Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 315 of 318
Found at i:99488561 original size:26 final size:26
Alignment explanation
Indices: 99488527--99488908 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
99488517 TGTAAGTTAA
99488527 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
99488553 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
99488578 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488603 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488629 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
99488655 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488680 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488706 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
99488732 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488758 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
99488784 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
99488809 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
99488827 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
99488852 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
99488878 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
99488905 ATGT
1 ATGT
99488909 CGACAAGATT
Statistics
Matches: 323, Mismatches: 21, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 104 0.32
26 179 0.55
27 11 0.03
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:99488832 original size:43 final size:46
Alignment explanation
Indices: 99488527--99488909 Score: 277
Period size: 51 Copynumber: 7.7 Consensus size: 46
99488517 TGTAAGTTAA
* * *
99488527 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
99488578 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
* * * * *
99488629 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
99488680 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* * *
99488732 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* *
99488784 GTGTAAGTTGTAAGTTAAATGTATTATGTCA-GTCA-A-ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
*
99488827 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
99488878 ATGTAAGTAATGTAAGTTAAATGTATTATGTC
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTC
99488910 GACAAGATTT
Statistics
Matches: 300, Mismatches: 19, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
43 36 0.12
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.08
51 114 0.38
52 97 0.32
53 21 0.07
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (46 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
Found at i:99488860 original size:18 final size:18
Alignment explanation
Indices: 99488792--99488835 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
99488782 TTGTGTAAGT
99488792 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
99488810 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
99488828 TGTAAGTT
1 TGTAAGTT
99488836 GTAAGTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:99492228 original size:14 final size:14
Alignment explanation
Indices: 99492209--99492279 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
99492199 ACCCCAGACT
99492209 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
99492223 CCTAAACACCCTAATAC
1 CCT-AA-ACCTTAA-AC
99492240 CCT-AACCTTAAA-
1 CCTAAACCTTAAAC
* * *
99492252 CCTACATCGTAAAC
1 CCTAAACCTTAAAC
*
99492266 CCTAAACTTTAAAC
1 CCTAAACCTTAAAC
99492280 TTTACACTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 19 0.44
15 3 0.07
16 6 0.14
17 5 0.12
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:99492714 original size:113 final size:115
Alignment explanation
Indices: 99492516--99492721 Score: 290
Period size: 113 Copynumber: 1.8 Consensus size: 115
99492506 ATCAACAAAT
* * * *
99492516 CGCCGCTAATACTATGCTTTAGCGGCGTTTTACCGAAATCGCCACTAAATCAAGTATACATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
*
99492581 ACCAAAACGATGCGTTTTGGTTCAGATACTTGGTGGCGCTTTTATCCAAG
66 ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGGCGCTTTTATCCAAG
* * * *
99492631 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
* **
99492694 GCCAAAATTATGCGTTTTGGTTAAGATA
66 ACCAAAACGATGCGTTTTGGTTAAGATA
99492722 TTTTGCTGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 48 0.61
114 1 0.01
115 30 0.38
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (115 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGGCGCTTTTATCCAAG
Found at i:99492891 original size:208 final size:209
Alignment explanation
Indices: 99492532--99493164 Score: 741
Period size: 208 Copynumber: 2.9 Consensus size: 209
99492522 TAATACTATG
* * * * ** * *
99492532 CTTTAGCGGCGTTTTACCGAAATCGCCACTAAATCAAGTATACATCAAGACCAAAACGA-TGCGT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATCAAAAC-ACTGCGT
* * * * ** * *
99492596 TTTGGTTCAGATACTTGGTGGCGCT-TTTATCCAAGCGCCGCTAATACTATGCTTTAACGGCGTT
64 TTTTGTTAAGATATTTTGTGGCGCTAGCTA-CAAATCGCCGCTAATACTATGCTTTAACGGCGTT
99492660 TCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTT
128 TCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTT
99492725 TGCT-GCTATTAATATT
193 TGCTCGCTATTAATATT
99492741 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
*
99492806 TTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
66 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
99492871 CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
131 CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT--
99492936 GGCGCTTCTCACAAAGCGCCGCTATTAATATT
194 ---G---CT----------CGCTATTAATATT
*
99492968 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
* * *
99493033 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTTAGCGGCGTTTGA
66 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
* * * * * * ** * * * *
99493098 CCTTATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGCTTAAGATAGTTT
131 -C-TAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
99493163 GC
194 GC
99493165 GGCGCTTCCA
Statistics
Matches: 367, Mismatches: 34, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
207 1 0.00
208 140 0.38
209 33 0.09
213 1 0.00
216 2 0.01
221 1 0.00
224 1 0.00
227 137 0.37
228 1 0.00
229 50 0.14
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (209 bp):
CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
TCGCTATTAATATT
Found at i:99493054 original size:114 final size:112
Alignment explanation
Indices: 99492729--99493395 Score: 605
Period size: 113 Copynumber: 5.9 Consensus size: 112
99492719 ATATTTTGCT
* * *
99492729 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTTACCGTAAGCGCCACTAATTTTATATACATCAAGA-CAA
* * *
99492794 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCT-ACAAATCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * *
99492843 GCTAATACTATGCTTTAACGGCGTTT-CAC-TAAGCGCCACTAATTCTACTATACATCGAGGCCA
1 GCTATTACTATTCTTTAACGGCGTTTAC-CGTAAGCGCCACTAATTTTA-TATACATC-AAGACA
*
99492906 AAATTA-TGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
63 AAA-CACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * *
99492956 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTTACCGTAAGCGCCACTAATTTTATATACATCAAGA-CAA
* * * * *
99493021 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCT-ACAAATCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * * * *
99493070 GCTAATACTATTCTTTAGCGGCGTTTGACCTTATGCGCCACTAGTTCTAGTATAAATCAAGACCA
1 GCTATTACTATTCTTTAACGGCGTTT-ACCGTAAGCGCCACTAATTTTA-TATACATCAAGA-CA
* * * * * *
99493135 AAACGA-TGTGTTTCGCTTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
63 AAAC-ACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * * * *
99493184 GCTATTACTGTACTTTAACGGCGTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACCA
1 GCTATTACTATTCTTTAACGGCGTTTACC-GTAAGCGCCACTAATT-TTATATACATCAAGACAA
* * * *
99493249 AACTCTGCGTTTTGGTTAAGCTATTTTGCGGCGTTTC-CAGAAAGCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * *
99493297 GCTATTACTGTCCTTTAATGGCGTTT-CGCGTAAACGCCACTACTTTTAAGATACATCAAGACGA
1 GCTATTACTATTCTTTAACGGCGTTTAC-CGTAAGCGCCACTAATTTT-ATATACATCAAGAC-A
* * *
99493361 AAACACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
63 AAACACTGCGTTTTGGTTAAGATATTTTGCGGCGC
99493396 ATTGTGGTAA
Statistics
Matches: 449, Mismatches: 83, Indels: 43
0.78 0.14 0.07
Matches are distributed among these distances:
111 1 0.00
112 48 0.11
113 175 0.39
114 164 0.37
115 61 0.14
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (112 bp):
GCTATTACTATTCTTTAACGGCGTTTACCGTAAGCGCCACTAATTTTATATACATCAAGACAAAA
CACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:99493300 original size:227 final size:227
Alignment explanation
Indices: 99492729--99493281 Score: 680
Period size: 227 Copynumber: 2.4 Consensus size: 227
99492719 ATATTTTGCT
* * * * * * *
99492729 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
99492794 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * ** * *
99492859 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
131 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
*
99492924 AAGATATTTTGCGGCGCTTCTCACAAAGCGCC
196 AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * *
99492956 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
* * *
99493021 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * * * *
99493086 AGCGGCGTTTGACCTTATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGC
131 AACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGC
* *
99493151 TTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
194 TTAAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * *
99493184 GCTATTACTGTACTTTAACGGC-GTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGA-C
1 GCTATTAATATACTTTAACGGCGGTTTACC-ATAAACGCCACTAATT-TAAGATACATCAAGATC
* * * *
99493247 CAAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCG
64 AAAACACTGCGTTTTTGTTAAGATATTTTGCGGCG
99493282 TTTCCAGAAA
Statistics
Matches: 287, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
227 143 0.50
228 73 0.25
229 71 0.25
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (227 bp):
GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:99495809 original size:20 final size:20
Alignment explanation
Indices: 99495784--99495823 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99495774 GCCCGAAATT
* *
99495784 GTTTAAAATGCCTTAAATGA
1 GTTTAAAATGACTGAAATGA
*
99495804 GTTTAATATGACTGAAATGA
1 GTTTAAAATGACTGAAATGA
99495824 AGTGCAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
GTTTAAAATGACTGAAATGA
Found at i:99496226 original size:16 final size:19
Alignment explanation
Indices: 99496189--99496226 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
99496179 GATTTAAAAC
99496189 AATAATGATGATGAGATTA
1 AATAATGATGATGAGATTA
99496208 AATAATG-TGAT-AG-TTA
1 AATAATGATGATGAGATTA
99496224 AAT
1 AAT
99496227 TAAAGTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 4 0.21
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (19 bp):
AATAATGATGATGAGATTA
Found at i:99497139 original size:36 final size:36
Alignment explanation
Indices: 99497099--99497171 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
99497089 CAAATTCAAG
99497099 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
1 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
99497135 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
1 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
99497171 T
1 T
99497172 CATTTGGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (36 bp):
TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
Found at i:99499404 original size:15 final size:17
Alignment explanation
Indices: 99499384--99499415 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
99499374 AGGTATAATA
99499384 AAATAT-TAAAA-AAAT
1 AAATATATAAAAGAAAT
99499399 AAATATATAAAAGAAAT
1 AAATATATAAAAGAAAT
99499416 GAGACACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATATATAAAAGAAAT
Found at i:99499712 original size:19 final size:18
Alignment explanation
Indices: 99499683--99499718 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
99499673 GAGACGTTAA
*
99499683 TAGTTTTTAAATAAATTT
1 TAGTTTTTAAAAAAATTT
99499701 TAGTTATTTAAAAAAATT
1 TAGTT-TTTAAAAAAATT
99499719 CTCATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TAGTTTTTAAAAAAATTT
Found at i:99499766 original size:21 final size:21
Alignment explanation
Indices: 99499737--99499787 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
99499727 TTTTAATCAA
* *
99499737 TTTTAATAATTTTC-TATAATG
1 TTTTTATAATTCTCATA-AATG
*
99499758 TTTTTATAATTCTCATAAATT
1 TTTTTATAATTCTCATAAATG
99499779 TTTTTATAA
1 TTTTTATAA
99499788 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTATAATTCTCATAAATG
Found at i:99504655 original size:23 final size:21
Alignment explanation
Indices: 99504612--99504650 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
99504602 AAAAATACTA
*
99504612 AAAAATCATAAAAAATTATTT
1 AAAAATCATAAAAAATAATTT
*
99504633 AAAAATC-TAATAAATAAT
1 AAAAATCATAAAAAATAAT
99504651 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATCATAAAAAATAATTT
Found at i:99504736 original size:20 final size:20
Alignment explanation
Indices: 99504713--99504777 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
99504703 AGATTTTATA
99504713 AAAATTATAAAAAAAG-TAT
1 AAAATTATAAAAAAAGATAT
* **
99504732 CAAAAGTTATTAAAATTGATAT
1 -AAAA-TTATAAAAAAAGATAT
* *
99504754 AAACTTATAAAAAAATATAT
1 AAAATTATAAAAAAAGATAT
99504774 AAAA
1 AAAA
99504778 GTTTAAATTG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 19 0.56
21 12 0.35
22 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAATTATAAAAAAAGATAT
Found at i:99504862 original size:46 final size:46
Alignment explanation
Indices: 99504795--99504887 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
99504785 TTGGATCGGA
99504795 TTAGTTGGTTGGACAGATTAGATTGAAATTGACAAGGGTATTTGTG
1 TTAGTTGGTTGGACAGATTAGATTGAAATTGACAAGGGTATTTGTG
99504841 TTAGTTGGTTGGACAGATTAGATTGAAATTGACAAGGGTATTTGTG
1 TTAGTTGGTTGGACAGATTAGATTGAAATTGACAAGGGTATTTGTG
99504887 T
1 T
99504888 GGAGAAAGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (46 bp):
TTAGTTGGTTGGACAGATTAGATTGAAATTGACAAGGGTATTTGTG
Found at i:99505117 original size:14 final size:14
Alignment explanation
Indices: 99505098--99505127 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99505088 TTTTAGTTTG
*
99505098 ATAAAAATAATAAA
1 ATAAAAATAAAAAA
99505112 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
99505126 AT
1 AT
99505128 GGTTCAATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:99505240 original size:20 final size:20
Alignment explanation
Indices: 99505215--99505271 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
99505205 CAGTCCAGTT
*
99505215 TAAGTTTTTATAATTTTTTA
1 TAAGTTTTTATAATTTTTAA
*
99505235 TAAGTTTATATCAA-TTTTAA
1 TAAGTTTTTAT-AATTTTTAA
99505255 T-A-TTTTTATAATTTTTA
1 TAAGTTTTTATAATTTTTA
99505272 TTGCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 11 0.34
19 1 0.03
20 16 0.50
21 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
TAAGTTTTTATAATTTTTAA
Found at i:99505268 original size:9 final size:9
Alignment explanation
Indices: 99505219--99505396 Score: 91
Period size: 9 Copynumber: 19.0 Consensus size: 9
99505209 CCAGTTTAAG
99505219 TTTTTATAA
1 TTTTTATAA
99505228 TTTTTTATAA
1 -TTTTTATAA
*
99505238 GTTTATATCAA
1 -TTTTTAT-AA
*
99505249 TTTTAAT-A
1 TTTTTATAA
99505257 TTTTTATAA
1 TTTTTATAA
*
99505266 TTTTTATTGCA
1 TTTTTA-T-AA
99505277 TTTTTA-AGA
1 TTTTTATA-A
* *
99505286 CTTCTAATACA
1 -TTTTTATA-A
99505297 TTTTT-TAA
1 TTTTTATAA
*
99505305 -ATTTA-AA
1 TTTTTATAA
*
99505312 TATTTTAAATCA
1 T-TTTT--ATAA
99505324 TTTTTATAA
1 TTTTTATAA
*
99505333 ATTTTATAA
1 TTTTTATAA
99505342 TTTATTATAA
1 TTT-TTATAA
99505352 TTTGTTAT-A
1 TTT-TTATAA
99505361 TTTATTAT-A
1 TTT-TTATAA
99505370 TTTTTATAA
1 TTTTTATAA
*
99505379 TATTTATAA
1 TTTTTATAA
*
99505388 TTTTAATAA
1 TTTTTATAA
99505397 GTTCATATCA
Statistics
Matches: 130, Mismatches: 23, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
7 5 0.04
8 12 0.09
9 54 0.42
10 41 0.32
11 16 0.12
12 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:99505351 original size:19 final size:17
Alignment explanation
Indices: 99505323--99505465 Score: 71
Period size: 18 Copynumber: 8.1 Consensus size: 17
99505313 ATTTTAAATC
99505323 ATTTTTATAAATTTTATA
1 ATTTTTAT-AATTTTATA
99505341 ATTTATTATAATTTGT-TA
1 ATTT-TTATAATTT-TATA
*
99505359 TATTTATTATATTTTTATA
1 -ATTT-TTATAATTTTATA
*
99505378 ATATTTATAATTTTAATA
1 ATTTTTATAATTTT-ATA
**
99505396 AGTTCATATCAATTTTA-A
1 A-TTTTTAT-AATTTTATA
* *
99505414 CATATTT-TAATATT-TA
1 -ATTTTTATAATTTTATA
* *
99505430 ATATTTATAGTTTTATA
1 ATTTTTATAATTTTATA
* *
99505447 TTTTTTTATGATTTT-TA
1 -ATTTTTATAATTTTATA
99505464 AT
1 AT
99505466 ATTATATTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
15 6 0.06
16 12 0.12
17 14 0.15
18 32 0.33
19 26 0.27
20 6 0.06
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTTTTATAATTTTATA
Found at i:99505385 original size:17 final size:18
Alignment explanation
Indices: 99505334--99505392 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
99505324 TTTTTATAAA
99505334 TTTTATAATTTATTATAAT
1 TTTTATAATTTATTAT-AT
99505353 TTGTTAT-ATTTATTATAT
1 TT-TTATAATTTATTATAT
* *
99505371 TTTTATAATAT-TTATAA
1 TTTTATAATTTATTATAT
99505388 TTTTA
1 TTTTA
99505393 ATAAGTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 14 0.39
18 7 0.19
19 11 0.31
20 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTATTATAT
Found at i:99506055 original size:15 final size:15
Alignment explanation
Indices: 99506035--99506066 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99506025 GTTTTGGTGC
*
99506035 TGTTTTGTTGTTGTT
1 TGTTTTGTTATTGTT
99506050 TGTTTTGTTATTGTT
1 TGTTTTGTTATTGTT
99506065 TG
1 TG
99506067 CTACTGTTTT
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:0.03, C:0.00, G:0.25, T:0.72
Consensus pattern (15 bp):
TGTTTTGTTATTGTT
Found at i:99506110 original size:23 final size:23
Alignment explanation
Indices: 99506057--99506110 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
99506047 GTTTGTTTTG
* *
99506057 TTATTGTTTGCTACTGTTTTGCTC
1 TTATT-TTTGCTACTGTATTGCTA
* *
99506081 TTTTTTTTGCTATTGTATTGCTA
1 TTATTTTTGCTACTGTATTGCTA
99506104 TTATTTT
1 TTATTTT
99506111 ATTGTTATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.11, C:0.11, G:0.13, T:0.65
Consensus pattern (23 bp):
TTATTTTTGCTACTGTATTGCTA
Found at i:99506149 original size:30 final size:31
Alignment explanation
Indices: 99506096--99506170 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
99506086 TTTGCTATTG
*
99506096 TATTGCTATTATTTTATTGTTATTGTTAAGA
1 TATTGCTATAATTTTATTGTTATTGTTAAGA
99506127 TATT-CTATAATTCTTATT-TTATTGTT-A-A
1 TATTGCTATAATT-TTATTGTTATTGTTAAGA
* *
99506155 TTTTGCTATTATTTTA
1 TATTGCTATAATTTTA
99506171 GAAGCATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 7 0.18
29 8 0.21
30 15 0.38
31 9 0.23
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.61
Consensus pattern (31 bp):
TATTGCTATAATTTTATTGTTATTGTTAAGA
Found at i:99507109 original size:21 final size:23
Alignment explanation
Indices: 99507078--99507119 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
99507068 GAAAAAAAAA
*
99507078 ATTTAAAATTATG-ATATTTTGG
1 ATTTAAAATTAAGTATATTTTGG
99507100 ATTT-AAATTAAGTATATTTT
1 ATTTAAAATTAAGTATATTTT
99507120 ACTTTTGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
ATTTAAAATTAAGTATATTTTGG
Found at i:99507296 original size:11 final size:11
Alignment explanation
Indices: 99507276--99507307 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
99507266 AACATTAATT
*
99507276 ATAAAAATTAA
1 ATAAATATTAA
99507287 ATAAATATTAA
1 ATAAATATTAA
99507298 ATAAATATTA
1 ATAAATATTA
99507308 CATTGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAAATATTAA
Found at i:99507421 original size:13 final size:13
Alignment explanation
Indices: 99507400--99507430 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
99507390 GAAAATAAAT
99507400 AAAAGAATGAAAG
1 AAAAGAATGAAAG
*
99507413 AAAATAATGAAAG
1 AAAAGAATGAAAG
99507426 AAAAG
1 AAAAG
99507431 GGGACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (13 bp):
AAAAGAATGAAAG
Found at i:99511833 original size:17 final size:17
Alignment explanation
Indices: 99511811--99511858 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
99511801 GAAATATTTA
99511811 TTTTAATTTTTTAGTAT
1 TTTTAATTTTTTAGTAT
* *
99511828 TTTTAATGTATTA-TAT
1 TTTTAATTTTTTAGTAT
99511844 TTTT-ATTTTTT-GTAT
1 TTTTAATTTTTTAGTAT
99511859 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTTTAGTAT
Found at i:99516979 original size:21 final size:21
Alignment explanation
Indices: 99516955--99516997 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
99516945 TTATTTATTT
99516955 AAATAATAAT-TGTATAAATAA
1 AAATAATAATCT-TATAAATAA
99516976 AAATAATAATCTTATAAATAA
1 AAATAATAATCTTATAAATAA
99516997 A
1 A
99516998 CAATTCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATAATAATCTTATAAATAA
Found at i:99518601 original size:10 final size:10
Alignment explanation
Indices: 99518586--99518624 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
99518576 ATTTAAGTTA
99518586 TAAATTATAT
1 TAAATTATAT
99518596 TAAATTATAT
1 TAAATTATAT
*
99518606 TATATTTAGTAT
1 TA-AATTA-TAT
99518618 TAAATTA
1 TAAATTA
99518625 AGTAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 8 0.32
12 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
TAAATTATAT
Found at i:99518609 original size:22 final size:22
Alignment explanation
Indices: 99518583--99518624 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
99518573 TTTATTTAAG
99518583 TTATAAATTA-TATTAAATTATA
1 TTAT-AATTAGTATTAAATTATA
*
99518605 TTATATTTAGTATTAAATTA
1 TTATAATTAGTATTAAATTA
99518625 AGTAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATAATTAGTATTAAATTATA
Found at i:99518815 original size:21 final size:21
Alignment explanation
Indices: 99518789--99518829 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
99518779 AAATAAAAGA
*
99518789 AAAAGAATAAAGAAAAGAAAC
1 AAAAGAACAAAGAAAAGAAAC
99518810 AAAAGAACAAAGAAAAGAAA
1 AAAAGAACAAAGAAAAGAAA
99518830 ACAGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAGAACAAAGAAAAGAAAC
Found at i:99520373 original size:21 final size:21
Alignment explanation
Indices: 99520323--99520375 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
99520313 TATGTATCGT
99520323 ATTTCAGGCACCTCGTGTGCC
1 ATTTCAGGCACCTCGTGTGCC
* * *
99520344 GTATCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCGTGTGCC
*
99520365 ATTTTAGGCAC
1 ATTTCAGGCAC
99520376 TTTATGTGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
ATTTCAGGCACCTCGTGTGCC
Found at i:99526017 original size:51 final size:49
Alignment explanation
Indices: 99525941--99526041 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 49
99525931 TTAGAAGTGC
99525941 ATGCATGATTTATTGGTCACCAGATACGGATAGAGTCCGTAGGACTTGCTA
1 ATGCATGATTTATTGGTCACCAGATACGGAT--AGTCCGTAGGACTTGCTA
*
99525992 ATGCATGATTTATTGGTCACCAGATACGGATAGTCTGTAGGACTTGCTA
1 ATGCATGATTTATTGGTCACCAGATACGGATAGTCCGTAGGACTTGCTA
99526041 A
1 A
99526042 CTGATATTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 18 0.37
51 31 0.63
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
ATGCATGATTTATTGGTCACCAGATACGGATAGTCCGTAGGACTTGCTA
Found at i:99527874 original size:22 final size:22
Alignment explanation
Indices: 99527849--99527893 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99527839 TTTAATAAAG
99527849 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
99527871 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
99527893 A
1 A
99527894 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:99531649 original size:22 final size:22
Alignment explanation
Indices: 99531624--99531674 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
99531614 TTTAATAAAG
99531624 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
99531646 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
99531668 ACAATAT
1 AAAATAT
99531675 GTAAACTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:99538050 original size:11 final size:12
Alignment explanation
Indices: 99538036--99538069 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
99538026 TTTAACTTTT
99538036 AAAAAATTATTA
1 AAAAAATTATTA
99538048 AAATAAATT-TTA
1 AAA-AAATTATTA
99538060 AAAAAATTAT
1 AAAAAATTAT
99538070 GTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 10 0.50
13 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:99541042 original size:5 final size:5
Alignment explanation
Indices: 99541029--99541058 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
99541019 TAGTGTACAG
*
99541029 ACAAC ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
99541059 TGCCCCCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (5 bp):
ACAAT
Found at i:99548620 original size:33 final size:33
Alignment explanation
Indices: 99548578--99548643 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
99548568 CCAAATGATA
99548578 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
1 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
99548611 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
1 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
99548644 TAATGCATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
Found at i:99549630 original size:26 final size:24
Alignment explanation
Indices: 99549596--99549644 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
99549586 TAAATAAAAA
* *
99549596 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
99549622 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
99549645 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:99551604 original size:24 final size:23
Alignment explanation
Indices: 99551554--99551604 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
99551544 ATCTCAATTT
*
99551554 TATTGATGAAAATTTAAATTTAT
1 TATTGATGAAAATTTAAATTTAA
* * *
99551577 TATTAGATTAAAATTTTATTTTAA
1 TATT-GATGAAAATTTAAATTTAA
99551601 TATT
1 TATT
99551605 TTTTATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TATTGATGAAAATTTAAATTTAA
Found at i:99553813 original size:25 final size:24
Alignment explanation
Indices: 99553757--99553815 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
99553747 TAAGTAGAAA
*
99553757 ATAAACAAATAATCATATTTATATT
1 ATAAA-AAATAATCATATTTATACT
* * *
99553782 CTCAAAAATATTCATATTTTATACT
1 ATAAAAAATAATCATA-TTTATACT
99553807 ATAAAAAAT
1 ATAAAAAAT
99553816 TTATTACAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAAATAATCATATTTATACT
Found at i:99554624 original size:17 final size:17
Alignment explanation
Indices: 99554592--99554624 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99554582 TGCACATATT
99554592 AAATAAAATTTCATTTG
1 AAATAAAATTTCATTTG
99554609 AAATGAAAATTT-ATTT
1 AAAT-AAAATTTCATTT
99554625 CAACCAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAAAATTTCATTTG
Found at i:99559305 original size:42 final size:42
Alignment explanation
Indices: 99559211--99559306 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
99559201 GGAAATCTGT
** * * *
99559211 AAGGGTTAAAAAGAAGCTCATAAGAGCTGAATGGAAACGCAT
1 AAGGGTTAAACTGAAGCTCAAAAGAGCTGAATGGAAACCCAG
*
99559253 AAGGGTTAAACTGAAGCTCAAAAGAGCTTAA-GTGAAACCCAG
1 AAGGGTTAAACTGAAGCTCAAAAGAGCTGAATG-GAAACCCAG
99559295 AAGGGTTAAACT
1 AAGGGTTAAACT
99559307 AAAACTCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (42 bp):
AAGGGTTAAACTGAAGCTCAAAAGAGCTGAATGGAAACCCAG
Found at i:99561227 original size:31 final size:29
Alignment explanation
Indices: 99561192--99561252 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
99561182 TTAATGATCG
99561192 AATTACATATCCCAAAATAATTTGTTGCCAA
1 AATTACA-A-CCCAAAATAATTTGTTGCCAA
* * *
99561223 AATTACAACTCAAGATAATTTGTTGTCAA
1 AATTACAACCCAAAATAATTTGTTGCCAA
99561252 A
1 A
99561253 TTTTACCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 1 0.04
31 7 0.26
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (29 bp):
AATTACAACCCAAAATAATTTGTTGCCAA
Found at i:99561243 original size:29 final size:31
Alignment explanation
Indices: 99561208--99561266 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
99561198 ATATCCCAAA
99561208 ATAATTTGTTGCCAAA-ATTA-CAACTCAAG
1 ATAATTTGTTGCCAAATATTACCAACTCAAG
* *
99561237 ATAATTTGTTGTCAAATTTTACCAACTCAA
1 ATAATTTGTTGCCAAATATTACCAACTCAA
99561267 ACATGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 3 0.12
31 8 0.31
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (31 bp):
ATAATTTGTTGCCAAATATTACCAACTCAAG
Found at i:99566568 original size:10 final size:10
Alignment explanation
Indices: 99566553--99566577 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
99566543 TCAAGTTTTA
99566553 TTTTTTCTGT
1 TTTTTTCTGT
99566563 TTTTTTCTGT
1 TTTTTTCTGT
99566573 TTTTT
1 TTTTT
99566578 GTAGTGGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTCTGT
Found at i:99572736 original size:16 final size:15
Alignment explanation
Indices: 99572711--99572744 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
99572701 GTTAAAAATT
*
99572711 TATATGTTATATTATA
1 TATATATTATATT-TA
99572727 TATATATTATATTTA
1 TATATATTATATTTA
99572742 TAT
1 TAT
99572745 GTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATATATTATATTTA
Found at i:99574621 original size:13 final size:13
Alignment explanation
Indices: 99574603--99574627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99574593 AGTATATTAA
99574603 TAAAATATTAAAG
1 TAAAATATTAAAG
99574616 TAAAATATTAAA
1 TAAAATATTAAA
99574628 ATATAAAATT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAATATTAAAG
Found at i:99578626 original size:21 final size:21
Alignment explanation
Indices: 99578612--99578689 Score: 102
Period size: 21 Copynumber: 3.6 Consensus size: 21
99578602 GACACATAAA
99578612 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
99578633 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
99578654 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
99578675 GTGCCTGAAATACGA
1 GTGCCT-AAA-ACGA
99578690 AACATAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 46 0.90
22 1 0.02
23 4 0.08
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.14
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:99578658 original size:42 final size:42
Alignment explanation
Indices: 99578598--99578703 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
99578588 CCTGATCAGT
*
99578598 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* * * *
99578640 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* *
99578682 AAATACGAAACATAAAGTGCCT
1 --ATACGACACACAAAGTGCCT
99578704 GATCAGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 37 0.70
44 16 0.30
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
Found at i:99584122 original size:17 final size:17
Alignment explanation
Indices: 99584102--99584135 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99584092 AGGTTTAGGT
99584102 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
99584119 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
99584136 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:99585231 original size:13 final size:15
Alignment explanation
Indices: 99585199--99585231 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
99585189 TATCTAAATA
99585199 TTTTAAGAAATTACT
1 TTTTAAGAAATTACT
99585214 TTTTAA-AAATTA-T
1 TTTTAAGAAATTACT
99585227 TTTTA
1 TTTTA
99585232 GTGAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTAAGAAATTACT
Found at i:99588647 original size:39 final size:39
Alignment explanation
Indices: 99588592--99588727 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
99588582 GTGATCTGAA
* * * *
99588592 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGATG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
*
99588631 CCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
*
99588670 CTCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
*
99588709 CACGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
99588728 TCATCAGAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.14
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
Found at i:99593013 original size:4 final size:4
Alignment explanation
Indices: 99593004--99593094 Score: 182
Period size: 4 Copynumber: 22.8 Consensus size: 4
99592994 AACAATCTTA
99593004 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
99593052 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
99593095 ATTGAACTCG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 87 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:99597876 original size:5 final size:5
Alignment explanation
Indices: 99597866--99597890 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99597856 ATAAAAATGT
99597866 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
99597891 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:99601951 original size:25 final size:25
Alignment explanation
Indices: 99601923--99601973 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
99601913 CTAGGTAAGG
99601923 TTCCTTCTCCTTCTTCCATTCTTCA
1 TTCCTTCTCCTTCTTCCATTCTTCA
* * *
99601948 TTCCTTTTCTTTCTTCCGTTCTTCA
1 TTCCTTCTCCTTCTTCCATTCTTCA
99601973 T
1 T
99601974 ATTCTTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.06, C:0.35, G:0.02, T:0.57
Consensus pattern (25 bp):
TTCCTTCTCCTTCTTCCATTCTTCA
Found at i:99604283 original size:22 final size:22
Alignment explanation
Indices: 99604258--99604299 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
99604248 AGCTTTAGTC
*
99604258 ATGTATTAGTGGGAGCAGTTAT
1 ATGTATTAGTAGGAGCAGTTAT
99604280 ATGTATTAGTAGGAGCAGTT
1 ATGTATTAGTAGGAGCAGTT
99604300 TTACATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.36
Consensus pattern (22 bp):
ATGTATTAGTAGGAGCAGTTAT
Found at i:99604614 original size:18 final size:19
Alignment explanation
Indices: 99604591--99604634 Score: 72
Period size: 18 Copynumber: 2.3 Consensus size: 19
99604581 ATTCAAACAC
99604591 CAGAAAAGTAAAT-ATTTT
1 CAGAAAAGTAAATCATTTT
99604609 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
99604628 CTAGAAA
1 C-AGAAA
99604635 TTATTTTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.54
19 6 0.25
20 5 0.21
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTT
Found at i:99608309 original size:16 final size:16
Alignment explanation
Indices: 99608290--99608340 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
99608280 GTTGGGTTAG
99608290 TTTCAAGTTCGAGTCA
1 TTTCAAGTTCGAGTCA
* * *
99608306 TTTCGAGTTTGAATCA
1 TTTCAAGTTCGAGTCA
*
99608322 TTTCATGTTCGAGTCA
1 TTTCAAGTTCGAGTCA
99608338 TTT
1 TTT
99608341 AGGTTTGGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (16 bp):
TTTCAAGTTCGAGTCA
Found at i:99608547 original size:19 final size:18
Alignment explanation
Indices: 99608501--99608557 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
99608491 TTAATTTTAA
99608501 AATAAAATTATATTAAAGTG
1 AATAAAATTAT-TTAAA-TG
99608521 AA-ACAAATTATTTAAATG
1 AATA-AAATTATTTAAATG
99608539 AGATAAAATTATTATAAAT
1 A-ATAAAATTATT-TAAAT
99608558 TTAATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 15 0.45
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (18 bp):
AATAAAATTATTTAAATG
Found at i:99612378 original size:80 final size:80
Alignment explanation
Indices: 99612243--99612486 Score: 398
Period size: 80 Copynumber: 3.0 Consensus size: 80
99612233 AAGAGAAATG
99612243 GACTCCTGGAGAGGTAAAGGACTTCAATTATATGCTAATATATCTATTTATATTTTAAGATTGAG
1 GACTCCTGGAGAGGTAAAGGACTTCAA-TATATGCTAATATATCTATTTATATTTTAAGATTGAG
99612308 TTAGAATCACTAGATC
65 TTAGAATCACTAGATC
99612324 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
1 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
99612389 TAGAATCACTAGATC
66 TAGAATCACTAGATC
* **
99612404 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATACATATATATATATATATACTAAGATT
1 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAAT--ATATCTAT-T-TATATTTTAAGATT
* *
99612469 GAGTTAGGATTACTAGAT
62 GAGTTAGAATCACTAGAT
99612487 TTCAAGTAGC
Statistics
Matches: 154, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
80 91 0.59
81 27 0.18
82 7 0.05
83 1 0.01
84 28 0.18
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (80 bp):
GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
TAGAATCACTAGATC
Found at i:99619919 original size:33 final size:33
Alignment explanation
Indices: 99619877--99619942 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
99619867 CTCCCTCATA
*
99619877 TTTTTTTGGTATGCTCTCATAAATTTTGGCATG
1 TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
*
99619910 TTTTTTTGGTATGTTCTCATAAACTTTGGCATG
1 TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
99619943 CTTTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (33 bp):
TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
Found at i:99623502 original size:31 final size:32
Alignment explanation
Indices: 99623464--99623543 Score: 153
Period size: 31 Copynumber: 2.5 Consensus size: 32
99623454 TATAAAATCA
99623464 AATGGAGTAATTTCTTGCACTTTTAT-CCACT
1 AATGGAGTAATTTCTTGCACTTTTATCCCACT
99623495 AATGGAGTAATTTCTTGCACTTTTATCCCACT
1 AATGGAGTAATTTCTTGCACTTTTATCCCACT
99623527 AATGGAGTAATTTCTTG
1 AATGGAGTAATTTCTTG
99623544 AAAAAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (32 bp):
AATGGAGTAATTTCTTGCACTTTTATCCCACT
Found at i:99623901 original size:19 final size:20
Alignment explanation
Indices: 99623877--99623916 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
99623867 GACTTCAGTC
99623877 TGCAGAACAAAG-AATCATA
1 TGCAGAACAAAGCAATCATA
*
99623896 TGCAGACCAAAGCAATCATA
1 TGCAGAACAAAGCAATCATA
99623916 T
1 T
99623917 TCTACCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (20 bp):
TGCAGAACAAAGCAATCATA
Found at i:99626321 original size:17 final size:17
Alignment explanation
Indices: 99626294--99626334 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
99626284 AATTCAATGC
99626294 ATAAA-AAATAA-AAATA
1 ATAAATAAATAACAAA-A
*
99626310 ATAAATAAATAACTAAA
1 ATAAATAAATAACAAAA
99626327 ATAAATAA
1 ATAAATAA
99626335 TTGTACCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAATAAATAACAAAA
Found at i:99627474 original size:38 final size:38
Alignment explanation
Indices: 99627423--99627497 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
99627413 ACAAGGCATT
99627423 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
1 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
*
99627461 ACCTAAACCAATCTCAAGTCACCGAGACTCAATTCAA
1 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAA
99627498 TCTTAAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.19
Consensus pattern (38 bp):
ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
Found at i:99628860 original size:47 final size:45
Alignment explanation
Indices: 99628786--99629049 Score: 207
Period size: 47 Copynumber: 5.7 Consensus size: 45
99628776 TGGGTAAGGT
*
99628786 GCCGATGCTATGTCCCAGACATAGTCTTACACTGGCACAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACT-G-ACATCATCTCAA
* *
99628833 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGAC-ATCATCTC-AA
* *
99628881 GCCGATG-CATGTCCCAGACATGTCTTACACTGACTTACGA-CTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGACAT-C-ATCTC-AA
* * * *
99628927 GCTGAT-ACATGTCCCAGACATGTCTTACACTAGTTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACT-G-ACATCATCTCAA
* * * * ***
99628972 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACTGAC-ATCAT-CTCAA
99629021 GCCGATG-CATGTCCCAGACATGTCTTACA
1 GCCGATGCCATGTCCCAGACATGTCTTACA
99629050 TTAGCTCACA
Statistics
Matches: 180, Mismatches: 22, Indels: 31
0.77 0.09 0.13
Matches are distributed among these distances:
45 4 0.02
46 68 0.38
47 79 0.44
48 28 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACATCATCTCAA
Found at i:99629041 original size:94 final size:92
Alignment explanation
Indices: 99628786--99629049 Score: 236
Period size: 94 Copynumber: 2.8 Consensus size: 92
99628776 TGGGTAAGGT
* * * *
99628786 GCCGATGCTATGTCCCAGACATAGTCTTACACTGGC--AC-ATATCTCAAGTCGATGCCATGTCC
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACTTACGA-ATC-GAGGCCGATG-CATGTCC
*
99628848 CAGACATGGTCTTACACTGACTATCATCTCGTA
61 CAGACAT-GTCTTACACTGACTATCATCTCATA
* * *
99628881 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCGAGGCTGATACATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGAATCGAGGCCGATGCATGTCCCAGAC
* * *
99628946 ATGTCTTACACT-AGTTCTCGTCTCA-A
66 ATGTCTTACACTGA-CTATCATCTCATA
* * * *
99628972 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-TAC-GAATCGAGGCCGATGCATGTCC
99629035 CAGACATGTCTTACA
61 CAGACATGTCTTACA
99629050 TTAGCTCACA
Statistics
Matches: 142, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
91 2 0.01
92 24 0.17
93 39 0.27
94 61 0.43
95 15 0.11
96 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGAATCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGACTATCATCTCATA
Found at i:99629047 original size:140 final size:140
Alignment explanation
Indices: 99628795--99629049 Score: 372
Period size: 140 Copynumber: 1.8 Consensus size: 140
99628785 TGCCGATGCT
* *
99628795 ATGTCCCAGACATAGTCTTACACTGGCACATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAGACATAGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
*
99628860 TACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
66 TACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
99628925 AGGCTGATAC
131 AGGCTGATAC
** * *
99628935 ATGTCCCAGACAT-GTCTTACACTAGTTC-TCGTCTCAATGCCGATGCCATGTCCTAGACATGGT
1 ATGTCCCAGACATAGTCTTACACTAGCACAT-ATCTCAA-GCCGATGCCATGTCCCAGACATGGT
* * *
99628998 CTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACA
64 CTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACA
99629050 TTAGCTCACA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 82 0.80
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
ATGTCCCAGACATAGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
AGGCTGATAC
Found at i:99631030 original size:29 final size:24
Alignment explanation
Indices: 99630969--99631016 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99630959 GAAAGTTGTG
99630969 CTAAAACTTAACTTTGTTCCCAAT
1 CTAAAACTTAACTTTGTTCCCAAT
99630993 CTAAAACTTAACTTTGTTCCCAAT
1 CTAAAACTTAACTTTGTTCCCAAT
99631017 GCCTATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (24 bp):
CTAAAACTTAACTTTGTTCCCAAT
Found at i:99635971 original size:47 final size:47
Alignment explanation
Indices: 99635902--99636163 Score: 245
Period size: 46 Copynumber: 5.6 Consensus size: 47
99635892 CCGATACTAA
*
99635902 GTCCCAGACATAGTCTTACACTGGCTCA-TATCTC-AAGTCGATGCCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCACTATCTCGAAGCCGATG-CAT
* * * *
99635949 GTCCCAGACATGGTCTTACACTGACT-ATTATCTCGTAGCCGATGTAT
1 GTCCCAGACAT-GTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
* * * *
99635996 GTCCCAGACATGTCTTACACTGACTTACGA-CTCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
* *
99636042 GTCCCAGACATGTCTTACACTAGCTC-TTATCTC-AATGCCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAA-GCCGATG-CAT
* * *
99636089 GTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G--GCCGATTCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCAC-T-ATCTCGAAGCCGATGCAT
* *
99636136 GTCCCAGACATGCCTTACACTAGCTCAC
1 GTCCCAGACATGTCTTACACTGGCTCAC
99636164 ACTCAAATGA
Statistics
Matches: 181, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.01
46 75 0.41
47 73 0.40
48 27 0.15
50 1 0.01
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
Found at i:99636143 original size:94 final size:92
Alignment explanation
Indices: 99635940--99636161 Score: 263
Period size: 94 Copynumber: 2.4 Consensus size: 92
99635930 TATCTCAAGT
* * *
99635940 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATTATCTCGTAGCCGATGTATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTTATCTCATAGCCGATGCATGTCCCAGA
*
99636004 CATGTCTTACACTGACTTACGACTCGAGGC
63 CATGTCTTACACTGACTTACGAATCGAGGC
99636034 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCA-ATGCCGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCATA-GCCGATG-CATGTCCCAGAC
* * *
99636098 ATGGTCTTACACTGGCTCT-CATAAT-GTGGC
64 AT-GTCTTACACTGACT-TAC-GAATCGAGGC
* *
99636128 CGATTCATGTCCCAGACATGCCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
99636162 ACACTCAAAT
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
91 1 0.01
92 26 0.23
93 28 0.25
94 55 0.49
95 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTTACGAATCGAGGC
Found at i:99636154 original size:140 final size:140
Alignment explanation
Indices: 99635902--99636156 Score: 381
Period size: 140 Copynumber: 1.8 Consensus size: 140
99635892 CCGATACTAA
* *
99635902 GTCCCAGACATAGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTA
1 GTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTCTTA
* * *
99635967 CACTGACTATTATCTCGTAGCCGATGTATGTCCCAGACATGTCTTACACTGACTTACGACTCGAG
66 CACTGACTATCATATCGTAGCCGATGTATGTCCCAGACATGCCTTACACTGACTTACGACTCGAG
99636032 GCCGATGCAT
131 GCCGATGCAT
*
99636042 GTCCCAGACAT-GTCTTACACTAGCTCTTATCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
1 GTCCCAGACATAGTCTTACACTAGCTCATATCTCAA-GCCGATGCCATGTCCCAGACATGGTCTT
* * *
99636106 ACACTGGCTCTCATAAT-GTGGCCGAT-TCATGTCCCAGACATGCCTTACACT
65 ACACTGACTATCAT-ATCGTAGCCGATGT-ATGTCCCAGACATGCCTTACACT
99636157 AGCTCACACT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
139 23 0.22
140 79 0.77
141 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (140 bp):
GTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTCTTA
CACTGACTATCATATCGTAGCCGATGTATGTCCCAGACATGCCTTACACTGACTTACGACTCGAG
GCCGATGCAT
Found at i:99636587 original size:30 final size:30
Alignment explanation
Indices: 99636500--99636580 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
99636490 AAATTCACAT
*
99636500 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTGCCCCTAGA
99636530 CTTTGGCAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTGCCCCTAGA
99636560 CTTTGGCAAAATGACCATTTT
1 CTTTGGCAAAATGACCATTTT
99636581 ATCCCTATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTGCCCCTAGA
Found at i:99650750 original size:18 final size:18
Alignment explanation
Indices: 99650723--99650757 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99650713 ACTTGGTTCT
* *
99650723 TCTTCTTCGTCATCTTCG
1 TCTTCATCGTCACCTTCG
99650741 TCTTCATCGTCACCTTC
1 TCTTCATCGTCACCTTC
99650758 ACCCTCGGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.37, G:0.09, T:0.46
Consensus pattern (18 bp):
TCTTCATCGTCACCTTCG
Found at i:99652427 original size:772 final size:772
Alignment explanation
Indices: 99650945--99652476 Score: 2591
Period size: 772 Copynumber: 2.0 Consensus size: 772
99650935 CACTATCGAT
*
99650945 ATATAAGTATATTGTGTCACATACACTTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
1 ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
* *
99651010 CATAATTGACGTATACATCATTTTTTGATACGTCAGTGGCACCAACGTGTAATATGGTAGGGATA
66 CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCAACGTGTAATATGGTAAGGATA
99651075 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAGAAACAGAGAAATATGGTGCTTGTGTA
131 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAGAAACAGAGAAATATGGTGCTTGTGTA
* *
99651140 AAAAAAATAAGCTTAATGAAAGGACTAAAATAAGCCAAGTCATACTAACCGGAGGGTGGTGGTGC
196 AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
* * *
99651205 GACCATCGGTGCCTTTTCTTACGTTGGTGTTGATGATGGACTCACATTGATAGTTACTCTAGACC
261 GACCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGACAGTTACTCTAGACC
* *
99651270 TTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGATGTTGCCTACCCCTCGTCTCCTCCGAT
326 TTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGAT
*
99651335 TATAGATATGGCTTACCATGGTGTCTAAACCATTTCATGTACTCCGGATGGCAGGCTAATTCCCG
391 TATAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCCG
99651400 AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
456 AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
* * * *
99651465 CATGGATTGTAACCCAATTTTCATTAGTTCTGCCTCGCTAGTCTATAATATGCAGATCTTTGATG
521 CATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATAATATGCAGATCTTTGATG
* * *
99651530 TCTTGGGGTGCCGATAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAGATTCGTA
586 TATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAGATTCGTA
*
99651595 CATCTCCACCGTAGCGTACACTACCAATGACACATTTATATGCCAGATATTGGGATTCACTAAGA
651 CATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAAGA
*
99651660 ATTCAGACAGGATGCATGCTTGAATTTTCAAATCGGAGTATGACACATTTATGTTCC
716 ATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACACATTTATGTTCC
* *
99651717 ATATAAGTATATTGTGTCCCATACACCTATGGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
1 ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
* * * * *
99651782 CATGATTGATGTATACATCATTGTTTGATACGTCAGTGGCATCGATGTGTAATATGGTAAGGATA
66 CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCAACGTGTAATATGGTAAGGATA
*
99651847 GATGTGGTGGTCCAAAAATAATACCTAGATACAGTGTAGAAACAGAGAAATATGGTGCTTGTGTA
131 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAGAAACAGAGAAATATGGTGCTTGTGTA
* * * *
99651912 AAAAAAATGAGCTTAATGAAAGCATTAAAATAAGTCAAGTCATACTGACCAGAGGGTGGTGGTGC
196 AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
* *
99651977 -AGCCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACCTTGACAGTTGCTCTAGAC
261 GA-CCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGACAGTTACTCTAGAC
* * *
99652041 CTTGGATTCGTAGGTGCTCATTGTGGTCTCTTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGA
325 CTTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGA
*
99652106 TTGTAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCC
390 TTATAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCC
* * * *
99652171 GAGCGATAATGGATTCGCAATTAGGTATAAAGTCGAACCTATGGTTCTATATGTTGATATATTGT
455 GAGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGT
* ** *
99652236 GCATGGAATGCAACCCAATTTTTTTTAGTTCTCCCTCGCTAGTCGATATTATGCAGATCTTTGAT
520 CCATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATAATATGCAGATCTTTGAT
*
99652301 GTATTGGGGTGCCAACAGAATCGTTTGCCTAAACTTGAACTGCCACGTAACTCTATCAGA-TCTG
585 GTATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAGATTC-G
*
99652365 TACATCTCCACCGTAGCGTACACTACCAAAGACACATTTATGTGCCAGATATTGGGATTCACTAA
649 TACATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAA
*
99652430 GAATTCAGACATGATGCATGCTTGAATTCTCAAATCGGAGTATGACA
714 GAATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACA
99652477 TCCATTCAAA
Statistics
Matches: 709, Mismatches: 49, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
771 3 0.00
772 706 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (772 bp):
ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCAACGTGTAATATGGTAAGGATA
GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAGAAACAGAGAAATATGGTGCTTGTGTA
AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
GACCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGACAGTTACTCTAGACC
TTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGAT
TATAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCCG
AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
CATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATAATATGCAGATCTTTGATG
TATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAGATTCGTA
CATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAAGA
ATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACACATTTATGTTCC
Found at i:99659397 original size:39 final size:39
Alignment explanation
Indices: 99659354--99659491 Score: 136
Period size: 39 Copynumber: 3.5 Consensus size: 39
99659344 ATTCACTTTA
* * *
99659354 AAGCAAACATCACATTACACATATATTCACATAACATTT
1 AAGCAAATATCACAATACTCATATATTCACATAACATTT
**
99659393 AAGCATTTATCACAATACTCATATAATT-ACATAAC-TTT
1 AAGCAAATATCACAATACTCATAT-ATTCACATAACATTT
* * * * *
99659431 CAAGCACATATCGCAATACTTATATAATCACATAACATTC
1 -AAGCAAATATCACAATACTCATATATTCACATAACATTT
* *
99659471 AAGCATATATCGCAATACTCA
1 AAGCAAATATCACAATACTCA
99659492 AAAACATGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
38 5 0.06
39 72 0.88
40 5 0.06
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (39 bp):
AAGCAAATATCACAATACTCATATATTCACATAACATTT
Found at i:99661448 original size:12 final size:12
Alignment explanation
Indices: 99661431--99661469 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
99661421 AATATTTTTG
99661431 TTTTTTATTTAA
1 TTTTTTATTTAA
*
99661443 TTTTTTCTTCTAA
1 TTTTTTATT-TAA
99661456 TTTTTTATTTAA
1 TTTTTTATTTAA
99661468 TT
1 TT
99661470 ACTTCTAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:99667887 original size:21 final size:22
Alignment explanation
Indices: 99667858--99667933 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 22
99667848 TGTTTGGCCC
* *
99667858 ATTTCTTTT-TTTCTTTTTATG
1 ATTTATTTTATTTATTTTTATG
*
99667879 ATTTATTTTATTTATTTTTATT
1 ATTTATTTTATTTATTTTTATG
* * *
99667901 ATATTCTTTATATTTAGTTTTATT
1 AT-TTATTT-TATTTATTTTTATG
99667925 ATTTTATTT
1 A-TTTATTT
99667934 ATTATTATCC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.18
22 12 0.27
23 5 0.11
24 19 0.42
25 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (22 bp):
ATTTATTTTATTTATTTTTATG
Found at i:99667891 original size:9 final size:10
Alignment explanation
Indices: 99667879--99667941 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
99667869 TCTTTTTATG
99667879 ATTTA-TTTT
1 ATTTATTTTT
99667888 ATTTATTTTT
1 ATTTATTTTT
99667898 ATTATATTCTTTAT
1 ATT-TA-T-TTT-T
*
99667912 ATTTAGTTTT
1 ATTTATTTTT
99667922 A-TTA-TTTT
1 ATTTATTTTT
*
99667930 ATTTATTATT
1 ATTTATTTTT
99667940 AT
1 AT
99667942 CCTTACTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
8 5 0.11
9 11 0.24
10 14 0.31
11 5 0.11
12 1 0.02
13 5 0.11
14 4 0.09
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:99667921 original size:24 final size:24
Alignment explanation
Indices: 99667872--99667935 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
99667862 CTTTTTTTCT
* *
99667872 TTTTATGAT-TTATTT-TATTTAT
1 TTTTATTATATTATTTATATTTAG
*
99667894 TTTTATTATATTCTTTATATTTAG
1 TTTTATTATATTATTTATATTTAG
*
99667918 TTTTATTATTTTATTTAT
1 TTTTATTATATTATTTAT
99667936 TATTATCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 8 0.23
23 5 0.14
24 22 0.63
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTATTATATTATTTATATTTAG
Found at i:99667927 original size:33 final size:32
Alignment explanation
Indices: 99667873--99667936 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
99667863 TTTTTTTCTT
99667873 TTTATGATTTATTTTATTTATTTTTATTATATTC
1 TTTATGATTTATTTTATTTA-TTTTATT-TATTC
99667907 TTTAT-ATTTAGTTTTA-TTATTTTATTTATT
1 TTTATGATTTA-TTTTATTTATTTTATTTATT
99667937 ATTATCCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 4 0.14
32 7 0.24
33 8 0.28
34 10 0.34
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (32 bp):
TTTATGATTTATTTTATTTATTTTATTTATTC
Found at i:99674978 original size:45 final size:45
Alignment explanation
Indices: 99674929--99675018 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
99674919 GAAGAATTAA
99674929 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
* *
99674974 AATATTAATTTATTTATAGCCTTAATTCAATGTACAACCATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
99675019 TAAATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.40
Consensus pattern (45 bp):
AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
Found at i:99675588 original size:6 final size:6
Alignment explanation
Indices: 99675577--99675618 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
99675567 ATATATGATG
* * *
99675577 AGATTT AGATTT AGATTT AGATTT AAATTT AAATTT AAATTT
1 AGATTT AGATTT AGATTT AGATTT AGATTT AGATTT AGATTT
99675619 TTATTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (6 bp):
AGATTT
Found at i:99681412 original size:24 final size:24
Alignment explanation
Indices: 99681384--99681434 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
99681374 CTTCTGTGTT
** *
99681384 AAAATCAAGGACTTTTATGAGTAA
1 AAAATCAACCACTTTTATAAGTAA
*
99681408 AAAATCAACCACTTTTGTAAGTAA
1 AAAATCAACCACTTTTATAAGTAA
99681432 AAA
1 AAA
99681435 TTATAGGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (24 bp):
AAAATCAACCACTTTTATAAGTAA
Found at i:99683702 original size:22 final size:21
Alignment explanation
Indices: 99683672--99683736 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
99683662 TACAAATTAA
99683672 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
99683694 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
99683715 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
99683734 ATC
1 ATC
99683737 GAAGATTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 18 0.45
21 10 0.25
22 12 0.30
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:99683724 original size:19 final size:19
Alignment explanation
Indices: 99683689--99683786 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
99683679 AGATTACAAG
99683689 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
99683710 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
99683729 ATCATATCGAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
99683746 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
99683765 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99683784 ATC
1 ATC
99683787 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:99683752 original size:36 final size:37
Alignment explanation
Indices: 99683700--99683786 Score: 131
Period size: 36 Copynumber: 2.3 Consensus size: 37
99683690 TCATATCTTC
99683700 AAGATTGCATATCATATCTAAGATTGCATATCATATCG
1 AAGATTG-ATATCATATCTAAGATTGCATATCATATCG
* *
99683738 AAGATTG-TATCATATCTAATATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATCATATCG
99683774 AAGATTGCATATC
1 AAGATTG-ATATC
99683787 CTTAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 34 0.76
38 11 0.24
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATCATATCG
Found at i:99695979 original size:19 final size:20
Alignment explanation
Indices: 99695947--99695985 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
99695937 TACCTATTTA
99695947 GCCAATTAAAAAAAAAGGGG
1 GCCAATTAAAAAAAAAGGGG
99695967 GCCAATT-AAAAAAAAGGGG
1 GCCAATTAAAAAAAAAGGGG
99695986 CATATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.10, G:0.26, T:0.10
Consensus pattern (20 bp):
GCCAATTAAAAAAAAAGGGG
Found at i:99706260 original size:15 final size:15
Alignment explanation
Indices: 99706237--99706266 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99706227 AAAATTATAA
99706237 CGAAAATAATAAAAT
1 CGAAAATAATAAAAT
*
99706252 CGAAGATAATAAAAT
1 CGAAAATAATAAAAT
99706267 TCAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (15 bp):
CGAAAATAATAAAAT
Found at i:99706317 original size:14 final size:14
Alignment explanation
Indices: 99706292--99706346 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
99706282 AAAAAAATAA
99706292 TTGAAGATTGAAATT
1 TTGAAGATTGAAA-T
*
99706307 TTGAA-ATTGAAAA
1 TTGAAGATTGAAAT
* *
99706320 TTGAACATTTAAAT
1 TTGAAGATTGAAAT
99706334 TTGAAGATTGAAA
1 TTGAAGATTGAAA
99706347 ATATAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 5 0.15
14 24 0.71
15 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (14 bp):
TTGAAGATTGAAAT
Found at i:99706323 original size:28 final size:27
Alignment explanation
Indices: 99706290--99706392 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 27
99706280 TTAAAAAAAT
99706290 AATTGAAGATTGAAATTTTGAAATTGAA
1 AATTGAAGATTGAAA-TTTGAAATTGAA
* *
99706318 AATTGAACATTTAAATTTGAAGATTGAA
1 AATTGAAGATTGAAATTTGAA-ATTGAA
* * *
99706346 AATAT-AAAATTGGAAATTGGAGATTGAA
1 AAT-TGAAGATT-GAAATTTGAAATTGAA
* *
99706374 GATTGAGGATTGAGAATTT
1 AATTGAAGATTGA-AATTT
99706393 AGGAAGGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
27 9 0.15
28 43 0.72
29 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (27 bp):
AATTGAAGATTGAAATTTGAAATTGAA
Found at i:99706353 original size:21 final size:20
Alignment explanation
Indices: 99706290--99706393 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 20
99706280 TTAAAAAAAT
*
99706290 AATTGAAGATTGAAATTTTGA
1 AATTGAAGATTGAAAATTT-A
* *
99706311 AATTGAAAATTGAACATTTA
1 AATTGAAGATTGAAAATTTA
*
99706331 AATTTGAAGATTGAAAATATAA
1 AA-TTGAAGATTGAAAAT-TTA
* * *
99706353 AATTGGAA-ATTGGAGATTGA
1 AATT-GAAGATTGAAAATTTA
* *
99706373 AGATTGAGGATTGAGAATTTA
1 A-ATTGAAGATTGAAAATTTA
99706394 GGAAGGAAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 8 0.12
21 49 0.77
22 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (20 bp):
AATTGAAGATTGAAAATTTA
Found at i:99712029 original size:63 final size:64
Alignment explanation
Indices: 99711945--99712068 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 64
99711935 TTCAAGTCAT
* *
99711945 TTTTCTTTTTCTTTTTCGAGAAAACCA-AATTCACTTCCAAATGATTC-CATTTCTCCATTTTCA
1 TTTTCATTTTCATTTTCGAGAAAACCATAA-TCACTTCCAAATGATTCACATTTCTCCATTTTCA
* * * * *
99712008 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATGTTTCATATTTCTCCATTT
1 TTTTCATTTTCATTTTCGAGAAAACCATAATCACTTCCAAATGATTCACATTTCTCCATTT
99712069 CACAATTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 38 0.73
64 14 0.27
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.48
Consensus pattern (64 bp):
TTTTCATTTTCATTTTCGAGAAAACCATAATCACTTCCAAATGATTCACATTTCTCCATTTTCA
Found at i:99716604 original size:47 final size:47
Alignment explanation
Indices: 99716550--99716743 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
99716540 TTAGGATTTT
** *
99716550 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
99716597 ATGTGATGAATGTGAACATGCATGTAT-ATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGA-GATAAGGCCGAATGGCCA
* * *
99716644 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * *
99716691 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
99716738 ATGTGA
1 ATGTGA
99716744 AATATGTATG
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 130 0.99
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:99716650 original size:22 final size:22
Alignment explanation
Indices: 99716625--99716697 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
99716615 TGCATGTATA
99716625 TGATAAGGCCGAATGGCCAATG
1 TGATAAGGCCGAATGGCCAATG
* *
99716647 TGATGAATGTG-AGCAT-G-CATATG
1 TGAT-AA-G-GCCGAATGGCCA-ATG
99716670 TGTGATAAGGCCGAATGGCCAATG
1 --TGATAAGGCCGAATGGCCAATG
99716694 TGAT
1 TGAT
99716698 GAATATGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 11 0.29
23 10 0.26
24 10 0.26
25 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (22 bp):
TGATAAGGCCGAATGGCCAATG
Found at i:99716652 original size:25 final size:25
Alignment explanation
Indices: 99716624--99716699 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 25
99716614 ATGCATGTAT
99716624 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * *
99716649 ATGA-ATGTG-AGCAT-G-CATATGTG
1 ATGATAAG-GCCGAATGGCCA-ATGTG
99716672 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
99716696 ATGA
1 ATGA
99716700 ATATGAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.16
23 11 0.29
24 11 0.29
25 10 0.26
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:99716779 original size:48 final size:48
Alignment explanation
Indices: 99716701--99716847 Score: 233
Period size: 48 Copynumber: 3.0 Consensus size: 48
99716691 ATGTGATGAA
*
99716701 TATGA-ACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGACATGC--ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
*
99716750 TATGAGACATGCATATGTGGTAAAACCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
* *
99716798 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
99716846 TA
1 TA
99716848 GGCGATGTGC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
48 81 0.88
49 5 0.05
50 6 0.07
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
Found at i:99717102 original size:37 final size:37
Alignment explanation
Indices: 99716994--99717102 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
99716984 GGAAATATAT
*
99716994 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
99717031 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
99717068 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
99717103 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:99734099 original size:42 final size:42
Alignment explanation
Indices: 99734052--99734135 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
99734042 ATTAGACTGT
99734052 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
99734094 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
99734136 GTGTCGCACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (42 bp):
ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
Found at i:99743826 original size:25 final size:25
Alignment explanation
Indices: 99743798--99743845 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
99743788 GTCATTTAAT
*
99743798 TTTAATTTTAAATAGTTT-TAAAAAA
1 TTTAACTTTAAATA-TTTATAAAAAA
*
99743823 TTTAGCTTTAAATATTTATAAAA
1 TTTAACTTTAAATATTTATAAAA
99743846 TTTGCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTAACTTTAAATATTTATAAAAAA
Found at i:99745402 original size:14 final size:14
Alignment explanation
Indices: 99745383--99745409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99745373 TCATTTGACT
99745383 GAATTAACCGAATA
1 GAATTAACCGAATA
99745397 GAATTAACCGAAT
1 GAATTAACCGAAT
99745410 TAAAAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (14 bp):
GAATTAACCGAATA
Found at i:99761678 original size:32 final size:32
Alignment explanation
Indices: 99761641--99761705 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
99761631 AATGCTTACC
99761641 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
99761673 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
99761705 A
1 A
99761706 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:99771008 original size:67 final size:67
Alignment explanation
Indices: 99770935--99771062 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 67
99770925 GCTTTTGGGC
* * *
99770935 CAATTTTTGGCTTGAGAGAAGTA-TTTTTTTCTCAAAAATCAGCTTGTTTAGGAATGCTTTTATC
1 CAATTTTTGGCTTGAGAG-AGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATC
99770999 GGT
65 GGT
*
99771002 CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCATCTTGTTTAGGAATGCTTTT
1 CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTT
99771063 GTCCCAAAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
66 4 0.07
67 52 0.93
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (67 bp):
CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATCG
GT
Found at i:99771265 original size:28 final size:28
Alignment explanation
Indices: 99771245--99771301 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
99771235 TTGTGTACTT
* *
99771245 AGACTAAGCAATAGATAATTGCATGCAG
1 AGACTAAGCAATAGATAATTGTATACAG
* *
99771273 AGAGTAAGCAATAGATAATTGTATGCAG
1 AGACTAAGCAATAGATAATTGTATACAG
99771301 A
1 A
99771302 CTCTTTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (28 bp):
AGACTAAGCAATAGATAATTGTATACAG
Found at i:99773897 original size:22 final size:21
Alignment explanation
Indices: 99773855--99773897 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99773845 AAGTTGTAAT
**
99773855 TAAAATTTTATACCTATAAAA
1 TAAAATTTTATAAATATAAAA
99773876 TAAAATTTTATATAATATAAAA
1 TAAAATTTTATA-AATATAAAA
99773898 GGAAAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTTTATAAATATAAAA
Found at i:99774987 original size:24 final size:25
Alignment explanation
Indices: 99774954--99775005 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
99774944 TGGGGTGTAT
99774954 CTTCTCCTCT-TATGGTAATTGAAG
1 CTTCTCCTCTATATGGTAATTGAAG
*
99774978 CTTCTTCTCTAATATGGTAATTGAAG
1 CTTCTCCTCT-ATATGGTAATTGAAG
99775004 CT
1 CT
99775006 AAATTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.36
26 16 0.64
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (25 bp):
CTTCTCCTCTATATGGTAATTGAAG
Found at i:99775943 original size:48 final size:48
Alignment explanation
Indices: 99775806--99775947 Score: 178
Period size: 50 Copynumber: 2.9 Consensus size: 48
99775796 TTATAAAATA
* * *
99775806 TATTCTTATGAATTTTTATAATTTGGATATTTACCATGTACGAGGATTCT
1 TATTCTTATGAA-TTTTATAATTTGGTTATTTACCATGTAC-AAGAATCT
* * *
99775856 TATTTTTATGACTTTTTATAATTTGGTTATTTATCATGTACAAGAATCT
1 TATTCTTATGA-ATTTTATAATTTGGTTATTTACCATGTACAAGAATCT
*
99775905 TCATTCTTATGAATTTT-TAATTTGGTTATTCACCATGTACAAG
1 T-ATTCTTATGAATTTTATAATTTGGTTATTTACCATGTACAAG
99775948 GATCCCGGCT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
48 24 0.30
49 11 0.14
50 45 0.56
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (48 bp):
TATTCTTATGAATTTTATAATTTGGTTATTTACCATGTACAAGAATCT
Found at i:99776701 original size:6 final size:6
Alignment explanation
Indices: 99776690--99776725 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
99776680 TTAGTGATTT
99776690 AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
99776726 TAATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:99785352 original size:25 final size:25
Alignment explanation
Indices: 99785312--99785374 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
99785302 GCACAAATTG
99785312 AAAAAATAAAATAAAATCAACCA-TT-A
1 AAAAAATAAAA-AAAA--AACCATTTGA
*
99785338 AAAAAATAAAAAAAAAACCATTTGT
1 AAAAAATAAAAAAAAAACCATTTGA
99785363 AAAAAATAAAAA
1 AAAAAATAAAAA
99785375 TTTGAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.15
24 2 0.06
25 16 0.47
26 11 0.32
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAAATAAAAAAAAAACCATTTGA
Found at i:99785377 original size:17 final size:18
Alignment explanation
Indices: 99785344--99785390 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
99785334 ATTAAAAAAA
99785344 TAAAAAA-AAAACCATTTG
1 TAAAAAATAAAA-CATTTG
99785362 TAAAAAATAAAA-ATTTG
1 TAAAAAATAAAACATTTG
*
99785379 -AAAAATTAAAAC
1 TAAAAAATAAAAC
99785391 CACCATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 5 0.19
18 7 0.27
19 4 0.15
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAATAAAACATTTG
Found at i:99785767 original size:50 final size:50
Alignment explanation
Indices: 99785686--99785786 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
99785676 TAATATAACA
*
99785686 TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACTTAAACTTTTT
1 TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
* *
99785736 TTTGGCTACTTGAACTTGTTAC-TTTTCTTAATTTGGTACCTAAACTTTTT
1 TTTGG-TACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
99785786 T
1 T
99785787 GGGCTTAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 32 0.68
51 15 0.32
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (50 bp):
TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
Found at i:99786318 original size:31 final size:32
Alignment explanation
Indices: 99786260--99786344 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 32
99786250 TAGACCCCAA
* * *
99786260 GAAGTTTTAAGTACCAATTTA-AGAAAAAGTAT
1 GAAG-TTTAAGTACTAAATTAGAGAAAAAATAT
*
99786292 GAAGTTTAAGTACTAAATTAGA-AAAAAATGT
1 GAAGTTTAAGTACTAAATTAGAGAAAAAATAT
* *
99786323 CAAGTTTACGTA-TCAAATTAGA
1 GAAGTTTAAGTACT-AAATTAGA
99786345 CTAGAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.02
31 39 0.87
32 5 0.11
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (32 bp):
GAAGTTTAAGTACTAAATTAGAGAAAAAATAT
Found at i:99786378 original size:91 final size:90
Alignment explanation
Indices: 99786211--99786377 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 90
99786201 AAAAAATTAG
* * *
99786211 GTACCAAATTAAAAAAAAGGTCAAGTTCAAGTATCAAATTAGACCCCAAGAAGTTTTAAGTACCA
1 GTACCAAATTAAAAAAAAGGTCAAGTTCAAGTATCAAATTAGACCACAAAAAGTCTTAAGTACCA
*
99786276 ATTTAAGAAAAAGTATGAAGTTTAA
66 AATTAAGAAAAAGTATGAAGTTTAA
* * * * * *
99786301 GTACTAAATTAGAAAAAAATGTCAAGTTTACGTATCAAATTAGACTAGAAAAAG-CTTAAGTACC
1 GTACCAAATTA-AAAAAAAGGTCAAGTTCAAGTATCAAATTAGACCACAAAAAGTCTTAAGTACC
99786365 AAATTAAGAAAAA
65 AAATTAAGAAAAA
99786378 AAAAGTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
90 31 0.47
91 35 0.53
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (90 bp):
GTACCAAATTAAAAAAAAGGTCAAGTTCAAGTATCAAATTAGACCACAAAAAGTCTTAAGTACCA
AATTAAGAAAAAGTATGAAGTTTAA
Found at i:99787279 original size:17 final size:17
Alignment explanation
Indices: 99787257--99787305 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
99787247 TTAAATTTAC
*
99787257 TTATTTTTATTTAGTTT
1 TTATTTTTATTTAATTT
99787274 TTATTTTTATTTAATTT
1 TTATTTTTATTTAATTT
*
99787291 CTATTATTTATTTAA
1 TTATT-TTTATTTAA
99787306 GATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTATTTAATTT
Found at i:99790229 original size:42 final size:42
Alignment explanation
Indices: 99790170--99790261 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
99790160 CAAGTACGTA
99790170 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
99790212 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
99790254 CGAGGCGA
1 CGAGGCGA
99790262 AGCGAGACCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.24, G:0.37, T:0.09
Consensus pattern (42 bp):
CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
Found at i:99792945 original size:30 final size:29
Alignment explanation
Indices: 99792894--99792966 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
99792884 GGTTTATATG
* *
99792894 TTTATAATTTTAAAAGATTAAATTA-AATT
1 TTTATCATTTTAAAAGATTAAAGTATAA-T
*
99792923 TTTATCATTTTGAAAAGGTTAAAGTATAAT
1 TTTATCATTTT-AAAAGATTAAAGTATAAT
99792953 TTTATCATTATTAA
1 TTTATCATT-TTAA
99792967 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 10 0.26
30 24 0.63
31 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTATCATTTTAAAAGATTAAAGTATAAT
Found at i:99794042 original size:20 final size:21
Alignment explanation
Indices: 99794003--99794043 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99793993 TATTTTTTAA
* *
99794003 AAAAATACAGTTATGCTATTT
1 AAAAATAAAGTAATGCTATTT
99794024 AAAAATAAAGTAATG-TATTT
1 AAAAATAAAGTAATGCTATTT
99794044 TTTTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAATAAAGTAATGCTATTT
Done.