Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 171 of 218
Found at i:51831518 original size:20 final size:20
Alignment explanation
Indices: 51831493--51831532 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51831483 ATAAAAAATG
51831493 TATTTTTAATATTTTTAAAA
1 TATTTTTAATATTTTTAAAA
*
51831513 TATTTTTAATTTTTTTAAAA
1 TATTTTTAATATTTTTAAAA
51831533 AAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAATATTTTTAAAA
Found at i:51832004 original size:29 final size:29
Alignment explanation
Indices: 51831956--51832012 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
51831946 CCGAAATAAA
* * *
51831956 TTAATTTTTCTATTACT-AAATAAATTAAT
1 TTAATTTTTATAGTAATAAAAT-AATTAAT
51831985 TTAATTTTTATAGTAATAAAATAATTAA
1 TTAATTTTTATAGTAATAAAATAATTAA
51832013 ATAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAATTTTTATAGTAATAAAATAATTAAT
Found at i:51835903 original size:15 final size:15
Alignment explanation
Indices: 51835885--51835915 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51835875 ATTTAGTAAA
51835885 AGGTCAAAATCATGT
1 AGGTCAAAATCATGT
51835900 AGGTCAAAATCATGT
1 AGGTCAAAATCATGT
51835915 A
1 A
51835916 TGCTTGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (15 bp):
AGGTCAAAATCATGT
Found at i:51835994 original size:2 final size:2
Alignment explanation
Indices: 51835989--51836016 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51835979 CAAAAAAATT
51835989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51836017 AAATAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51837368 original size:20 final size:20
Alignment explanation
Indices: 51837343--51837383 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
51837333 AACTATATTA
*
51837343 TATATCAAATTACTTTTAAT
1 TATATCAAATGACTTTTAAT
51837363 TATATCAAATGACTTTTAAT
1 TATATCAAATGACTTTTAAT
51837383 T
1 T
51837384 GTGATGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATCAAATGACTTTTAAT
Found at i:51852060 original size:71 final size:71
Alignment explanation
Indices: 51851944--51852088 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
51851934 TGCTACAAAC
51851944 GGTTTTACCAAATGCAATGTTGAAAGCGAAACCTAATATTGAATCAAGGATTAGGTTACTTAAAA
1 GGTTTTACCAAATGCAATGTTGAAAGCGAAACCTAATATTGAATCAAGGATTAGGTTACTTAAAA
51852009 GGGAGT
66 GGGAGT
51852015 GGTTTTACCAAATGCAATGTTGAAAGCGAAACCTAATATTGAATCAAGGATTAGGTTACTTAAAA
1 GGTTTTACCAAATGCAATGTTGAAAGCGAAACCTAATATTGAATCAAGGATTAGGTTACTTAAAA
51852080 GGGAGT
66 GGGAGT
51852086 GGT
1 GGT
51852089 CAATCGTCTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (71 bp):
GGTTTTACCAAATGCAATGTTGAAAGCGAAACCTAATATTGAATCAAGGATTAGGTTACTTAAAA
GGGAGT
Found at i:51853154 original size:91 final size:91
Alignment explanation
Indices: 51853029--51853236 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
51853019 TTGATTTTAG
*
51853029 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
51853094 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
51853121 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
51853186 TGTAATATTTATTATTTTAAATTATA
66 TGTAATATTAATTATTTTAAATTATA
* * * *
51853212 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
51853237 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:51853156 original size:44 final size:44
Alignment explanation
Indices: 51853029--51853167 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 44
51853019 TTGATTTTAG
*
51853029 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTA-GAAATTA
* * * ** *
51853075 TATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-AATTGTA
1 TAAATTCA-TA-TAAGA--AAATTTATTATTAAGAATTTTAGAAAT-TA
51853121 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTA-GAAATTA
51853166 TA
1 TA
51853168 TATTATTATT
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
44 18 0.25
45 13 0.18
46 17 0.24
47 22 0.31
48 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (44 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTAGAAATTA
Found at i:51853198 original size:27 final size:28
Alignment explanation
Indices: 51853140--51853211 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
51853130 ATAAGAAAAT
*
51853140 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATTATATA
* *
51853170 TTATTATTAAATTATATGTAA-TATTTA
1 TTATTATTAAATTATATGAAATTATATA
51853197 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
51853212 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 10 0.26
28 10 0.26
29 1 0.03
30 8 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATTATATA
Found at i:51853203 original size:47 final size:47
Alignment explanation
Indices: 51853061--51853204 Score: 138
Period size: 47 Copynumber: 3.1 Consensus size: 47
51853051 ATTATTAAGA
*
51853061 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * **
51853108 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATTAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
51853152 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATATTTATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
51853199 ATTTTA
1 ATTTTA
51853205 AATTATACAA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.32
45 8 0.11
46 8 0.11
47 28 0.38
48 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:51853211 original size:44 final size:43
Alignment explanation
Indices: 51853069--51853211 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
51853059 GAATTTTATG
*
51853069 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATATTAATTATTTT
* ** * ** *
51853113 AAATTGTATAAATTCATATAAGAAAATT-TATTATTAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATATTAATTATT-TT
*
51853160 AAATTATATATTATTATTAAATTATATGTAATATTTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATATTAATTATTTT
51853204 AAATTATA
1 AAATTATA
51853212 CAAATTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 10 0.14
46 9 0.12
47 15 0.20
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATATTAATTATTTT
Found at i:51853376 original size:120 final size:120
Alignment explanation
Indices: 51853252--51853544 Score: 448
Period size: 120 Copynumber: 2.4 Consensus size: 120
51853242 AATTATTTTA
* * *
51853252 AATTTTATTAAATCATATATTTTAATT-TAAATATATTTAATATTAATTAT-TTCAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTAT-AATATATTTAATAATAATTATGTT--AATTTATAT
*
51853314 TTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
*
51853372 AATTTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
51853437 ACAGTATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
* *
51853492 AATTTTAATAAATTATATAATTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
51853545 TAAATATGAT
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
119 5 0.03
120 151 0.95
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
Found at i:51853419 original size:54 final size:53
Alignment explanation
Indices: 51853356--51853541 Score: 124
Period size: 54 Copynumber: 3.2 Consensus size: 53
51853346 TTCATATAAG
*
51853356 AATAGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAACATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA-ATATTT
* * * *
51853410 AATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATGT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTAATT-A-TAAA-T-AT-T
*
51853473 AAG
53 --T
* * *
51853476 AATATTAATTATTAAGAATTTTAATAAATTATATAATTTAATTATAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA-ATATTT
51853530 AATAATAATTAT
1 AATAATAATTAT
51853542 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 36
0.66 0.10 0.24
Matches are distributed among these distances:
53 5 0.05
54 24 0.24
55 1 0.01
56 4 0.04
57 3 0.03
58 4 0.04
59 11 0.11
60 8 0.08
61 10 0.10
62 4 0.04
63 3 0.03
64 3 0.03
65 1 0.01
66 13 0.13
67 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (53 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAATATTT
Found at i:51853676 original size:18 final size:17
Alignment explanation
Indices: 51853648--51853682 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51853638 ATTATTAAGA
*
51853648 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51853665 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51853683 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51853687 original size:155 final size:157
Alignment explanation
Indices: 51853481--51853795 Score: 544
Period size: 155 Copynumber: 2.0 Consensus size: 157
51853471 GTAAGAATAT
*
51853481 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
*
51853546 AAATATGATTAAATTATTTATTACTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
51853610 -AATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
* *
51853636 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
*
51853701 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
51853766 TAATCATTTACCCAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
51853793 TAA
1 TAA
51853796 GGGTATTCTA
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 123 0.82
156 1 0.01
157 26 0.17
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:51853893 original size:44 final size:45
Alignment explanation
Indices: 51853843--51853937 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
51853833 TTACATCTCT
* **
51853843 ATTACATTCAACTAAACACAGGA-TTACTATTATGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
*** *
51853887 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
51853932 ATTACA
1 ATTACA
51853938 CCTCTATTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 19 0.44
45 24 0.56
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
Found at i:51853937 original size:16 final size:16
Alignment explanation
Indices: 51853916--51853953 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
51853906 TTGATTTGCT
51853916 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
51853932 ATTACACCTCTATTCT
1 ATTACACCTCTATTCC
51853948 ATTACA
1 ATTACA
51853954 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:51856194 original size:35 final size:35
Alignment explanation
Indices: 51856120--51856194 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
51856110 TGAAAATTTT
* * * *
51856120 TCATATATTTAGAGGATCCTATTCCTAAATATGTT
1 TCATATATTTAGAGGATCCAATACCCAAATATGTA
* *
51856155 TCATATATTTAGAGGATTCAATACCCAGAT-TGATA
1 TCATATATTTAGAGGATCCAATACCCAAATATG-TA
51856190 TCATA
1 TCATA
51856195 CTTAAGACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (35 bp):
TCATATATTTAGAGGATCCAATACCCAAATATGTA
Found at i:51857610 original size:24 final size:24
Alignment explanation
Indices: 51857573--51857629 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
51857563 CTATTGTTGA
*
51857573 AGTTTTCAATTGAAAATGGTTTCTGT
1 AGTTTTC--TTGAAAATGGTTTCTAT
*
51857599 ATTTTTCTTGAAAATGGTTTCTAT
1 AGTTTTCTTGAAAATGGTTTCTAT
51857623 AGTTTTC
1 AGTTTTC
51857630 AATTTGTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 22 0.79
26 6 0.21
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.51
Consensus pattern (24 bp):
AGTTTTCTTGAAAATGGTTTCTAT
Found at i:51858695 original size:66 final size:66
Alignment explanation
Indices: 51858589--51858719 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
51858579 CAAAAGGTTT
*
51858589 TGGTAGTGTTGACATTGGCATTAATAAAAGTTTGAGCTTACTCTGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGACATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
51858654 G
66 G
* *
51858655 TGGTAGTGTTGGCATTGGCATTAGTAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGACATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
51858720 CACATTTGAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.35
Consensus pattern (66 bp):
TGGTAGTGTTGACATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
G
Found at i:51858747 original size:24 final size:24
Alignment explanation
Indices: 51858715--51858760 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
51858705 AATTTGAACC
51858715 CAAATCACATTTGAGGTGATAACT
1 CAAATCACATTTGAGGTGATAACT
51858739 CAAATCACATTTGAGGTGATAA
1 CAAATCACATTTGAGGTGATAA
51858761 ATACTTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (24 bp):
CAAATCACATTTGAGGTGATAACT
Found at i:51859146 original size:102 final size:102
Alignment explanation
Indices: 51859028--51859246 Score: 404
Period size: 102 Copynumber: 2.2 Consensus size: 102
51859018 AATTATATAT
51859028 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
51859093 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
*
51859130 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
* *
51859195 TTTAGTTAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
51859232 TTTTA-TAAATTATAT
1 TTTTATTAAATTATAT
51859247 ATTTTATTAA
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
101 10 0.09
102 104 0.91
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
Found at i:51859148 original size:29 final size:28
Alignment explanation
Indices: 51859115--51859180 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
51859105 ATATAAGAAG
51859115 ATTTAATATTAAGAATT-TTATTAAATTAT
1 ATTT-ATATTAAGAATTATT-TTAAATTAT
*
51859144 ATTTA-A-TAATAATTATTTTAAATTAT
1 ATTTATATTAAGAATTATTTTAAATTAT
51859170 ATTTTATATTA
1 A-TTTATATTA
51859181 TTATATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 17 0.53
27 7 0.22
28 2 0.06
29 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTATATTAAGAATTATTTTAAATTAT
Found at i:51859253 original size:118 final size:119
Alignment explanation
Indices: 51859129--51859403 Score: 498
Period size: 118 Copynumber: 2.3 Consensus size: 119
51859119 AATATTAAGA
* * *
51859129 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGA
1 ATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTAATAGTATTATATATTATGA
*
51859194 TTTTAGTTAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAATTATAT
66 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
51859247 ATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTAATAGTATTATATATTATGA
1 ATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTAATAGTATTATATATTATGA
51859312 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
66 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
51859366 ATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 A-TTTTATTAAATTATATTTAATAATAATTATGTTAAA
51859404 ATATGATTAA
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
118 104 0.69
119 11 0.07
120 36 0.24
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (119 bp):
ATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTAATAGTATTATATATTATGA
TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
Found at i:51859259 original size:17 final size:16
Alignment explanation
Indices: 51859231--51859263 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
51859221 AATATTAAGA
51859231 ATTTTATAAATTATAT
1 ATTTTATAAATTATAT
51859247 ATTTTATTAAATTATAT
1 ATTTTA-TAAATTATAT
51859264 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATAAATTATAT
Found at i:51859447 original size:44 final size:40
Alignment explanation
Indices: 51859334--51859450 Score: 101
Period size: 48 Copynumber: 2.7 Consensus size: 40
51859324 CATATAAGAA
* *
51859334 TATTTAATATTAAGAATTTTATT-AAATTATATATTTTTAT
1 TATTT-ATATTAAGAATATTATTAAAATTATAAATTTTTAT
* *
51859374 TAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 T-ATTTATA-TTAAGAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTAT
51859423 TATTTATATTAAGAATATTATTAAAATT
1 TATTTATATTAAGAATATTATTAAAATT
51859451 TAATAACAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
40 4 0.07
41 10 0.16
42 3 0.05
43 1 0.02
44 9 0.15
45 4 0.07
46 5 0.08
47 8 0.13
48 11 0.18
49 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (40 bp):
TATTTATATTAAGAATATTATTAAAATTATAAATTTTTAT
Found at i:51859597 original size:44 final size:45
Alignment explanation
Indices: 51859547--51859636 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
51859537 ATATCATTCT
* * *
51859547 ATTCAACCAAACACAAT-AA-TACTATTATGCTTCTATTCTATTAC
1 ATTCAACCAAACA-AATGAATTACTATTACGCCTCTATTCCATTAC
*
51859591 ATTCAACCAAACAATTGAATTACTATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACAAATGAATTACTATTACGCCTCTATTCCATTAC
51859636 A
1 A
51859637 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.05
44 15 0.38
45 23 0.57
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (45 bp):
ATTCAACCAAACAAATGAATTACTATTACGCCTCTATTCCATTAC
Found at i:51859640 original size:16 final size:16
Alignment explanation
Indices: 51859615--51859652 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
51859605 TTGAATTACT
*
51859615 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
51859631 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
51859647 ATTACA
1 ATTACA
51859653 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:51870016 original size:20 final size:20
Alignment explanation
Indices: 51869993--51870044 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
51869983 AAGAATTACA
51869993 AAAAAATTCA-AAAAATTTAT
1 AAAAAATTCATAAAAATTT-T
51870013 AAAAAATT-ATAAAAATTTT
1 AAAAAATTCATAAAAATTTT
*
51870032 CAAAAATTC-TAAA
1 AAAAAATTCATAAA
51870045 GTATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATTCATAAAAATTTT
Found at i:51872603 original size:3 final size:3
Alignment explanation
Indices: 51872588--51872627 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
51872578 GATATCGACG
*
51872588 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51872628 AACACAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51881367 original size:16 final size:17
Alignment explanation
Indices: 51881342--51881377 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
51881332 GACCAAAAGC
*
51881342 TTTTAGTTTTTTTTT-T
1 TTTTAATTTTTTTTTAT
51881358 TTTTAATTTTTTTTTAT
1 TTTTAATTTTTTTTTAT
51881375 TTT
1 TTT
51881378 CTTATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTAATTTTTTTTTAT
Found at i:51885309 original size:37 final size:37
Alignment explanation
Indices: 51885268--51885415 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
51885258 TAGTTTTAGC
51885268 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
51885305 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
51885342 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
51885379 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
51885416 AGCCTAGCTA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:51889095 original size:25 final size:27
Alignment explanation
Indices: 51889067--51889117 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
51889057 CTTATATATT
*
51889067 AAATATA-TATT-TTTTATTTTTAATC
1 AAATATACTATTGTTTTATTATTAATC
*
51889092 AAATATACTTTTGTTTTATTATTAAT
1 AAATATACTATTGTTTTATTATTAAT
51889118 TTGGCTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 12 0.55
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (27 bp):
AAATATACTATTGTTTTATTATTAATC
Found at i:51890122 original size:16 final size:16
Alignment explanation
Indices: 51890103--51890136 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
51890093 TTACATATCC
51890103 TATTTTTGTA-ATTATT
1 TATTTTT-TATATTATT
51890119 TATTTTTTATATTATT
1 TATTTTTTATATTATT
51890135 TA
1 TA
51890137 AGACAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTTTTTATATTATT
Found at i:51893180 original size:9 final size:9
Alignment explanation
Indices: 51893166--51893194 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51893156 TCTTGTACCT
51893166 TGTAAGAAA
1 TGTAAGAAA
51893175 TGTAAGAAA
1 TGTAAGAAA
51893184 TGTAAGAAA
1 TGTAAGAAA
51893193 TG
1 TG
51893195 AAACATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGTAAGAAA
Found at i:51897505 original size:13 final size:13
Alignment explanation
Indices: 51897483--51897514 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
51897473 GTAAAAATAT
51897483 ATTAAAATGCACA
1 ATTAAAATGCACA
*
51897496 ATTAATATGCACA
1 ATTAAAATGCACA
51897509 ATTAAA
1 ATTAAA
51897515 TTATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (13 bp):
ATTAAAATGCACA
Found at i:51897834 original size:34 final size:34
Alignment explanation
Indices: 51897791--51897857 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
51897781 TTGGCAATTT
51897791 GTTGACTAGCACTACAC-CTAAAAAAATTATTTTG
1 GTTGACTAGCACTACACTC-AAAAAAATTATTTTG
*
51897825 GTTGACTAGCACTACACTCAAAAATATTATTTT
1 GTTGACTAGCACTACACTCAAAAAAATTATTTT
51897858 TTTAATCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (34 bp):
GTTGACTAGCACTACACTCAAAAAAATTATTTTG
Found at i:51901516 original size:31 final size:31
Alignment explanation
Indices: 51901455--51901519 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
51901445 AATCCCCCAT
* **
51901455 TGATTTAAATAAAAATTTTTGAATAGTTCAA
1 TGATTTAAACAAAAATTTTCAAATAGTTCAA
51901486 TGATTTAAACAAAAATTTTCAAATCA-TTCAA
1 TGATTTAAACAAAAATTTTCAAAT-AGTTCAA
51901517 TGA
1 TGA
51901520 CCATTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
TGATTTAAACAAAAATTTTCAAATAGTTCAA
Found at i:51906105 original size:14 final size:14
Alignment explanation
Indices: 51906086--51906116 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51906076 GGAATTGTTA
*
51906086 TAATCTAAATTTAC
1 TAATCTAAATTAAC
51906100 TAATCTAAATTAAC
1 TAATCTAAATTAAC
51906114 TAA
1 TAA
51906117 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:51907422 original size:146 final size:147
Alignment explanation
Indices: 51907142--51907422 Score: 485
Period size: 146 Copynumber: 1.9 Consensus size: 147
51907132 TAGAAGCATA
* *
51907142 AAATTCACTAATTTACATGATAAATAATCCAAAAATGCATCAAAAATGAGATTCAAAACATGTTA
1 AAATTCACTAATTTACATGATAAATAATCCAAAAAAGCATCAAAAATGAGATTAAAAACATGTTA
51907207 CTTTTATGGCTTATCATGGTCATATTAATGGCTTTGACAACCAAATGAGCACTTAAAAGTAAAAA
66 CTTTTATGGCTTATCATGGTCATATTAATGGCTTTGACAACCAAATGAGCACTTAAAAGTAAAAA
51907272 GATGAATTTAAAGGATC
131 GATGAATTTAAAGGATC
* * *
51907289 AAATTCACTAATTTA-ATGATAAATCATCCAAAAACAG-ATCAAGAATGGGATTAAAAACATGTT
1 AAATTCACTAATTTACATGATAAATAATCCAAAAA-AGCATCAAAAATGAGATTAAAAACATGTT
*
51907352 ACTTTTATGTCTTATCATGGTCATATTAATGGCTTTGACAACCAAATGAGCACTTAAAAGTAAAA
65 ACTTTTATGGCTTATCATGGTCATATTAATGGCTTTGACAACCAAATGAGCACTTAAAAGTAAAA
51907417 AGATGA
130 AGATGA
51907423 TAAAAATCTT
Statistics
Matches: 127, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
146 111 0.87
147 16 0.13
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (147 bp):
AAATTCACTAATTTACATGATAAATAATCCAAAAAAGCATCAAAAATGAGATTAAAAACATGTTA
CTTTTATGGCTTATCATGGTCATATTAATGGCTTTGACAACCAAATGAGCACTTAAAAGTAAAAA
GATGAATTTAAAGGATC
Found at i:51909937 original size:4 final size:4
Alignment explanation
Indices: 51909928--51909957 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
51909918 AAATATAAGG
*
51909928 AAAT AAAT AAAT AAAT AAAT AAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
51909958 CCTCCACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:51911065 original size:14 final size:14
Alignment explanation
Indices: 51911046--51911085 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
51911036 ATAACCTGAT
*
51911046 CCTAACCCTTAACC
1 CCTAACCCCTAACC
51911060 CCTAACCCCTAACC
1 CCTAACCCCTAACC
51911074 CCTAACCCCTAA
1 CCTAACCCCTAA
51911086 ACCTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTAACCCCTAACC
Found at i:51911072 original size:21 final size:21
Alignment explanation
Indices: 51911046--51911085 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51911036 ATAACCTGAT
*
51911046 CCTAACCCTTAACCCCTAACC
1 CCTAACCCCTAACCCCTAACC
51911067 CCTAACCCCTAACCCCTAA
1 CCTAACCCCTAACCCCTAA
51911086 ACCTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAACCCCTAACCCCTAACC
Found at i:51911254 original size:21 final size:21
Alignment explanation
Indices: 51911159--51911259 Score: 105
Period size: 21 Copynumber: 4.8 Consensus size: 21
51911149 CGAATTTATA
* * *
51911159 AACCCTAAATCCCTAAATCCCT
1 AACCCTTAA-CCCTTAACCCCT
* *
51911181 AACTCTTAA-CATCTAACCCCT
1 AACCCTTAACCCT-TAACCCCT
* *
51911202 AACCCCTAACCCCTAACCCCT
1 AACCCTTAACCCTTAACCCCT
*
51911223 AACCCTTAACCCTTAACCCTT
1 AACCCTTAACCCTTAACCCCT
51911244 AACCCTTAACCCTTAA
1 AACCCTTAACCCTTAA
51911260 ACCTTAAATC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.03
21 55 0.85
22 8 0.12
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCCT
Found at i:51911283 original size:7 final size:7
Alignment explanation
Indices: 51911194--51911266 Score: 101
Period size: 7 Copynumber: 10.4 Consensus size: 7
51911184 TCTTAACATC
*
51911194 TAACCCC
1 TAACCCT
*
51911201 TAACCCC
1 TAACCCT
*
51911208 TAACCCC
1 TAACCCT
*
51911215 TAACCCC
1 TAACCCT
51911222 TAACCCT
1 TAACCCT
51911229 TAACCCT
1 TAACCCT
51911236 TAACCCT
1 TAACCCT
51911243 TAACCCT
1 TAACCCT
51911250 TAACCCT
1 TAACCCT
*
51911257 TAAACCT
1 TAACCCT
51911264 TAA
1 TAA
51911267 ATCACATTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 64 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCT
Found at i:51911763 original size:114 final size:114
Alignment explanation
Indices: 51911556--51912236 Score: 1157
Period size: 114 Copynumber: 6.0 Consensus size: 114
51911546 ATTTTAAATC
* ** **
51911556 CCTGAGTATTAGCGGCGCTTACATAAAAATACCACTAAATCC-TCGAAAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGT
*
51911620 CGTTGGGTTGAAGTATTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGA
65 CGTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
51911670 CTTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCATC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
51911735 GTTGGGGTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
*
51911784 CCTGAGCATTAGTGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
* *
51911849 GTTGGATTGAAGTATTTTTGCGGAGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
*
51911898 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
51911963 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * *
51912012 CCTGACCAGTAGCGGCGCTTACATAAAAATGCCACTAAATCCTTCTTAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
51912077 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
51912126 CCTGACCAGTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
51912191 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
51912237 TGCTTATTTT
Statistics
Matches: 537, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
114 535 1.00
115 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:51913452 original size:43 final size:45
Alignment explanation
Indices: 51913337--51913458 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 45
51913327 AAAAAAGAGT
* * *
51913337 AACAATTCCTTAAAAACTAGCCTAGAAAACGTGGATGACTAGAAAA
1 AACAAATCCCTAAAAACTAGCCTA-AAAATGTGGATGACTAGAAAA
* * * * * *
51913383 AACAAATCCCTGAAAAGTAACTTAAAAATGTGGATGGCTA-AGAA
1 AACAAATCCCTAAAAACTAGCCTAAAAATGTGGATGACTAGAAAA
51913427 AA-AAATCCCTAAAAACTAGCCTAAAAATGTGG
1 AACAAATCCCTAAAAACTAGCCTAAAAATGTGG
51913459 GTAGTTAAGA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 26 0.41
44 5 0.08
45 14 0.22
46 18 0.29
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (45 bp):
AACAAATCCCTAAAAACTAGCCTAAAAATGTGGATGACTAGAAAA
Found at i:51914193 original size:20 final size:20
Alignment explanation
Indices: 51914168--51914208 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
51914158 AACAGGTGAA
51914168 ATTTGTAGGTCTGTTCAGAG
1 ATTTGTAGGTCTGTTCAGAG
*
51914188 ATTTGTAGGTCTGTTGAGAG
1 ATTTGTAGGTCTGTTCAGAG
51914208 A
1 A
51914209 GAAAAGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (20 bp):
ATTTGTAGGTCTGTTCAGAG
Found at i:51921067 original size:44 final size:44
Alignment explanation
Indices: 51921014--51921129 Score: 205
Period size: 44 Copynumber: 2.6 Consensus size: 44
51921004 GATGTCATTG
*
51921014 TATCTTTCAACCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
51921058 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
* *
51921102 TATCTTTCAATCATGGTCTTTCCCTTTT
1 TATCTTTCAATCATGTTCTTTCCTTTTT
51921130 CTCAAATCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (44 bp):
TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
Found at i:51923039 original size:16 final size:16
Alignment explanation
Indices: 51923015--51923045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51923005 AGAAATTCCA
*
51923015 AAGAGAAAGAAGAAGG
1 AAGAAAAAGAAGAAGG
51923031 AAGAAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
51923046 AGAGTAATTG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAGAAGG
Found at i:51927725 original size:43 final size:43
Alignment explanation
Indices: 51927672--51927989 Score: 304
Period size: 43 Copynumber: 7.7 Consensus size: 43
51927662 GTTTTTAGAA
*
51927672 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * *
51927715 ACAAACGCCGCTAAAGACCAAGACCATTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
51927758 ACAAACGCTGCTAAATACCATGACCTTTAGCGGCACTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
51927801 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
51927844 ACAAACGCCACTAAAGACCAAGACCATTAGCGACGCTTTTTCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
*
51927887 ACAAACG--G----A-CA-AAGACCTTTA---GCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* ** * * *
51927919 ACAAACGCTGCTAAAG-ACTGTGACTTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
*
51927962 AAAAACGCCGCTAAA-AACATA-ACCTTTA
1 ACAAACGCCGCTAAAGAACA-AGACCTTTA
51927990 AAAAAATTAT
Statistics
Matches: 227, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.07
34 1 0.00
35 9 0.04
37 1 0.00
38 2 0.01
40 7 0.03
42 6 0.03
43 185 0.81
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
Found at i:51929512 original size:25 final size:26
Alignment explanation
Indices: 51929484--51929538 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
51929474 CCAACAGTTG
51929484 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* **
51929509 AT-AATCCCTTACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
51929534 ATAAA
1 ATAAA
51929539 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:51940049 original size:50 final size:50
Alignment explanation
Indices: 51939935--51940127 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
51939925 GATCATAACA
* ** *
51939935 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ***
51939986 TGCCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
51940036 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
51940086 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51940128 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 98 0.75
51 33 0.25
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:51940242 original size:13 final size:13
Alignment explanation
Indices: 51940221--51940250 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51940211 GCTTGGGTCA
51940221 TCATCAAATAAAT
1 TCATCAAATAAAT
*
51940234 TCATGAAATAAAT
1 TCATCAAATAAAT
51940247 TCAT
1 TCAT
51940251 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:51943728 original size:13 final size:14
Alignment explanation
Indices: 51943710--51943750 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
51943700 TTTTCAAAGA
51943710 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
51943723 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
51943737 TACGGTTTA-GACT
1 TATGGTTTAGGACT
51943750 T
1 T
51943751 TAGGGGTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:51943927 original size:7 final size:7
Alignment explanation
Indices: 51943915--51943999 Score: 73
Period size: 7 Copynumber: 12.0 Consensus size: 7
51943905 GTTAATTGAC
51943915 GGGTTTA
1 GGGTTTA
51943922 GGGTTTA
1 GGGTTTA
* *
51943929 AGTTTTA
1 GGGTTTA
* *
51943936 CGATTTA
1 GGGTTTA
*
51943943 GGGTTTG
1 GGGTTTA
51943950 GGGTTTA
1 GGGTTTA
*
51943957 GGG-TAA
1 GGGTTTA
51943963 GGGTTTATA
1 GGG-TT-TA
**
51943972 TAGTTTA
1 GGGTTTA
51943979 GGGTTTA
1 GGGTTTA
51943986 GGGTTTA
1 GGGTTTA
51943993 GGGTTTA
1 GGGTTTA
51944000 TGATTAATTA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
6 5 0.08
7 51 0.84
8 3 0.05
9 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:51945201 original size:16 final size:16
Alignment explanation
Indices: 51945180--51945211 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51945170 ACTTAGTAAT
51945180 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
51945196 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
51945212 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:51946282 original size:47 final size:47
Alignment explanation
Indices: 51946213--51946306 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
51946203 TGCTTCGATT
*
51946213 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
51946260 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
51946307 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:51946812 original size:9 final size:9
Alignment explanation
Indices: 51946798--51947497 Score: 260
Period size: 9 Copynumber: 75.6 Consensus size: 9
51946788 ATTAATATTA
*
51946798 TACATAAAT
1 TACATAACT
51946807 TACATAACT
1 TACATAACT
51946816 TA-ATTAA-T
1 TACA-TAACT
*
51946824 TA-AT-ATT
1 TACATAACT
51946831 ATACATAACT
1 -TACATAACT
51946841 TACATAACT
1 TACATAACT
51946850 TAC--AACT
1 TACATAACT
51946857 TACATAACT
1 TACATAACT
*
51946866 TACATTAATATT
1 TACA-T-A-ACT
*
51946878 ATACATAAAT
1 -TACATAACT
*
51946888 TACAAAACT
1 TACATAACT
*
51946897 TACATTAATATT
1 TACA-T-A-ACT
*
51946909 ATACATAAAT
1 -TACATAACT
51946919 TACATAACT
1 TACATAACT
51946928 TA-ATTAA-T
1 TACA-TAACT
*
51946936 TA-AT-ATT
1 TACATAACT
51946943 ATACATAACT
1 -TACATAACT
*
51946953 TACCTAACT
1 TACATAACT
51946962 TA-ATTAA-T
1 TACA-TAACT
*
51946970 TA-AT-ATT
1 TACATAACT
51946977 ATACATAACT
1 -TACATAACT
51946987 TAC--AACT
1 TACATAACT
51946994 TACATAACT
1 TACATAACT
*
51947003 TACATTAATAT
1 TACA-TAA-CT
*
51947014 TACACATAAAT
1 T--ACATAACT
51947025 TACATAACT
1 TACATAACT
* *
51947034 TACGTTAATATT
1 TAC-AT-A-ACT
51947046 ATACATAACT
1 -TACATAACT
*
51947056 TACCTAACT
1 TACATAACT
51947065 TA-ATTAA-T
1 TACA-TAACT
*
51947073 TA-AT-ATT
1 TACATAACT
51947080 ATACATAACT
1 -TACATAACT
51947090 TAC--AACT
1 TACATAACT
51947097 TACATAACT
1 TACATAACT
*
51947106 TACATTAATAT
1 TACA-TAA-CT
*
51947117 TACACATAAAT
1 T--ACATAACT
51947128 TACATAACT
1 TACATAACT
*
51947137 TACATTAATATT
1 TACA-T-A-ACT
51947149 ATACATAACT
1 -TACATAACT
*
51947159 TACCTAACT
1 TACATAACT
51947168 TA-ATTAA-T
1 TACA-TAACT
*
51947176 TA-AT-ATT
1 TACATAACT
51947183 ATACATAACT
1 -TACATAACT
51947193 TAC--AACT
1 TACATAACT
51947200 TACATAACT
1 TACATAACT
*
51947209 TACATTAATAT
1 TACA-TAA-CT
*
51947220 TACACATAAAT
1 T--ACATAACT
51947231 TACATAACT
1 TACATAACT
*
51947240 TACATTAATATT
1 TACA-T-A-ACT
51947252 ATACATAACT
1 -TACATAACT
51947262 TACATAACT
1 TACATAACT
51947271 TA-ATTAA-T
1 TACA-TAACT
51947279 TA-AT-ACT
1 TACATAACT
51947286 ATACATAACT
1 -TACATAACT
51947296 TAC--AACT
1 TACATAACT
51947303 TACATAACT
1 TACATAACT
*
51947312 TACATTAATATT
1 TACA-T-A-ACT
*
51947324 ATACATAAAT
1 -TACATAACT
51947334 TACATAACT
1 TACATAACT
*
51947343 TACATTAATATT
1 TACA-T-A-ACT
*
51947355 ATACATAAAT
1 -TACATAACT
51947365 TACATAACT
1 TACATAACT
51947374 TA-ATTAA-T
1 TACA-TAACT
*
51947382 TA-AT-ATT
1 TACATAACT
51947389 ATACATAACT
1 -TACATAACT
51947399 TAC--AACT
1 TACATAACT
*
51947406 TACCTAACT
1 TACATAACT
*
51947415 TACATTAATAT
1 TACA-TAA-CT
51947426 TACACATAACT
1 T--ACATAACT
51947437 TACATAACT
1 TACATAACT
51947446 TAC--AACT
1 TACATAACT
51947453 TACATAACT
1 TACATAACT
*
51947462 TACATTAATATT
1 TACA-T-A-ACT
51947474 ATACATAACT
1 -TACATAACT
51947484 TACATAACT
1 TACATAACT
51947493 TACAT
1 TACAT
51947498 TAATACGACA
Statistics
Matches: 548, Mismatches: 46, Indels: 194
0.70 0.06 0.25
Matches are distributed among these distances:
6 7 0.01
7 63 0.11
8 46 0.08
9 268 0.49
10 50 0.09
11 35 0.06
12 36 0.07
13 43 0.08
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:51946858 original size:16 final size:16
Alignment explanation
Indices: 51946837--51946869 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51946827 TATTATACAT
51946837 AACTTACATAACTTAC
1 AACTTACATAACTTAC
51946853 AACTTACATAACTTAC
1 AACTTACATAACTTAC
51946869 A
1 A
51946870 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:51947078 original size:103 final size:103
Alignment explanation
Indices: 51946887--51947449 Score: 1000
Period size: 103 Copynumber: 5.4 Consensus size: 103
51946877 TATACATAAA
* * *
51946887 TTACAAAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTT-A--CATTAATATTATACATAAC
51946952 TTACCTAACTTAATTAATTAATATTATACATAACTTACAAC
63 TTACCTAACTTAATTAATTAATATTATACATAACTTACAAC
*
51946993 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACGTTAATATTATACATAACTTA
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
51947058 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
66 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
51947096 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
51947161 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
66 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
51947199 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
* *
51947264 CATAACTTAATTAATTAATACTATACATAACTTACAAC
66 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
* *
51947302 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTA
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
*
51947367 CATAACTTAATTAATTAATATTATACATAACTTACAAC
66 CCTAACTTAATTAATTAATATTATACATAACTTACAAC
* *
51947405 TTACCTAACTTACATTAATATTACACATAACTTACATAACTTACA
1 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACA
51947450 ACTTACATAA
Statistics
Matches: 444, Mismatches: 13, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
103 403 0.91
105 1 0.00
106 40 0.09
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (103 bp):
TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTA
CCTAACTTAATTAATTAATATTATACATAACTTACAAC
Found at i:51947415 original size:16 final size:16
Alignment explanation
Indices: 51947390--51947465 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
51947380 ATTAATATTA
51947390 TACATAACTTACAACT
1 TACATAACTTACAACT
*
51947406 TACCTAACTTAC-A-T
1 TACATAACTTACAACT
** *
51947420 TA-ATATTACACATAACT
1 TACATA--ACTTACAACT
51947437 TACATAACTTACAACT
1 TACATAACTTACAACT
51947453 TACATAACTTACA
1 TACATAACTTACA
51947466 TTAATATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 4 0.09
16 32 0.68
17 3 0.06
18 3 0.06
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:51947605 original size:19 final size:18
Alignment explanation
Indices: 51947581--51947616 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
51947571 ATTTTTAATA
51947581 CATAACTTATATAATATAG
1 CATAACTTAT-TAATATAG
51947600 CATAACTTATTAATATA
1 CATAACTTATTAATATA
51947617 TATCATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (18 bp):
CATAACTTATTAATATAG
Found at i:51953290 original size:87 final size:87
Alignment explanation
Indices: 51953107--51953304 Score: 251
Period size: 87 Copynumber: 2.3 Consensus size: 87
51953097 ACACAACTTA
* *
51953107 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
1 AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
*
51953172 AAAGCAGATGCGGCAATGAGAG
66 AAAGCAGATGCGGCAACGAGAG
* * *
51953194 AAGCTGAGGCAGCAGCGAGAGAAGCTTAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAAC
1 AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
* *
51953257 TTAAAGTAGATGCGGCAGCGAGAG
64 TTAAAGCAGATGCGGCAACGAGAG
*
51953281 AAG-TAGAGGCTAA-AGCGAGGGAAG
1 AAGCT-GAGGC-AACAGCGAGAGAAG
51953305 TAGAGGCTGC
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
86 2 0.02
87 90 0.93
88 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.31, T:0.13
Consensus pattern (87 bp):
AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
AAAGCAGATGCGGCAACGAGAG
Found at i:51953319 original size:21 final size:21
Alignment explanation
Indices: 51953260--51953325 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
51953250 CAGCAACTTA
* * *
51953260 AAGTAGATGCGGCAGCGAGAG
1 AAGTAGAGGCTGCAGCGAGGG
**
51953281 AAGTAGAGGCTAAAGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
*
51953302 AAGTAGAGGCTGCGGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
51953323 AAG
1 AAG
51953326 CAGAAAAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.09
Consensus pattern (21 bp):
AAGTAGAGGCTGCAGCGAGGG
Found at i:51953728 original size:43 final size:42
Alignment explanation
Indices: 51953635--51954062 Score: 513
Period size: 43 Copynumber: 10.1 Consensus size: 42
51953625 CAAAATTAGC
*
51953635 GGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGC-TAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
51953678 GGCTTTTTTTCCTAAGCGCCGCGAAAGACCATAGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
51953720 GGCGTTTTTCGCCTAAGCGCCGCAAAAGACCATAGTCTATAGT
1 GGCGTTTTTTG-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
51953763 GGTGTTTTTCGCCTAAGTGCTGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTG-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
51953806 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGTCTGTAGT
1 GGCGTTT-TTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
51953849 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCACGGTCTATAGG
1 GGCGTTT-TTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
51953892 GGCGTTTTTT-TTAAGCGCCGCTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
51953933 GGCGTTTTTTGGTAAGCGCCACTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
51953975 GGCATTTTTT--TAAGCGCCGCTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
51954015 GGCGTTTTTAT-TTAAGCGCCGCTAAAGAACATGGTCTATAGC
1 GGCGTTTTT-TGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
51954057 GGCGTT
1 GGCGTT
51954063 GTAAAAAAAA
Statistics
Matches: 347, Mismatches: 33, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
40 37 0.11
41 41 0.12
42 108 0.31
43 158 0.46
44 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:51954215 original size:21 final size:21
Alignment explanation
Indices: 51954172--51954215 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
51954162 ATTTGCGGCG
* *
51954172 CTAAAAAACGCCGCTATAGAC
1 CTAAAAAACACCGCTATAAAC
51954193 CTAAAAAAGCACCGCTA-AAAC
1 CTAAAAAA-CACCGCTATAAAC
51954214 CT
1 CT
51954216 TGTTTTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.14
Consensus pattern (21 bp):
CTAAAAAACACCGCTATAAAC
Found at i:51957263 original size:18 final size:17
Alignment explanation
Indices: 51957236--51957279 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
51957226 TTTAGATTAA
51957236 TTAGGTTTCATCATACT
1 TTAGGTTTCATCATACT
51957253 TTAGAGTTTCATCATACT
1 TTAG-GTTTCATCATACT
51957271 TTATGGTTT
1 TTA-GGTTT
51957280 TATTTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 20 0.80
19 1 0.04
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (17 bp):
TTAGGTTTCATCATACT
Found at i:51957698 original size:23 final size:23
Alignment explanation
Indices: 51957671--51957734 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
51957661 TATTCTTGAA
*
51957671 TTTCTTCTTTC-AGTTATTTTTG
1 TTTCTTCTTTCAAGTTATGTTTG
* *
51957693 TTTTCTTTGTTTCTAA-ATATGTTTG
1 -TTTC-TTCTTTC-AAGTTATGTTTG
51957718 TTTCTTCTTTCAAGTTA
1 TTTCTTCTTTCAAGTTA
51957735 GATCTGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.06
23 12 0.38
24 10 0.31
25 7 0.22
26 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTCTTCTTTCAAGTTATGTTTG
Found at i:51962111 original size:24 final size:24
Alignment explanation
Indices: 51962084--51962146 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
51962074 AAAATCATAT
51962084 ATAATAATTATAAAAAAATTAAAA
1 ATAATAATTATAAAAAAATTAAAA
* * * * *
51962108 ATAATATTTTTATAAAATTTTAAA
1 ATAATAATTATAAAAAAATTAAAA
51962132 ATATATAATTATAAA
1 ATA-ATAATTATAAA
51962147 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATAATTATAAAAAAATTAAAA
Found at i:51962137 original size:23 final size:24
Alignment explanation
Indices: 51962087--51962151 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
51962077 ATCATATATA
* *
51962087 ATAATTATAAAAAAATTAAAAATAAT
1 ATAATTAT--AAAATTTTAAAATAAT
**
51962113 ATTTTTATAAAATTTTAAAAT-AT
1 ATAATTATAAAATTTTAAAATAAT
*
51962136 ATAATTATAAATTTTT
1 ATAATTATAAAATTTT
51962152 TTATTTTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 15 0.47
24 11 0.34
26 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATTATAAAATTTTAAAATAAT
Found at i:51965464 original size:26 final size:26
Alignment explanation
Indices: 51965429--51965479 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
51965419 AATGTGAAAG
*
51965429 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
51965455 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
51965480 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:51965491 original size:103 final size:103
Alignment explanation
Indices: 51965351--51965572 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
51965341 TGTATATAAA
** * *
51965351 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
51965415 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
51965454 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
51965519 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
51965557 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
51965573 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:51965624 original size:70 final size:72
Alignment explanation
Indices: 51965492--51965642 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
51965482 TCATTGGTGG
* *
51965492 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
51965556 GAGGGGT
66 GAGGGGT
***
51965563 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
51965627 GAGGGGT
66 GAGGGGT
51965634 TGCTAAGTG
1 TGCTAAGTG
51965643 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:51972616 original size:104 final size:103
Alignment explanation
Indices: 51972436--51972658 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
51972426 TGTATATAAA
** * *
51972436 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
51972501 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
51972540 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
51972604 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
51972643 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
51972659 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:51972710 original size:70 final size:72
Alignment explanation
Indices: 51972578--51972728 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
51972568 TCATTGGTGG
* *
51972578 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
51972642 GAGGGGT
66 GAGGGGT
***
51972649 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
51972713 GAGGGGT
66 GAGGGGT
51972720 TGCTAAGTG
1 TGCTAAGTG
51972729 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:51979618 original size:66 final size:66
Alignment explanation
Indices: 51979529--51979683 Score: 238
Period size: 66 Copynumber: 2.3 Consensus size: 66
51979519 ATATACTTGA
* * **
51979529 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTTAACTGCACCCAACTCTCATTGATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
51979594 G
66 G
* ** *
51979595 CACCCAGTGCATCATCGGATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
51979660 G
66 G
51979661 CACCCAGTGCCTCATCGGATAAA
1 CACCCAGTGCCTCATCGGATAAA
51979684 CTGAAGTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 80 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (66 bp):
CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
G
Found at i:51979701 original size:29 final size:29
Alignment explanation
Indices: 51979667--51979723 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
51979657 TTGGCACCCA
*
51979667 GTGCCTCATCGGATAAACTGAAGTTATTG
1 GTGCCTCATCGAATAAACTGAAGTTATTG
*
51979696 GTGCCTCATTGAATAAACTGAAGTTATT
1 GTGCCTCATCGAATAAACTGAAGTTATT
51979724 CAATTGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (29 bp):
GTGCCTCATCGAATAAACTGAAGTTATTG
Found at i:51979786 original size:66 final size:65
Alignment explanation
Indices: 51979716--51979838 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
51979706 GAATAAACTG
* **
51979716 AAGTTATTCAATTGCACCCAAC-GTTCATCAATGTATTTGGCACCTAGTTTCTCATCGGATATAT
1 AAGTTATTCAATTG-ACCCAACACTT-ATCAATGTATTTGGCACCTAGTGCCTCATCGGATATAT
51979780 CA
64 CA
* ** **
51979782 AAGTTATTTAATTGTGCCAACACTTATTGATGTATTTGGCACCTAGTGCCTCATCGG
1 AAGTTATTCAATTGACCCAACACTTATCAATGTATTTGGCACCTAGTGCCTCATCGG
51979839 GTAAACCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
65 33 0.69
66 15 0.31
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (65 bp):
AAGTTATTCAATTGACCCAACACTTATCAATGTATTTGGCACCTAGTGCCTCATCGGATATATCA
Found at i:51979786 original size:95 final size:95
Alignment explanation
Indices: 51979613--51979789 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
51979603 GCATCATCGG
*
51979613 ATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
51979678 GATAAACTGAAGTTATTGGTGCCTCATTGA
66 GATAAACTAAAGTTATTGGTGCCTCATTGA
* ** * **
51979708 ATAAACTGAAGTTATTCAATTGCACCCAACGTTCATCAATGTATTTGGCACCTAGTTTCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
51979773 GATATA-TCAAAGTTATT
66 GATAAACT-AAAGTTATT
51979790 TAATTGTGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (95 bp):
ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
GATAAACTAAAGTTATTGGTGCCTCATTGA
Found at i:51982617 original size:9 final size:9
Alignment explanation
Indices: 51982598--51982678 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 9
51982588 ATTATGTAGT
51982598 GATTCAATTC
1 GATT-AATTC
51982608 GATTAATTC
1 GATTAATTC
*
51982617 GAGTAATTC
1 GATTAATTC
* *
51982626 GGTTAATTT
1 GATTAATTC
** *
51982635 GGGTAATCC
1 GATTAATTC
*
51982644 GGTTAATTC
1 GATTAATTC
51982653 -AGTTAATTC
1 GA-TTAATTC
**
51982662 GGGTAATTC
1 GATTAATTC
51982671 GATTAATT
1 GATTAATT
51982679 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
9 51 0.93
10 4 0.07
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (9 bp):
GATTAATTC
Found at i:51982626 original size:18 final size:18
Alignment explanation
Indices: 51982603--51982678 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
51982593 GTAGTGATTC
*
51982603 AATTCGATTAATTCGAGT
1 AATTCGGTTAATTCGAGT
* *
51982621 AATTCGGTTAATTTGGGT
1 AATTCGGTTAATTCGAGT
*
51982639 AATCCGGTTAATTC-AGTT
1 AATTCGGTTAATTCGAG-T
* *
51982657 AATTCGGGTAATTCGATT
1 AATTCGGTTAATTCGAGT
51982675 AATT
1 AATT
51982679 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.02
18 45 0.96
19 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGAGT
Found at i:51982641 original size:27 final size:27
Alignment explanation
Indices: 51982611--51982678 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
51982601 TCAATTCGAT
* *
51982611 TAATTCGAGTAATTCGGTTAATTTGGG
1 TAATTCGAGTAATTCAGTTAATTCGGG
*
51982638 TAATCCG-GTTAATTCAGTTAATTCGGG
1 TAATTCGAG-TAATTCAGTTAATTCGGG
*
51982665 TAATTCGATTAATT
1 TAATTCGAGTAATT
51982679 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
TAATTCGAGTAATTCAGTTAATTCGGG
Found at i:51983533 original size:2 final size:2
Alignment explanation
Indices: 51983526--51983554 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51983516 GATAAAAGCA
51983526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51983555 AAGTGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51983915 original size:16 final size:16
Alignment explanation
Indices: 51983902--51983947 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
51983892 ACTGTAATAG
* *
51983902 AATAGAGTTGTAATGT
1 AATAGAGATGTAATGA
51983918 AATAGAGATGTAATGA
1 AATAGAGATGTAATGA
*
51983934 AATAGAGCTGTAAT
1 AATAGAGATGTAAT
51983948 AATATTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.30
Consensus pattern (16 bp):
AATAGAGATGTAATGA
Found at i:51984111 original size:37 final size:35
Alignment explanation
Indices: 51984064--51984154 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 35
51984054 TGTTATTGTT
* *
51984064 ATTAAATTTTAATAGGATTATTATTAAAAATAATTTA
1 ATTATATTTTAATA--ATAATTATTAAAAATAATTTA
*
51984101 ATTATATTTTAAT-ATAATTATTAAATATAATTTA
1 ATTATATTTTAATAATAATTATTAAAAATAATTTA
*
51984135 ATAATATTTTTAAT-ATAATT
1 ATTATA-TTTTAATAATAATT
51984155 TTTATATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 24 0.49
35 13 0.27
37 12 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (35 bp):
ATTATATTTTAATAATAATTATTAAAAATAATTTA
Found at i:51984121 original size:34 final size:35
Alignment explanation
Indices: 51984083--51984154 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
51984073 TAATAGGATT
*
51984083 ATTATTAAAAATAATTTAATTATA-TTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
*
51984117 ATTATTAAATATAATTTAATAATATTTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
51984152 ATT
1 ATT
51984155 TTTATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.63
35 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTATTAAAAATAATTTAATAATATTTTTAATATA
Found at i:51984129 original size:13 final size:12
Alignment explanation
Indices: 51984087--51984156 Score: 53
Period size: 11 Copynumber: 6.2 Consensus size: 12
51984077 AGGATTATTA
*
51984087 TTAAAAATAA-T
1 TTAAATATAATT
*
51984098 TTAATTAT-ATT
1 TTAAATATAATT
51984109 TT-AATATAATT
1 TTAAATATAATT
51984120 ATTAAATATAA-T
1 -TTAAATATAATT
51984132 TT-AATA-ATATT
1 TTAAATATA-ATT
*
51984143 TTTAATATAATT
1 TTAAATATAATT
51984155 TT
1 TT
51984157 TATATTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
9 1 0.02
10 10 0.21
11 17 0.35
12 12 0.25
13 8 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATATAATT
Found at i:51984147 original size:23 final size:23
Alignment explanation
Indices: 51984097--51984155 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
51984087 TTAAAAATAA
* *
51984097 TTTAATTATATTTTAATATAATT
1 TTTAAATATAATTTAATATAATT
*
51984120 ATTAAATATAATTTAATA-ATATT
1 TTTAAATATAATTTAATATA-ATT
51984143 TTT-AATATAATTT
1 TTTAAATATAATTT
51984156 TTATATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATATAATTTAATATAATT
Found at i:51984161 original size:11 final size:12
Alignment explanation
Indices: 51984107--51984158 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
51984097 TTTAATTATA
51984107 TTTTAATATAAT
1 TTTTAATATAAT
*
51984119 TATTAAATATAA-
1 T-TTTAATATAAT
51984131 -TTTAATA-ATAT
1 TTTTAATATA-AT
51984142 TTTTAATATAAT
1 TTTTAATATAAT
51984154 TTTTA
1 TTTTA
51984159 TATTAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
12 15 0.45
13 10 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAATATAAT
Found at i:51985975 original size:18 final size:19
Alignment explanation
Indices: 51985952--51985987 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51985942 AGGAAAACTA
51985952 TTTTA-TCTTTTTAATTTC
1 TTTTATTCTTTTTAATTTC
*
51985970 TTTTATTCTTTTTCATTT
1 TTTTATTCTTTTTAATTT
51985988 TTTAGAATTA
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:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTCTTTTTAATTTC
Found at i:51986284 original size:31 final size:31
Alignment explanation
Indices: 51986246--51986314 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
51986236 TATGAGGAAC
51986246 AAACTTAGGGTTTCATCTCAACAATATGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
*
51986277 AAACTTAGGGTTTCATCTCAACAATCTGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
51986308 AAACTTA
1 AAACTTA
51986315 AGGCTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (31 bp):
AAACTTAGGGTTTCATCTCAACAATATGTAA
Found at i:51987859 original size:23 final size:21
Alignment explanation
Indices: 51987819--51987861 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
51987809 AGAAGTAGAA
*
51987819 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
51987840 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
51987862 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:51992803 original size:23 final size:21
Alignment explanation
Indices: 51992763--51992805 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
51992753 AGAAGTAGAA
*
51992763 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
51992784 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
51992806 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:52001496 original size:13 final size:13
Alignment explanation
Indices: 52001457--52001496 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52001447 AGTTTGGCAT
*
52001457 TGCTTTTGAAAAT
1 TGCTTTTGAAAAG
*
52001470 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
52001483 TGCTCTTGAAAAG
1 TGCTTTTGAAAAG
52001496 T
1 T
52001497 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:52003133 original size:26 final size:27
Alignment explanation
Indices: 52003077--52003131 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
52003067 TTTTCTTTGC
52003077 AAGAAATCTTTTCTTAATTCTTTTAAA
1 AAGAAATCTTTTCTTAATTCTTTTAAA
*
52003104 AAGAAATTTTTTCTTAATTCTTTTAAA
1 AAGAAATCTTTTCTTAATTCTTTTAAA
52003131 A
1 A
52003132 GAGTTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (27 bp):
AAGAAATCTTTTCTTAATTCTTTTAAA
Found at i:52003724 original size:12 final size:12
Alignment explanation
Indices: 52003696--52003730 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
52003686 TTATTATATA
*
52003696 TCAAATAGTACTT
1 TCAAAT-GTAATT
52003709 TCAAATGTAATT
1 TCAAATGTAATT
52003721 TCAAATGTAA
1 TCAAATGTAA
52003731 GATATTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (12 bp):
TCAAATGTAATT
Found at i:52003897 original size:121 final size:122
Alignment explanation
Indices: 52003764--52004011 Score: 471
Period size: 123 Copynumber: 2.0 Consensus size: 122
52003754 CACGAGAGTT
52003764 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATA-TATATAAATGTATAT
1 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTATATAAATGTATAT
52003828 ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
66 ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
52003885 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTTATATAAATGTATA
1 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATA-TTATATAAATGTATA
*
52003950 TATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAGCATTACATCAAGTTTTTG
65 TATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
52004008 AAGT
1 AAGT
52004012 AAATAAGCAA
Statistics
Matches: 124, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
121 49 0.40
123 75 0.60
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (122 bp):
AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTATATAAATGTATAT
ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
Found at i:52005904 original size:8 final size:8
Alignment explanation
Indices: 52005891--52005929 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
52005881 TAATTATTTT
52005891 TTAAAAAA
1 TTAAAAAA
52005899 TTAAAAAA
1 TTAAAAAA
52005907 TTTAAAAAA
1 -TTAAAAAA
52005916 TATATAAAAA
1 T-TA-AAAAA
52005926 TTAA
1 TTAA
52005930 TTATTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 10 0.36
9 12 0.43
10 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAA
Found at i:52005929 original size:18 final size:17
Alignment explanation
Indices: 52005890--52005927 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
52005880 TTAATTATTT
52005890 TTTAAAAAATTAAAAAA
1 TTTAAAAAATTAAAAAA
52005907 TTTAAAAAATATATAAAAA
1 TTTAAAAAAT-TA-AAAAA
52005926 TT
1 TT
52005928 AATTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAATTAAAAAA
Found at i:52006445 original size:21 final size:20
Alignment explanation
Indices: 52006407--52006445 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52006397 TATTTGAGAA
* *
52006407 TATTTTCAATTATTTTATTT
1 TATTTTAAATTATATTATTT
52006427 TATTTTAATATTATATTAT
1 TATTTTAA-ATTATATTAT
52006446 CCTCTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTAAATTATATTATTT
Found at i:52008547 original size:23 final size:23
Alignment explanation
Indices: 52008485--52008539 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
52008475 AAATTCGAAT
52008485 TTCGAGTTAAACGAATCGAGTAA
1 TTCGAGTTAAACGAATCGAGTAA
*
52008508 TTCGAGTTAAACGAATCGAGTTA
1 TTCGAGTTAAACGAATCGAGTAA
52008531 TTCGAGTTA
1 TTCGAGTTA
52008540 TTAGAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (23 bp):
TTCGAGTTAAACGAATCGAGTAA
Found at i:52008615 original size:9 final size:9
Alignment explanation
Indices: 52008598--52008643 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
52008588 TGAGTTTTCG
52008598 AATTCGAAT
1 AATTCGAAT
*
52008607 AACTCGAAT
1 AATTCGAAT
52008616 AATTCGAAT
1 AATTCGAAT
52008625 AATTCGAAT
1 AATTCGAAT
52008634 AATTCGAAT
1 AATTCGAAT
52008643 A
1 A
52008644 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:52009036 original size:17 final size:17
Alignment explanation
Indices: 52008997--52009042 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
52008987 ACTCCCCCTA
52008997 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
52009015 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
52009032 TTTATTTCCCC
1 TTTATTTCCCC
52009043 CCTAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:52009679 original size:5 final size:5
Alignment explanation
Indices: 52009669--52009694 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
52009659 ACTCAAAATT
52009669 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
52009695 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:52015693 original size:32 final size:32
Alignment explanation
Indices: 52015654--52015855 Score: 133
Period size: 32 Copynumber: 6.6 Consensus size: 32
52015644 TTGAAATTTT
* *
52015654 AGTTTGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
52015687 A-TTTGTTAGATATTG-----ATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * *
52015713 AGCTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * * *
52015745 AGCTCGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
52015778 A-TTTGTTAGATATTG-----ATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * ** *
52015804 AGCTTGCTAGATATTGATTTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
*
52015836 AGCTTGTT-GCATATTGAAAT
1 AGTTTGTTAG-ATATTGAAAT
52015856 GATTGACAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
26 8 0.06
27 39 0.29
31 1 0.01
32 83 0.61
33 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
AGTTTGTTAGATATTGAAATTATTATGTTTGA
Found at i:52015761 original size:91 final size:91
Alignment explanation
Indices: 52015659--52015855 Score: 349
Period size: 91 Copynumber: 2.2 Consensus size: 91
52015649 ATTTTAGTTT
*
52015659 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
1 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
52015724 TATTGAATTTATTATGTTTTAAGCTC
66 TATTGAATTTATTATGTTTTAAGCTC
52015750 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
1 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
* *
52015815 TATTGATTTTATTATGTTTTAAGCTT
66 TATTGAATTTATTATGTTTTAAGCTC
* *
52015841 GTTGCATATTGAAAT
1 GTTGGATTTTGAAAT
52015856 GATTGACAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 101 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (91 bp):
GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
TATTGAATTTATTATGTTTTAAGCTC
Found at i:52015843 original size:59 final size:59
Alignment explanation
Indices: 52015702--52015852 Score: 153
Period size: 59 Copynumber: 2.5 Consensus size: 59
52015692 TTAGATATTG
* * *
52015702 ATTATGTTTTAAGCTTGTTAGATATTGAATTTATTATGTTTTAAGCTCGTTGGATTTTGAAATT
1 ATTATGTTTTAAGCTTGTTAGATATTG-----ATTATGTTTTAAGCTCGCTAGATATTGAAATT
* * * **
52015766 ATTATGTATTGAA-TTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGATATTGATTTT
1 ATTATGT-TTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGCTAGATATTGAAATT
52015825 ATTATGTTTTAAGCTTGTT-GCATATTGA
1 ATTATGTTTTAAGCTTGTTAG-ATATTGA
52015853 AATGATTGAC
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
58 5 0.07
59 45 0.61
64 20 0.27
65 4 0.05
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (59 bp):
ATTATGTTTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGCTAGATATTGAAATT
Found at i:52018122 original size:44 final size:44
Alignment explanation
Indices: 52018072--52018180 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 44
52018062 AAGAGTTACC
* * * *
52018072 TTTCTTAACTACCCGCATTTTTAGGCTAGTTTTTAGGGA-TTTTT
1 TTTCTTAACCACCCACATTTTTAAGCTA-CTTTTAGGGATTTTTT
* * * *
52018116 TTTCTTAGCCATCCATATTTTTAAGTTACTTTTAGGGATTTTTT
1 TTTCTTAACCACCCACATTTTTAAGCTACTTTTAGGGATTTTTT
** *
52018160 TTTCTTAGTCATCCACATTTT
1 TTTCTTAACCACCCACATTTT
52018181 CTAGGCTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 9 0.17
44 45 0.83
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (44 bp):
TTTCTTAACCACCCACATTTTTAAGCTACTTTTAGGGATTTTTT
Found at i:52022636 original size:28 final size:29
Alignment explanation
Indices: 52022605--52022661 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
52022595 TAAATATTTT
52022605 TAAAATATTTTTAAAAT-TTTTTTAATTA
1 TAAAATATTTTTAAAATATTTTTTAATTA
52022633 TAAAATATTTTTAAAATACTTTTTTAATT
1 TAAAATATTTTTAAAATA-TTTTTTAATT
52022662 TTTGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 17 0.63
30 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TAAAATATTTTTAAAATATTTTTTAATTA
Found at i:52022647 original size:11 final size:11
Alignment explanation
Indices: 52022551--52022656 Score: 79
Period size: 11 Copynumber: 10.4 Consensus size: 11
52022541 ATTTTTTTAA
*
52022551 TTTTAAAATAC
1 TTTTAAAATAT
52022562 TTTTAAAATACT
1 TTTTAAAATA-T
52022574 TTTTAAAA-AT
1 TTTTAAAATAT
* *
52022584 TTTT---TTAA
1 TTTTAAAATAT
52022592 TTTT-AAATAT
1 TTTTAAAATAT
52022602 TTTTAAAATAT
1 TTTTAAAATAT
52022613 TTTTAAAAT-T
1 TTTTAAAATAT
*
52022623 TTTT----TAA
1 TTTTAAAATAT
*
52022630 TTATAAAATAT
1 TTTTAAAATAT
52022641 TTTTAAAATACT
1 TTTTAAAATA-T
52022653 TTTT
1 TTTT
52022657 TAATTTTTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.01
7 3 0.04
8 5 0.07
10 16 0.21
11 37 0.49
12 13 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:52026534 original size:6 final size:6
Alignment explanation
Indices: 52026516--52026548 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
52026506 GATTTAAATT
*
52026516 GCGGTC GCAGTC GCGGTC GCGGTC GCGGTC GCG
1 GCGGTC GCGGTC GCGGTC GCGGTC GCGGTC GCG
52026549 TTTTCGGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.33, G:0.48, T:0.15
Consensus pattern (6 bp):
GCGGTC
Found at i:52026565 original size:17 final size:18
Alignment explanation
Indices: 52026535--52026568 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52026525 GTCGCGGTCG
52026535 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
52026553 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
52026569 GTCACGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:52030203 original size:67 final size:68
Alignment explanation
Indices: 52030049--52030205 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
52030039 CCGTGAAGGG
* * * *** * *
52030049 TACCATTAGGAGTTGTACCGTGGATGGTAATGCAAATGGGTACCTTTAGGAGTTGTGTCGTGGAT
1 TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
52030114 AGA
66 AGA
* *
52030117 TACCATTAGGAGTTGTACCATGGGTGGT-ATCACAAATAGGTACCTTTTGGAGCCATATCGTAGA
1 TACCATTAGGAGTTGTACCATGGATGGTAAT-ACAAATAGGTACCTTTAGGAGCCATATCGTAGA
*
52030181 T-GC
65 TAGA
52030184 TACCATTAGGAGTTGTACCATG
1 TACCATTAGGAGTTGTACCATG
52030206 AATGCTACCA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 25 0.32
68 52 0.68
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (68 bp):
TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
AGA
Found at i:52030228 original size:40 final size:40
Alignment explanation
Indices: 52030184--52030295 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
52030174 TCGTAGATGC
* * *
52030184 TACCATTAGGAGTTGTACCATGAATGCTACCATGGAAGGG
1 TACCATTAGGAGTTGTAACATGGATGGTACCATGGAAGGG
* ** * *
52030224 TACCATTAGGAATTGTAACATGGGCGGTACCGTGGAGGGG
1 TACCATTAGGAGTTGTAACATGGATGGTACCATGGAAGGG
* *
52030264 TACCATTAGGAGTCGTATCATGGATGGTACCA
1 TACCATTAGGAGTTGTAACATGGATGGTACCA
52030296 GTAGGAGTTG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (40 bp):
TACCATTAGGAGTTGTAACATGGATGGTACCATGGAAGGG
Found at i:52030833 original size:16 final size:16
Alignment explanation
Indices: 52030812--52030870 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
52030802 TTAATCACTT
52030812 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
52030828 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
52030843 TAAATATTATATTAATT
1 T-AATATTAAATTAATA
52030860 TAATATTAAAT
1 TAATATTAAAT
52030871 ATTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 6 0.18
16 22 0.65
17 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:52030873 original size:7 final size:6
Alignment explanation
Indices: 52030811--52030874 Score: 50
Period size: 5 Copynumber: 11.5 Consensus size: 6
52030801 CTTAATCACT
* * *
52030811 TTAATA TTAA-A TTAATA -TAATA TT--TA TCAAGA TAAATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
52030854 TTAAT- TTAATA TTAAATA TTA
1 TTAATA TTAATA TT-AATA TTA
52030875 TTAAAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
4 3 0.07
5 20 0.43
6 17 0.37
7 6 0.13
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTAATA
Found at i:52035076 original size:20 final size:20
Alignment explanation
Indices: 52035051--52035090 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
52035041 TAACGTATAC
52035051 GTATATAAATGTAT-AGATAT
1 GTATATAAAT-TATAAGATAT
52035071 GTATATAAATTATAAGATAT
1 GTATATAAATTATAAGATAT
52035091 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATATAAATTATAAGATAT
Found at i:52036910 original size:44 final size:44
Alignment explanation
Indices: 52036640--52037140 Score: 214
Period size: 44 Copynumber: 11.4 Consensus size: 44
52036630 ACTCTACTGA
* *
52036640 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
1 AACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTAC
* ** * * * **
52036684 AACTTCAGGGAGATAGGAT-TATCGGCTTCAGTCTACTCCACTGT
1 AACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTAC
* * ** **
52036728 AACTTTAGGGAGATAAGATTGGCCA-TA-TTCGATCTGC-CTCACTGT
1 AACTTCAGGGAGATAAGA-T--CTATTACTTTAATCTGCTC-CACTAC
* * * **
52036773 AACTTCAGTCGG-GATAAGACCTGCTTAC-TTAGTCTGCTCCACTGT
1 AACTTCAG--GGAGATAAGATCT-ATTACTTTAATCTGCTCCACTAC
* * * * * ** * *
52036818 AAATTCAGGGAGATAAGA-C-CTGA-TGTGATCCACTCTACTGC
1 AACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTAC
*
52036859 AACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACTAC
1 AACTTCAGGGAGATAAGATCTATTACTTTAAT-CTGCTCCACTAC
* ** *
52036903 AACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACT-C
1 AACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTAC
* * ** *
52036946 TAACTTCAGGGAGATAAGAT-TGGTCATCTTCGATCTGC-CTCACTGC
1 -AACTTCAGGGAGATAAGATCT-ATTA-CTTTAATCTGCTC-CACTAC
* * * *
52036992 AACTTCAGTCGG-GATAAGACCTTCTTAC-TTAGTCTGCTCCACTAT
1 AACTTCAG--GGAGATAAGATC-TATTACTTTAATCTGCTCCACTAC
* * * * * ** * *
52037037 AACTTTAGGGAGATAAGA-C-CTGA-TGTGATCCACTCTACTGC
1 AACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTAC
*
52037078 AACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACTAC
1 AACTTCAGGGAGATAAGATCTATTACTTTAAT-CTGCTCCACTAC
52037122 AACTTCAGGGAGATAAGAT
1 AACTTCAGGGAGATAAGAT
52037141 TTGCTTCTTC
Statistics
Matches: 340, Mismatches: 81, Indels: 72
0.69 0.16 0.15
Matches are distributed among these distances:
41 57 0.17
42 2 0.01
43 20 0.06
44 151 0.44
45 84 0.25
46 18 0.05
47 6 0.02
48 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTAC
Found at i:52037009 original size:219 final size:219
Alignment explanation
Indices: 52036613--52037141 Score: 905
Period size: 219 Copynumber: 2.4 Consensus size: 219
52036603 TCTGGTCGGC
* * * * *
52036613 AAGACTTGATGCGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
* * *
52036678 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAGTCTACTCCACTGTAACTTTAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTCTAACTTCAGGGAGATA
*
52036743 AGATTGGCCATATTCGATCTGCCTCACTGTAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
131 AGATTGGCCATATTCGATCTGCCTCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
*
52036808 GCTCCACTGTAAATTCAGGGAGAT
196 GCTCCACTATAAATTCAGGGAGAT
52036832 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
*
52036897 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTCTAACTTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTCTAACTTCAGGGAGATA
* * *
52036962 AGATTGGTCATCTTCGATCTGCCTCACTGCAACTTCAGTCGGGATAAGACCTTCTTACTTAGTCT
131 AGATTGGCCATATTCGATCTGCCTCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
* *
52037027 GCTCCACTATAACTTTAGGGAGAT
196 GCTCCACTATAAATTCAGGGAGAT
52037051 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
*
52037116 CACTACAACTTCAGGGAGATAAGATT
66 CACTACAACTTCAGGGAGATAGGATT
52037142 TGCTTCTTCA
Statistics
Matches: 293, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 293 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (219 bp):
AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTCTAACTTCAGGGAGATA
AGATTGGCCATATTCGATCTGCCTCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
GCTCCACTATAAATTCAGGGAGAT
Done.