Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 181 of 186
Found at i:59956938 original size:48 final size:48
Alignment explanation
Indices: 59956776--59956938 Score: 132
Period size: 49 Copynumber: 3.3 Consensus size: 48
59956766 GATTAGATTA
* *
59956776 TAATTTTTTTGTGTTTAGTTTAGTGTTTGTTGTGACTTGCTATAAATG
1 TAATTTTTTTGTGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATG
* * ** * * * * * * *
59956824 TAAATTTTTGTGTTTTTAAAATTA-T-TTTTTTAGTAATTTATGATTACATTA
1 T-AATTTTTTTGTGTTT-AGTTTAGTGTTTATT-GTGACTTGTTA-TA-AATG
* *
59956875 TAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATG
1 TAATTTTTTTGTGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATG
59956923 TAATTTTTTTGTGTTT
1 TAATTTTTTTGTGTTT
59956939 TTTAAATTAT
Statistics
Matches: 81, Mismatches: 27, Indels: 14
0.66 0.22 0.11
Matches are distributed among these distances:
48 22 0.27
49 26 0.32
50 25 0.31
51 8 0.10
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (48 bp):
TAATTTTTTTGTGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATG
Found at i:59957037 original size:109 final size:111
Alignment explanation
Indices: 59956837--59957038 Score: 284
Period size: 111 Copynumber: 1.8 Consensus size: 111
59956827 ATTTTTGTGT
* * * * *
59956837 TTTTAAAATTATTTTTTTAGTAATTTATGATTACATTATAAATTGTTTGTGTTTAGTTTAGTGTT
1 TTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAATGTG
59956902 TATTGTGACTTGTTATAAATGTAATTTTTTTGTGTTTTTTAAATTA
66 TATTGTGACTTGTTATAAATGTAATTTTTTTGTGTTTTTTAAATTA
* ** *
59956948 TTTTAAAGTCATTTTGTTAGTAATTTATGATTAGGTTATCAATT-ATT-TGTTTAGTTTAATGTG
1 TTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAATGTG
* *
59957011 TATTGTGATTTGTTA-AAATGTAAATTTT
66 TATTGTGACTTGTTATAAATGTAATTTTT
59957039 ATTTATGATT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 12 0.15
109 28 0.35
110 2 0.03
111 38 0.47
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (111 bp):
TTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAATGTG
TATTGTGACTTGTTATAAATGTAATTTTTTTGTGTTTTTTAAATTA
Found at i:59957061 original size:109 final size:110
Alignment explanation
Indices: 59956834--59957061 Score: 259
Period size: 109 Copynumber: 2.1 Consensus size: 110
59956824 TAAATTTTTG
* * * *
59956834 TGTTTTTAAAATTATTTTTTTAGTAATTTATGATTACATTATAAATTGTTTGTGTTTAGTTTAGT
1 TGTTTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAAT
* * *
59956899 GTTTATTGTGACTTGTTATAAATGTAATTTTTTTGTGTTTTTTAAAT
66 GTGTATTGTGACTTGTTATAAATGTAATTTTTTTATG--TATTAAAT
* * ** *
59956946 T-ATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGGTTATCAATT-ATT-TGTTTAGTTTAAT
1 TGTTTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAAT
*
59957008 GTGTATTGTGATTTGTTA-AAATGTAAATTTTATTTATG-ATTAAATT
66 GTGTATTGTGACTTGTTATAAATGT-AATTTT-TTTATGTATTAAA-T
59957054 TGTTTTTA
1 TGTTTTTA
59957062 TATAATTTTA
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
107 5 0.05
108 8 0.08
109 39 0.40
110 7 0.07
111 38 0.39
112 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.57
Consensus pattern (110 bp):
TGTTTTTAAAATCATTTTGTTAGTAATTTATGATTACATTATAAATTGATTGTGTTTAGTTTAAT
GTGTATTGTGACTTGTTATAAATGTAATTTTTTTATGTATTAAAT
Found at i:59959005 original size:33 final size:33
Alignment explanation
Indices: 59958968--59959039 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
59958958 CTACCATCAT
* * *
59958968 AGTACTCCACTCTTCCC-GGCTCGTATCCACCTC
1 AGTACTCCACTCCTCCCAGTC-CGTATCCACCGC
*
59959001 AGTACTCCACTCCTCCCAGTCCGTATCTACCGC
1 AGTACTCCACTCCTCCCAGTCCGTATCCACCGC
59959034 AGTACT
1 AGTACT
59959040 TTACTTCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.26
Consensus pattern (33 bp):
AGTACTCCACTCCTCCCAGTCCGTATCCACCGC
Found at i:59959506 original size:29 final size:32
Alignment explanation
Indices: 59959461--59959532 Score: 73
Period size: 32 Copynumber: 2.3 Consensus size: 32
59959451 ATAAGTTAGA
*
59959461 GGCTTA-TTCAACTACAAAAATA-G-GTT-AAG
1 GGCTTATTTAAACTAC-AAAATAGGAGTTGAAG
*
59959490 GGCTTATTTAAAC-ACAATATAGTGAGTTGAAG
1 GGCTTATTTAAACTACAAAATAG-GAGTTGAAG
59959522 GGCTTATTTAA
1 GGCTTATTTAA
59959533 TTCTAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 5 0.14
29 8 0.22
30 6 0.17
31 3 0.08
32 14 0.39
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (32 bp):
GGCTTATTTAAACTACAAAATAGGAGTTGAAG
Found at i:59966432 original size:25 final size:26
Alignment explanation
Indices: 59966404--59966452 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
59966394 ATAAACATTA
*
59966404 AACTAA-ACAAATAA-TTTATAATAGT
1 AACTAACAC-AATAACTTTAAAATAGT
59966429 AACTAACACAATAACTTTAAAATA
1 AACTAACACAATAACTTTAAAATA
59966453 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (26 bp):
AACTAACACAATAACTTTAAAATAGT
Found at i:59966595 original size:4 final size:4
Alignment explanation
Indices: 59966564--59966609 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
59966554 CACCTTGTCA
*
59966564 TTCT TT-T TTCT TCTCCT TTCT TTAT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT T-T-CT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
59966610 CTCCCTCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 29 0.78
5 2 0.05
6 3 0.08
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:59966875 original size:20 final size:19
Alignment explanation
Indices: 59966850--59966893 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
59966840 CATTACTAAT
* *
59966850 AAAATAATATTTTTTAATAA
1 AAAATAAAATTTATTAA-AA
59966870 AAAATAAAATTTATTAAAA
1 AAAATAAAATTTATTAAAA
59966889 AAAAT
1 AAAAT
59966894 GGTAATGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAAAATTTATTAAAA
Found at i:59974590 original size:57 final size:57
Alignment explanation
Indices: 59974522--59974635 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
59974512 ATGGTTCATG
59974522 AGTGAAGAAACCCTTGAGATAAAAGTGTCGGCAAAGTAAAAAAAAAAAAAAAGGAAT
1 AGTGAAGAAACCCTTGAGATAAAAGTGTCGGCAAAGTAAAAAAAAAAAAAAAGGAAT
59974579 AGTGAAGAAACCCTTGAGATAAAAGTGTCGGCAAAGTAAAAAAAAAAAAAAAGGAAT
1 AGTGAAGAAACCCTTGAGATAAAAGTGTCGGCAAAGTAAAAAAAAAAAAAAAGGAAT
59974636 TCCCGCGAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.56, C:0.09, G:0.21, T:0.14
Consensus pattern (57 bp):
AGTGAAGAAACCCTTGAGATAAAAGTGTCGGCAAAGTAAAAAAAAAAAAAAAGGAAT
Found at i:59989875 original size:14 final size:15
Alignment explanation
Indices: 59989851--59989879 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59989841 TTTTTTTTTT
59989851 GAAAGGCAGAAATTG
1 GAAAGGCAGAAATTG
59989866 GAAA-GCAGAAATTG
1 GAAAGGCAGAAATTG
59989880 AAAATACCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.31, T:0.14
Consensus pattern (15 bp):
GAAAGGCAGAAATTG
Found at i:59989961 original size:73 final size:73
Alignment explanation
Indices: 59989871--59990618 Score: 566
Period size: 72 Copynumber: 10.0 Consensus size: 73
59989861 AATTGGAAAG
* * *
59989871 CAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTTAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
59989936 TTGAAAAA
66 TTGAAAAA
* *
59989944 CAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
*
59990007 TTTTGAAAGA
64 TTTTGAAAAA
* * * ** *
59990017 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
59990082 TTG--AAA
66 TTGAAAAA
* * ** * *** * * *
59990088 CATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGC
1 CAGAAATT--GAAA-ATACCTCAGCGTGT-CCT--GAG-G-CTC-A-ACTC-A--C--CTCTCGC
* *
59990152 ATTATGAGTTGATTTTTTTTGAAAGA
51 AATATGAGTTGA---TTTTTGAAAAA
* * * *
59990178 TAGAAATTGAAAGTTCCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
59990242 TTTTTG-AAAA
63 TTTTTGAAAAA
* * * * * * * *
59990252 CATAAATTGAAAATACCTCAACATATCTTGAGGTTCAACTCA-TTACTCGCAATATGAGTTGAAT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATT
59990316 TTTG-AAAA
65 TTTGAAAAA
* *
59990324 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
59990389 TTTTTTTTGAAAAA
63 ---TTTTTGAAAAA
* * * ** * * *
59990403 TAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
59990468 TTG-AAAA
66 TTGAAAAA
* * * * ** * *
59990475 CAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
59990540 TTG-AAAA
66 TTGAAAAA
* * * * ** * *
59990547 TAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAAT
1 CAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
59990611 TTTGAAAA
65 TTTGAAAA
59990619 TAGAAATAAA
Statistics
Matches: 542, Mismatches: 93, Indels: 80
0.76 0.13 0.11
Matches are distributed among these distances:
71 24 0.04
72 218 0.40
73 119 0.22
74 26 0.05
75 15 0.03
76 2 0.00
77 1 0.00
78 25 0.05
79 58 0.11
80 4 0.01
81 1 0.00
82 1 0.00
83 3 0.01
84 1 0.00
85 19 0.04
86 1 0.00
87 3 0.01
88 11 0.02
90 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGAAAAA
Found at i:59990504 original size:223 final size:220
Alignment explanation
Indices: 59990115--59990605 Score: 678
Period size: 223 Copynumber: 2.2 Consensus size: 220
59990105 AAATTGCCAA
* * * * *
59990115 TACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTTTTTGAAAGATA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTCGATTTTTTTTGAAAAATA
* * *
59990180 GAAATTGAAAGTTCCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 GAAATTGAAAATACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
* *
59990245 TTGAAAACATAAATTGAAAATACCTCAACATATCTTGAGGTTCAACTCATTACTCGCAATATGAG
129 TTGAAAACAGAAATTGAAAATACCTCAACATATCTTGAGGCTCAACTCATTACTCGCAATATGAG
**
59990310 TTGAATTTTGAAAACAGAAATTGAAAT
194 TTGAATTTTGAAAACAGAAATAAAAAT
*
59990337 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTCGA---TTTTTTTTGAAAA
* ** * *
59990402 ATAGAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTTGCAATCTGAGTTGAA
63 ATAGAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
* * * *
59990466 TTTTGAAAACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTTGCAATATG
127 TTTTGAAAACAGAAATTGAAAATACCTCAACATATCTTGAGGCTCAACTCATTACTCGCAATATG
*
59990531 AGTTGAATTTTGAAAATAGAAATAAAAAT
192 AGTTGAATTTTGAAAACAGAAATAAAAAT
* * * *
59990560 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
59990606 TGAATTTTGA
Statistics
Matches: 237, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
222 45 0.19
223 155 0.65
225 37 0.16
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (220 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTCGATTTTTTTTGAAAAATA
GAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
GAAAACAGAAATTGAAAATACCTCAACATATCTTGAGGCTCAACTCATTACTCGCAATATGAGTT
GAATTTTGAAAACAGAAATAAAAAT
Found at i:59995501 original size:14 final size:14
Alignment explanation
Indices: 59995484--59995521 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
59995474 AGGTTCTCGC
59995484 GATCTTTCTTTCCT
1 GATCTTTCTTTCCT
59995498 GATCTTTCTTTCCT
1 GATCTTTCTTTCCT
59995512 GATCTTTCTT
1 GATCTTTCTT
59995522 CCACTGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.08, C:0.26, G:0.08, T:0.58
Consensus pattern (14 bp):
GATCTTTCTTTCCT
Found at i:60004016 original size:3 final size:3
Alignment explanation
Indices: 60004002--60004144 Score: 128
Period size: 3 Copynumber: 47.7 Consensus size: 3
60003992 TATAACAATA
* * * * *
60004002 ATT ATT ACT ATT ATT ATT ATT TTT ACT ATT ACT ATT ATT TTCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
** **
60004048 ATT ATT ATT ATT ATT ATT ATT ACC ATT ACG ATT -TCT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
60004093 ATT GTT ATT ATT ATC ATT A-T AGT ATT ATT ATT ATT ACT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
60004140 ATT AT
1 ATT AT
60004145 CATTTTTACT
Statistics
Matches: 109, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
2 3 0.03
3 103 0.94
4 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:60004305 original size:12 final size:12
Alignment explanation
Indices: 60004269--60004306 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
60004259 TATTCCTTTA
60004269 TTATTTTATTTAT
1 TTATTTTATTT-T
*
60004282 TTATTTCATTTT
1 TTATTTTATTTT
60004294 TTATTTTATTTT
1 TTATTTTATTTT
60004306 T
1 T
60004307 GTTCTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:60009610 original size:25 final size:25
Alignment explanation
Indices: 60009542--60009613 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
60009532 CAACCTATAC
* *
60009542 CTTTTCAACTTCTTCAATTTATATT
1 CTTTTGAACTTCTTCAATTTCTATT
* *
60009567 CTTCTGAACTTTTTCAATTTCTATT
1 CTTTTGAACTTCTTCAATTTCTATT
60009592 CTTTTGAACTTC-TCTAATTTCT
1 CTTTTGAACTTCTTC-AATTTCT
60009614 CTCGCTGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 2 0.05
25 38 0.95
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.56
Consensus pattern (25 bp):
CTTTTGAACTTCTTCAATTTCTATT
Found at i:60009970 original size:128 final size:128
Alignment explanation
Indices: 60009681--60009994 Score: 388
Period size: 128 Copynumber: 2.5 Consensus size: 128
60009671 AAGCAGGATG
* * * *
60009681 TACTATAGAAAAAGAGCGTCCAGA-TGG-GA--TTTTTTCAGTACTTTTACTGATAGTGCATCCT
1 TACTATAGAAAAAAAGCGTCCATAGTGGTGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
* *
60009742 TCTTGAAGCATTTTTGACACTATTTTTTTAAAACCATATTCTCAAAATTATTTTTTCAAAAAC
66 GCATGAAGCATTTTTGACACTATTTTTTTAAAACCATATTCTCAAAATTATTTTTTCAAAAAC
* ** ***
60009805 TACTATAGAAAAATAGCGTCCATCTTGGTGTTTTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
1 TACTATAGAAAAAAAGCGTCCATAGTGGTGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
* * * *
60009870 GCATGAAGCATTTTTGACATTATTTTTTTCAAAACCATCTTCTCAAAATTATTTTTTTTATAAAC
66 GCATGAAGCATTTTTGACACTATTTTTTT-AAAACCATATTCTCAAAATTA-TTTTTTCAAAAAC
* * * *
60009935 TACTGTATAAAAAAAGTGTTCA-AGTGG-GAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
1 TACTATAGAAAAAAAGCGTCCATAGTGGTGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
60009995 GTAACTCCCT
Statistics
Matches: 162, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
124 21 0.13
125 3 0.02
126 1 0.01
128 86 0.53
129 23 0.14
130 28 0.17
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (128 bp):
TACTATAGAAAAAAAGCGTCCATAGTGGTGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
GCATGAAGCATTTTTGACACTATTTTTTTAAAACCATATTCTCAAAATTATTTTTTCAAAAAC
Found at i:60012022 original size:48 final size:48
Alignment explanation
Indices: 60011967--60012236 Score: 177
Period size: 48 Copynumber: 5.6 Consensus size: 48
60011957 TATAAGAGCC
60011967 AGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGAGTCGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGAGTCGAGTGCT
*** * * *
60012015 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGAGTCG-AGTGCT
* * * * *
60012063 AGTGTAAGA-TATGTCTAGGACAT-GCATC-A-GCT-ACG-AGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGA-GTCGA-GTGCT
* * * *
60012107 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAT-A-TGCGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCG-A-TGTTGAGT-CGAGTGCT
* * * *
60012157 AGTGTAAGACCATGTCTAGGACAAGACATCAGCCTCGTTGA-T-GA-TAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AT-GTTGAGTCGAGT-GCT
*
60012206 AGTGTAAGACCATGCCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
60012237 GCATACTTAC
Statistics
Matches: 171, Mismatches: 34, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 12 0.07
45 12 0.07
46 8 0.05
47 13 0.08
48 50 0.29
49 34 0.20
50 32 0.19
51 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGAGTCGAGTGCT
Found at i:60012227 original size:99 final size:96
Alignment explanation
Indices: 60011961--60012239 Score: 306
Period size: 92 Copynumber: 2.9 Consensus size: 96
60011951 CCACATTATA
* * *
60011961 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GAT-GTTGAGTCGAGTGCTAGTGTAAGA
1 AGAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCAGCTCGTTGA-T-GA-TGCTAGTGTAAGA
*
60012024 CCATGTCTGGGACATGGCATCGGC-CTCGAGACGT
62 CCATGTCTGGGACATGGCATCGGCACTAGAGACGT
* * *
60012058 A-AGCTAGTGTAAGA-TATGTCTAGGACATGCATCAGCTACG-AGATG-TGTTAGTGTAAGACCA
1 AGAGCTAGTGTAAGACCATGTCTAGGACATGCATCAGCT-CGTTGATGATGCTAGTGTAAGACCA
* *
60012119 TGTCTGGGACATGGCATTGGCAC-AGATATGCG-
65 TGTCTGGGACATGGCATCGGCACTAGAGA--CGT
*
60012151 AGAGCTAGTGTAAGACCATGTCTAGGACAAGACATCAGCCTCGTTGATGATAGCTAGTGTAAGAC
1 AGAGCTAGTGTAAGACCATGTCTAGGACATG-CATCAG-CTCGTTGATGAT-GCTAGTGTAAGAC
*
60012216 CATGCCTGGGACATGGCATCGGCA
63 CATGTCTGGGACATGGCATCGGCA
60012240 TACTTACTCC
Statistics
Matches: 154, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
92 38 0.25
93 2 0.01
94 21 0.14
95 28 0.18
96 22 0.14
97 8 0.05
98 1 0.01
99 34 0.22
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (96 bp):
AGAGCTAGTGTAAGACCATGTCTAGGACATGCATCAGCTCGTTGATGATGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCACTAGAGACGT
Found at i:60015138 original size:18 final size:19
Alignment explanation
Indices: 60015101--60015144 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
60015091 GTAAAGTAAC
60015101 AAATAAACATATTAAATTAT
1 AAAT-AACATATTAAATTAT
* *
60015121 ATATAACA-ATTAATTTAT
1 AAATAACATATTAAATTAT
60015139 AAATAA
1 AAATAA
60015145 ACTATTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 14 0.67
19 4 0.19
20 3 0.14
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAACATATTAAATTAT
Found at i:60016646 original size:13 final size:13
Alignment explanation
Indices: 60016628--60016653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60016618 TATATATATA
60016628 ATATAATAATAAT
1 ATATAATAATAAT
60016641 ATATAATAATAAT
1 ATATAATAATAAT
60016654 TTCTTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:60016732 original size:21 final size:21
Alignment explanation
Indices: 60016708--60016747 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60016698 TATTTAATTT
60016708 ATAAAATAATAAAATAATAAA
1 ATAAAATAATAAAATAATAAA
** *
60016729 ATAATCTAATTAAATAATA
1 ATAAAATAATAAAATAATA
60016748 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAATAATAAAATAATAAA
Found at i:60016746 original size:8 final size:8
Alignment explanation
Indices: 60016708--60016733 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
60016698 TATTTAATTT
60016708 ATAAAATA
1 ATAAAATA
60016716 ATAAAATA
1 ATAAAATA
60016724 ATAAAATA
1 ATAAAATA
60016732 AT
1 AT
60016734 CTAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATAAAATA
Found at i:60018709 original size:125 final size:126
Alignment explanation
Indices: 60018474--60019069 Score: 758
Period size: 125 Copynumber: 4.8 Consensus size: 126
60018464 ACGGGTTGTT
60018474 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATCATT-TCAAAATTA-T
1 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATC-TTCTCAAAATTATT
* * *
60018537 TTTTCAGAAACTACTGTAGAAAAATAGCGTCCAGCTTGAAGCTTTTTTTAGTACTTTTGCTG
65 TTTTCAGAAACTACTGTAGAAAAATAGCGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
* * *
60018599 ACAGTGCATCCTGCTTGAAGCATTTTTGACACTGTTTTTTAAGAACCATCTTCTCAAAATTATTT
1 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTT
* * *
60018664 TTTCAGAAACTACTGTATAAAAAGAGTGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
66 TTTCAGAAACTACTGTAGAAAAATAGCGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
* * * * *
60018725 ACAGTGCATCCTGCTTGGAGCATTTTTGACATTATTTTTTCAG-ATCATCTTTTCAAAATTATTT
1 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTT
* * * *
60018789 TTTCAGAAACTCCTGTAGAAAAATAGTGTCCATGTGGGAGC-TTTTTCAGTACTTTTGCTG
66 TTTCAGAAACTACTGTAGAAAAATAGCGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
* * * * *
60018849 AAAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTCAAAACCATCTTCTCAAAATTATTG
1 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTT
* * * * *
60018914 TTTCAGAAACTCCTGTAGAAAAATAGCATCCAGGT--GAGCTTTTTTCATTACTTTTGTTG
66 TTTCAGAAACTACTGTAGAAAAATAGCGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
** * * * * * **
60018973 ACAGTATATCCTGCTTAAAGCGTTTTTTAC-CCATTTTTTTCATAACCATCTTCTCAAAA-AAAA
1 ACAGTGCATCCTGCTTGAAGCATTTTTTACACTA-TTTTTTCAGAACCATCTTCTCAAAATTATT
* * *
60019036 ATTTCAGAAATTACTGTAGAAAAATAGCATCCAG
65 TTTTCAGAAACTACTGTAGAAAAATAGCGTCCAG
60019070 CTTTTTTTCA
Statistics
Matches: 419, Mismatches: 47, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
123 38 0.09
124 123 0.29
125 162 0.39
126 96 0.23
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (126 bp):
ACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTT
TTTCAGAAACTACTGTAGAAAAATAGCGTCCAGGTGGGAGCTTTTTTTAGTACTTTTGCTG
Found at i:60019276 original size:33 final size:32
Alignment explanation
Indices: 60019213--60019279 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
60019203 CCTTAAACCC
*
60019213 TAATTTATTTTTTATAAAAAATAATCTTAATT
1 TAATTTATTTTTTATAAAAAATAAACTTAATT
*
60019245 TAATTTATTTTTTA-AAAACCATAAACATTAATT
1 TAATTTATTTTTTATAAAA-AATAAAC-TTAATT
60019278 TA
1 TA
60019280 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 4 0.13
32 19 0.61
33 8 0.26
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (32 bp):
TAATTTATTTTTTATAAAAAATAAACTTAATT
Found at i:60019332 original size:29 final size:28
Alignment explanation
Indices: 60019171--60019332 Score: 125
Period size: 28 Copynumber: 5.6 Consensus size: 28
60019161 CAAAAATCCT
* * *
60019171 AAAACCCTAAACACAAATTTA-TTTTTA
1 AAAACCATAAACTCTAATTTATTTTTTA
* *
60019198 AAAATCCTTAAACCCTAATTTATTTTTTA
1 AAAA-CCATAAACTCTAATTTATTTTTTA
* * *
60019227 TAAAA-AATAATCTTAATTTAATTTATTTTTTA
1 -AAAACCATAA----ACTCTAATTTATTTTTTA
60019259 AAAACCATAAACAT-TAATTTATTTTTTA
1 AAAACCATAAAC-TCTAATTTATTTTTTA
* *
60019287 AAAACTC-TAAACCCTAATTTATTTTTTCC
1 AAAAC-CATAAACTCTAATTTATTTTTT-A
60019316 AAAACCATAAACTCTAA
1 AAAACCATAAACTCTAA
60019333 ACATATAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.04
28 56 0.51
29 22 0.20
30 4 0.04
31 4 0.04
32 19 0.17
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAACCATAAACTCTAATTTATTTTTTA
Found at i:60021347 original size:95 final size:97
Alignment explanation
Indices: 60021219--60021423 Score: 240
Period size: 95 Copynumber: 2.1 Consensus size: 97
60021209 GGTTTTTAAA
* * * ** *
60021219 GTTTAGAG-TTTTAAGGAAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATT
1 GTTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATT
* *
60021283 ACT-AATTTTAAAAAA-TTAGATTATGG-TTTAGT
65 A-TAAATTTAAAAAAATTTAGATTA-GGATTTAGG
* * *
60021315 GTTTATGGTTTTTAAGG-AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA
60021379 TAAATTTAAAAAAATTTAGATTAGGATTTTAGG
66 TAAATTTAAAAAAATTTAGATTAGGA-TTTAGG
60021412 GTTTAGGGTTTT
1 GTTTAGGGTTTT
60021424 AGAGTATTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
94 1 0.01
95 53 0.58
96 14 0.15
97 24 0.26
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (97 bp):
GTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA
TAAATTTAAAAAAATTTAGATTAGGATTTAGG
Found at i:60022048 original size:126 final size:126
Alignment explanation
Indices: 60021511--60022037 Score: 835
Period size: 126 Copynumber: 4.2 Consensus size: 126
60021501 AAAAGCTTCT
* *
60021511 ACGTGGACGTTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
60021576 ATAGTGTCAAAAACGCTTCAAGCAGGATGTATTGTCAGCAAAAGTACTGAAAGAAGCTCTC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
60021637 ACGTGGACACTTTTTTGCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
60021701 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTT-AGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
60021762 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTACACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
60021827 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAATCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
60021888 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
60021953 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
60022014 ACGTGGACGCTCTTTTGCTACAGT
1 ACGTGGACGCTCTTTTGCTACAGT
60022038 GGTTTTTGAA
Statistics
Matches: 364, Mismatches: 32, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
125 115 0.32
126 247 0.68
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:60025381 original size:293 final size:293
Alignment explanation
Indices: 60024854--60025441 Score: 1081
Period size: 293 Copynumber: 2.0 Consensus size: 293
60024844 GCTTGCTCCG
60024854 TTTAAGCTGTTACCGGATAGAGAGTTGCGGCGTAAACCAAAGGGTCGACCTTACTCGACTAGAAT
1 TTTAAGCTGTTACCGGATAGAGAGTTGCGGCGTAAACCAAAGGGTCGACCTTACTCGACTAGAAT
60024919 ACGCAACAATATGGATATCCGAGAAACAACCAATCAACAGAAGTTATGTGGATGGTGTAGGAACC
66 ACGCAACAATATGGATATCCGAGAAACAACCAATCAACAGAAGTTATGTGGATGGTGTAGGAACC
60024984 CAGGCCATACAAGTAGATCATGTCCAAATCGCAATAGTTGATAGTTGTTGTAATTGTCAATATGT
131 CAGGCCATACAAGTAGATCATGTCCAAATCGCAATAGTTGATAGTTGTTGTAATTGTCAATATGT
** * * *
60025049 TGTATTATTTATATTTTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAA
196 TGTACAATTTATATCTAATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAA
*
60025114 TAATTTTCATTTTATTAAAAATATAAAAGTAAA
261 TAATTTCCATTTTATTAAAAATATAAAAGTAAA
60025147 TTTAAGCTGTTACCGGATAGAGAGTTGCGGCGTAAACCAAAGGGTCGACCTTACTCGACTAGAAT
1 TTTAAGCTGTTACCGGATAGAGAGTTGCGGCGTAAACCAAAGGGTCGACCTTACTCGACTAGAAT
60025212 ACGCAACAATATGGATATCCGAGAAACAACCAATCAACAGAAGTTATGTGGATGGTGTAGGAACC
66 ACGCAACAATATGGATATCCGAGAAACAACCAATCAACAGAAGTTATGTGGATGGTGTAGGAACC
60025277 CAGGCCATACAAGTAGATCATGTCCAAATCGCAATAGTTGATAGTTGTTGTAATTGTCAATATGT
131 CAGGCCATACAAGTAGATCATGTCCAAATCGCAATAGTTGATAGTTGTTGTAATTGTCAATATGT
*
60025342 TG-ACAACCTTT-TATCTAATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAA
196 TGTACAA--TTTATATCTAATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAA
60025405 AATAATTTCCATTTTATTAAAAATATAAAAGTAAA
259 AATAATTTCCATTTTATTAAAAATATAAAAGTAAA
60025440 TT
1 TT
60025442 ATAATTACTT
Statistics
Matches: 286, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
292 2 0.01
293 281 0.98
294 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (293 bp):
TTTAAGCTGTTACCGGATAGAGAGTTGCGGCGTAAACCAAAGGGTCGACCTTACTCGACTAGAAT
ACGCAACAATATGGATATCCGAGAAACAACCAATCAACAGAAGTTATGTGGATGGTGTAGGAACC
CAGGCCATACAAGTAGATCATGTCCAAATCGCAATAGTTGATAGTTGTTGTAATTGTCAATATGT
TGTACAATTTATATCTAATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAA
TAATTTCCATTTTATTAAAAATATAAAAGTAAA
Found at i:60026029 original size:30 final size:30
Alignment explanation
Indices: 60025974--60026030 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60025964 TGAACTGTTG
*
60025974 GGCCCGGTGATTGTGTAGGTCCTGTTGCTA
1 GGCCCGGTGATTGTGTAGGGCCTGTTGCTA
*
60026004 GGCCGGGTGATTGTGT-GGGCGCTGTTG
1 GGCCCGGTGATTGTGTAGGGC-CTGTTG
60026031 ATGGGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.07, C:0.18, G:0.44, T:0.32
Consensus pattern (30 bp):
GGCCCGGTGATTGTGTAGGGCCTGTTGCTA
Found at i:60026545 original size:7 final size:7
Alignment explanation
Indices: 60026535--60026561 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60026525 GTTAAATAAA
60026535 AAATACT
1 AAATACT
60026542 AAATACT
1 AAATACT
60026549 AAATACT
1 AAATACT
60026556 AAATAC
1 AAATAC
60026562 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:60026546 original size:14 final size:14
Alignment explanation
Indices: 60026527--60026560 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
60026517 AAATATTAGT
60026527 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
60026541 TAAATACTAAATAC
1 TAAATAAAAAATAC
60026555 TAAATA
1 TAAATA
60026561 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:60027764 original size:20 final size:21
Alignment explanation
Indices: 60027721--60027771 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
60027711 TAACGAGAGT
60027721 TTTGAGAGGAGTTTAAGAGAAA
1 TTTGAGA-GAGTTTAAGAGAAA
* *
60027743 TTTGAGAGA-TTTGAGAGGAA
1 TTTGAGAGAGTTTAAGAGAAA
60027763 TTTGAGAGA
1 TTTGAGAGA
60027772 ATATTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 2 0.07
22 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.29
Consensus pattern (21 bp):
TTTGAGAGAGTTTAAGAGAAA
Found at i:60027778 original size:11 final size:10
Alignment explanation
Indices: 60027721--60027778 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
60027711 TAACGAGAGT
*
60027721 TTTGAGAGGAG
1 TTTGAGA-GAA
*
60027732 TTTAAGAGAAA
1 TTTGAGAG-AA
60027743 TTTGAGAG-A
1 TTTGAGAGAA
60027752 TTTGAGAGGAA
1 TTTGAGA-GAA
60027763 TTTGAGAGAA
1 TTTGAGAGAA
60027773 TATTGA
1 T-TTGA
60027779 AAAATTGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 26 0.65
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:60036789 original size:6 final size:6
Alignment explanation
Indices: 60036776--60036825 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
60036766 CCAAAAACAC
* *
60036776 TGAA-A TGAAGA TGAAGA TGAAGA TGAAGA --AAGA AGAAGA AGAAGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA
*
60036821 CGAAG
1 TGAAG
60036826 TACTAAGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
4 4 0.10
5 4 0.10
6 33 0.80
ACGTcount: A:0.56, C:0.02, G:0.32, T:0.10
Consensus pattern (6 bp):
TGAAGA
Found at i:60036808 original size:22 final size:22
Alignment explanation
Indices: 60036783--60036825 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60036773 CACTGAAATG
* * *
60036783 AAGATGAAGATGAAGATGAAGA
1 AAGAAGAAGAAGAAGACGAAGA
60036805 AAGAAGAAGAAGAAGACGAAG
1 AAGAAGAAGAAGAAGACGAAG
60036826 TACTAAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (22 bp):
AAGAAGAAGAAGAAGACGAAGA
Found at i:60037073 original size:5 final size:5
Alignment explanation
Indices: 60037063--60037092 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
60037053 AATAATTTAG
60037063 TTATT TTATT TTATT TTATT TTATT ATTAT
1 TTATT TTATT TTATT TTATT TTATT -TTAT
60037093 ACCTAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:60040152 original size:24 final size:24
Alignment explanation
Indices: 60040106--60040152 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
60040096 TAAAATTGAT
*
60040106 GGTAGAGATGAAGATAAGCATGAG
1 GGTAGAGATGAAGAGAAGCATGAG
*
60040130 GGTAGAGGTGAAGACGAAG-ATGA
1 GGTAGAGATGAAGA-GAAGCATGA
60040153 CGACGACGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.40, C:0.04, G:0.40, T:0.15
Consensus pattern (24 bp):
GGTAGAGATGAAGAGAAGCATGAG
Found at i:60044979 original size:355 final size:354
Alignment explanation
Indices: 60044322--60045022 Score: 914
Period size: 355 Copynumber: 2.0 Consensus size: 354
60044312 AAAAACTGTG
60044322 GAGCTTCCTGCTATAATCAGTGTAATTTTTTTCTCTATTTCTACGTAGCCAATATCTTTAACTTT
1 GAGCTTCCTGCTATAATCAGTGTAATTTTTTTCTCTATTTCTACGTAGCCAATATCTTTAACTTT
* * *
60044387 CTTTCTTATCTGAAGATTGACACTGCCGTGGACGCAAAAGGACTCTCGGACAAACAACAACTTGC
66 CTTTCTTATCTGAAGATCGACACTGCCGTAGACGCAAAAGGACTCTCAGACAAACAACAACTTGC
* * * *
60044452 GATGCAGTAAAAGTGAATATCTTTTCTGGGTGACACCGGTTGCCATTATTAAAAAACTCATTAAT
131 GATGCAGTAAAAGTGAATATCCTTTCGGGGTGACAACGGTTGCCATTATTAAAAAACCCATTAAT
* * * * *
60044517 AACTATAATCGTTACTGTATCGACCCGAGTTTAACTTTTATTGTGCCAAAACATTCGCTTTCCGC
196 AACTACAACCGTTACTGCATCAACCCGAGTTTAACTTTTATTGTGCCAAAACATTCGCTTTCCAC
* *
60044582 TTGAGAGACCTCTTGTATCCACCTCAGTGTCAGCTGTCAAATAAGAATAAAAGGTTAAAGATACC
261 TTGAGAGACCTCTTGTATCCACCTCAGTATCAACTGTCAAATAAGAATAAAAGGTTAAAGATACC
60044647 GACTGCCTAGAAATAGAGAAATATATGTA
326 GACTGCCTAGAAATAGAGAAATATATGTA
* * **
60044676 GAGCTTCTTGCTATAAT-AG-GCATAATTTTTTTCTCTATTTCTACGTCGCTGATAT-TTTAACT
1 GAGCTTCCTGCTATAATCAGTG--TAATTTTTTTCTCTATTTCTACGTAGCCAATATCTTTAACT
* * * * * * *
60044738 TTCTTTCTTATTTTAACG-TCGGCACTGCCGTAGACGCATAAA-GACTCTTAGACGAACAATAGC
64 TTCTTTCTTATCTGAA-GATCGACACTGCCGTAGACGCA-AAAGGACTCTCAGACAAACAACAAC
* * * *
60044801 TGTTGCGATGCAGTAAAGGTG-ATGCTCCTTTCGGGGTGGCAATGGTTGCCATTATTAAAAAACC
127 --TTGCGATGCAGTAAAAGTGAAT-ATCCTTTCGGGGTGACAACGGTTGCCATTATTAAAAAACC
* * *
60044865 CATTAATAACTACAACCGTTACTGCGTCAACCCGAGTTTAACTTTTATTGTGTCGAAACA-TC-C
189 CATTAATAACTACAACCGTTACTGCATCAACCCGAGTTTAACTTTTATTGTGCCAAAACATTCGC
* * * * * * *
60044928 ATTCTCCATTTGAGAGCCCTCTTGTGTCCACTTCGGTATCAACTTTCAAATAAGAATGAAAGGTT
254 -TT-TCCACTTGAGAGACCTCTTGTATCCACCTCAGTATCAACTGTCAAATAAGAATAAAAGGTT
60044993 AAAGATACCGACTGCCTAGAAATAGAGAAA
317 AAAGATACCGACTGCCTAGAAATAGAGAAA
60045023 AAATTACATT
Statistics
Matches: 299, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
352 1 0.00
353 57 0.19
354 56 0.19
355 185 0.62
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (354 bp):
GAGCTTCCTGCTATAATCAGTGTAATTTTTTTCTCTATTTCTACGTAGCCAATATCTTTAACTTT
CTTTCTTATCTGAAGATCGACACTGCCGTAGACGCAAAAGGACTCTCAGACAAACAACAACTTGC
GATGCAGTAAAAGTGAATATCCTTTCGGGGTGACAACGGTTGCCATTATTAAAAAACCCATTAAT
AACTACAACCGTTACTGCATCAACCCGAGTTTAACTTTTATTGTGCCAAAACATTCGCTTTCCAC
TTGAGAGACCTCTTGTATCCACCTCAGTATCAACTGTCAAATAAGAATAAAAGGTTAAAGATACC
GACTGCCTAGAAATAGAGAAATATATGTA
Found at i:60045427 original size:16 final size:18
Alignment explanation
Indices: 60045398--60045434 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
60045388 TTCACCCTTT
60045398 AAACCTTAATCCCTAA-A
1 AAACCTTAATCCCTAACA
*
60045415 AAACTTTAA-CCCTAACA
1 AAACCTTAATCCCTAACA
60045432 AAA
1 AAA
60045435 TTAATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (18 bp):
AAACCTTAATCCCTAACA
Found at i:60046778 original size:2 final size:2
Alignment explanation
Indices: 60046773--60046816 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
60046763 ATATACATAT
60046773 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG ATG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG
60046816 A
1 A
60046817 ATCTTGGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:60050297 original size:65 final size:65
Alignment explanation
Indices: 60050227--60050357 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
60050217 CAAGCAAACC
*
60050227 GCTAACAAGGTAATGACTGCAGGAAGTTTATAATCATGGATTGTTGATGATGCAAGCACAAGAAG
1 GCTAACAAGGTAATGACTACAGGAAGTTTATAATCATGGATTGTTGATGATGCAAGCACAAGAAG
*
60050292 GCTAACAAGGTAATGAGTACAGGAAGTTTATAATCATGGATTGTTGATGATGCAAGCACAAGAAG
1 GCTAACAAGGTAATGACTACAGGAAGTTTATAATCATGGATTGTTGATGATGCAAGCACAAGAAG
60050357 G
1 G
60050358 ACGGGCCATA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.24
Consensus pattern (65 bp):
GCTAACAAGGTAATGACTACAGGAAGTTTATAATCATGGATTGTTGATGATGCAAGCACAAGAAG
Found at i:60056929 original size:46 final size:46
Alignment explanation
Indices: 60056879--60056996 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 46
60056869 TGCCATAGTG
* * *
60056879 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGATA
* * *
60056925 TCTTTCAACCAAGGTCTTATTCATTTCCTATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGATA
*
60056971 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACTCATTT
60056997 GAATCACGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGATA
Found at i:60057029 original size:44 final size:45
Alignment explanation
Indices: 60056971--60057074 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
60056961 TGCCATGGTA
* * *
60056971 TCTTTCAACCATGGTCTTACACATTTGAATCACGATGCCATAG-G
1 TCTTTCAGCTATGGTCTTACACATCTGAATCACGATGCCATAGCG
* * **
60057015 TCTTTCAGCTATGGTCTTACTCGTCTGAATCTTGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACACATCTGAATCACGATGCCATAGCG
60057060 TCTTTCAGCTATGGT
1 TCTTTCAGCTATGGT
60057075 GATGCCACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 36 0.69
45 16 0.31
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACACATCTGAATCACGATGCCATAGCG
Found at i:60059150 original size:30 final size:31
Alignment explanation
Indices: 60059082--60059140 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
60059072 CACCCTTAAA
*
60059082 ATATTTACACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGCCCTTCAAATTTTTC
60059113 ATATTTACACT-TTAGCCCCTT-AAATTTT
1 ATATTTACACTATTAG-CCCTTCAAATTTT
60059141 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAAATTTTTC
Found at i:60061710 original size:47 final size:47
Alignment explanation
Indices: 60061591--60062128 Score: 950
Period size: 47 Copynumber: 11.4 Consensus size: 47
60061581 CAGCCAAGAC
* *
60061591 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061638 AGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061734 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061781 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061828 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061875 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061922 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60061969 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60062016 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * ** *
60062063 AGTGTATATATGTGACAGGGCCGAGTGGCCAACATGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60062110 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
60062129 TCCCGAAGGG
Statistics
Matches: 475, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 430 0.91
49 45 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:60062303 original size:37 final size:37
Alignment explanation
Indices: 60062247--60062325 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
60062237 CCGAGCTCTA
* * *
60062247 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACACGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
60062284 AAGACACGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACACGATAACTACGTGTGGAGATTATGTCCGGGT
60062321 AAGAC
1 AAGAC
60062326 TTCATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACACGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60067309 original size:12 final size:12
Alignment explanation
Indices: 60067294--60067319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60067284 ACAGTAAGGG
60067294 TAACAGTAACAA
1 TAACAGTAACAA
60067306 TAACAGTAACAA
1 TAACAGTAACAA
60067318 TA
1 TA
60067320 GTGGTACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:60068409 original size:47 final size:47
Alignment explanation
Indices: 60068340--60068455 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
60068330 CTTCGGGACT
* * * *
60068340 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
60068387 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
60068434 TATCAC--ATATACACTTTCACAT
1 TATCACATATATACACTTTCACAT
60068456 TTATTCAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 16 0.26
47 45 0.74
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:60072110 original size:16 final size:17
Alignment explanation
Indices: 60072057--60072110 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
60072047 ATTAATATAT
* *
60072057 TATAATTATATAATTTA
1 TATAATTATTTACTTTA
* *
60072074 -AT-ATAATTTACTTTT
1 TATAATTATTTACTTTA
60072089 TATAATTATTTAC-TTA
1 TATAATTATTTACTTTA
60072105 TATAAT
1 TATAAT
60072111 AAGTAAATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTATTTACTTTA
Found at i:60074666 original size:27 final size:27
Alignment explanation
Indices: 60074628--60074682 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
60074618 CAAGGAATAC
60074628 AACCTCCGTTAACCAAAACTCACACTT
1 AACCTCCGTTAACCAAAACTCACACTT
60074655 AACCTCCGTTAACCAAAACTCACACTT
1 AACCTCCGTTAACCAAAACTCACACTT
60074682 A
1 A
60074683 CCCAATTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.22
Consensus pattern (27 bp):
AACCTCCGTTAACCAAAACTCACACTT
Found at i:60081616 original size:20 final size:20
Alignment explanation
Indices: 60081593--60081636 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
60081583 AAAATATCCG
* *
60081593 TACCCTAGTGTCAGTATCAA
1 TACCCTAGAGTCAATATCAA
*
60081613 TACCCTAGAGTCAATATCGA
1 TACCCTAGAGTCAATATCAA
60081633 TACC
1 TACC
60081637 TACGTACACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (20 bp):
TACCCTAGAGTCAATATCAA
Found at i:60085682 original size:4 final size:4
Alignment explanation
Indices: 60085669--60085703 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
60085659 TGGTTTTTTG
*
60085669 AATT -ATT AATT AATT AATT AATT AATT AAAT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
60085704 GAAGTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:60085851 original size:17 final size:17
Alignment explanation
Indices: 60085829--60085864 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60085819 TAAAATTGAG
*
60085829 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
*
60085846 TTGAGAAATTTAATTAA
1 TTGAGAAAATTAATTAA
60085863 TT
1 TT
60085865 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:60089788 original size:41 final size:41
Alignment explanation
Indices: 60089743--60089887 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 41
60089733 TGTAAATAGG
*
60089743 GGCACGTATGTGCTATTCAGGGGTACCGAAGTACAAACAGA
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGA
* * * *
60089784 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGA
* * * ** *
60089825 GGCACGTATGTGTAATTCTGGGGAACTAAAGTACAAATAG-
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGA
* *
60089865 GTGCACGCATGTGCAATTTAGGG
1 G-GCACGTATGTGCAATTCAGGG
60089888 TATAATTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 86 0.99
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGA
Found at i:60089877 original size:82 final size:82
Alignment explanation
Indices: 60089736--60089887 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 82
60089726 ACTAGAGTGT
* * *
60089736 AAATAGGGGCACGTATGTGCTATTCAGGGGTACCGAAGTACAAACAGAGGCACATATGTGCAATT
1 AAATAGGGGCACGTATGTGCTATTCAGGGGAACCAAAGTACAAACAGAGGCACACATGTGCAATT
60089801 TAGGGGTACCGAAGTAC
66 TAGGGGTACCGAAGTAC
* * * *
60089818 AAATAGGGGCACGTATGTG-TAATTCTGGGGAACTAAAGTACAAATAG-GTGCACGCATGTGCAA
1 AAATAGGGGCACGTATGTGCT-ATTCAGGGGAACCAAAGTACAAACAGAG-GCACACATGTGCAA
60089881 TTTAGGG
64 TTTAGGG
60089888 TATAATTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 2 0.03
82 59 0.97
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (82 bp):
AAATAGGGGCACGTATGTGCTATTCAGGGGAACCAAAGTACAAACAGAGGCACACATGTGCAATT
TAGGGGTACCGAAGTAC
Found at i:60097978 original size:44 final size:45
Alignment explanation
Indices: 60097866--60097985 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 45
60097856 GATAAGATGC
* *
60097866 TGACGCCATGTCCCAGACATGGTCTTACATTGGCTAACACATCAAAA
1 TGACGCCATGTCCCAGACA-GGTCTTACATTGAC-AACACAACAAAA
* * *
60097913 TCGATGCCATGTCCCAGACAGGTCTTACATTGAC-ACATAACAAGA
1 T-GACGCCATGTCCCAGACAGGTCTTACATTGACAACACAACAAAA
**
60097958 TGACGCCATGTCGGAGACAGGTCTTACA
1 TGACGCCATGTCCCAGACAGGTCTTACA
60097986 CTAGCTTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
44 24 0.38
45 9 0.14
47 14 0.22
48 17 0.27
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TGACGCCATGTCCCAGACAGGTCTTACATTGACAACACAACAAAA
Found at i:60107355 original size:41 final size:41
Alignment explanation
Indices: 60107279--60107356 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
60107269 ATAGCGATAT
**
60107279 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCAGTGAATTTGA
* * *
60107320 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCCAGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCAGTGAAT
60107357 AAATATTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.16
41 26 0.84
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCAGTGAATTTGA
Found at i:60107588 original size:35 final size:35
Alignment explanation
Indices: 60107540--60107692 Score: 162
Period size: 35 Copynumber: 4.4 Consensus size: 35
60107530 GTATGTACAT
60107540 ATGTGATGATATATTAAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTAAACTTGTATATTTGGCCAC
* * * * *
60107575 ATTTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTAAACTTGTATATTTGGCCAC
* * * * * * *
60107610 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTAAACTTGTATATTTGGCCAC
* * * *
60107645 ATATGATGATATATCATACTTGTATATTTGGCCAT
1 ATGTGATGATATATTAAACTTGTATATTTGGCCAC
60107680 ATGTGATGATATA
1 ATGTGATGATATA
60107693 ATGAACTTTG
Statistics
Matches: 93, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (35 bp):
ATGTGATGATATATTAAACTTGTATATTTGGCCAC
Found at i:60111347 original size:43 final size:44
Alignment explanation
Indices: 60111269--60111440 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 44
60111259 AGCTCGTACA
* * * * * *
60111269 ATGCCAATGTCCTAGA-TGTGGTCATACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
*
60111312 ATGCCACTGTCCTAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
* * *
60111354 ATGTCGA-TGTCCCAGACA-TGGTCTTAGACGTAAATCTCAA-ATCG
1 ATG-CCACTGTCCCAGACAGTGGTCTTACACG-AAATC-AAATATCG
* * *
60111398 ATGCCAAC-GTCCCAGAC-GTGGTTTTACACTAAATCACATATCG
1 ATGCC-ACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
60111441 GAATCCTATG
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 25 0.24
43 53 0.51
44 26 0.25
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
Found at i:60116840 original size:28 final size:28
Alignment explanation
Indices: 60116800--60116861 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
60116790 ATTCAACTTC
* *
60116800 TTCAAAATCCAAGCCTAGCTGAACCATT
1 TTCATAATCCAAGCCTAGCCGAACCATT
60116828 TTCATAATCCAAGCCTAGCCGAACCATT
1 TTCATAATCCAAGCCTAGCCGAACCATT
60116856 TTCATA
1 TTCATA
60116862 CTCATACCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (28 bp):
TTCATAATCCAAGCCTAGCCGAACCATT
Found at i:60118533 original size:27 final size:27
Alignment explanation
Indices: 60118503--60118680 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60118493 ATATTGAGTC
* * * *
60118503 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60118530 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60118557 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60118585 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60118612 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60118639 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60118666 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60118681 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60118642 original size:82 final size:81
Alignment explanation
Indices: 60118524--60118679 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60118514 TGCTATATAA
* *
60118524 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60118589 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60118606 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60118670 CACTTAGTGC
65 CACTTAGTGC
60118680 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60121563 original size:41 final size:41
Alignment explanation
Indices: 60121425--60121615 Score: 251
Period size: 40 Copynumber: 4.7 Consensus size: 41
60121415 ACTAGAGTGT
* *
60121425 AAACAGGGGCAAGTATGTGCTATTCAACGGTACCGAAGTAC
1 AAACAGGGGCAAGTATGTGCAATTCAAGGGTACCGAAGTAC
* *
60121466 -AACAGGGGCAAGTATGTGCTATTCAATGGTACCGAAGTAC
1 AAACAGGGGCAAGTATGTGCAATTCAAGGGTACCGAAGTAC
* *
60121506 -AACAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTAC
1 AAACAGGGGCAAGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * *
60121546 AAACAGGGGCATGTATGTACAATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCAAGTATGTGCAATTCAAGGGTACCGAAGTAC
* * *
60121587 AAACAGGGGCACGTATATGCAGTTCAAGG
1 AAACAGGGGCAAGTATGTGCAATTCAAGG
60121616 TATAATTAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 75 0.55
41 62 0.45
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCAAGTATGTGCAATTCAAGGGTACCGAAGTAC
Found at i:60121567 original size:20 final size:20
Alignment explanation
Indices: 60121502--60121602 Score: 64
Period size: 21 Copynumber: 5.0 Consensus size: 20
60121492 TGGTACCGAA
60121502 GTAC-AACAGGGGCATGTAT
1 GTACAAACAGGGGCATGTAT
* * * * *
60121521 GTGCAATTCAAGGGTATCG-AA
1 GTACAA-ACAGGGGCAT-GTAT
60121542 GTACAAACAGGGGCATGTAT
1 GTACAAACAGGGGCATGTAT
* * *
60121562 GTACAATTCAGGGGTATCG-AA
1 GTACAA-ACAGGGGCAT-GTAT
*
60121583 GTACAAACAGGGGCACGTAT
1 GTACAAACAGGGGCATGTAT
60121603 ATGCAGTTCA
Statistics
Matches: 58, Mismatches: 17, Indels: 13
0.66 0.19 0.15
Matches are distributed among these distances:
19 5 0.09
20 23 0.40
21 28 0.48
22 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (20 bp):
GTACAAACAGGGGCATGTAT
Found at i:60121575 original size:21 final size:21
Alignment explanation
Indices: 60121508--60121575 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
60121498 CGAAGTACAA
*
60121508 CAGGGGCATGTATGTGCAATT
1 CAGGGGCATGTATGTACAATT
* * * *
60121529 CAAGGGTATCG-AAGTACAA-A
1 CAGGGGCAT-GTATGTACAATT
60121549 CAGGGGCATGTATGTACAATT
1 CAGGGGCATGTATGTACAATT
60121570 CAGGGG
1 CAGGGG
60121576 TATCGAAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.03
20 14 0.40
21 19 0.54
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (21 bp):
CAGGGGCATGTATGTACAATT
Found at i:60121586 original size:21 final size:21
Alignment explanation
Indices: 60121524--60121588 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
60121514 CATGTATGTG
*
60121524 CAATTCAAGGGTATCGAAGTA
1 CAATTCAGGGGTATCGAAGTA
* * *
60121545 CAA-ACAGGGGCAT-GTATGTA
1 CAATTCAGGGGTATCG-AAGTA
60121565 CAATTCAGGGGTATCGAAGTA
1 CAATTCAGGGGTATCGAAGTA
60121586 CAA
1 CAA
60121589 ACAGGGGCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.03
20 14 0.41
21 18 0.53
22 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (21 bp):
CAATTCAGGGGTATCGAAGTA
Found at i:60121618 original size:81 final size:80
Alignment explanation
Indices: 60121425--60121618 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 80
60121415 ACTAGAGTGT
* * *
60121425 AAACAGGGGCAAGTATGTGCTATTCAACGGTACCGAAGTACAACAGGGGCAAGTATGTGCTATTC
1 AAACAGGGGCAAGTATGTGC-ATTCAACGGTATCGAAGTACAACAGGGGCAAGTATGTACAATTC
*
60121490 AATGGTACCGAAGTAC
65 AAGGGTACCGAAGTAC
* * *
60121506 -AACAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGGCATGTATGTACAATT
1 AAACAGGGGCAAGTATGTGC-ATTCAACGGTATCGAAGTAC-AACAGGGGCAAGTATGTACAATT
* *
60121570 CAGGGGTATCGAAGTAC
64 CAAGGGTACCGAAGTAC
* *
60121587 AAACAGGGGCACGTATATGCAGTTCAA-GGTAT
1 AAACAGGGGCAAGTATGTGCA-TTCAACGGTAT
60121619 AATTAATTAT
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
80 36 0.37
81 40 0.41
82 22 0.22
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (80 bp):
AAACAGGGGCAAGTATGTGCATTCAACGGTATCGAAGTACAACAGGGGCAAGTATGTACAATTCA
AGGGTACCGAAGTAC
Found at i:60151449 original size:12 final size:11
Alignment explanation
Indices: 60151432--60151479 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
60151422 TCCTTCTATT
60151432 TTTTATTCTTA
1 TTTTATTCTTA
60151443 TTCTTATTCTTA
1 TT-TTATTCTTA
60151455 TTTTATT-TTA
1 TTTTATTCTTA
*
60151465 TTTTATTTTTA
1 TTTTATTCTTA
60151476 TTTT
1 TTTT
60151480 TATTTTCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.29
11 14 0.40
12 11 0.31
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTCTTA
Found at i:60151462 original size:5 final size:5
Alignment explanation
Indices: 60151432--60151510 Score: 72
Period size: 6 Copynumber: 14.8 Consensus size: 5
60151422 TCCTTCTATT
60151432 TTTTA TTCTTA TTCTTA TTCTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA
1 TTTTA TT-TTA TT-TTA TT-TTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
60151482 TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
60151511 GAAAGACATA
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
3 3 0.05
5 27 0.41
6 36 0.55
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:60156144 original size:15 final size:15
Alignment explanation
Indices: 60156124--60156153 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60156114 TATGAACAAT
60156124 AGGAAAACCAAGATA
1 AGGAAAACCAAGATA
*
60156139 AGGAAATCCAAGATA
1 AGGAAAACCAAGATA
60156154 CGATACCATA
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:0.57, C:0.13, G:0.20, T:0.10
Consensus pattern (15 bp):
AGGAAAACCAAGATA
Found at i:60159128 original size:11 final size:11
Alignment explanation
Indices: 60159099--60159140 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
60159089 TATAGGATAG
*
60159099 TATTTTTATTT
1 TATTTATATTT
*
60159110 CA-TTATATTT
1 TATTTATATTT
60159120 TATTTATATTT
1 TATTTATATTT
60159131 TATTCTATAT
1 TATT-TATAT
60159141 CATATTCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTATATTT
Found at i:60159289 original size:12 final size:13
Alignment explanation
Indices: 60159260--60159298 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
60159250 TGTTTACAAA
60159260 ATATATTATACACT
1 ATATATTATAC-CT
*
60159274 ATATATTTTACC-
1 ATATATTATACCT
60159286 ATATATTATACCT
1 ATATATTATACCT
60159299 TGCATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
13 1 0.05
14 10 0.45
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTATACCT
Found at i:60164911 original size:46 final size:45
Alignment explanation
Indices: 60164844--60164934 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
60164834 TAAGATGGGG
60164844 GTAGTGAAGTTCGACAATACCCCTAATACTGAAAATCCGTTGCCAA
1 GTAGTGAAGTTCGACAATACCCCTAATACTGAAAA-CCGTTGCCAA
60164890 GTAGTGAAGTTCGACAATACCCCTAATACTGAAAACCGTTGCCAA
1 GTAGTGAAGTTCGACAATACCCCTAATACTGAAAACCGTTGCCAA
60164935 AGCGATTAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 10 0.22
46 35 0.78
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAGTGAAGTTCGACAATACCCCTAATACTGAAAACCGTTGCCAA
Found at i:60171401 original size:68 final size:67
Alignment explanation
Indices: 60171329--60171478 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
60171319 CATCATGTGT
* * * *
60171329 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
60171391 ATGTAG
62 ATGTAG
** * *
60171397 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
60171462 AG
66 AG
60171464 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
60171479 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:60171434 original size:64 final size:64
Alignment explanation
Indices: 60171353--60171536 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
60171343 AGACATTATG
* *
60171353 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60171417 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60171482 AA
63 AA
* * * *
60171484 ACTG--GCTAGGTCACATGGGTGGTACTAGGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
60171537 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60174818 original size:22 final size:22
Alignment explanation
Indices: 60174793--60174846 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
60174783 GAGTAGGAAT
60174793 GATACTTCGAGAGAAATAAGGA
1 GATACTTCGAGAGAAATAAGGA
60174815 GATACTTCGAGAGAAATAAGGA
1 GATACTTCGAGAGAAATAAGGA
* *
60174837 TAAACTTCGA
1 GATACTTCGA
60174847 CGAAGGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.20
Consensus pattern (22 bp):
GATACTTCGAGAGAAATAAGGA
Found at i:60175248 original size:44 final size:42
Alignment explanation
Indices: 60175181--60176243 Score: 517
Period size: 44 Copynumber: 25.1 Consensus size: 42
60175171 TTTACGCTGA
* *
60175181 AGCAGATCCAAGAT--GATTTGGCATCTCTGTACCGTCAGAG
1 AGCAGATCGAAGATGAGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60175221 AGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175265 AGCAGATCGAAGATGATATTTGGCATCT-TCATATTCGACGGGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTA-TCGTCAGAG
* * *
60175308 AGCAGATCCAAGAT--GATTTGGCATCT-TCGTAT-TTGACGAGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTATCGTCA-GA-G
* * * * * * *
60175349 GGCAAATCCAAGAAGCAGATTTGGCATCCCTGTATTGTCAGGG
1 AGCAGATCGAAGATG-AGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60175392 AACAGATCGAAGACGGCAGATTTGGCATCTCTTTATGGTCAGAG
1 AGCAGATCGAAGA-TG-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175436 AGCAAATC-AGAGATAGTAGACTTGACATCTTTGTATTCGACA-AGG
1 AGCAGATCGA-AGAT-G-AGATTTGGCATCTCTGTA-TCGTCAGA-G
* * * ** * *
60175481 AGTAAATCCAAGAAACAGATTTGGCATAT-TG--T--T-AGGG
1 AGCAGATCGAAG-ATGAGATTTGGCATCTCTGTATCGTCAGAG
* *
60175518 AGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175562 AGCAGATCGAAGATGATATTTGGCATCT-TCATATTCGACGGGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTA-TCGTCAGAG
* *
60175605 AGCAGATCCAAGAT--GATTTGGCATCTCTGTACCGTCAGAG
1 AGCAGATCGAAGATGAGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60175645 AGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175689 AGCAGATCGAAGATGATATTTGGCATCT-TCATATTCGACGGGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTA-TCGTCAGAG
* *
60175732 AGCAGATCCAAGAT--GATTTGGCATCTCTGTACCGTCAGAG
1 AGCAGATCGAAGATGAGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60175772 AGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175816 AGCAGATCGAAGATGATATTTGGCATCT-TCATATTCGACGGGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTA-TCGTCAGAG
* *
60175859 AGCAGATCCAAGAT--GATTTGGCATCTCTGTACCGTCAGAG
1 AGCAGATCGAAGATGAGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60175899 AGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60175943 AGCAGATCGAAGATGATATTTGGCATCT-TCATATTCGACGGGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTA-TCGTCAGAG
* * *
60175986 AGCAGATCCAAGAT--GATTTGGCATCT-TCGTAT-TTGACGAGG
1 AGCAGATCGAAGATGAGATTTGGCATCTCT-GTATCGTCA-GA-G
* * * * * * *
60176027 GGCAAATCCAAGAAGCAGATTTGGCATCCCTGTATTGTCAGGG
1 AGCAGATCGAAGATG-AGATTTGGCATCTCTGTATCGTCAGAG
* * * *
60176070 AACAGATCGAAGACGGCAGATTTGGCATCTCTTTATGGTCAGAG
1 AGCAGATCGAAGA-TG-AGATTTGGCATCTCTGTATCGTCAGAG
* * * * *
60176114 AGCAAATC-AGAGATAGTAGACTTGACATCTTTGTATTCGACA-AGG
1 AGCAGATCGA-AGAT-G-AGATTTGGCATCTCTGTA-TCGTCAGA-G
* * * ** * *
60176159 AGTAAATCCAAGAAACAGATTTGGCATAT-TG--T--T-AGGG
1 AGCAGATCGAAG-ATGAGATTTGGCATCTCTGTATCGTCAGAG
*
60176196 AGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAG
1 AGCAGATCGAAGAT-G-AGATTTGGCATCTCTGTATCGTCAGAG
60176240 AGCA
1 AGCA
60176244 AATCAGAGAT
Statistics
Matches: 766, Mismatches: 182, Indels: 146
0.70 0.17 0.13
Matches are distributed among these distances:
36 2 0.00
37 22 0.03
38 24 0.03
39 4 0.01
40 69 0.09
41 100 0.13
42 73 0.10
43 118 0.15
44 316 0.41
45 34 0.04
46 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
AGCAGATCGAAGATGAGATTTGGCATCTCTGTATCGTCAGAG
Found at i:60175321 original size:43 final size:43
Alignment explanation
Indices: 60175264--60175376 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 43
60175254 TATTGTTAGA
*
60175264 GAGCAGATCGAAGATGATATTTGGCATCTTCATATTCGACG-GG
1 GAGCAGATCCAAGATGA-ATTTGGCATCTTCATATTCGACGAGG
* *
60175307 GAGCAGATCCAAGATG-ATTTGGCATCTTCGTATTTGACGAGG
1 GAGCAGATCCAAGATGAATTTGGCATCTTCATATTCGACGAGG
* *
60175349 G-GCAAATCCAAGAAGCAGATTTGGCATC
1 GAGCAGATCCAAGATG-A-ATTTGGCATC
60175377 CCTGTATTGT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
41 33 0.54
42 3 0.05
43 15 0.25
44 10 0.16
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
GAGCAGATCCAAGATGAATTTGGCATCTTCATATTCGACGAGG
Found at i:60175366 original size:127 final size:127
Alignment explanation
Indices: 60175238--60176082 Score: 909
Period size: 127 Copynumber: 6.7 Consensus size: 127
60175228 CAAAGATAGC
** * * * *
60175238 AGATTTGGCATCTCTGTATTGTTAGAGAGCAGATCGAAGAT-G-ATATTTGGCATCT-TCATATT
1 AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCT-GTATT
*** * * * * *
60175300 CGACGGGGAGCAGATCCAAGATG-ATTTGGCATCTTCGTATTTGACGAGGG-GCAAATCCAAGAA
65 -GTTAGAGAGCAGATCGAAGATGAATTTGGCATCTTCATATTCGACG-GGGAGCAGATCCAAGAA
* ** * * * ** *
60175363 GCAGATTTGGCATCCCTGTATTGTCAGGGAACAGATCGAAGACGGCAGATTTGGCATCTCTTTAT
1 --AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
* * * * * ** ** * *
60175428 GGTCAGAGAGCAAATC-AGAGATAGTAGACTTGACATCTTTGTATTCGACAAGGAGTAAATCCAA
64 TGTTAGAGAGCAGATCGA-AGAT-G-A-ATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAA
60175492 GAAA
125 G-AA
* * *
60175496 CAGATTTGGCATAT-TGT----T-AGGGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT
1 -AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATT
60175555 GTTAGAGAGCAGATCGAAGATGATATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAG-A
65 GTTAGAGAGCAGATCGAAGATGA-ATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAGAA
* *
60175618 TGATTTGGCATCTCTGTACCGTCAGAGAGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
60175683 TTAGAGAGCAGATCGAAGATGATATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAG-A
66 TTAGAGAGCAGATCGAAGATGA-ATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAGAA
* *
60175745 TGATTTGGCATCTCTGTACCGTCAGAGAGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
60175810 TTAGAGAGCAGATCGAAGATGATATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAG-A
66 TTAGAGAGCAGATCGAAGATGA-ATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAGAA
* *
60175872 TGATTTGGCATCTCTGTACCGTCAGAGAGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
60175937 TTAGAGAGCAGATCGAAGATGATATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAG-A
66 TTAGAGAGCAGATCGAAGATGA-ATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAGAA
* ** * * * * *
60175999 TGATTTGGCATCT-TCGTA-TTTGACGAGGGGCAAATCCAAGA-AGCAGATTTGGCATCCCTGTA
1 AGATTTGGCATCTCT-GTACCGTCA-GA-GAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
* * *
60176061 TTGTCAGGGAACAGATCGAAGA
63 TTGTTAGAGAGCAGATCGAAGA
60176083 CGGCAGATTT
Statistics
Matches: 645, Mismatches: 53, Indels: 40
0.87 0.07 0.05
Matches are distributed among these distances:
121 11 0.02
122 4 0.01
124 31 0.05
125 1 0.00
126 57 0.09
127 451 0.70
128 26 0.04
129 16 0.02
130 1 0.00
131 5 0.01
132 40 0.06
133 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (127 bp):
AGATTTGGCATCTCTGTACCGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
TTAGAGAGCAGATCGAAGATGAATTTGGCATCTTCATATTCGACGGGGAGCAGATCCAAGAA
Found at i:60176399 original size:126 final size:126
Alignment explanation
Indices: 60176007--60176357 Score: 531
Period size: 126 Copynumber: 2.7 Consensus size: 126
60175997 GATGATTTGG
* * * * * *
60176007 CATCTTCGTATTTGACGAGGGGCAAATCCAAGAAGCAGATTTGGCATCCCTGTATTGTCAGGGAA
1 CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAGCAGATTTGGCA------TATTGTCAGGGAG
* *
60176072 CAGATCGAAGACGGCAGATTTGGCATCTCTTTATGGTCAGAGAGCAAATCAGAGATAGTAGACTT
60 CAGATCGAAGACAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAAATCAGAGATAGTAGACTT
60176137 GA
125 GA
* *
60176139 CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAACAGATTTGGCATATTGTTAGGGAGCAGATC
1 CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAGCAGATTTGGCATATTGTCAGGGAGCAGATC
*
60176204 GAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAAATCAGAGATAGTAGACTTGA
66 GAAGACAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAAATCAGAGATAGTAGACTTGA
60176265 CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAGCAGATTTGGCATATTGTCAGGGAGCAGATC
1 CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAGCAGATTTGGCATATTGTCAGGGAGCAGATC
**
60176330 GAAGACAGCAGATTTGGTGTCTCTGTAT
66 GAAGACAGCAGATTTGGCATCTCTGTAT
60176358 TATCAGAAAG
Statistics
Matches: 203, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
126 163 0.80
132 40 0.20
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (126 bp):
CATCTTTGTATTCGACAAGGAGTAAATCCAAGAAGCAGATTTGGCATATTGTCAGGGAGCAGATC
GAAGACAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAAATCAGAGATAGTAGACTTGA
Found at i:60177961 original size:18 final size:19
Alignment explanation
Indices: 60177927--60177979 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
60177917 TATAAAATAG
**
60177927 TATATATTATTTTTTAT-T
1 TATATATTATTCATTATAT
60177945 TATATATTATTCATTATAT
1 TATATATTATTCATTATAT
*
60177964 TATTTA-TATT-ATTATA
1 TATATATTATTCATTATA
60177980 CATTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATATTATTCATTATAT
Found at i:60177987 original size:21 final size:21
Alignment explanation
Indices: 60177937--60177992 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
60177927 TATATATTAT
*
60177937 TTTTTATTTATATATTATTCA
1 TTTTTATTTATATATTATACA
60177958 TTATATTATTTATATTATTATACA
1 TT-T-TTATTTATA-TATTATACA
60177982 -TTTTATTTATA
1 TTTTTATTTATA
60177993 AACTTTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 11 0.35
22 2 0.06
23 10 0.32
24 8 0.26
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATTTATATATTATACA
Found at i:60180024 original size:37 final size:36
Alignment explanation
Indices: 60179931--60180032 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
60179921 ATCGTTTACT
* *
60179931 TGATGCCATAGTCCAACTATGGTCTTACTTATATCA
1 TGATGCCATAGCCCAACTATGGTCTTACATATATCA
** * * *
60179967 CAATGCCATAGCCCAGCTATGGTCTTACATGTCGTCA
1 TGATGCCATAGCCCAACTATGGTCTTACATAT-ATCA
*
60180004 TGATGCTATAGCCCAACTATGGTCTTACA
1 TGATGCCATAGCCCAACTATGGTCTTACA
60180033 GGAAGTCTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
36 26 0.48
37 28 0.52
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TGATGCCATAGCCCAACTATGGTCTTACATATATCA
Found at i:60180108 original size:48 final size:48
Alignment explanation
Indices: 60180048--60180373 Score: 427
Period size: 48 Copynumber: 6.8 Consensus size: 48
60180038 TCTTATATCG
* **** * *
60180048 ATGCCATGTCCCAAACATGGTCTTACACAAAATTACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* * *
60180096 ATGCCATATCCCAGATATGGTATTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* * *
60180144 ATGCCATGTCCCAGACATGGTCTTATATGGGATCACATATCGATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* * *
60180192 ATGCCATATCCCAGATATGGTATTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* **
60180240 ATGCCATGTCCCAGACATGGTCTTATATGGGATCACATATCGTTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* * * *
60180288 ATGTCATATCCTAGATATGGTCTTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* *
60180336 ATGTCATGTCCCAAACATGGTCTTACATGGGATCACAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT
60180374 GTACTGCCAT
Statistics
Matches: 239, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 239 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
Found at i:60180182 original size:96 final size:96
Alignment explanation
Indices: 60180048--60180373 Score: 517
Period size: 96 Copynumber: 3.4 Consensus size: 96
60180038 TCTTATATCG
**** *
60180048 ATGCCATGTCCCAAACATGGTCTTACACAAAATTACATATCGATGCCAATGCCATATCCCAGATA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATATCCCAGATA
60180113 TGGTATTACATGGGATCACATATCAATGCCA
66 TGGTATTACATGGGATCACATATCAATGCCA
* * *
60180144 ATGCCATGTCCCAGACATGGTCTTATATGGGATCACATATCGATGCTAATGCCATATCCCAGATA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATATCCCAGATA
60180209 TGGTATTACATGGGATCACATATCAATGCCA
66 TGGTATTACATGGGATCACATATCAATGCCA
* * * * *
60180240 ATGCCATGTCCCAGACATGGTCTTATATGGGATCACATATCGTTGCCAATGTCATATCCTAGATA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATATCCCAGATA
*
60180305 TGGTCTTACATGGGATCACATATCAATGCCA
66 TGGTATTACATGGGATCACATATCAATGCCA
*
60180336 ATGTCATGTCCCAAACATGGTCTTACATGGGATCACAT
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACAT
60180374 GTACTGCCAT
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 214 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATATCCCAGATA
TGGTATTACATGGGATCACATATCAATGCCA
Found at i:60188672 original size:46 final size:46
Alignment explanation
Indices: 60188619--60188790 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
60188609 GGTTGAGCAT
60188619 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * * *
60188665 CCAAACTCCTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* *
60188710 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
60188758 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60188791 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 57 0.55
47 26 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:60188774 original size:93 final size:93
Alignment explanation
Indices: 60188615--60188785 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
60188605 GGATGGTTGA
*
60188615 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCCTTGAGT
60188680 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
60188708 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCCTTGAGT
60188773 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60188786 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60189043 original size:19 final size:20
Alignment explanation
Indices: 60189015--60189052 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60189005 ATAAGGTGGT
60189015 AAGATGATGA-ATGATGTTTA
1 AAGATGATGATAT-ATGTTTA
60189035 AAGAT-ATGATATATGTTT
1 AAGATGATGATATATGTTT
60189053 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGATATATGTTTA
Found at i:60193897 original size:46 final size:46
Alignment explanation
Indices: 60193847--60194022 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
60193837 TGATTGAGCA
60193847 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60193893 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
60193938 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60193986 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60194023 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.54
47 29 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60194003 original size:93 final size:93
Alignment explanation
Indices: 60193844--60194015 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
60193834 GGATGATTGA
60193844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
60193909 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60193937 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
*
60194001 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
60194016 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60195425 original size:14 final size:14
Alignment explanation
Indices: 60195385--60195422 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
60195375 AAGTAGGGAA
60195385 GTACTCCAAGGATC
1 GTACTCCAAGGATC
60195399 GTACTCCAAGGATC
1 GTACTCCAAGGATC
60195413 GTAC-CCAAGG
1 GTACTCCAAGG
60195423 GATTGCAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (14 bp):
GTACTCCAAGGATC
Found at i:60197587 original size:26 final size:25
Alignment explanation
Indices: 60197532--60197588 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
60197522 TAATTTAGCC
* * *
60197532 ATTTTTAATTTATTTTTATATTTTT
1 ATTTTTAATTTATTTTTACATTCTA
* *
60197557 GTTTTTAGTTTAATTTTTACATTCTA
1 ATTTTTAATTT-ATTTTTACATTCTA
60197583 ATTTTT
1 ATTTTT
60197589 TCTTTTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (25 bp):
ATTTTTAATTTATTTTTACATTCTA
Found at i:60200761 original size:18 final size:18
Alignment explanation
Indices: 60200738--60200786 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
60200728 CTCTTTTTTT
60200738 TTTATTTTATATTAT-TTA
1 TTTATTTT-TATTATATTA
60200756 TTTATTTTTTATTATATTA
1 TTTA-TTTTTATTATATTA
*
60200775 CTTATTTTTATT
1 TTTATTTTTATT
60200787 TTGCTGATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTTATTATATTA
Found at i:60200764 original size:19 final size:20
Alignment explanation
Indices: 60200738--60200785 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
60200728 CTCTTTTTTT
60200738 TTTA-TTTTATATTAT-TTA
1 TTTATTTTTATATTATATTA
60200756 TTTATTTTT-TATTATATTA
1 TTTATTTTTATATTATATTA
*
60200775 CTTATTTTTAT
1 TTTATTTTTAT
60200786 TTTGCTGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 15 0.58
20 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTTTATATTATATTA
Found at i:60200784 original size:25 final size:24
Alignment explanation
Indices: 60200731--60200788 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
60200721 CTTTTTACTC
*
60200731 TTTTT-TTTTTATTTTATATTATT
1 TTTTTATTTTTATATTATATTATT
*
60200754 TATTTATTTTT-TATTATATTACTT
1 TTTTTATTTTTATATTATATTA-TT
60200778 ATTTTTATTTT
1 -TTTTTATTTT
60200789 GCTGATCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 13 0.45
24 7 0.24
25 9 0.31
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTTTTATATTATATTATT
Found at i:60200788 original size:23 final size:23
Alignment explanation
Indices: 60200735--60200781 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
60200725 TTACTCTTTT
*
60200735 TTTTTTATTTTATATTATTTATTTA
1 TTTTTTA--TTATATTACTTATTTA
60200760 TTTTTTATTATATTACTTATTT
1 TTTTTTATTATATTACTTATTT
60200782 TTATTTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
25 7 0.33
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTATTATATTACTTATTTA
Found at i:60202569 original size:7 final size:8
Alignment explanation
Indices: 60202551--60202577 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
60202541 AATGCTGAGG
60202551 TTTTGGCT
1 TTTTGGCT
60202559 TTTTGGCT
1 TTTTGGCT
60202567 TTTTGGCT
1 TTTTGGCT
60202575 TTT
1 TTT
60202578 CGACTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (8 bp):
TTTTGGCT
Found at i:60202586 original size:15 final size:16
Alignment explanation
Indices: 60202551--60202585 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
60202541 AATGCTGAGG
* *
60202551 TTTTGGCTTTTTGGCT
1 TTTTGGCTTTTCGACT
60202567 TTTTGGCTTTTCGACT
1 TTTTGGCTTTTCGACT
60202583 TTT
1 TTT
60202586 GTCGATTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.20, T:0.63
Consensus pattern (16 bp):
TTTTGGCTTTTCGACT
Found at i:60205707 original size:15 final size:13
Alignment explanation
Indices: 60205678--60205704 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60205668 GTTCGGCAGG
60205678 GACACGCCCGTGT
1 GACACGCCCGTGT
60205691 GACACGCCCGTGT
1 GACACGCCCGTGT
60205704 G
1 G
60205705 TGATTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:60207466 original size:30 final size:30
Alignment explanation
Indices: 60207414--60207567 Score: 209
Period size: 30 Copynumber: 5.1 Consensus size: 30
60207404 CAACATGGGT
*
60207414 TGGACATATGCCCGTGTGAGCCACACGGGC
1 TGGACATACGCCCGTGTGAGCCACACGGGC
* * * * *
60207444 TAGACATACACCCATGTAAGCCACACGAGC
1 TGGACATACGCCCGTGTGAGCCACACGGGC
* * *
60207474 TGGACATGCGTCCGTGTGAGCCACACGGGT
1 TGGACATACGCCCGTGTGAGCCACACGGGC
60207504 TGGACATACGCCCGTGTGAGCCACACGGGC
1 TGGACATACGCCCGTGTGAGCCACACGGGC
* *
60207534 TGGACATACTCCCGTGTGAGCCACACGAGC
1 TGGACATACGCCCGTGTGAGCCACACGGGC
60207564 TGGA
1 TGGA
60207568 AACACCCCAT
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 105 1.00
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.16
Consensus pattern (30 bp):
TGGACATACGCCCGTGTGAGCCACACGGGC
Found at i:60209516 original size:46 final size:44
Alignment explanation
Indices: 60209463--60209636 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 44
60209453 TTTGGGCATT
60209463 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTC
** * *
60209509 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAGGCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GGAAGTC
* *
60209556 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTC
* * *
60209601 TCGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60209637 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 2 0.02
46 59 0.56
47 28 0.27
48 1 0.01
49 7 0.07
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAGTC
Found at i:60209619 original size:93 final size:93
Alignment explanation
Indices: 60209457--60209628 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
60209447 AGGATATTTG
* * *
60209457 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
60209522 TTGAGTCCGAGTTCGAGAGATATAACTA
66 TTGAGTCCGAGTTCGAGAGATATAACTA
* * * *
60209550 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAACG-CTCGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCATTGA
*
60209614 TTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
60209629 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATATAACTA
Found at i:60213551 original size:24 final size:24
Alignment explanation
Indices: 60213514--60213577 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
60213504 GCTAATCTTG
* *
60213514 AATACGCCACAAAGGCACGTACAA
1 AATACGCTAAAAAGGCACGTACAA
* *
60213538 AATATGCTAAAAAGGCACTTACAA
1 AATACGCTAAAAAGGCACGTACAA
*
60213562 AATACGCTACAAAGGC
1 AATACGCTAAAAAGGC
60213578 GTCATAGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (24 bp):
AATACGCTAAAAAGGCACGTACAA
Found at i:60215275 original size:24 final size:24
Alignment explanation
Indices: 60215243--60215294 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
60215233 ATTTTTTTAA
*
60215243 TTTTAATTTTTCCCAAAAATTCCC
1 TTTTAATTTTCCCCAAAAATTCCC
60215267 TTTTAATTTTCCCCAAAAATTCCC
1 TTTTAATTTTCCCCAAAAATTCCC
60215291 TTTT
1 TTTT
60215295 CTTTCATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAATTTTCCCCAAAAATTCCC
Found at i:60216879 original size:55 final size:56
Alignment explanation
Indices: 60216814--60216918 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
60216804 AGCATGGCTG
* * *
60216814 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAGTTTGTGGCAGTGCCA
* * *
60216870 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAGTTTGTGGCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAGTTTGTGGCA
60216919 TAACCACCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 21 0.50
56 21 0.50
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAGTTTGTGGCAGTGCCA
Found at i:60216896 original size:27 final size:28
Alignment explanation
Indices: 60216839--60216908 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
60216829 GTGACAGAGT
** *
60216839 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
60216868 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
60216895 CACCAGAACAGATA
1 CACCAGAACAGATA
60216909 GTTTGTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:60216925 original size:28 final size:26
Alignment explanation
Indices: 60216839--60216928 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 26
60216829 GTGACAGAGT
60216839 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCA-TGC
** *
60216868 CACCAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
*
60216895 CACCAGAACAGATAGTTTGTGGCATAAC
1 CACCAGAACAGATA-TTTGTGGCAT-GC
60216923 CACCAG
1 CACCAG
60216929 GACACTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 24 0.46
28 21 0.40
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:60217081 original size:28 final size:28
Alignment explanation
Indices: 60217034--60217098 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
60217024 AAATTAACCC
*
60217034 TAGGGGTATAGAGGTCATTTTGCACACA
1 TAGGGGTATAGAGGTAATTTTGCACACA
* *
60217062 TAGGGGTATA-ATGGTAATTTTTCATACA
1 TAGGGGTATAGA-GGTAATTTTGCACACA
*
60217090 TATGGGTAT
1 TAGGGGTAT
60217099 TCTAGTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCACACA
Found at i:60224771 original size:28 final size:28
Alignment explanation
Indices: 60224723--60224802 Score: 133
Period size: 28 Copynumber: 2.8 Consensus size: 28
60224713 GTGACAGAGT
* *
60224723 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
60224752 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
60224780 CACCAGAACAGATAATTTGTGGC
1 CACCAGAACAGATAATTTGTGGC
60224803 CACCAGGACG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 42 0.86
29 7 0.14
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:60224974 original size:27 final size:28
Alignment explanation
Indices: 60224917--60224978 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
60224907 TTAACCCTAG
* *
60224917 GGGTATAAAGGTCATTTTGCATACATAA
1 GGGTATAAAGGTAATTTGGCATACATAA
* *
60224945 GGGTATAACGGTAATTTGGCATACATAG
1 GGGTATAAAGGTAATTTGGCATACATAA
60224973 GGGTAT
1 GGGTAT
60224979 TCTAGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTGGCATACATAA
Found at i:60227582 original size:53 final size:54
Alignment explanation
Indices: 60227415--60227663 Score: 313
Period size: 53 Copynumber: 4.6 Consensus size: 54
60227405 TAGAATACTT
* * * *
60227415 TAGTTTATGAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
* * * **
60227469 TAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAAAATACATC
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
* * * *
60227523 TGGTTTGTAAAATTACCAAAATACCC-TGGTTTGTAAAATTATCAAAATACCTC
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
* * * *
60227576 TAGTTTGTAAAATTACCAAAAAACCCCTGGTTTGTAAAA-TATCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
* *
60227629 TAGTTTGTAAAATTACCAAAATACCCCTGATTTAT
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTAT
60227664 GAATTACTGA
Statistics
Matches: 172, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 92 0.53
54 80 0.47
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
Found at i:60227655 original size:27 final size:27
Alignment explanation
Indices: 60227415--60227656 Score: 290
Period size: 27 Copynumber: 9.0 Consensus size: 27
60227405 TAGAATACTT
* * *
60227415 TAGTTTATGAAATTACCAAAATACCCT
1 TAGTTTGTAAAATTACCAAAATACCCC
**
60227442 TAGTTTACAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* * *
60227469 TAGTTTGTAAAATTACTAGAATACCCT
1 TAGTTTGTAAAATTACCAAAATACCCC
* * * **
60227496 TGGTTTATAAAATCACCAAAATACATC
1 TAGTTTGTAAAATTACCAAAATACCCC
*
60227523 TGGTTTGTAAAATTACCAAAATA-CCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* * *
60227549 TGGTTTGTAAAATTATCAAAATACCTC
1 TAGTTTGTAAAATTACCAAAATACCCC
*
60227576 TAGTTTGTAAAATTACCAAAAAACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
60227603 TGGTTTGTAAAA-TATCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
60227629 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
60227656 T
1 T
60227657 GATTTATGAA
Statistics
Matches: 182, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 46 0.25
27 136 0.75
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TAGTTTGTAAAATTACCAAAATACCCC
Found at i:60227733 original size:27 final size:27
Alignment explanation
Indices: 60227424--60227751 Score: 226
Period size: 27 Copynumber: 12.3 Consensus size: 27
60227414 TTAGTTTATG
* **
60227424 AAATTACCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
60227451 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * * *
60227478 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
60227505 AAATCACCAAAATA-CATCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
60227532 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
60227558 AAATTATCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
60227585 AAATTACCAAAAAACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
60227612 AAA-TATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
60227638 AAATTACCAAAATACCC-CTGATTTAT-
1 AAATTACCAAAATACCCTC-GATTTGTA
* ** * *
60227664 GAATTACTGAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
60227691 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
60227718 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
60227745 GAATTAC
1 AAATTAC
60227752 TGTTTTACCT
Statistics
Matches: 241, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.01
26 62 0.26
27 171 0.71
28 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:60227787 original size:27 final size:27
Alignment explanation
Indices: 60227665--60227787 Score: 97
Period size: 27 Copynumber: 4.6 Consensus size: 27
60227655 CTGATTTATG
*
60227665 AATTACTGAAATACCTTCGACTTGTAA
1 AATTACTGAAATACCTTCGACTTATAA
* * *
60227692 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCTTCGACTTATAA
* * *
60227719 AATTAC-CAAAGTACCCTT-GATTTATAG
1 AATTACTGAAA-TA-CCTTCGACTTATAA
*** * *
60227746 AATTACTGTTTTACCTTCGATTTACAA
1 AATTACTGAAATACCTTCGACTTATAA
*
60227773 AATTATTGAAATACC
1 AATTACTGAAATACC
60227788 CCTGTAGAGT
Statistics
Matches: 74, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
26 7 0.09
27 64 0.86
28 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (27 bp):
AATTACTGAAATACCTTCGACTTATAA
Found at i:60227787 original size:81 final size:80
Alignment explanation
Indices: 60227633--60227788 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 80
60227623 TACCCCTAGT
**
60227633 TTGTAAAATTACCAAAATACCCCTGATTTATGAATTACTGAAATACCTTCGACTTGTAAAATTAT
1 TTGTAAAATTACCAAAATACCCCTGATTTATGAATTACTGAAATACCTTCGACTTACAAAATTAT
60227698 TGAAATACCCTCGAC
66 TGAAATACCCTCGAC
* * *** *
60227713 TTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACTGTTTTACCTTCGATTTACAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTAT-GAATTACTGAAATACCTTCGACTTACAAAATTA
60227778 TTGAAATACCC
65 TTGAAATACCC
60227789 CTGTAGAGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 29 0.43
81 38 0.57
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCCTGATTTATGAATTACTGAAATACCTTCGACTTACAAAATTAT
TGAAATACCCTCGAC
Found at i:60227803 original size:27 final size:27
Alignment explanation
Indices: 60227780--60228292 Score: 648
Period size: 27 Copynumber: 19.0 Consensus size: 27
60227770 CAAAATTATT
*
60227780 GAAATACCCCTGTAGAGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60227807 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60227834 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60227861 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60227888 GAAATACCCTTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
60227915 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60227942 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60227969 GAAATACCCTTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
60227996 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
60228023 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60228050 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
60228077 GAAATACCCCTATAGGATAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60228104 GAAATACCCCTATAGGGTAAAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60228131 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60228158 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60228185 GAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60228212 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60228239 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60228266 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
60228293 ATTTTACCCC
Statistics
Matches: 433, Mismatches: 53, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 433 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:60227804 original size:81 final size:79
Alignment explanation
Indices: 60227635--60227818 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 79
60227625 CCCCTAGTTT
* **
60227635 GTAAAATTACCAAAATACCCCTGATTTATGAATTACTGAAATACCTTCGACTTGTAAAATTATTG
1 GTAAAATTACC-AAATACCCTTGATTTATGAATTACTGAAATACCTTCGACTTACAAAATTATTG
**
60227700 AAATACCCTCGACTT
65 AAATACCCTCGACGA
*** *
60227715 GTAAAATTACCAAAGTACCCTTGATTTATAGAATTACTGTTTTACCTTCGATTTACAAAATTATT
1 GTAAAATTACCAAA-TACCCTTGATTTAT-GAATTACTGAAATACCTTCGACTTACAAAATTATT
60227780 GAAATACCC-CTGTA-GA
64 GAAATACCCTC-G-ACGA
*
60227796 GTAGAATTACCGAAATACCCTTG
1 GTAAAATTACC-AAATACCCTTG
60227819 TAGGGTAGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
79 3 0.03
80 25 0.28
81 57 0.64
82 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (79 bp):
GTAAAATTACCAAATACCCTTGATTTATGAATTACTGAAATACCTTCGACTTACAAAATTATTGA
AATACCCTCGACGA
Found at i:60228588 original size:26 final size:27
Alignment explanation
Indices: 60228559--60228618 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
60228549 CCACATATAT
*
60228559 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
60228585 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
60228612 ATATCTG
1 ATATCTG
60228619 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:60237496 original size:43 final size:43
Alignment explanation
Indices: 60237340--60237497 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
60237330 ATGTGTTTTT
* * * *
60237340 GTGTAAGACCACGTCTGCGATGTTGGCATCGACT-TATGATTTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTAC
* * * *
60237384 GTGTAAGACCACGTCTGGGACATCGACATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
*
60237426 GTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTAC
*
60237469 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
60237498 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 37 0.40
44 27 0.29
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Done.