACACACCATGTTGAAAAAAAAAAA
9308948 TTATTACACACCATGTTGAAAAAAAAAAA
1 TTATTACACACCATGTTGAAAAAAAAAAA
****
9308977 TTATTACGTGTCATGTTG--AAAAAAAAA
1 TTATTACACACCATGTTGAAAAAAAAAAA
*
9309004 TTATTAGCA-A-CATATTGAAAAAAAA
1 TTATTA-CACACCATGTTGAAAAAAAA
9309029 TTGTTGCACA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.09
27 15 0.22
28 22 0.33
29 24 0.36
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (29 bp):
TTATTACACACCATGTTGAAAAAAAAAAA
Found at i:9309024 original size:24 final size:25
Alignment explanation
Indices: 9308996--9309052 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
9308986 GTCATGTTGA
9308996 AAAAAAAATTATTAGCA-A-CATATT
1 AAAAAAAATTATT-GCACATCATATT
*
9309020 GAAAAAAAATTGTTGCACATCATATT
1 -AAAAAAAATTATTGCACATCATATT
9309046 AAAAAAA
1 AAAAAAA
9309053 TGTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAAAAATTATTGCACATCATATT
Found at i:9309112 original size:27 final size:27
Alignment explanation
Indices: 9309081--9309172 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
9309071 TGTTCAAAAT
9309081 ATTATTACATGTCATGTTGAAAAGAAA
1 ATTATTACATGTCATGTTGAAAAGAAA
* * *
9309108 GTTATTACATGTCATATTGAAAACAAA
1 ATTATTACATGTCATGTTGAAAAGAAA
* *
9309135 ATTATTATATGTCATGTTAAAAAGAAAA
1 ATTATTACATGTCATGTTGAAAAG-AAA
*
9309163 ATTGTTACAT
1 ATTATTACAT
9309173 ATTATATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 43 0.80
28 11 0.20
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (27 bp):
ATTATTACATGTCATGTTGAAAAGAAA
Found at i:9319254 original size:29 final size:28
Alignment explanation
Indices: 9319198--9319300 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 28
9319188 ATAATTAGTA
* *
9319198 ATAAGAGCTTATTTGAC-TCAATAAAAAGT
1 ATAAGAACTTATTTAACGT-AA-AAAAAGT
**
9319227 ATAAGAACTTATTTAATTTAAAATAAAGT
1 ATAAGAACTTATTTAACGTAAAA-AAAGT
* ** *
9319256 GTAAGGGCTTGATTTAACGTAATAAAAGT
1 ATAAGAACTT-ATTTAACGTAAAAAAAGT
*
9319285 ATAAAAACTTATTTAA
1 ATAAGAACTTATTTAA
9319301 ATTGTTCTGA
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
28 8 0.14
29 39 0.67
30 11 0.19
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (28 bp):
ATAAGAACTTATTTAACGTAAAAAAAGT
Found at i:9321323 original size:43 final size:43
Alignment explanation
Indices: 9321262--9321349 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
9321252 CGATGGAAGC
*
9321262 ATGGGACATTTAAGGTAGCAATGAACACACTATGAGTGCACAA
1 ATGGGACATTTAAGGTAGCAATGAACACACTATGAGTGAACAA
* *
9321305 ATGGGACATTTAAGGTAGCAATGAGCGCACTATGAGTGAACAA
1 ATGGGACATTTAAGGTAGCAATGAACACACTATGAGTGAACAA
9321348 AT
1 AT
9321350 ATATTGTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (43 bp):
ATGGGACATTTAAGGTAGCAATGAACACACTATGAGTGAACAA
Found at i:9321605 original size:2 final size:2
Alignment explanation
Indices: 9321600--9321631 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9321590 CCTTAGCACA
*
9321600 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9321632 TGTCATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9321717 original size:22 final size:23
Alignment explanation
Indices: 9321670--9321717 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
9321660 TTCGGTACAT
* *
9321670 TTACATATATAATAGATTTTAAA
1 TTACAAATATAATAGATTATAAA
*
9321693 TTACAAATAT-ATATATTATAAA
1 TTACAAATATAATAGATTATAAA
9321715 TTA
1 TTA
9321718 TGGTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TTACAAATATAATAGATTATAAA
Found at i:9322370 original size:25 final size:25
Alignment explanation
Indices: 9322327--9322382 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
9322317 ATATGAGTCA
* * * *
9322327 AATGTAATGCACGTGTTATGTGTAT
1 AATGTAATACACATATTATATGTAT
9322352 AATGTAATACACATATTATATGTAT
1 AATGTAATACACATATTATATGTAT
9322377 AATGTA
1 AATGTA
9322383 TTATAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
AATGTAATACACATATTATATGTAT
Found at i:9325478 original size:19 final size:18
Alignment explanation
Indices: 9325454--9325498 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
9325444 GTTTAATACG
9325454 ATTAAATAAAATATTTACT
1 ATTAAATAAAAT-TTTACT
* *
9325473 ATTAAATACAATTTTATT
1 ATTAAATAAAATTTTACT
9325491 ATTTAAAT
1 A-TTAAAT
9325499 TTAAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATAAAATTTTACT
Found at i:9325602 original size:25 final size:24
Alignment explanation
Indices: 9325538--9325603 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
9325528 AACAAAACAG
9325538 AATAATATGATAAAA-TTAATATA
1 AATAATATGATAAAATTTAATATA
* * *
9325561 AATAACATACATAAAATTTATTATCA
1 AATAATAT-GATAAAATTTAATAT-A
*
9325587 TATAATATGATAAAATT
1 AATAATATGATAAAATT
9325604 CGTCATTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 7 0.21
24 6 0.18
25 14 0.41
26 7 0.21
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (24 bp):
AATAATATGATAAAATTTAATATA
Found at i:9326665 original size:48 final size:48
Alignment explanation
Indices: 9326594--9326738 Score: 256
Period size: 48 Copynumber: 3.0 Consensus size: 48
9326584 CACATTCTCC
* *
9326594 TTTATATTTACATTCTCCATTTGAACTCTACCCTTAAGCAAAT-CTCAA
1 TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGC-AATCCTCAA
9326642 TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGCAATCCTCAA
1 TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGCAATCCTCAA
9326690 TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGCAATCCTCAA
1 TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGCAATCCTCAA
9326738 T
1 T
9326739 CCTCACTACA
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 3 0.03
48 91 0.97
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (48 bp):
TTTATACTTACATTTTCCATTTGAACTCTACCCTTAAGCAATCCTCAA
Found at i:9329223 original size:79 final size:79
Alignment explanation
Indices: 9329140--9329337 Score: 274
Period size: 78 Copynumber: 2.5 Consensus size: 79
9329130 AAGATCTTAT
9329140 CTAATATCAAGTTCAAAATGCTAAATGTTATTTAGGCTTAAAAAGAATTGAACCTAGCTTTTTCA
1 CTAATATCAAGTTCAAAATGCTAAATGTTATTTAGGCTTAAAAAGAATTGAACCTAGCTTTTTCA
9329205 AACATAAATCTTGC
66 AACATAAATCTTGC
* * * * *
9329219 CTAATATGAAGTTCAAAATGCTAATTGTTATTT-GGACTT-AAAAGGATTGAACTTAGCTTTTTT
1 CTAATATCAAGTTCAAAATGCTAAATGTTATTTAGG-CTTAAAAAGAATTGAACCTAGCTTTTTC
* * **
9329282 GAATATGGATCTTGC
65 AAACATAAATCTTGC
* *
9329297 CTAATATCAAGTTCGAAATGCTAAATCTTATTTAGGCTTAA
1 CTAATATCAAGTTCAAAATGCTAAATGTTATTTAGGCTTAA
9329338 TGTTGGTCCC
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 66 0.64
79 37 0.36
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (79 bp):
CTAATATCAAGTTCAAAATGCTAAATGTTATTTAGGCTTAAAAAGAATTGAACCTAGCTTTTTCA
AACATAAATCTTGC
Found at i:9331452 original size:30 final size:30
Alignment explanation
Indices: 9331376--9331479 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 30
9331366 AAGAAAATTC
* * *
9331376 AAATAAGTTTTTATATTTTTATTATG-GT-
1 AAATAAGTTCTTATACTTTTATTTTGAGTG
* *
9331404 CAATCAAGTTGTTATACTTTTATTTTGAGTG
1 AAAT-AAGTTCTTATACTTTTATTTTGAGTG
* *
9331435 AAATAAGTTCTTGTACTTTTATTTTGAGTT
1 AAATAAGTTCTTATACTTTTATTTTGAGTG
* *
9331465 AAATAAATCCTTATA
1 AAATAAGTTCTTATA
9331480 ACTAATGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 19 0.31
30 37 0.60
31 3 0.05
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.50
Consensus pattern (30 bp):
AAATAAGTTCTTATACTTTTATTTTGAGTG
Found at i:9334012 original size:55 final size:55
Alignment explanation
Indices: 9333941--9334049 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
9333931 TTAATTCGCT
* *
9333941 AACTATTTTTCCTATTCTCAATCAATTAACTATAATATGTATTTAATAATATCCC
1 AACTATTTCTCCTATTCTCAATCAACTAACTATAATATGTATTTAATAATATCCC
* * *
9333996 AACTATTTCTCTTATTCTCAATCAACTAACTGTAATTTGTATTTAATAATATCC
1 AACTATTTCTCCTATTCTCAATCAACTAACTATAATATGTATTTAATAATATCC
9334050 AACCCTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (55 bp):
AACTATTTCTCCTATTCTCAATCAACTAACTATAATATGTATTTAATAATATCCC
Found at i:9360021 original size:2 final size:2
Alignment explanation
Indices: 9360014--9360063 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
9360004 TAGCCTTCAA
*
9360014 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9360056 AT AT AT AT
1 AT AT AT AT
9360064 GTTGAGCCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9360928 original size:27 final size:26
Alignment explanation
Indices: 9360893--9360969 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
9360883 TCATATATTT
9360893 TATTGTTATTTTTTATTATAATTTTACA
1 TATT-TTA-TTTTTATTATAATTTTACA
* **
9360921 TATTTTA-TTTTAATATAATTTTTTA
1 TATTTTATTTTTATTATAATTTTACA
* *
9360946 TATTATATATTTTATTTTAATTTT
1 TATTTTAT-TTTTATTATAATTTT
9360970 TTTTTAAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 21 0.51
27 16 0.39
28 4 0.10
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (26 bp):
TATTTTATTTTTATTATAATTTTACA
Found at i:9360970 original size:27 final size:25
Alignment explanation
Indices: 9360903--9360971 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
9360893 TATTGTTATT
**
9360903 TTTTATTATAATTTTACATATTTTA
1 TTTTATTATAATTTTTTATATTTTA
*
9360928 TTTTAATATAATTTTTTATATTATATA
1 TTTTATTATAATTTTTTATATT-T-TA
*
9360955 TTTTATTTTAATTTTTT
1 TTTTATTATAATTTTTT
9360972 TTTAAACGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.51
26 1 0.03
27 17 0.46
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTATTATAATTTTTTATATTTTA
Found at i:9362032 original size:24 final size:23
Alignment explanation
Indices: 9361975--9362022 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9361965 TTTTTTGGCC
9361975 TTCAAAAAATTCATTTTTCAATT
1 TTCAAAAAATTCATTTTTCAATT
*
9361998 TTCAAAAAATTGATTTTTCAATT
1 TTCAAAAAATTCATTTTTCAATT
9362021 TT
1 TT
9362023 TACAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (23 bp):
TTCAAAAAATTCATTTTTCAATT
Found at i:9387096 original size:31 final size:31
Alignment explanation
Indices: 9387044--9387113 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
9387034 ATGTCATAGG
* * *
9387044 ATTAAGTTAAATAAAAATGTAGAATATATGG
1 ATTAAATTGAATAAAAATGTAGAATATATGA
* * *
9387075 GTTAAATTGAATAAAACTGTAGAGTATATGA
1 ATTAAATTGAATAAAAATGTAGAATATATGA
9387106 ATTAAATT
1 ATTAAATT
9387114 TAACAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.01, G:0.16, T:0.34
Consensus pattern (31 bp):
ATTAAATTGAATAAAAATGTAGAATATATGA
Found at i:9387846 original size:31 final size:31
Alignment explanation
Indices: 9387773--9387858 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
9387763 GGTACCACTT
* * * *
9387773 TATATAGACTAAATTAAATAAAAATGTAAAA
1 TATATGGATTAAATTGAATAAAATTGTAAAA
*
9387804 TATATGGATTAAATTGAATAAAATTGTATAA
1 TATATGGATTAAATTGAATAAAATTGTAAAA
* *
9387835 TATA-GATATTAAATTGAACAAAAT
1 TATATG-GATTAAATTGAATAAAAT
9387859 ATAATAGTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (31 bp):
TATATGGATTAAATTGAATAAAATTGTAAAA
Found at i:9393862 original size:206 final size:205
Alignment explanation
Indices: 9393503--9393914 Score: 772
Period size: 206 Copynumber: 2.0 Consensus size: 205
9393493 ATTCATGGCA
9393503 TAGGAATGGTTGGTAAGAACTCCCAAACTCAAATTAGTCATGTGTTGTTGGTTAAAGGTTTGAAA
1 TAGGAATGGTTGGTAAGAACTCCCAAACTCAAATTAGTCATGTGTTGTTGGTTAAAGGTTTGAAA
9393568 CATAATTTATTAAGTATTAGCCAATTGTGTGACAAAGGTTTTAAGGTATATTTGGACTTAACTAA
66 CATAATTTATTAAGTATTAGCCAATTGTGTGACAAAGGTTTTAAGGTATATTTGGACTTAACTAA
9393633 ATGTGAAGTAATAGATGTAAGCATTAACAAAGTTTCATTTATAGGAAAGAGAATAAAGAATATGT
131 ATGTGAAGTAATAGATGTAAGCATTAACAAAGTTTCATTTATAGGAAAGAGAATAAAGAATATGT
9393698 GTGTTGTATT
196 GTGTTGTATT
* * *
9393708 NTAGGTATGGTTGGTAAG-AGTCCTCAAACTCCAATTAGTCATGTGTTGTTGGTTAAAGGTTTGA
1 -TAGGAATGGTTGGTAAGAACTCC-CAAACTCAAATTAGTCATGTGTTGTTGGTTAAAGGTTTGA
9393772 AACATAATTTATTAAGTATTAGCCAATTGTGTGACAAAGGTTTTAAGGTATATTTGGACTTAACT
64 AACATAATTTATTAAGTATTAGCCAATTGTGTGACAAAGGTTTTAAGGTATATTTGGACTTAACT
9393837 AAATGTGAAGTAATAGATGTAAGCATTAACAAAGTTTCATTTATAGGAAAGAGAATAAAGAATAT
129 AAATGTGAAGTAATAGATGTAAGCATTAACAAAGTTTCATTTATAGGAAAGAGAATAAAGAATAT
9393902 GTGTGTTGTATT
194 GTGTGTTGTATT
9393914 T
1 T
9393915 CTTGAGAATT
Statistics
Matches: 202, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
205 5 0.02
206 197 0.98
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (205 bp):
TAGGAATGGTTGGTAAGAACTCCCAAACTCAAATTAGTCATGTGTTGTTGGTTAAAGGTTTGAAA
CATAATTTATTAAGTATTAGCCAATTGTGTGACAAAGGTTTTAAGGTATATTTGGACTTAACTAA
ATGTGAAGTAATAGATGTAAGCATTAACAAAGTTTCATTTATAGGAAAGAGAATAAAGAATATGT
GTGTTGTATT
Found at i:9395320 original size:15 final size:15
Alignment explanation
Indices: 9395297--9395328 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9395287 TATTTTCACT
*
9395297 TTATTATATTTTTTA
1 TTATCATATTTTTTA
9395312 TTATCATATTTTTTA
1 TTATCATATTTTTTA
9395327 TT
1 TT
9395329 TATTTCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATCATATTTTTTA
Found at i:9395341 original size:18 final size:19
Alignment explanation
Indices: 9395308--9395343 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9395298 TATTATATTT
9395308 TTTATTATCATATTTTTTA
1 TTTATTATCATATTTTTTA
*
9395327 TTTATT-TCTTATTTTTT
1 TTTATTATCATATTTTTT
9395344 NNNNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTATCATATTTTTTA
Found at i:9417021 original size:17 final size:17
Alignment explanation
Indices: 9416989--9417023 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9416979 ATAAAACTAT
*
9416989 GCACACACTAAGGGGGA
1 GCACACACTAACGGGGA
*
9417006 GCACACACTTACGGGGA
1 GCACACACTAACGGGGA
9417023 G
1 G
9417024 AAAAACCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.34, T:0.09
Consensus pattern (17 bp):
GCACACACTAACGGGGA
Found at i:9419581 original size:2 final size:2
Alignment explanation
Indices: 9419574--9419743 Score: 177
Period size: 2 Copynumber: 85.5 Consensus size: 2
9419564 GTGGACATGA
* *
9419574 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * ** * * * *
9419616 AT AT AT AT ANC CT A- AT AT -T CAT CC A- AT CT A- AT TT AC AT CT
1 AT AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* *
9419656 AG AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9419698 AT AT AT AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9419741 AT A
1 AT A
9419744 ACCAATAGAA
Statistics
Matches: 138, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
1 4 0.03
2 131 0.95
3 3 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9420111 original size:16 final size:17
Alignment explanation
Indices: 9420090--9420123 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9420080 ATATTATCAA
9420090 ATTTTA-AAATATAATT
1 ATTTTATAAATATAATT
*
9420106 ATTTTATAAATATTATT
1 ATTTTATAAATATAATT
9420123 A
1 A
9420124 AATCTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATAAATATAATT
Found at i:9420134 original size:35 final size:36
Alignment explanation
Indices: 9420064--9420134 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
9420054 ATTAACAATG
* *
9420064 ATAAATATATTTATAAATATTATCAAATTTTAAAAT
1 ATAAATATATTTATAAATATTATCAAATCTCAAAAT
* *
9420100 ATAATTAT-TTTATAAATATTATTAAATCTCAAAAT
1 ATAAATATATTTATAAATATTATCAAATCTCAAAAT
9420135 TTTGGAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (36 bp):
ATAAATATATTTATAAATATTATCAAATCTCAAAAT
Found at i:9421263 original size:42 final size:42
Alignment explanation
Indices: 9421206--9421296 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
9421196 CGAGATAATG
* *
9421206 CTCCCAACAAGTAGAACCACAAAGTCCTATATCGAAGAGAAA
1 CTCCCAACAAATAGAACCACAAAGTCCCATATCGAAGAGAAA
*
9421248 CTCCTAACAAATAGAACCACAAAGTCCCATATCGAAGAGAAA
1 CTCCCAACAAATAGAACCACAAAGTCCCATATCGAAGAGAAA
9421290 CTCCCAA
1 CTCCCAA
9421297 TAGGGAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.45, C:0.29, G:0.12, T:0.14
Consensus pattern (42 bp):
CTCCCAACAAATAGAACCACAAAGTCCCATATCGAAGAGAAA
Found at i:9421661 original size:78 final size:80
Alignment explanation
Indices: 9421564--9421713 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 80
9421554 CACAATTATG
* *
9421564 TTTAACTATTCAACACTTTCAAAAT-TTTTTTAATAATCACGTTTT-TGTTAGTTTATTATTTCC
1 TTTAACTATTCAACACTTTCAAAATATTTTTTAATAATCACATTTTCTATTAGTTTATTATTTCC
9421627 TTTTTTGCAACTATT
66 TTTTTTGCAACTATT
* *
9421642 TTTAACTATTCAACCCTTTCAAAATCATTTTTTAATAATCACATTTTCTATTTGTTTATTATTTC
1 TTTAACTATTCAACACTTTCAAAAT-ATTTTTTAATAATCACATTTTCTATTAGTTTATTATTTC
*
9421707 TTTTTTT
65 CTTTTTT
9421714 TTTGAAGAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 24 0.38
80 19 0.30
81 21 0.33
ACGTcount: A:0.27, C:0.15, G:0.03, T:0.55
Consensus pattern (80 bp):
TTTAACTATTCAACACTTTCAAAATATTTTTTAATAATCACATTTTCTATTAGTTTATTATTTCC
TTTTTTGCAACTATT
Found at i:9427766 original size:32 final size:32
Alignment explanation
Indices: 9427720--9427787 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
9427710 TGTTTGGTAG
* *
9427720 ATTGTTCATGAAAAAGTTGCTGT-AAGGGAGCA
1 ATTGTTCATAAAAAAGTTACTGTCAAGGGAG-A
9427752 ATTGTTCATAAAAAAGTTACTGTCAAGGGAGA
1 ATTGTTCATAAAAAAGTTACTGTCAAGGGAGA
9427784 ATTG
1 ATTG
9427788 CTCAAGAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (32 bp):
ATTGTTCATAAAAAAGTTACTGTCAAGGGAGA
Found at i:9430231 original size:35 final size:35
Alignment explanation
Indices: 9430179--9430247 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
9430169 GAGAATAATG
* * * * *
9430179 AGAACAACTATAGCAAGTGAAGCATTACTTCATAA
1 AGAACAACTAGAACAAGTAAAACACTACTTCATAA
9430214 AGAACAACTAGAACAAGTAAAACACTACTTCATA
1 AGAACAACTAGAACAAGTAAAACACTACTTCATA
9430248 TTGAATAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.20
Consensus pattern (35 bp):
AGAACAACTAGAACAAGTAAAACACTACTTCATAA
Found at i:9430511 original size:71 final size:71
Alignment explanation
Indices: 9430415--9430553 Score: 165
Period size: 71 Copynumber: 2.0 Consensus size: 71
9430405 CACCTTTTTC
* * * *
9430415 CTGAAGTACAAATGTTTTTCCCTCTTA-CTTTATTTTCATATACTTATTCACATACA-CCATCTT
1 CTGAAGTACAAATATTTCTCCCTCTTATC-TTATTCTCATATACCTATTCACATACATCC-TCTT
9430478 CTCTTGTA
64 CTCTTGTA
* * * * *
9430486 CTGAAGTACAATTATTTCTCTCTCTTATCTTATTCTCGTGTACCTGTTCACATACATCCTCTTCT
1 CTGAAGTACAAATATTTCTCCCTCTTATCTTATTCTCATATACCTATTCACATACATCCTCTTCT
9430551 CTT
66 CTT
9430554 ATACCTATTC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 54 0.95
72 3 0.05
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.45
Consensus pattern (71 bp):
CTGAAGTACAAATATTTCTCCCTCTTATCTTATTCTCATATACCTATTCACATACATCCTCTTCT
CTTGTA
Found at i:9432111 original size:14 final size:14
Alignment explanation
Indices: 9432092--9432120 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9432082 TATATATATA
9432092 AGTAAATTATTGGT
1 AGTAAATTATTGGT
9432106 AGTAAATTATTGGT
1 AGTAAATTATTGGT
9432120 A
1 A
9432121 TATATAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (14 bp):
AGTAAATTATTGGT
Found at i:9436484 original size:6 final size:6
Alignment explanation
Indices: 9436473--9436505 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9436463 TTTTCTTTTC
9436473 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
9436506 TTAAACGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:9460386 original size:6 final size:6
Alignment explanation
Indices: 9460360--9460404 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
9460350 CAGAAATACA
*
9460360 TATATT ATATATT TATGTT TATATT TATATT TATATT TACTATT T
1 TATATT -TATATT TATATT TATATT TATATT TATATT TA-TATT T
9460405 TTACTGTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:9461106 original size:12 final size:13
Alignment explanation
Indices: 9461082--9461110 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9461072 CTTAAAAAAG
9461082 TAATAATATTAAT
1 TAATAATATTAAT
9461095 TAATAA-ATTAAT
1 TAATAATATTAAT
9461107 TAAT
1 TAAT
9461111 TTTATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATATTAAT
Found at i:9481661 original size:38 final size:35
Alignment explanation
Indices: 9481617--9481700 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 35
9481607 TTCCAAAATT
*
9481617 TTTAAAATTATTTATTTATTATATATAATGTAATATAA
1 TTTAAAATAATTTATTTATT-TA-ATAAT-TAATATAA
* *
9481655 TTTAAAATAATTTTTTTATTTAATAATTAATACAA
1 TTTAAAATAATTTATTTATTTAATAATTAATATAA
* *
9481690 ATAAAAATAAT
1 TTTAAAATAAT
9481701 AAAATGACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 16 0.39
36 5 0.12
37 2 0.05
38 18 0.44
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
TTTAAAATAATTTATTTATTTAATAATTAATATAA
Found at i:9481697 original size:35 final size:38
Alignment explanation
Indices: 9481620--9481700 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 38
9481610 CAAAATTTTT
* * * *
9481620 AAAATTATTTATTTATTATATATAATGTAATATAATTT
1 AAAATAATTTATTTATTATATATAATGTAATACAAATA
*
9481658 AAAATAATTTTTTTATT-TA-ATAAT-TAATACAAATA
1 AAAATAATTTATTTATTATATATAATGTAATACAAATA
9481693 AAAATAAT
1 AAAATAAT
9481701 AAAATGACCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 16 0.42
36 5 0.13
37 2 0.05
38 15 0.39
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
AAAATAATTTATTTATTATATATAATGTAATACAAATA
Found at i:9481928 original size:18 final size:17
Alignment explanation
Indices: 9481892--9481933 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
9481882 TTTATTTACA
9481892 TATTA-TATAAAATTAT
1 TATTATTATAAAATTAT
* *
9481908 TATCTATTATAATATTTT
1 TAT-TATTATAAAATTAT
9481926 TATTATTA
1 TATTATTA
9481934 GTTAAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATTATAAAATTAT
Found at i:9483845 original size:251 final size:249
Alignment explanation
Indices: 9483281--9484204 Score: 1074
Period size: 251 Copynumber: 3.7 Consensus size: 249
9483271 TTATCACTTA
* ** * *
9483281 TTACATTAACTCTCACACATTTATATTAAGATTTTAAATTT-GCTTATTCCACTTTTATAAGATT
1 TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAG-TTATTCCACTTTTATAAGTTT
* * ** * * * * *
9483345 TTATATTAATTTTTACAACTTTATGTCAAACCTTT-TCAATAGCAACTTTT-AACTATAATTATC
65 TTATATCAATTGTTACAGTTTTACGTCAAA-ATTTATCTATATCAA-TTTTGAACTATAATTATT
* * * *
9483408 TTTATCT-TTATTATTCTTTATTT-AAAATAAAAATTTGA-ATATCGTTACATACTTTTAGCCCG
128 TTTAT-TATTATTATTC-TTATTTAAAAATTAAAATTT-ATATATCGTTAAACACTTTTAGCCCA
* * * * * * * *
9483470 ATAATATAAATATAAATGCTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTA
190 AAAATATAAATTTAAAT-ATTATTTTTCACTAAAATTAAATTTTTTTACTTAATTGATTTG
* * * * * **
9483531 TTATGTTAATTCTCATACATTTGCGTTAAGATTTAAAATTTAATTATTTTACTTTTATAAGTTTT
1 TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTT
* * *
9483596 TATATCAATTGTTATAGTTTTATGTCAAGATTTATCTATATCAATTTTGAACTATAATTATTTTT
66 TATATCAATTGTTACAGTTTTACGTCAAAATTTATCTATATCAATTTTGAACTATAATTATTTTT
* * * * *
9483661 ATTATTATTATTCTATATTTAAAACTTAAAGTTTATATATCGCTAAACACTTTTGGCCAAAAAAT
131 ATTATTATTATTCT-TATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCCCAAAAAT
** * * *
9483726 ATATTTTTAAATATTTATTTTTTACGAAAATTAAATTTTTGTACTTAATTGATTTG
195 ATAAATTTAAATA-TTATTTTTCACTAAAATTAAATTTTTTTACTTAATTGATTTG
* * * *
9483782 TTACGTTAACTCTTACACATTTACGTTAAGAATTAAAATTTAGTTATTCAACTTTTTTAAGTTTT
1 TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTT
* * * *
9483847 TATGTCAACTGTTCCAGTTTTACGTCAAAATTTATCTATGTCAATTTTGAACTATAATTATTTTT
66 TATATCAATTGTTACAGTTTTACGTCAAAATTTATCTATATCAATTTTGAACTATAATTATTTTT
*
9483912 ATTAATATTATTCCTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCCCAAAAAT
131 ATTATTATTATT-CTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCCCAAAAAT
9483977 ATAAATTT-AA-A-TATTTTTCACTAAAATTAAATTTTTTTTACTTAATTGATTTG
195 ATAAATTTAAATATTATTTTTCACTAAAATTAAA-TTTTTTTACTTAATTGATTTG
* *
9484030 TTATGTTAACTCTCACACATTTATGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTT
1 TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTT
* * * * *
9484095 TATGTCAATTATTACAGTTTTACGTCAAAACTTATCTATATCAATTTTAAATTATAATTATTTTT
66 TATATCAATTGTTACAGTTTTACGTCAAAATTTATCTATATCAATTTTGAACTATAATTATTTTT
** * *
9484160 ATCCTTGTTATTCTTAATTTAAAAAATTAAAATTTGTATATCGTT
131 ATTATTATTATTCTT-ATTT-AAAAATTAAAATTTATATATCGTT
9484205 GATAATTCTA
Statistics
Matches: 572, Mismatches: 90, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
247 21 0.04
248 149 0.26
249 33 0.06
250 117 0.20
251 250 0.44
252 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (249 bp):
TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTT
TATATCAATTGTTACAGTTTTACGTCAAAATTTATCTATATCAATTTTGAACTATAATTATTTTT
ATTATTATTATTCTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCCCAAAAATA
TAAATTTAAATATTATTTTTCACTAAAATTAAATTTTTTTACTTAATTGATTTG
Found at i:9486660 original size:129 final size:129
Alignment explanation
Indices: 9486430--9486690 Score: 391
Period size: 129 Copynumber: 2.0 Consensus size: 129
9486420 GGTATATTAA
* *
9486430 ACGATCACTGTAGTGGTGGGAGTTTTCGTGGACTACCTATGAGAGGGGCACGATAACCCAATTAT
1 ACGATCACTGCAGTGGTGGGAGTTTTCGTGAACTACCTATGAGAGGGGCACGATAACCCAATTAT
* *
9486495 ATATTTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCC-TGATGTAAGATTTGAATGCACCTC
66 ATACTTACCTCCGGGGGGAGATGTTGGATGAAGTATC-CCTTGAGGTAAGATTTGAATGCACCTC
* * * *
9486559 ACGATCACTGCAGTGGTGGGGGTTTTCGTGAACTGCCTATGAGAGGAGG-ACGGTAACTCAATTA
1 ACGATCACTGCAGTGGTGGGAGTTTTCGTGAACTACCTATGAGAGG-GGCACGATAACCCAATTA
* * *
9486623 TATACTTACCTCCGGGGGGAGATGTTGGGTGAAGTATCCCTTGAGGTATGATTTGAGTGCACCTC
65 TATACTTACCTCCGGGGGGAGATGTTGGATGAAGTATCCCTTGAGGTAAGATTTGAATGCACCTC
9486688 ACG
1 ACG
9486691 TTCGGGCCAC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 2 0.02
129 115 0.97
130 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (129 bp):
ACGATCACTGCAGTGGTGGGAGTTTTCGTGAACTACCTATGAGAGGGGCACGATAACCCAATTAT
ATACTTACCTCCGGGGGGAGATGTTGGATGAAGTATCCCTTGAGGTAAGATTTGAATGCACCTC
Found at i:9487288 original size:147 final size:146
Alignment explanation
Indices: 9487021--9487314 Score: 543
Period size: 147 Copynumber: 2.0 Consensus size: 146
9487011 GGGATTATTT
* *
9487021 AATCTCACCCCTCTTCCTATCCATTTTTCAGGCTCAGGACAGTTTGTTGATAGTTGATTAAGACG
1 AATCTCACCCCTCTTCCTATCCATTTTTCAGGCTCAGAACAGTTTGTTGATAGTTGATTAAAACG
9487086 AGAATTAATCTCGGAGTTGCATCATAGGAAGTAAGGGTTCGTAGCTCTACACCTTCTTGGTTAGT
66 AGAATTAATCTCGGAGTTGCATCATAGGAAGTAAGGGTTCGTAGCTCTACACCTTCTTGGTTAGT
*
9487151 TGGGGGCCCACGTGTC
131 TGGGGACCCACGTGTC
9487167 NAATCTCACCCCTCTTCCTATCCATTTTTCAGGCTCAGAACAGTTTGTTGATAGTTGATTAAAAC
1 -AATCTCACCCCTCTTCCTATCCATTTTTCAGGCTCAGAACAGTTTGTTGATAGTTGATTAAAAC
*
9487232 GAGAATTAATCTCGGAGTTGCATCATAGGAAGTAAGGGTTCGTAGCTCTATACCTTCTTGGTTAG
65 GAGAATTAATCTCGGAGTTGCATCATAGGAAGTAAGGGTTCGTAGCTCTACACCTTCTTGGTTAG
9487297 TTGGGGACCCACGTGTC
130 TTGGGGACCCACGTGTC
9487314 A
1 A
9487315 CTGTAAACGA
Statistics
Matches: 143, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
146 1 0.01
147 142 0.99
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (146 bp):
AATCTCACCCCTCTTCCTATCCATTTTTCAGGCTCAGAACAGTTTGTTGATAGTTGATTAAAACG
AGAATTAATCTCGGAGTTGCATCATAGGAAGTAAGGGTTCGTAGCTCTACACCTTCTTGGTTAGT
TGGGGACCCACGTGTC
Found at i:9489447 original size:251 final size:250
Alignment explanation
Indices: 9488871--9489775 Score: 1023
Period size: 251 Copynumber: 3.6 Consensus size: 250
9488861 ATCGTTAAAC
* * *
9488871 ACTTTTAG-TCCAAAAATATAGATTTAAATATTTATTTTTCACTAAAATTAAATTTTTTTTA-TA
1 ACTTTTAGCTCC-AAAATATAAATATAAATATTTATTTTTCATTAAAATTAAA-TTTTTTTACT-
*** * * *** * * *
9488934 TAATTTTTTTGTTACATTAACTCTCATGTATTTACGTTAAAATTTAAAATTTAGTTATTCCACTT
63 TAATTAACTTATTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCT
* * * * * *
9488999 TTATAAGTTTTTACGTCAATTCTTACAATTTTACGTCAAAACATATCTATGTCAATTTTAAATTA
128 TTATAAGTTTTTACGTCAATTCTTACAGTTTTAAGTCAAAGCTTATTTATGTCAATTTTAAACTA
* * *
9489064 TGATTATTTTTATCTTTATTATT-TTTATTTAAAAATTAAAATTTGTATATCATTACAT
193 TAATTA-TTTTATCATTATTATTCTTTATTTAAAAATTAAAATTTGAATATCATTACAT
* * * * * *
9489122 ACTTTTAGC-CTGATAATATAAAAATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTA
1 ACTTTTAGCTC-CAAAATATAAATATAAATATTTATTTTTCATTAAAATTAAATTTTTTTACTTA
*
9489186 ATTAACTTATTACGTTAACTCTCACACATTTAAGTTAAGATTTAAAATTTAGTTATTCTACCTTT
65 ATTAACTTATTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTT
* * * *
9489251 ATAAGTTTTTACGTTAATTGTTACAGTTTTAAGTCAAAGTTTTTTTATGTCAATTTTAAACTATA
130 ATAAGTTTTTACGTCAATTCTTACAGTTTTAAGTCAAAGCTTATTTATGTCAATTTTAAACTATA
* **
9489316 ATTATTTGTATCCTTATTATTCTTTATTT-AAAAGCAAAATTTTGAATATCATTACAT
195 ATTATTT-TATCATTATTATTCTTTATTTAAAAATTAAAA-TTTGAATATCATTACAT
* *
9489373 ACTTTTAGCTCCATAATATAAATATAAATGTTTATTTTTCATTAAAATTAAATTTTTTTACTTAA
1 ACTTTTAGCTCCAAAATATAAATATAAATATTTATTTTTCATTAAAATTAAATTTTTTTACTTAA
* * *
9489438 TTAACTTATTACGTTAACTTTCAAATATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTA
66 TTAACTTATTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTA
** * * * * *
9489503 TAAGTTTTTACGGT-AATTCTTGTAGTTTTATGTCAAAGCTTACTTATATTAATTTTGAACTATA
131 TAAGTTTTTAC-GTCAATTCTTACAGTTTTAAGTCAAAGCTTATTTATGTCAATTTTAAACTATA
** *
9489567 ATT-TTTT-TCATTATTATTCTTTATTTAAAAATTAAAATTT-ATATATTGTTA-ACC
195 ATTATTTTATCATTATTATTCTTTATTTAAAAATTAAAATTTGA-ATATCATTACA-T
* * * *
9489621 ACTTTTAGCTCAAAAATATAAAT-TTAA-A-TT-TTTTT-ATTAAAATTAGATTTTTTTGCTTAA
1 ACTTTTAGCTCCAAAATATAAATATAAATATTTATTTTTCATTAAAATTAAATTTTTTTACTTAA
* * **
9489681 TTGACTTATTACGTTAACTCTCACACATTTGCGTTAAGATTTAAAATTTAGTTATT-TCATTTTT
66 TTAACTTATTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCT-ACCTTT
* * * *
9489745 TTAAGTTTTTAGGTCAATTGTTATAGTTTTA
130 ATAAGTTTTTACGTCAATTCTTACAGTTTTA
9489776 CGTTAAAACT
Statistics
Matches: 562, Mismatches: 79, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
242 3 0.01
243 102 0.18
244 5 0.01
245 2 0.00
247 5 0.01
248 49 0.09
249 12 0.02
250 143 0.25
251 238 0.42
252 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (250 bp):
ACTTTTAGCTCCAAAATATAAATATAAATATTTATTTTTCATTAAAATTAAATTTTTTTACTTAA
TTAACTTATTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTA
TAAGTTTTTACGTCAATTCTTACAGTTTTAAGTCAAAGCTTATTTATGTCAATTTTAAACTATAA
TTATTTTATCATTATTATTCTTTATTTAAAAATTAAAATTTGAATATCATTACAT
Found at i:9489954 original size:201 final size:194
Alignment explanation
Indices: 9489591--9489964 Score: 480
Period size: 201 Copynumber: 1.9 Consensus size: 194
9489581 TATTCTTTAT
* *
9489591 TTAAAAATTAAAATTTATATATTGTTAACCACTTTTAGCTCAAAAATATAAATTTAAATTTTTTT
1 TTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCTCAAAAATATAAATTTAAATTTTTTT
* * * *
9489656 ATTAAAATTAGATTTTTTTGCTTAATTGACTTATTACGTTAACTCTCACACATTTGCGTTAAGAT
66 ACTAAAATTAGATTTTTTTACTTAATTGACTTATTACGTTAACTCTCACACATATACGTTAAGAT
* * ** * *
9489721 TTAAAATTTAGTTATTTCATTTTTTTAAGTTTTTAGGTCAATTGTTATAGTTTTACGTTAAAAC
131 TAAAAATTTAGTTATTCCACATTTATAAGTTTTTACGTCAATTGTTATAGTTTTACGTTAAAAC
* * *
9489785 TTAAAAATTGAAATTTATATATCGTTAAACACTTTTAG-TCCGAGAATATAAATTTAAATATTGG
1 TTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCT-CAAAAATATAAATTT-AA-A-T--
* * * *
9489849 TTTTTTACTAAAATTAGATTTTTTTTTACTTAATTGACTTGTTACGTTAACTTTCACACGTATAT
60 TTTTTTACTAAAATTAGA--TTTTTTTACTTAATTGACTTATTACGTTAACTCTCACACATATAC
* *
9489914 GTTGAGATTAAAAATTTCGTTATTCCACATTTATAAGTTTTTACGTCAATT
123 GTTAAGATTAAAAATTTAGTTATTCCACATTTATAAGTTTTTACGTCAATT
9489965 CTCTAAGTTT
Statistics
Matches: 151, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
193 1 0.01
194 48 0.32
195 2 0.01
196 1 0.01
197 1 0.01
199 17 0.11
201 81 0.54
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (194 bp):
TTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCTCAAAAATATAAATTTAAATTTTTTT
ACTAAAATTAGATTTTTTTACTTAATTGACTTATTACGTTAACTCTCACACATATACGTTAAGAT
TAAAAATTTAGTTATTCCACATTTATAAGTTTTTACGTCAATTGTTATAGTTTTACGTTAAAAC
Found at i:9491252 original size:13 final size:13
Alignment explanation
Indices: 9491234--9491258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9491224 TTCTAGAAAA
9491234 TTTATAAAATCAT
1 TTTATAAAATCAT
9491247 TTTATAAAATCA
1 TTTATAAAATCA
9491259 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9492894 original size:24 final size:21
Alignment explanation
Indices: 9492867--9492916 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
9492857 CATGAGAATA
9492867 TAAATTTAAATATTTATTTTTTAT
1 TAAATTTAAA-A-TT-TTTTTTAT
9492891 TAAA-TTAAAATTTTTTTTAT
1 TAAATTTAAAATTTTTTTTAT
*
9492911 TTAATT
1 TAAATT
9492917 AACTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 11 0.46
21 3 0.12
22 1 0.04
23 5 0.21
24 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAAATTTAAAATTTTTTTTAT
Found at i:9500914 original size:13 final size:13
Alignment explanation
Indices: 9500896--9500923 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9500886 TTCTCTTTTC
9500896 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
9500909 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
9500922 AA
1 AA
9500924 GAAGACATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:9511957 original size:6 final size:6
Alignment explanation
Indices: 9511942--9511971 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9511932 CAAGCAAGTG
*
9511942 CTCTCT CTCTCC CTCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
9511972 AAGATCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
CTCTCC
Found at i:9517704 original size:15 final size:15
Alignment explanation
Indices: 9517686--9517773 Score: 60
Period size: 15 Copynumber: 6.0 Consensus size: 15
9517676 TATTATTTTG
9517686 ATTAAAATATTAATA
1 ATTAAAATATTAATA
9517701 ATT--AA-A-TAAT-
1 ATTAAAATATTAATA
*
9517711 ATTAAAATATTGATA
1 ATTAAAATATTAATA
* * *
9517726 TTTAAATTATTAATT
1 ATTAAAATATTAATA
* *
9517741 ATTAATATTTTAATTA
1 ATTAAAATATTAA-TA
9517757 ATTATAAATTATTAATA
1 ATTA-AAA-TATTAATA
9517774 TTNNNNNNNN
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 3 0.06
13 3 0.06
14 3 0.06
15 23 0.43
16 5 0.09
17 4 0.08
18 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
ATTAAAATATTAATA
Found at i:9517745 original size:55 final size:56
Alignment explanation
Indices: 9517653--9517760 Score: 125
Period size: 55 Copynumber: 1.9 Consensus size: 56
9517643 TTATTTTTAA
* *
9517653 AATATTAATTATTTATAATTTAATATTATTTTGATTAAAATATTAA-TAATTAAAT
1 AATATTAAATATTGATAATTTAATATTATTTTGATTAAAATATTAATTAATTAAAT
* *
9517708 AATATTAAAATATTGAT-ATTTAA-ATTATTAATT-ATTAATATTTTAATTAATTA
1 AATATT-AAATATTGATAATTTAATATTATT--TTGATTAAAATATTAATTAATTA
9517761 TAAATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
54 6 0.13
55 23 0.51
56 16 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (56 bp):
AATATTAAATATTGATAATTTAATATTATTTTGATTAAAATATTAATTAATTAAAT
Found at i:9517979 original size:16 final size:16
Alignment explanation
Indices: 9517954--9517984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9517944 ATTTATACTC
9517954 ATTAAAAATTTAATAT
1 ATTAAAAATTTAATAT
*
9517970 ATTAATAATTTAATA
1 ATTAAAAATTTAATA
9517985 AATAAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAAAAATTTAATAT
Found at i:9518036 original size:25 final size:25
Alignment explanation
Indices: 9517994--9518043 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9517984 AAATAAAACA
*
9517994 TTAATAGTTTTAAGATATCAATATT
1 TTAATAGTTTTAACATATCAATATT
*
9518019 TTAATA-TTTTAATCATATTAATATT
1 TTAATAGTTTTAA-CATATCAATATT
9518044 AATAATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (25 bp):
TTAATAGTTTTAACATATCAATATT
Found at i:9518131 original size:19 final size:19
Alignment explanation
Indices: 9518095--9518142 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
9518085 TTATAAATTA
9518095 TTTTTTCTTTCTTATTCTAT
1 TTTTTTCTTTCTTATTCT-T
9518115 TTTTTTCCTTT-TT-TTCTT
1 TTTTTT-CTTTCTTATTCTT
9518133 TTTTCTTCTT
1 TTTT-TTCTT
9518143 AATGGGTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 8 0.31
21 4 0.15
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTCTTATTCTT
Found at i:9519457 original size:22 final size:19
Alignment explanation
Indices: 9519404--9519450 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
9519394 GTTTATTTCA
9519404 ATATATTTTTTAAATATAT
1 ATATATTTTTTAAATATAT
9519423 ATATATTTTTTAAATA-AT
1 ATATATTTTTTAAATATAT
9519441 ATATATTTTT
1 ATATATTTTT
9519451 ATATTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTTTTTAAATATAT
Found at i:9519458 original size:18 final size:18
Alignment explanation
Indices: 9519403--9519458 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
9519393 TGTTTATTTC
9519403 AATATAT-TTTTTA-AAT
1 AATATATATTTTTATAAT
9519419 ATATATATATTTTT-TAAAT
1 A-ATATATATTTTTAT-AAT
*
9519438 AATATATATTTTTATATT
1 AATATATATTTTTATAAT
9519456 AAT
1 AAT
9519459 TTATTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 22 0.65
19 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATATATTTTTATAAT
Found at i:9520289 original size:16 final size:16
Alignment explanation
Indices: 9520270--9520300 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9520260 TATTTATTCA
*
9520270 AGTTTTTTATTATTTG
1 AGTTCTTTATTATTTG
9520286 AGTTCTTTATTATTT
1 AGTTCTTTATTATTT
9520301 TCATTCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.10, T:0.68
Consensus pattern (16 bp):
AGTTCTTTATTATTTG
Found at i:9522266 original size:128 final size:125
Alignment explanation
Indices: 9522116--9522521 Score: 349
Period size: 120 Copynumber: 3.2 Consensus size: 125
9522106 AAATTTATTA
* * *
9522116 ATTTAAATTAGTTAATTGGCTATTTAAATTAACCAATTAACTAGTTAATTGGTTGATTAAGTTAA
1 ATTTAAATTAGTTAATTAGCTA-TT-AATTAA-CAATTAACTAGTTAATTAGTTAATTAAGTTAA
*
9522181 TTTAAAGTGGTAATTAAAATAGTTAATTAATTAAATGAGATTTACATTTTTTTATTAGTTTAT
63 TTTAAAGTAGTAATTAAAATAGTTAATTAATTAAATGAGATTTACATTTTTTTATTAGTTTAT
*
9522244 ATTTAAATTAGTTAATTAGCTATT--TT---AATTAACTAATTAATTAGTTAATTAAGTTAATTT
1 ATTTAAATTAGTTAATTAGCTATTAATTAACAATTAACTAGTTAATTAGTTAATTAAGTTAATTT
* *
9522304 AAAGTAGTAATTAAATTAGTTGATTAATTAATTAAATGAGACTTACATTTTTATTTTATAATTAA
66 AAAGTAGTAATTAAA--A-TAG-TTAATTAATTAAATGAGATTTACA---TT-TTTT-T-ATT-A
* *
9522369 ATTAATT
120 GTTTA-T
* * ** *
9522376 AATTTAAA-TAGTTAATTAGTTACCTTGATTAACTAATTAGTTAGTAAATTAGTTAATTAAGTTA
1 -ATTTAAATTAGTTAATTAGCTA--TTAATTAAC-AATTAACTAGTTAATTAGTTAATTAAGTTA
* * ** * * * * **
9522440 AATTAAGGTAGTAATTCGATTAGTGAATTAACTAAATGATATTTGTA-TTTTTTATTAGTTTAT
62 ATTTAAAGTAGTAATTAAAATAGTTAATTAATTAAATGAGATTTACATTTTTTTATTAGTTTAT
* * *
9522503 AATTAAATGAATTAATTAG
1 ATTTAAATTAGTTAATTAG
9522522 TAATTAAATT
Statistics
Matches: 225, Mismatches: 31, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
120 45 0.20
122 1 0.00
123 2 0.01
124 25 0.11
126 6 0.03
127 14 0.06
128 29 0.13
129 4 0.02
130 4 0.02
131 8 0.04
132 15 0.07
133 7 0.03
134 2 0.01
136 20 0.09
137 2 0.01
140 41 0.18
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (125 bp):
ATTTAAATTAGTTAATTAGCTATTAATTAACAATTAACTAGTTAATTAGTTAATTAAGTTAATTT
AAAGTAGTAATTAAAATAGTTAATTAATTAAATGAGATTTACATTTTTTTATTAGTTTAT
Found at i:9522525 original size:20 final size:21
Alignment explanation
Indices: 9522502--9522553 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
9522492 TATTAGTTTA
9522502 TAATTAAATGAATTAATT-AG
1 TAATTAAATGAATTAATTAAG
* * * *
9522522 TAATTAAATTAGTTATTTAAT
1 TAATTAAATGAATTAATTAAG
9522543 TAATTAAATGA
1 TAATTAAATGA
9522554 GATTTGCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
TAATTAAATGAATTAATTAAG
Found at i:9522533 original size:71 final size:73
Alignment explanation
Indices: 9522448--9522586 Score: 183
Period size: 75 Copynumber: 1.9 Consensus size: 73
9522438 TAAATTAAGG
** * *
9522448 TAGTAATTCGATTAG-TGAATTAACTAAATGATATTTGTATT-TTTTATTAGTTTATAATTAAAT
1 TAGTAATTAAATTAGTTGAATTAACTAAATGAGATTTGCATTATTTTATTAGTTTATAATTAAAT
9522511 GAATTAAT
66 GAATTAAT
* *
9522519 TAGTAATTAAATTAGTTATTTAATTAATTAAATGAGATTTGCATTATTTTATTAGTTTATAATTA
1 TAGTAATTAAATTAG---TTGAATTAACTAAATGAGATTTGCATTATTTTATTAGTTTATAATTA
9522584 AAT
63 AAT
9522587 TAGTTACAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
71 13 0.23
75 22 0.39
76 22 0.39
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (73 bp):
TAGTAATTAAATTAGTTGAATTAACTAAATGAGATTTGCATTATTTTATTAGTTTATAATTAAAT
GAATTAAT
Found at i:9528561 original size:29 final size:29
Alignment explanation
Indices: 9528503--9528563 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
9528493 TTACTATCAC
*
9528503 ATTTAACATGTTAATTTATTGTAATAGATG
1 ATTTAACATGTTAA-TTATTATAATAGATG
9528533 ATTTAACATGTTACA-TATTATAATAGATG
1 ATTTAACATGTTA-ATTATTATAATAGATG
9528562 AT
1 AT
9528564 AATGTGATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.52
30 13 0.45
31 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.44
Consensus pattern (29 bp):
ATTTAACATGTTAATTATTATAATAGATG
Found at i:9533696 original size:26 final size:26
Alignment explanation
Indices: 9533667--9533716 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9533657 GATTAATTAA
* * *
9533667 TATTGTTTTTCTATTCTAATAGGTTT
1 TATTCTTTTTCTAATTTAATAGGTTT
*
9533693 TATTCTTTTTGTAATTTAATAGGT
1 TATTCTTTTTCTAATTTAATAGGT
9533717 CATCATTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (26 bp):
TATTCTTTTTCTAATTTAATAGGTTT
Found at i:9545264 original size:17 final size:18
Alignment explanation
Indices: 9545244--9545286 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
9545234 TCTTTCAATT
9545244 TATTTTATT-ATTATTTA
1 TATTTTATTAATTATTTA
*
9545261 TA-TTTATTAATTATTTT
1 TATTTTATTAATTATTTA
*
9545278 TATTCTATT
1 TATTTTATT
9545287 TACTCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 11 0.50
18 5 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTATTAATTATTTA
Found at i:9551169 original size:25 final size:25
Alignment explanation
Indices: 9551141--9551189 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9551131 TTTTATTTTA
*
9551141 AATTAAATACATTTTTA-TAATTAAT
1 AATTAAATA-ATTATTATTAATTAAT
*
9551166 AATTAATTAATTATTATTAATTAA
1 AATTAAATAATTATTATTAATTAA
9551190 ATTAGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAAATAATTATTATTAATTAAT
Found at i:9552988 original size:30 final size:30
Alignment explanation
Indices: 9552947--9553047 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
9552937 TTATTAATTT
* *
9552947 TAAAAACTTATTTGACTTAAAATAAAAATA
1 TAAAAATTTATTTGAATTAAAATAAAAATA
*
9552977 TAAAAATTTATTTGATTTAAAATAAAAATA
1 TAAAAATTTATTTGAATTAAAATAAAAATA
* *
9553007 TAAGAATTTAATTGAATGT--AATAAAAA-A
1 TAAAAATTTATTTGAAT-TAAAATAAAAATA
9553035 TAAAAATTTATTT
1 TAAAAATTTATTT
9553048 AAAATTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
28 12 0.19
29 8 0.13
30 42 0.67
31 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (30 bp):
TAAAAATTTATTTGAATTAAAATAAAAATA
Found at i:9554812 original size:29 final size:30
Alignment explanation
Indices: 9554780--9554986 Score: 165
Period size: 29 Copynumber: 7.3 Consensus size: 30
9554770 GAATATGACA
* *
9554780 TGTAATAATAATA-TTTTTTCAACATGGCG
1 TGTAACAACAATATTTTTTTCAACATGGCG
*
9554809 TGTAACAACAATATTTTTTTTCAACATGGCA
1 TGTAACAACAATA-TTTTTTTCAACATGGCG
* * * *
9554840 TGTAATAATAATA-TTTTTTCAATATGACG
1 TGTAACAACAATATTTTTTTCAACATGGCG
9554869 TGTAACAACAATATTTTTTTTCAACATGGCG
1 TGTAACAACAATA-TTTTTTTCAACATGGCG
* * * *
9554900 TGT---AACAAT-CTTTTTT-AATTATTGTG
1 TGTAACAACAATATTTTTTTCAA-CATGGCG
*
9554926 TGT------AATATTTTTTT-ATACATGACG
1 TGTAACAACAATATTTTTTTCA-ACATGGCG
9554950 TGTAACAACAATATTTTTTT-AACATGGCG
1 TGTAACAACAATATTTTTTTCAACATGGCG
9554979 TGTAACAA
1 TGTAACAA
9554987 TATAACCATA
Statistics
Matches: 143, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
23 3 0.02
24 13 0.09
25 3 0.02
26 13 0.09
28 6 0.04
29 50 0.35
30 12 0.08
31 43 0.30
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
TGTAACAACAATATTTTTTTCAACATGGCG
Found at i:9554831 original size:31 final size:31
Alignment explanation
Indices: 9554793--9554907 Score: 171
Period size: 31 Copynumber: 3.8 Consensus size: 31
9554783 AATAATAATA
9554793 TTTTTTCAACATGGCGTGTAACAACAATATT
1 TTTTTTCAACATGGCGTGTAACAACAATATT
* * *
9554824 TTTTTTCAACATGGCATGTAATAATAATA--
1 TTTTTTCAACATGGCGTGTAACAACAATATT
* *
9554853 TTTTTTCAATATGACGTGTAACAACAATATT
1 TTTTTTCAACATGGCGTGTAACAACAATATT
9554884 TTTTTTCAACATGGCGTGTAACAA
1 TTTTTTCAACATGGCGTGTAACAA
9554908 TCTTTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
29 24 0.33
31 48 0.67
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (31 bp):
TTTTTTCAACATGGCGTGTAACAACAATATT
Found at i:9554842 original size:60 final size:60
Alignment explanation
Indices: 9554778--9554904 Score: 227
Period size: 60 Copynumber: 2.1 Consensus size: 60
9554768 TTGAATATGA
*
9554778 CATGTAATAATAATATTTTTTCAACATGGCGTGTAACAACAATATTTTTTTTCAACATGG
1 CATGTAATAATAATATTTTTTCAACATGACGTGTAACAACAATATTTTTTTTCAACATGG
*
9554838 CATGTAATAATAATATTTTTTCAATATGACGTGTAACAACAATATTTTTTTTCAACATGG
1 CATGTAATAATAATATTTTTTCAACATGACGTGTAACAACAATATTTTTTTTCAACATGG
*
9554898 CGTGTAA
1 CATGTAA
9554905 CAATCTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (60 bp):
CATGTAATAATAATATTTTTTCAACATGACGTGTAACAACAATATTTTTTTTCAACATGG
Found at i:9555001 original size:50 final size:50
Alignment explanation
Indices: 9554947--9555045 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
9554937 TTTATACATG
*
9554947 ACGTGTAACAACAATATTTTTTTAACATGGCGTGTAACAATATAACCATA
1 ACGTGTAACAACAATATTTTTTCAACATGGCGTGTAACAATATAACCATA
* * *
9554997 ACGTGTAACAACAGTATTTTTTCAACATGGTGTGTAACAATCTAACCAT
1 ACGTGTAACAACAATATTTTTTCAACATGGCGTGTAACAATATAACCAT
9555046 GACATGTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (50 bp):
ACGTGTAACAACAATATTTTTTCAACATGGCGTGTAACAATATAACCATA
Found at i:9555081 original size:24 final size:24
Alignment explanation
Indices: 9555054--9555189 Score: 157
Period size: 24 Copynumber: 5.7 Consensus size: 24
9555044 ATGACATGTT
*
9555054 ACATATTTTTGTACATGGCGTGTC
1 ACATGTTTTTGTACATGGCGTGTC
*
9555078 ACATGTTTTTGTACATGACGTGTC
1 ACATGTTTTTGTACATGGCGTGTC
* * * *
9555102 ACAAGTTTCTGTATATGGCGTGTT
1 ACATGTTTTTGTACATGGCGTGTC
* *
9555126 ACATGTTTTTGTATATGACGTGTC
1 ACATGTTTTTGTACATGGCGTGTC
* *
9555150 ATATGTTTCTAG-ACATGGCGTGTC
1 ACATGTTT-TTGTACATGGCGTGTC
*
9555174 ACATGTTTCTGTACAT
1 ACATGTTTTTGTACAT
9555190 AGTGTATAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
23 1 0.01
24 89 0.97
25 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (24 bp):
ACATGTTTTTGTACATGGCGTGTC
Found at i:9555120 original size:48 final size:48
Alignment explanation
Indices: 9555063--9555189 Score: 184
Period size: 48 Copynumber: 2.6 Consensus size: 48
9555053 TACATATTTT
9555063 TGTACATGGCGTGTCACATGTTTTTGTACATGACGTGTCACAAGTTTC
1 TGTACATGGCGTGTCACATGTTTTTGTACATGACGTGTCACAAGTTTC
* * * * *
9555111 TGTATATGGCGTGTTACATGTTTTTGTATATGACGTGTCATATGTTTC
1 TGTACATGGCGTGTCACATGTTTTTGTACATGACGTGTCACAAGTTTC
*
9555159 TAG-ACATGGCGTGTCACATGTTTCTGTACAT
1 T-GTACATGGCGTGTCACATGTTTTTGTACAT
9555190 AGTGTATAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 68 0.99
49 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (48 bp):
TGTACATGGCGTGTCACATGTTTTTGTACATGACGTGTCACAAGTTTC
Found at i:9555135 original size:72 final size:72
Alignment explanation
Indices: 9555050--9555186 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 72
9555040 AACCATGACA
* *
9555050 TGTTACATATTTTTGTACATGGCGTGTCACATGTTT-TTGTACATGACGTGTCACAAGTTTCTGT
1 TGTTACATATTTTTGTACATGACGTGTCACATGTTTCTAG-ACATGACGTGTCACAAGTTTCTGT
9555114 ATATGGCG
65 ATATGGCG
* * * * *
9555122 TGTTACATGTTTTTGTATATGACGTGTCATATGTTTCTAGACATGGCGTGTCACATGTTTCTGTA
1 TGTTACATATTTTTGTACATGACGTGTCACATGTTTCTAGACATGACGTGTCACAAGTTTCTGTA
9555187 CATAGTGTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 55 0.96
73 2 0.04
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (72 bp):
TGTTACATATTTTTGTACATGACGTGTCACATGTTTCTAGACATGACGTGTCACAAGTTTCTGTA
TATGGCG
Found at i:9556163 original size:71 final size:72
Alignment explanation
Indices: 9556030--9556176 Score: 167
Period size: 71 Copynumber: 2.1 Consensus size: 72
9556020 ACGTACTAAG
**
9556030 AAATAAAAATAAAATATTATCTTCTAAAGAAAAAATTTAAAATAAAATATACAGTATAAGAAAT-
1 AAATAAAAATAAAATATTATCTTCTAAAGAAAAAATGAAAAATAAAATATACAGTATAAGAAATA
9556094 TATATTAA
66 TAT-TTAA
* * * ** *
9556102 AAATAAAAATAAAATA-TATACTTGT-AATAAGAAATGAAAAATAAAATATA-TTTAATTAGAAA
1 AAATAAAAATAAAATATTAT-CTTCTAAAGAAAAAATGAAAAATAAAATATACAGT-ATAAGAAA
9556164 TATATTTAA
64 TATATTTAA
9556173 AAAT
1 AAAT
9556177 GACATTATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
70 1 0.02
71 40 0.62
72 23 0.36
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (72 bp):
AAATAAAAATAAAATATTATCTTCTAAAGAAAAAATGAAAAATAAAATATACAGTATAAGAAATA
TATTTAA
Found at i:9557147 original size:15 final size:15
Alignment explanation
Indices: 9557129--9557172 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9557119 CCTTGCAATT
9557129 ACATTACTTGTAATC
1 ACATTACTTGTAATC
* *
9557144 ACATTACCTATAATC
1 ACATTACTTGTAATC
9557159 ACATTACATTGTAA
1 ACATTAC-TTGTAA
9557173 AGTACCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (15 bp):
ACATTACTTGTAATC
Found at i:9558775 original size:2 final size:2
Alignment explanation
Indices: 9558768--9558810 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
9558758 ATACCGATAC
* *
9558768 TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9558810 T
1 T
9558811 GTACATGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9566758 original size:221 final size:221
Alignment explanation
Indices: 9566375--9566789 Score: 731
Period size: 221 Copynumber: 1.9 Consensus size: 221
9566365 ATACAATCTA
*
9566375 ATTGCATTGATTTTAGACTATAATCATATTACATCCATTGGTTGTAATGTGACTCATTACAATCT
1 ATTGCATTGATTTTAGACTATAATCATATTACATCCATTAGTTGTAATGTGACTCATTACAATCT
* * * *
9566440 TATATTGCAGTGGTTTATTACAAAATAAATATTGTAATATAATTTAATTGGGTACATTGCAAGAA
66 TATATTGCAATGGTTTATTACAAAATAAATACTATAATATAATTTAATTGAGTACATTGCAAGAA
*
9566505 ATCTACTCCTACTTCTCTCATACCAAACACTAGTTAAAGGCATACATATATCTTAGCAAGACTAG
131 ATCTACTCCTACTTCTCTCATACCAAACACTAGTTAAAGGCATACATATACCTTAGCAAGACTAG
9566570 TTATAGTCTAAAATCAATGTAATTAG
196 TTATAGTCTAAAATCAATGTAATTAG
* *
9566596 ATTGCATTGATTTTAGACTATAATCATATTACATCTATTAGTTGTAATGTGACTCATTGCAATCT
1 ATTGCATTGATTTTAGACTATAATCATATTACATCCATTAGTTGTAATGTGACTCATTACAATCT
* *
9566661 TATATTGCAATGGTTTATTACAAAATAAATACTATAATATAATTTAATTGAGTACATTGCAGGGA
66 TATATTGCAATGGTTTATTACAAAATAAATACTATAATATAATTTAATTGAGTACATTGCAAGAA
*
9566726 CTCTACTCCTACTTCTCTCATACCAAACACTAGTTAAAGGCATACATATACCTTAGCAAGACTA
131 ATCTACTCCTACTTCTCTCATACCAAACACTAGTTAAAGGCATACATATACCTTAGCAAGACTA
9566790 TATATGAGTC
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
221 183 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (221 bp):
ATTGCATTGATTTTAGACTATAATCATATTACATCCATTAGTTGTAATGTGACTCATTACAATCT
TATATTGCAATGGTTTATTACAAAATAAATACTATAATATAATTTAATTGAGTACATTGCAAGAA
ATCTACTCCTACTTCTCTCATACCAAACACTAGTTAAAGGCATACATATACCTTAGCAAGACTAG
TTATAGTCTAAAATCAATGTAATTAG
Found at i:9566908 original size:66 final size:63
Alignment explanation
Indices: 9566804--9566932 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 63
9566794 TGAGTCCATC
9566804 ATTTCTTTCTTTTTCTTTTTTCTCCATCTTGCCATGTTTGCAAATGGATACTAAAGTTGTTAA
1 ATTTCTTTCTTTTTCTTTTTTCTCCATCTTGCCATGTTTGCAAATGGATACTAAAGTTGTTAA
9566867 NATTTCTTTTGCTTTTTCTTTTTTCTCCATCTTGCCATGTTTGCAAATGGATACTAAAGTTGTTA
1 -ATTTC-TTT-CTTTTTCTTTTTTCTCCATCTTGCCATGTTTGCAAATGGATACTAAAGTTGTTA
9566932 A
63 A
9566933 TGGATATATT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 5 0.08
65 3 0.05
66 55 0.87
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (63 bp):
ATTTCTTTCTTTTTCTTTTTTCTCCATCTTGCCATGTTTGCAAATGGATACTAAAGTTGTTAA
Found at i:9568943 original size:25 final size:25
Alignment explanation
Indices: 9568877--9568962 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
9568867 ATGTCGATCA
* *
9568877 TCTTATTATTTATTTTTTCCTCATGTT
1 TCTTATTATTTATATTTTCAT-AT-TT
* * *
9568904 TCCT-TT-TTT-TCTTTTCATCTTT
1 TCTTATTATTTATATTTTCATATTT
* *
9568926 TTTTATTATTTATATTTTTATATTT
1 TCTTATTATTTATATTTTCATATTT
9568951 TCTTATTATTTA
1 TCTTATTATTTA
9568963 ATGTCAACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
22 4 0.09
23 3 0.07
24 10 0.22
25 24 0.52
26 2 0.04
27 3 0.07
ACGTcount: A:0.16, C:0.12, G:0.01, T:0.71
Consensus pattern (25 bp):
TCTTATTATTTATATTTTCATATTT
Found at i:9571613 original size:218 final size:217
Alignment explanation
Indices: 9571198--9571613 Score: 530
Period size: 218 Copynumber: 1.9 Consensus size: 217
9571188 TCACTCTGTT
* * * ** * * *
9571198 TTCCTTTGCAACAATTTCCAAACAAATACTTCCACTTTATATGAAATGAACCCTACCCACACCAG
1 TTCCTTTGCAACAATTTACAAACAAAGACTTCCACTTTATACGAAACAAAACCTACCCAAACCAA
** * * *
9571263 TTTCCAGAATGACACTCTAACTCATAATTGTTTGTAGGGATGGTAATGGCTGTCCGTGAGTATTC
66 TTTCCAGAACAACACTCTAACTCACAATTGTTTGTAAGGATGGTAATGGCTGTCCGTGAGTATCC
* * **
9571328 GACCCGTATAAGGTTTGAGTACACTATATTTAGATTTAGGACGAGTTTGAGTAAAAGTTTTACTA
131 AACCCGTATAAGGTTTGAGTACACTATATTTAGATTTAAGACGAGTTCAAGTAAAAGTTTTACTA
9571393 CTTGTAAGATTTCATCATTGTC
196 CTTGTAAGATTTCATCATTGTC
* * *
9571415 TTCCTTTGCAACAATTTATAAACAAAGACTTCCACTTTATACGGAGCAAAACCTACCCAAACCAA
1 TTCCTTTGCAACAATTTACAAACAAAGACTTCCACTTTATACGAAACAAAACCTACCCAAACCAA
** * * **
9571480 TTTCCAGAACAATGCTCTAACTCCACATTTGTTTGTAAGGATGGTAATGGGTGTGTGTGAGTATC
66 TTTCCAGAACAACACTCTAACT-CACAATTGTTTGTAAGGATGGTAATGGCTGTCCGTGAGTATC
* * *
9571545 CAACCCGTATAGGGTTTGGGTATC-CTATATTTAGATTTAAGATGAGTTCAAGTAGAAA-TTTTA
130 CAACCCGTATAAGGTTTGAGTA-CACTATATTTAGATTTAAGACGAGTTCAAGTA-AAAGTTTTA
9571608 CTACTT
193 CTACTT
9571614 ATCTTGGATT
Statistics
Matches: 167, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
217 72 0.43
218 91 0.54
219 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (217 bp):
TTCCTTTGCAACAATTTACAAACAAAGACTTCCACTTTATACGAAACAAAACCTACCCAAACCAA
TTTCCAGAACAACACTCTAACTCACAATTGTTTGTAAGGATGGTAATGGCTGTCCGTGAGTATCC
AACCCGTATAAGGTTTGAGTACACTATATTTAGATTTAAGACGAGTTCAAGTAAAAGTTTTACTA
CTTGTAAGATTTCATCATTGTC
Found at i:9571984 original size:35 final size:35
Alignment explanation
Indices: 9571943--9572014 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
9571933 ATCTTTTCTC
*
9571943 CTCCTTCCATCTTTTCTTTCCATCCTCAATCACTT
1 CTCCTTCCATCTTTTCTTTCCATCCTCAATCAATT
* *
9571978 CTCCTTCCCTCTTTTCTTTCCATCCTCGATCAATT
1 CTCCTTCCATCTTTTCTTTCCATCCTCAATCAATT
9572013 CT
1 CT
9572015 TTTTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.12, C:0.40, G:0.01, T:0.46
Consensus pattern (35 bp):
CTCCTTCCATCTTTTCTTTCCATCCTCAATCAATT
Found at i:9574284 original size:2 final size:2
Alignment explanation
Indices: 9574277--9574302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9574267 TGACAAAGGC
9574277 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
9574303 ATCTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9574835 original size:2 final size:2
Alignment explanation
Indices: 9574828--9574852 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9574818 ATTAAGTCAT
9574828 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9574853 CTTAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9576477 original size:3 final size:3
Alignment explanation
Indices: 9576469--9576495 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9576459 TTCAAGTTTG
9576469 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
9576496 TGTTCTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:9577176 original size:12 final size:12
Alignment explanation
Indices: 9577159--9577183 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9577149 TTGAGAGGCC
9577159 AAAGAAGAAGAA
1 AAAGAAGAAGAA
9577171 AAAGAAGAAGAA
1 AAAGAAGAAGAA
9577183 A
1 A
9577184 GTGGCAATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAGAA
Found at i:9577233 original size:21 final size:21
Alignment explanation
Indices: 9577207--9577255 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
9577197 AAAAGTTGAT
*
9577207 GAAGAAAAAGAGGAAG-ATGAA
1 GAAGAAAAAGAAGAAGAAT-AA
* *
9577228 GAAGAATAAGAATAAGAATAA
1 GAAGAAAAAGAAGAAGAATAA
9577249 GAAGAAA
1 GAAGAAA
9577256 GATGGGCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (21 bp):
GAAGAAAAAGAAGAAGAATAA
Found at i:9595289 original size:15 final size:15
Alignment explanation
Indices: 9595271--9595299 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9595261 GTAATTATAG
9595271 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
9595286 GTAATGTGATTGCA
1 GTAATGTGATTGCA
9595300 GTGAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:9595551 original size:27 final size:25
Alignment explanation
Indices: 9595502--9595663 Score: 69
Period size: 26 Copynumber: 6.2 Consensus size: 25
9595492 CTCTTAAATA
* * * *
9595502 TATTTTTAATGTCATATATATTTTT
1 TATTTTTAATATAATTTTTATTTTT
*
9595527 TATTTCTTATTATAATATTTTATTTTTTT
1 TATTT-TTAATATAAT-TTTTA--TTTTT
* *
9595556 TATTTTTAATATAATTTTTATATTA
1 TATTTTTAATATAATTTTTATTTTT
* * * * *
9595581 TATATTTCATTTTAATTTTT-TTATC
1 TAT-TTTTAATATAATTTTTATTTTT
* * *
9595606 TA-TATT-ATATAAATTTTAATTTCT
1 TATTTTTAATAT-AATTTTTATTTTT
* *
9595630 TATATTTTATTTTAATTTTTGATTTTT
1 TAT-TTTTAATATAATTTTT-ATTTTT
9595657 ATATTTT
1 -TATTTT
9595664 ATATTTTATT
Statistics
Matches: 98, Mismatches: 27, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
22 2 0.02
23 8 0.08
24 4 0.04
25 15 0.15
26 29 0.30
27 18 0.18
28 12 0.12
29 10 0.10
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (25 bp):
TATTTTTAATATAATTTTTATTTTT
Found at i:9595579 original size:29 final size:30
Alignment explanation
Indices: 9595516--9595579 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
9595506 TTTAATGTCA
* *
9595516 TATATATTTTTTATTTCTTATTATAATATT
1 TATATTTTTTTTATTTCTTAATATAATATT
*
9595546 T-TATTTTTTTTATTT-TTAATATAATTTT
1 TATATTTTTTTTATTTCTTAATATAATATT
9595574 TATATT
1 TATATT
9595580 ATATATTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 12 0.40
29 17 0.57
30 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (30 bp):
TATATTTTTTTTATTTCTTAATATAATATT
Found at i:9595596 original size:26 final size:26
Alignment explanation
Indices: 9595567--9595683 Score: 110
Period size: 26 Copynumber: 4.3 Consensus size: 26
9595557 ATTTTTAATA
*
9595567 TAATTTTTATATTATATATTTCATTT
1 TAATTTTTATATTATATATTTAATTT
* *
9595593 TAATTTTTTTATCTATATTATATAAATTT
1 TAATTTTTATAT-TATA-TAT-TTAATTT
*
9595622 TAATTTCTTATATTTTAT-TTTAATTTT
1 TAATTT-TTATATTATATATTTAA-TTT
* * *
9595649 TGATTTTTATATTTTATATTTTATTT
1 TAATTTTTATATTATATATTTAATTT
9595675 TAATGTTTT
1 TAAT-TTTT
9595684 GTGTTTTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
26 31 0.41
27 21 0.28
28 4 0.05
29 14 0.19
30 5 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (26 bp):
TAATTTTTATATTATATATTTAATTT
Found at i:9595641 original size:20 final size:21
Alignment explanation
Indices: 9595618--9595670 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
9595608 TATTATATAA
9595618 ATTTTAATTTCTT-ATATTT-T
1 ATTTTAATTT-TTGATATTTAT
*
9595638 ATTTTAATTTTTGATTTTTAT
1 ATTTTAATTTTTGATATTTAT
9595659 ATTTTATATTTT
1 ATTTTA-ATTTT
9595671 ATTTTAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 7 0.24
22 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTTAATTTTTGATATTTAT
Found at i:9595664 original size:7 final size:7
Alignment explanation
Indices: 9595518--9595672 Score: 51
Period size: 7 Copynumber: 22.4 Consensus size: 7
9595508 TAATGTCATA
9595518 TATATTT
1 TATATTT
*
9595525 TTTATTT
1 TATATTT
9595532 CT-TATTAT
1 -TATATT-T
*
9595540 AATATTT
1 TATATTT
*
9595547 TATTTTT
1 TATATTT
*
9595554 TTTATTT
1 TATATTT
* *
9595561 T-TAATA
1 TATATTT
9595567 TA-ATTTT
1 TATA-TTT
*
9595574 TATATTA
1 TATATTT
9595581 TATATTT
1 TATATTT
*
9595588 CAT-TTT
1 TATATTT
*
9595594 AAT-TTT
1 TATATTT
* *
9595600 TTTA-TC
1 TATATTT
9595606 TATATTAT
1 TATATT-T
*
9595614 ATAAATTT
1 -TATATTT
9595622 TA-ATTTCT
1 TATA-TT-T
9595630 TATATTT
1 TATATTT
9595637 TAT-TTT
1 TATATTT
*
9595643 AAT-TTT
1 TATATTT
9595649 TGAT-TTT
1 T-ATATTT
9595656 TATATTT
1 TATATTT
9595663 TATATTT
1 TATATTT
9595670 TAT
1 TAT
9595673 TTTAATGTTT
Statistics
Matches: 111, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
6 29 0.26
7 63 0.57
8 13 0.12
9 6 0.05
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:9595683 original size:20 final size:19
Alignment explanation
Indices: 9595618--9595683 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
9595608 TATTATATAA
9595618 ATTTTAATTTCTTATATTTT
1 ATTTTAATTT-TTATATTTT
9595638 ATTTTAATTTTTGAT-TTTT
1 ATTTTAATTTTT-ATATTTT
9595657 A---T-A-TTTTATATTTT
1 ATTTTAATTTTTATATTTT
9595671 ATTTTAATGTTTT
1 ATTTTAAT-TTTT
9595684 GTGTTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
13 2 0.05
14 9 0.24
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 7 0.18
20 16 0.42
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTTAATTTTTATATTTT
Found at i:9609399 original size:20 final size:20
Alignment explanation
Indices: 9609349--9609395 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
9609339 TATATATATA
9609349 TAAATAATATTAAAAAAATTT
1 TAAATAAT-TTAAAAAAATTT
* *
9609370 TAAATTATTTAAGAAAA-TT
1 TAAATAATTTAAAAAAATTT
9609389 TAAATAA
1 TAAATAA
9609396 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAATAATTTAAAAAAATTT
Found at i:9610529 original size:2 final size:2
Alignment explanation
Indices: 9610522--9610559 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9610512 GTTTAGGCTA
9610522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9610560 GTATTATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9618486 original size:800 final size:800
Alignment explanation
Indices: 9616946--9620859 Score: 7783
Period size: 800 Copynumber: 4.9 Consensus size: 800
9616936 CACAAAAAGG
* * * * *
9616946 GGTGTGCAAGTTCATCCAAAAAGAGATCATATGTCGGTATGGGCTTACAGAAAGGATCATTACGG
1 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
9617011 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
66 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
9617076 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
131 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
9617141 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
196 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
9617206 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
261 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
9617271 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
326 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
9617336 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
391 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
9617401 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
456 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
9617466 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
521 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
9617531 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
586 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
9617596 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
651 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
9617661 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
716 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
9617726 AGGAGGCTCATGCTGAATGT
781 AGGAGGCTCATGCTGAATGT
9617746 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
1 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
9617811 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
66 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
9617876 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
131 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
9617941 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
196 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
9618006 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
261 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
9618071 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
326 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
9618136 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
391 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
9618201 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
456 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
9618266 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
521 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
9618331 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
586 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
9618396 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
651 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
9618461 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
716 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
9618526 AGGAGGCTCATGCTGAATGT
781 AGGAGGCTCATGCTGAATGT
9618546 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
1 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
9618611 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
66 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
9618676 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
131 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
9618741 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
196 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
9618806 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
261 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
9618871 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
326 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
9618936 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
391 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
9619001 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
456 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
9619066 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
521 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
9619131 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
586 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
9619196 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
651 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
9619261 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
716 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
9619326 AGGAGGCTCATGCTGAATGT
781 AGGAGGCTCATGCTGAATGT
9619346 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
1 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
9619411 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
66 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
9619476 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
131 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
9619541 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
196 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
9619606 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
261 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
9619671 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
326 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
9619736 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
391 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
9619801 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
456 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
9619866 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
521 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
9619931 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
586 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
9619996 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
651 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
9620061 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
716 TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
9620126 AGGAGGCTCATGCTGAATGT
781 AGGAGGCTCATGCTGAATGT
9620146 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
1 GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
9620211 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
66 ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
9620276 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
131 CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
9620341 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
196 AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
9620406 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
261 ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
9620471 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
326 GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
9620536 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
391 AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
9620601 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
456 CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
9620666 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
521 AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
9620731 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
586 AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
9620796 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATA
651 TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATA
9620860 NGAATTACCT
Statistics
Matches: 3109, Mismatches: 5, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
800 3109 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (800 bp):
GGTGTGCAGGTTCATCCAAAAGGAGATCATATGTCGATATGGGCTTCCAGAAATGATCATTACGG
ATAACGCAAGCAATTTGAATGGTACGATGGTGAAGGATGTTTGCGCTAAATTCAAGATCAAGCAT
CATAACTCGACAACTTACCGTCCGAAGATGAACGGAGCGGTAGAGACAGCCAACAAAAACATCAA
AAAGATTATCGAAAAGATGACTGAAGTTTATAAAGACTGGCATGAGAAACTTCCTTTTGCCTTAC
ATGCATATCGAACTTCTGTGCGTACCTCCACCAGGGCAACTCCGTACTCATTAGTATACGGTGCA
GAAATAGTTCTACCTGTTGAAGTAGAAATCCCATCATTGAGGGTGTTGATGAAAACAGAATTGAA
AGATGCTGAGTGGGTTCGTTCCCGCTACGAACAACTGAATCTGATTGAGGAAAAAAGGCTTGCGG
CTCTTTGTCATGGTCAGATGTACCAACGAAGGATGATGCGAGCATACGAGAAAAAAGTTCATCCC
AGGCAGTTTCGAGAATGAGAGTTGGTTCTCAAGAGAATACTCCCTAATCAAACTGATTTTCGGGG
AAAGTGGATGCCGAATTGGGAAGGGCCATACGTGGTAAAGAAGGCTTTTTCAGGAGGAGCTTTGA
TCTTGGCTGACATGGATGGGGGAGATTTGCCTAATCCGATAAATGCGGATGCGGTGAAGAAATAC
TATGCTTAAAAAAAATGGAAGGGGTTCGTGCTGAAAACTCAAAAAGGGCAGCTCGTACCTAAAGG
AGGAGGCTCATGCTGAATGT
Found at i:9624410 original size:17 final size:17
Alignment explanation
Indices: 9624390--9624424 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9624380 ATATTTAATC
9624390 TATTAGTTTCTAATTCT
1 TATTAGTTTCTAATTCT
9624407 TATTAGTTTCTAATTCT
1 TATTAGTTTCTAATTCT
9624424 T
1 T
9624425 GTTTAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (17 bp):
TATTAGTTTCTAATTCT
Found at i:9625814 original size:13 final size:13
Alignment explanation
Indices: 9625798--9625829 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9625788 TCTCTTTCTC
*
9625798 TTTTTTTTTATTA
1 TTTTTTATTATTA
9625811 TTTTTTATTATTA
1 TTTTTTATTATTA
9625824 TTTTTT
1 TTTTTT
9625830 GGTTTGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:9627590 original size:23 final size:23
Alignment explanation
Indices: 9627553--9627601 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
9627543 TCAATTTATA
9627553 TTTATATTTTTATTTATATT-TG
1 TTTATATTTTTATTTATATTCTG
* *
9627575 TTTATTTTTTTCATTTCTATTCTG
1 TTTATATTTTT-ATTTATATTCTG
9627599 TTT
1 TTT
9627602 GCTCGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 8 0.35
24 5 0.22
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTATATTTTTATTTATATTCTG
Found at i:9628065 original size:22 final size:23
Alignment explanation
Indices: 9628023--9628078 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
9628013 AAAAATTGTT
*
9628023 AATTTTATA--TATTGTATTT-A
1 AATTTTATATTTAATGTATTTAA
*
9628043 ACTATTTATATTTAATGTA-TTAA
1 AAT-TTTATATTTAATGTATTTAA
9628066 AATTTTATATTTA
1 AATTTTATATTTA
9628079 GATCCCTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.07
21 6 0.21
22 12 0.41
23 9 0.31
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTTTATATTTAATGTATTTAA
Found at i:9628591 original size:134 final size:134
Alignment explanation
Indices: 9628423--9628667 Score: 386
Period size: 134 Copynumber: 1.8 Consensus size: 134
9628413 TATATAAAAT
*
9628423 TAAATTATAACATAAAATTTCATTAACAATTTAAATTTATGTAAATTTTCAGATTCA-TCAATAT
1 TAAATTATAACATAAAATTTCATTAACAATTTAAATTTATATAAATTTTCAGATTCACT-AATAT
* *
9628487 AAATAAACATAACA-TAGAAAGAAAAATTAACATTAGATTTTCACATTAGGCATAGTAAATTGTG
65 AAATAAACATAA-AGTAGAAAGAAAAAATAACATTAGATATTCACATTAGGCATAGTAAATTGTG
9628551 TTCGAC
129 TTCGAC
* *
9628557 TAAATTATAACATAAAATTTTATTAACAATTTAAATTTATATAAGTTTTCAGATTCACTAATATA
1 TAAATTATAACATAAAATTTCATTAACAATTTAAATTTATATAAATTTTCAGATTCACTAATATA
* * *
9628622 AATAGATATAAAGTAGAAAGAAAAAATAATATTAGATATTCACATT
66 AATAAACATAAAGTAGAAAGAAAAAATAACATTAGATATTCACATT
9628668 TGGTATTCTA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
133 1 0.01
134 99 0.98
135 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (134 bp):
TAAATTATAACATAAAATTTCATTAACAATTTAAATTTATATAAATTTTCAGATTCACTAATATA
AATAAACATAAAGTAGAAAGAAAAAATAACATTAGATATTCACATTAGGCATAGTAAATTGTGTT
CGAC
Found at i:9628774 original size:15 final size:15
Alignment explanation
Indices: 9628735--9628774 Score: 71
Period size: 16 Copynumber: 2.6 Consensus size: 15
9628725 CTTTCAAAGG
9628735 AAAAAAAAGTTGAAA
1 AAAAAAAAGTTGAAA
9628750 AGAAAAAAAGTTGAAA
1 A-AAAAAAAGTTGAAA
9628766 AAAAAAAAG
1 AAAAAAAAG
9628775 GTTTAGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAAAAAAGTTGAAA
Found at i:9632733 original size:3 final size:3
Alignment explanation
Indices: 9632725--9632750 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9632715 AGAAGGAAAC
9632725 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9632751 AAAGTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9636600 original size:31 final size:31
Alignment explanation
Indices: 9636554--9636618 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
9636544 CTAATTTTGA
* * * *
9636554 ATTTTATTTTTTTATATTTGATGTTATTATT
1 ATTTTATCTTGTTATAATTGATGTTATAATT
* *
9636585 ATTTTATCTTGTTATAATTGTTTTTATAATT
1 ATTTTATCTTGTTATAATTGATGTTATAATT
9636616 ATT
1 ATT
9636619 GATTTTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (31 bp):
ATTTTATCTTGTTATAATTGATGTTATAATT
Found at i:9637265 original size:39 final size:40
Alignment explanation
Indices: 9637210--9637289 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
9637200 ATTGTTAAAC
* *
9637210 ACACCAATCATAGCAAGGCT-AGAAACCCCACTAAGGTGA
1 ACACCAATCATAGCAAGGCTAAAAAACCACACTAAGGTGA
* * * *
9637249 ACACCAATCTTGGCAAGGTTAAAAAATCACACTAAGGTGA
1 ACACCAATCATAGCAAGGCTAAAAAACCACACTAAGGTGA
9637289 A
1 A
9637290 TAATGGTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 17 0.50
40 17 0.50
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.16
Consensus pattern (40 bp):
ACACCAATCATAGCAAGGCTAAAAAACCACACTAAGGTGA
Found at i:9638832 original size:39 final size:40
Alignment explanation
Indices: 9638774--9638853 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
9638764 ATTGTAAAAC
* * *
9638774 ACACCAATCGTGGCGAGGTTAG-ATACCCTACTAAGGTGA
1 ACACCAATCGTGGCAAGGTTAGAAAACCCCACTAAGGTGA
*
9638813 ACACCAATCTTGGCAAGGTTAGAAAACCCCACTAAGGTGA
1 ACACCAATCGTGGCAAGGTTAGAAAACCCCACTAAGGTGA
9638853 A
1 A
9638854 TAATGGCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 20 0.56
40 16 0.44
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (40 bp):
ACACCAATCGTGGCAAGGTTAGAAAACCCCACTAAGGTGA
Found at i:9647417 original size:3 final size:3
Alignment explanation
Indices: 9647409--9647436 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9647399 ATAAATTCTT
9647409 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9647437 ACTCGACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.