Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 23 of 292
Found at i:5976976 original size:83 final size:80
Alignment explanation
Indices: 5976863--5977166 Score: 306
Period size: 85 Copynumber: 3.8 Consensus size: 80
5976853 TTGGAAACAT
* * *
5976863 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAAGTTGATTTT
1 GAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG-AGTTGATTTT
5976928 TTTGAACGAATAAAGTA
65 TTTGAA-GAATAAAGTA
* *
5976945 GAAATTGAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 GAAATTG-AAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
5977008 TTT---GAA-ACA-T-
65 TTTGAAGAATAAAGTA
* * * *
5977018 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGAGCTGATTTTC
1 GAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-
* *
5977081 TTGGAAAATGAATTAAAAGCA
65 TTTG--AA-GAA-T-AAAGTA
* * * *
5977102 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTC-ACTCACTTCTCGCGATATGAGTTAATTTTT
1 GAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5977166 T
66 T
5977167 GGAAAAAACA
Statistics
Matches: 182, Mismatches: 23, Indels: 32
0.77 0.10 0.14
Matches are distributed among these distances:
70 17 0.09
71 29 0.16
72 8 0.04
73 2 0.01
74 1 0.01
75 2 0.01
76 3 0.02
79 3 0.02
80 5 0.03
82 15 0.08
83 42 0.23
84 7 0.04
85 48 0.26
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (80 bp):
GAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAGAATAAAGTA
Found at i:5977000 original size:155 final size:155
Alignment explanation
Indices: 5976792--5977156 Score: 535
Period size: 155 Copynumber: 2.4 Consensus size: 155
5976782 AACAATTCAG
* * ** *
5976792 GAAATTGAAATTACCTCAACGTG-TTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTG
1 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTG
*
5976856 GAAACATGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAAGT
66 GAAACAT-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATG-AGC
* *
5976921 TGATTTT-TTTG-AACGAA-T-AAAGTA
128 TGATTTTCTTGGAAACGAATTAAAAGCA
*
5976945 GAAATTGAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 GAAATTG-AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTT
*
5977010 TGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTG
65 GGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTG
*
5977075 ATTTTCTTGGAAAATGAATTAAAAGCA
130 ATTTTCTTGG-AAACGAATTAAAAGCA
*
5977102 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTC-ACTCACTTCTCGCGATATGAG
1 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAG
5977157 TTAATTTTTT
Statistics
Matches: 193, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
152 9 0.05
153 23 0.12
154 53 0.27
155 68 0.35
156 28 0.15
157 12 0.06
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (155 bp):
GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTG
GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTGA
TTTTCTTGGAAACGAATTAAAAGCA
Found at i:5989513 original size:21 final size:23
Alignment explanation
Indices: 5989465--5989507 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
5989455 ACATGCATAT
5989465 ATATATAAATACAAGTATTAGAA
1 ATATATAAATACAAGTATTAGAA
*
5989488 ATATAT-AATATAA-TATTAGA
1 ATATATAAATACAAGTATTAGA
5989508 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAATACAAGTATTAGAA
Found at i:5989556 original size:11 final size:11
Alignment explanation
Indices: 5989540--5989599 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
5989530 GTAATATTAA
5989540 AAAATATATAT
1 AAAATATATAT
5989551 AAAATATATATT
1 AAAATATATA-T
*
5989563 AAAAGACTTATAT
1 AAAATA--TATAT
* *
5989576 ATAACATATAT
1 AAAATATATAT
5989587 GAAAA-ATATAT
1 -AAAATATATAT
5989598 AA
1 AA
5989600 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:5989566 original size:25 final size:25
Alignment explanation
Indices: 5989533--5989609 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
5989523 ATAACTAGTA
*
5989533 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
5989558 ATATTAAAAGACT-TATATATAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
5989583 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
5989610 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:5989808 original size:26 final size:25
Alignment explanation
Indices: 5989779--5989827 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
5989769 ATATATATAT
5989779 TAAGATATAT-ATATATATATAAATGA
1 TAAGATATATAATA-ATA-ATAAATGA
*
5989805 TAAGATCTATAATAATAATAAAT
1 TAAGATATATAATAATAATAAAT
5989828 ACAATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
TAAGATATATAATAATAATAAATGA
Found at i:5990324 original size:12 final size:14
Alignment explanation
Indices: 5990288--5990315 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5990278 AAAAGAGAGA
5990288 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
5990302 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
5990316 GAGAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:5996613 original size:12 final size:12
Alignment explanation
Indices: 5996592--5996621 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5996582 AATTTGACTT
*
5996592 TTATTTTTAGGA
1 TTATTATTAGGA
5996604 TTATTATTAGGA
1 TTATTATTAGGA
5996616 TTATTA
1 TTATTA
5996622 AGATATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (12 bp):
TTATTATTAGGA
Found at i:5998370 original size:54 final size:54
Alignment explanation
Indices: 5998212--5998370 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 54
5998202 TAATATTTTT
* * * ** *
5998212 CCCATATGACGCCAAAGTCCTAGACTAGGTCTTGCACTATGTGGTCTTCGCATT
1 CCCATATGACGCCATAGTCTTAGACTAGGTCTTACACTATGTGGTCTTCATATC
* * * * * *
5998266 CCTATATAACGCCATAATCTCAGACTACGTCTTACACTATGTGGTATTCATATC
1 CCCATATGACGCCATAGTCTTAGACTAGGTCTTACACTATGTGGTCTTCATATC
* *
5998320 CCCATATGACGCCATAGTCTTAGACTAGGTCGTACACTATATGGTCTTCAT
1 CCCATATGACGCCATAGTCTTAGACTAGGTCTTACACTATGTGGTCTTCAT
5998371 TTGTCATAGC
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (54 bp):
CCCATATGACGCCATAGTCTTAGACTAGGTCTTACACTATGTGGTCTTCATATC
Found at i:6019648 original size:24 final size:24
Alignment explanation
Indices: 6019621--6019670 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6019611 AAATATAAGA
6019621 ATAATTTTGATGTTGACATCTATT
1 ATAATTTTGATGTTGACATCTATT
6019645 ATAATTTTGATGTTGACATCTATT
1 ATAATTTTGATGTTGACATCTATT
6019669 AT
1 AT
6019671 TTTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
ATAATTTTGATGTTGACATCTATT
Found at i:6020573 original size:18 final size:18
Alignment explanation
Indices: 6020550--6020586 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6020540 TTTGCTGAAG
6020550 ACATGTTTTACAGCAACA
1 ACATGTTTTACAGCAACA
6020568 ACATGTTTTACAGCAACA
1 ACATGTTTTACAGCAACA
6020586 A
1 A
6020587 GAAACAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (18 bp):
ACATGTTTTACAGCAACA
Found at i:6022360 original size:8 final size:8
Alignment explanation
Indices: 6022347--6022389 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
6022337 ATATCTCATA
6022347 TATATATT
1 TATATATT
6022355 TATATATT
1 TATATATT
6022363 TATATATAT
1 TATATAT-T
*
6022372 GTATATTATG
1 -TATA-TATT
6022382 TATATATT
1 TATATATT
6022390 CTTTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 18 0.60
9 5 0.17
10 4 0.13
11 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:6027535 original size:14 final size:12
Alignment explanation
Indices: 6027503--6027554 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
6027493 TAAAAAATTA
*
6027503 ATATATGTATCT
1 ATATATTTATCT
6027515 ATATATTTATCT
1 ATATATTTATCT
*
6027527 ATATTTATTTATATT
1 ATA--TATTTAT-CT
*
6027542 AGATATTTATCT
1 ATATATTTATCT
6027554 A
1 A
6027555 CCTATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 16 0.48
13 7 0.21
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (12 bp):
ATATATTTATCT
Found at i:6031506 original size:144 final size:144
Alignment explanation
Indices: 6030838--6031433 Score: 953
Period size: 144 Copynumber: 4.1 Consensus size: 144
6030828 CAAAGAGGAA
* * ** ** * * * *
6030838 GGGATGGGACCCAA-AAGCATATTGGCGGATAGATGTAATGTAACCAAATTCGTTAGCCTCCCAA
1 GGGATTGGA-CCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAA
* * *
6030902 TTTCATGCGGAATGGATCCATTGAGTTGGTTTCCATAAAGAACCAACGATGCAAGATTGGTTAAG
65 TTTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAACGATGCAAGATTGGTTAAG
*
6030967 TTGTTGACAGAAGAT
130 TGGTTGACAGAAGAT
6030982 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
**
6031047 TTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAGTGATGCAAGATTGGTTAAGT
66 TTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAACGATGCAAGATTGGTTAAGT
6031112 GGTTGACAGAAGAT
131 GGTTGACAGAAGAT
6031126 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
**
6031191 TTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAGTGATGCAAGATTGGTTAAGT
66 TTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAACGATGCAAGATTGGTTAAGT
6031256 GGTTGACAGAAGAT
131 GGTTGACAGAAGAT
*
6031270 GGGATTGGACCAACAAGCATATTAGAAGATAGCTCCAATGTAATCAAATTTGTCAGTCTCCCAAT
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
* *
6031335 TTCTTGCGGAATGGATCCATTAAGTTGGTTGT-CATTAAGAACCAACGATGCAAGATTGGTTAAG
66 TTCTTGTGGAATGGATCCATTAAGTTGGTT-TCCATAAAGAACCAACGATGCAAGATTGGTTAAG
* *
6031399 TTGTTGATAGAAGAT
130 TGGTTGACAGAAGAT
6031414 GGGATTGGACCAACAAGCAT
1 GGGATTGGACCAACAAGCAT
6031434 GTTCCTTGAG
Statistics
Matches: 427, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
143 4 0.01
144 422 0.99
145 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (144 bp):
GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
TTCTTGTGGAATGGATCCATTAAGTTGGTTTCCATAAAGAACCAACGATGCAAGATTGGTTAAGT
GGTTGACAGAAGAT
Found at i:6033898 original size:18 final size:18
Alignment explanation
Indices: 6033877--6033911 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6033867 AATTAATAAT
*
6033877 TTTTTATAATTTATTTAA
1 TTTTGATAATTTATTTAA
*
6033895 TTTTGATATTTTATTTA
1 TTTTGATAATTTATTTA
6033912 TATAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTGATAATTTATTTAA
Found at i:6035022 original size:15 final size:15
Alignment explanation
Indices: 6035002--6035031 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6034992 CATTTTATTT
*
6035002 ATATTAGGATAATTA
1 ATATTAAGATAATTA
6035017 ATATTAAGATAATTA
1 ATATTAAGATAATTA
6035032 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:6035059 original size:27 final size:26
Alignment explanation
Indices: 6034998--6035060 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
6034988 ACTCCATTTT
6034998 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
6035025 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
6035053 ATTTTATT
1 ATTTTATT
6035061 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:6035842 original size:17 final size:18
Alignment explanation
Indices: 6035810--6035843 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6035800 TACTCTTCAT
*
6035810 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
6035828 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
6035844 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:6037264 original size:21 final size:22
Alignment explanation
Indices: 6037239--6037281 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6037229 AAAAGTGATT
* *
6037239 GAAAATATTATAGAAA-AAAAA
1 GAAAATATGAAAGAAAGAAAAA
6037260 GAAAATATGAAAGAAAGAAAAA
1 GAAAATATGAAAGAAAGAAAAA
6037282 ATAATAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
GAAAATATGAAAGAAAGAAAAA
Found at i:6040303 original size:16 final size:18
Alignment explanation
Indices: 6040272--6040308 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
6040262 TTTACAAATG
6040272 CAAAAAACCCTAAAAGCC
1 CAAAAAACCCTAAAAGCC
6040290 CAAAAAA-CCT-AAAGCC
1 CAAAAAACCCTAAAAGCC
6040306 CAA
1 CAA
6040309 TGGCCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.57, C:0.32, G:0.05, T:0.05
Consensus pattern (18 bp):
CAAAAAACCCTAAAAGCC
Found at i:6044438 original size:26 final size:26
Alignment explanation
Indices: 6044399--6044508 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6044389 TGATACAAAT
6044399 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6044425 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6044451 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6044477 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6044503 TGATAA
1 TGATAA
6044509 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6048732 original size:19 final size:19
Alignment explanation
Indices: 6048710--6048777 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
6048700 TCATATATTC
6048710 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
6048729 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
6048746 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
6048765 AAGATTGTATATC
1 AAGATTGCATATC
6048778 CTTAAAGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 17 0.37
19 29 0.63
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:6048741 original size:17 final size:17
Alignment explanation
Indices: 6048719--6048774 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
6048709 CAAGATTGCA
6048719 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
6048736 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
6048753 CATATCATATCTAAGATTG
1 --TATCATATCTAAGATTG
6048772 TAT
1 TAT
6048775 ATCCTTAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 20 0.54
19 17 0.46
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:6049121 original size:18 final size:17
Alignment explanation
Indices: 6049094--6049130 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6049084 ACAATGTATA
*
6049094 ATATATAATAACAAAAAT
1 ATATAAAATAA-AAAAAT
6049112 ATATAAAATAAAAAAAT
1 ATATAAAATAAAAAAAT
6049129 AT
1 AT
6049131 TGGTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAAATAAAAAAAT
Found at i:6049124 original size:14 final size:16
Alignment explanation
Indices: 6049093--6049130 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
6049083 TACAATGTAT
6049093 AATATATAATAACAAA
1 AATATATAATAACAAA
6049109 AATATATAAAATAA-AAA
1 AATATAT--AATAACAAA
6049126 AATAT
1 AATAT
6049131 TGGTTTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATATATAATAACAAA
Found at i:6049197 original size:21 final size:21
Alignment explanation
Indices: 6049167--6049239 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
6049157 ACCAAATATG
*
6049167 TAAAAGAATTTATATTTATAA
1 TAAAATAATTTATATTTATAA
*
6049188 TAAAATAA-TTATATAATATATA
1 TAAAATAATTTATAT-TTATA-A
* *
6049210 TAAATATAAGTTTAGAATTAT-A
1 TAAA-ATAA-TTTATATTTATAA
6049232 TAAAATAA
1 TAAAATAA
6049240 GTAATTAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
20 6 0.14
21 15 0.36
22 10 0.24
23 4 0.10
24 3 0.07
25 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
TAAAATAATTTATATTTATAA
Found at i:6049218 original size:23 final size:22
Alignment explanation
Indices: 6049183--6049241 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
6049173 AATTTATATT
*
6049183 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTT-TAGAA
6049204 TATATATAAATATAAGTTTAGAA
1 TATATATAAA-ATAAGTTTAGAA
6049227 T-TATATAAAATAAGT
1 TATATATAAAATAAGT
6049242 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 13 0.38
23 9 0.26
24 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TATATATAAAATAAGTTTAGAA
Found at i:6049419 original size:20 final size:18
Alignment explanation
Indices: 6049386--6049422 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
6049376 AATGATGATA
6049386 ATATATAGATAAAAATAT
1 ATATATAGATAAAAATAT
6049404 ATATAATAGTATAAAAATA
1 ATAT-ATAG-ATAAAAATA
6049423 ACATAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATATAGATAAAAATAT
Found at i:6049538 original size:30 final size:33
Alignment explanation
Indices: 6049492--6049563 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
6049482 AATATATATC
6049492 AATAATTAATAA--ATATAT-AAT-ACAA-GTAA
1 AATAA-TAATAATGATATATGAATAACAATGTAA
6049521 AA-ATATAATAATGATATATGAATAACAATGTAA
1 AATA-ATAATAATGATATATGAATAACAATGTAA
6049554 AATAATAATA
1 AATAATAATA
6049564 TTCTGTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
28 7 0.19
29 3 0.08
30 6 0.17
31 3 0.08
32 4 0.11
33 12 0.33
34 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (33 bp):
AATAATAATAATGATATATGAATAACAATGTAA
Found at i:6049556 original size:32 final size:31
Alignment explanation
Indices: 6049492--6049563 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 31
6049482 AATATATATC
6049492 AATAATTAATAA--ATATATAATACAAGTAAA
1 AATAA-TAATAATGATATATAATACAAGTAAA
6049522 AAT-ATAATAATGATATATGAATAACAATGT-AA
1 AATAATAATAATGATATAT-AAT-ACAA-GTAAA
6049554 AATAATAATA
1 AATAATAATA
6049564 TTCTGTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 6 0.17
29 1 0.03
30 9 0.25
31 3 0.08
32 9 0.25
33 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (31 bp):
AATAATAATAATGATATATAATACAAGTAAA
Found at i:6049596 original size:3 final size:3
Alignment explanation
Indices: 6049588--6049693 Score: 55
Period size: 3 Copynumber: 36.3 Consensus size: 3
6049578 ATATATAACA
*
6049588 AAT AAT AAT AAT -AT AAAT AAT ATAT AAT AA- AAT AAT TAT -AT AAT
1 AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* ** * *
6049632 ATAT AAT -AT AA- AAT AAG GTT AAA AAT AA- AACA AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
6049676 AAA AAT TAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
6049694 GAAATAAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
2 14 0.18
3 55 0.70
4 10 0.13
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6049616 original size:7 final size:7
Alignment explanation
Indices: 6049576--6049646 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
6049566 CTGTGAAAAG
6049576 TAATATA
1 TAATATA
* *
6049583 TAACAAA
1 TAATATA
6049590 TAATA-A
1 TAATATA
6049596 TAATATAAA
1 TAATAT--A
6049605 TAATATA
1 TAATATA
*
6049612 TAATAAAA
1 TAAT-ATA
6049620 TAATTATA
1 TAA-TATA
6049628 TAATATA
1 TAATATA
6049635 TAATATA
1 TAATATA
*
6049642 AAATA
1 TAATA
6049647 AGGTTAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 6 0.11
7 29 0.55
8 10 0.19
9 8 0.15
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (7 bp):
TAATATA
Found at i:6049634 original size:23 final size:25
Alignment explanation
Indices: 6049588--6049693 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 25
6049578 ATATATAACA
6049588 AATAATAATAATATAAATAATATAT
1 AATAATAATAATATAAATAATATAT
*
6049613 AATAA-AATAAT-TATATAATATAT
1 AATAATAATAATATAAATAATATAT
* * * *
6049636 AATATAAAATAAGGTTAAAAATAAAACA-
1 AATA-ATAATAA---TATAAATAATATAT
*
6049664 AATAATAATAATA-AAA-ATTATAT
1 AATAATAATAATATAAATAATATAT
6049687 AATAATA
1 AATAATA
6049694 GAAATAAATA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
22 3 0.05
23 25 0.38
24 9 0.14
25 10 0.15
27 6 0.09
28 5 0.08
29 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATAATAATATAAATAATATAT
Found at i:6052485 original size:137 final size:134
Alignment explanation
Indices: 6052253--6052536 Score: 514
Period size: 137 Copynumber: 2.1 Consensus size: 134
6052243 TATTGGGCCT
**
6052253 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCTTAG
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCTTAG
*
6052318 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
66 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACA
6052383 TATGC
130 TATGC
6052388 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGG-CTT
6052453 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
64 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
6052518 ATATGC
129 ATATGC
6052524 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6052537 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
135 42 0.29
136 38 0.26
137 64 0.44
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (134 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCTTAG
CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACAT
ATGC
Found at i:6054348 original size:26 final size:26
Alignment explanation
Indices: 6054312--6054446 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
6054302 CATGAAATTC
6054312 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6054338 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6054364 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6054390 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6054415 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6054441 TTATCA
1 TTATCA
6054447 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6054423 original size:51 final size:52
Alignment explanation
Indices: 6054312--6054446 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
6054302 CATGAAATTC
* *
6054312 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
6054364 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
6054415 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
6054447 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:6058391 original size:136 final size:136
Alignment explanation
Indices: 6058114--6058398 Score: 527
Period size: 137 Copynumber: 2.1 Consensus size: 136
6058104 TATTGGGCCT
**
6058114 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
*
6058179 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
6058244 ATATGC
131 ATATGC
6058250 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
6058315 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
6058379 CATATGC
130 CATATGC
6058386 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6058399 GAGACTACTC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
136 64 0.44
137 81 0.56
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:6060213 original size:26 final size:26
Alignment explanation
Indices: 6060177--6060315 Score: 206
Period size: 26 Copynumber: 5.2 Consensus size: 26
6060167 CATGAAATTC
6060177 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6060203 TTATCATGAAACATTTACCTAACCCATCA
1 TTATCATGAAACATTTACCTAA-CC--CA
* *
6060232 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6060258 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
6060284 TTACCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6060310 TTATCA
1 TTATCA
6060316 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 75 0.74
27 2 0.02
28 2 0.02
29 23 0.23
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6060245 original size:55 final size:52
Alignment explanation
Indices: 6060177--6060315 Score: 224
Period size: 55 Copynumber: 2.6 Consensus size: 52
6060167 CATGAAATTC
* *
6060177 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAA-CC--CA
6060232 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
*
6060284 TTACCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
6060316 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
52 33 0.41
54 2 0.02
55 46 0.57
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:6064755 original size:22 final size:23
Alignment explanation
Indices: 6064730--6064773 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6064720 TTAGATAACA
6064730 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
6064752 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
6064774 ATATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:6064775 original size:20 final size:21
Alignment explanation
Indices: 6064724--6064778 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
6064714 AACACTTTAG
6064724 ATAACAAAATATATAAATATAA
1 ATAA-AAAATATATAAATATAA
* *
6064746 ATAAACAAATATTTATATATAA
1 ATAAA-AAATATATAAATATAA
*
6064768 A-ATAAAATATA
1 ATAAAAAATATA
6064779 AATTTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.21
21 3 0.11
22 19 0.68
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAAAATATATAAATATAA
Found at i:6068650 original size:27 final size:27
Alignment explanation
Indices: 6068620--6068733 Score: 176
Period size: 27 Copynumber: 4.2 Consensus size: 27
6068610 ACAATTTTAC
6068620 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* *
6068647 AAATCGAGGGTAAAACGGTAATTTTAC
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
6068674 AAATCGAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
6068701 AAA-CTGAGGGTAAAACGGTAATTCTGT
1 AAATC-GAGGGTAAAACGGTAATTCTAT
6068728 AAATCG
1 AAATCG
6068734 GGAGTACTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAT
Found at i:6068695 original size:54 final size:54
Alignment explanation
Indices: 6068612--6068723 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 54
6068602 GATGTCCTAC
*
6068612 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGTAAAACGGT
1 AATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACT-GAGGGTAAAACGGT
6068666 AATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAACGGT
1 AATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAACGGT
6068720 AATT
1 AATT
6068724 CTGTAAATCG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAACGGT
Found at i:6069361 original size:3 final size:3
Alignment explanation
Indices: 6069355--6069402 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6069345 TTTTATTATG
6069355 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6069403 TTATTATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6069407 original size:3 final size:3
Alignment explanation
Indices: 6069401--6069459 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
6069391 ATAATAATAA
*
6069401 TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6069447 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
6069460 GTAATAGCCC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6070039 original size:26 final size:26
Alignment explanation
Indices: 6070002--6070085 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6069992 TGATACAAAT
* *
6070002 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6070028 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6070054 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6070080 TGATAA
1 TGATAA
6070086 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6071622 original size:25 final size:25
Alignment explanation
Indices: 6071574--6071622 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6071564 ACAGTTTTAC
6071574 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
6071599 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
6071623 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:6075794 original size:26 final size:26
Alignment explanation
Indices: 6075758--6075867 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6075748 TGATACAAAT
6075758 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6075784 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6075810 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6075836 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6075862 TGATAA
1 TGATAA
6075868 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6079751 original size:21 final size:22
Alignment explanation
Indices: 6079705--6079790 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 22
6079695 TGAATATACG
6079705 TATTATATATTTTATAATTATT
1 TATTATATATTTTATAATTATT
6079727 TATT-TATATTTTATTATATTATAT
1 TATTATATATTTTA-TA-ATTAT-T
* * *
6079751 TACTTCATATCTTTCTATTATCATAT
1 TA-TT-ATATATTT-TATAATTAT-T
*
6079777 TAATATATATTTTA
1 TATTATATATTTTA
6079791 ACATATATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 7 0.13
24 10 0.19
25 3 0.06
26 8 0.15
27 7 0.13
28 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATATATTTTATAATTATT
Found at i:6079919 original size:30 final size:29
Alignment explanation
Indices: 6079883--6079959 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
6079873 CATTTTAACA
*
6079883 ATATATTATTTCATATTATTATTATCTATT
1 ATATATTATTTCATATTATTATTATCTA-C
* * *
6079913 ATATATT-TTTTATGTATATTATTATTTAC
1 ATATATTATTTCATAT-TATTATTATCTAC
6079942 AT-TATTATTTTCATATTA
1 ATATATTA-TTTCATATTA
6079960 AATTCATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
28 4 0.11
29 10 0.26
30 24 0.63
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (29 bp):
ATATATTATTTCATATTATTATTATCTAC
Found at i:6079925 original size:18 final size:17
Alignment explanation
Indices: 6079904--6079952 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
6079894 CATATTATTA
6079904 TTATCTATTATATATTTT
1 TTATCTATTAT-TATTTT
* *
6079922 TTATGTA-TATTATTAT
1 TTATCTATTATTATTTT
6079938 TTA-C-ATTATTATTTT
1 TTATCTATTATTATTTT
6079953 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 1 0.04
15 8 0.31
16 8 0.31
17 3 0.12
18 6 0.23
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATCTATTATTATTTT
Found at i:6081282 original size:3 final size:3
Alignment explanation
Indices: 6081274--6081361 Score: 99
Period size: 3 Copynumber: 30.0 Consensus size: 3
6081264 TCGACAATTG
6081274 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
6081321 CTA TAA CTA TTA CTA CTA CTA TTA CTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6081362 CTATCATATT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 4 0.05
3 70 0.95
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:6082857 original size:14 final size:14
Alignment explanation
Indices: 6082838--6082865 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6082828 TTCATTTTTA
6082838 ATTAATTAATTATT
1 ATTAATTAATTATT
6082852 ATTAATTAATTATT
1 ATTAATTAATTATT
6082866 TATATTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAATTAATTATT
Found at i:6082858 original size:18 final size:17
Alignment explanation
Indices: 6082835--6082872 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
6082825 ATATTCATTT
6082835 TTAATTAATTAATTATTA
1 TTAATTAATTAATTA-TA
*
6082853 TTAATTAATTATTTATA
1 TTAATTAATTAATTATA
6082870 TTA
1 TTA
6082873 CTAATAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTAATTAATTATA
Found at i:6083620 original size:41 final size:41
Alignment explanation
Indices: 6083575--6083674 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
6083565 CGTTTTAGCA
6083575 AAAAACTGGGCAATAGCGGCATTTTTGAT-CAAAACGCCGCT
1 AAAAACTGGGCAATAGCGGCATTTTTG-TCCAAAACGCCGCT
* *
6083616 AAAAACTGGGCAATAGCGGCGTTTTTGTCCCAAACGCCGCT
1 AAAAACTGGGCAATAGCGGCATTTTTGTCCAAAACGCCGCT
**
6083657 AAAAACTGAACAATAGCG
1 AAAAACTGGGCAATAGCG
6083675 ACGCTTTTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.02
41 53 0.98
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAAACTGGGCAATAGCGGCATTTTTGTCCAAAACGCCGCT
Found at i:6083683 original size:41 final size:41
Alignment explanation
Indices: 6083606--6083683 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
6083596 TTTTTGATCA
** * *
6083606 AAACGCCGCTAAAAACTGGGCAATAGCGGCGTTTTTGTCCC
1 AAACGCCGCTAAAAACTGAACAATAGCGACGCTTTTGTCCC
6083647 AAACGCCGCTAAAAACTGAACAATAGCGACGCTTTTG
1 AAACGCCGCTAAAAACTGAACAATAGCGACGCTTTTG
6083684 GAAAAACGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAACAATAGCGACGCTTTTGTCCC
Found at i:6083715 original size:41 final size:41
Alignment explanation
Indices: 6083670--6083983 Score: 423
Period size: 41 Copynumber: 7.6 Consensus size: 41
6083660 AACTGAACAA
* *
6083670 TAGCGACGCTTTTGGAAAAACGTCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* * *
6083711 TAGCGGCGCTTCTGGAAAAACGCTGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* *
6083752 TAGCGGCGCTTTTGCAAAAACGCCGCTATAGGTCAAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* * * *
6083793 TAGCAGCGCTTCTGGGAAAACGCCGCTATAGGTAGAGGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGG-TTT
* *
6083835 TAGCGGCGCTTTTGTG-AAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTG-GAAAAACGCCGCTATAGGTCGAGGTTT
* * * *
6083876 TAGCGGCGCTTTTGGGAAAACGCCACTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
* * *
6083917 TAGCGGCGCTTTTGGGAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
6083958 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
6083984 AAAAAAGTAA
Statistics
Matches: 246, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.00
41 210 0.85
42 34 0.14
43 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
Found at i:6083878 original size:165 final size:165
Alignment explanation
Indices: 6083670--6083983 Score: 441
Period size: 165 Copynumber: 1.9 Consensus size: 165
6083660 AACTGAACAA
* * *
6083670 TAGCGACGCTTTTGGAAAAACGTCGCTATAGGTCGAGGTTTTAGCGGCGCTTCTGGAAAAACGCT
1 TAGCGACGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGGCGCTTCTGGAAAAACGCC
* * *
6083735 GCTATAGGTAGAGGTTTTAGCGGCGCTTTTGCAAAAACGCCGCTATAGGTCAAGGTTTTAGCAGC
66 ACTATAGGCAGAGGTTTTAGCGGCGCTTTTGCAAAAACGCCGCTATAGGCCAAGGTTTTAGCAGC
*
6083800 GCTTCTGGGAAAACGCCGCTATAGGTAGAGGTTTT
131 GCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTTT
* * * *
6083835 TAGCGGCGCTTTTGTG-AAAACGCCGCTATAGGCCGATGTTTTAGCGGCGCTTTTGGGAAAACGC
1 TAGCGACGCTTTTG-GAAAAACGCCGCTATAGGCCGAGGTTTTAGCGGCGCTTCTGGAAAAACGC
* * ** * * *
6083899 CACTATAGGCCGATGTTTTAGCGGCGCTTTTGGGAAAACGCCGCTATAGGCCGATGTTTTAGCGG
65 CACTATAGGCAGAGGTTTTAGCGGCGCTTTTGCAAAAACGCCGCTATAGGCCAAGGTTTTAGCAG
*
6083964 CGCTTTTGGAAAAACGCCGC
130 CGCTTCTGGAAAAACGCCGC
6083984 AAAAAAGTAA
Statistics
Matches: 129, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
165 128 0.99
166 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (165 bp):
TAGCGACGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGGCGCTTCTGGAAAAACGCC
ACTATAGGCAGAGGTTTTAGCGGCGCTTTTGCAAAAACGCCGCTATAGGCCAAGGTTTTAGCAGC
GCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTTT
Found at i:6084321 original size:18 final size:18
Alignment explanation
Indices: 6084293--6084342 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
6084283 TCCCTTGTTA
6084293 TATATATATATATTAAACT
1 TATA-ATATATATTAAACT
* **
6084312 TCTAATATATATTAAGTT
1 TATAATATATATTAAACT
6084330 TATAATATATATT
1 TATAATATATATT
6084343 TAGGGTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAATATATATTAAACT
Found at i:6084781 original size:15 final size:15
Alignment explanation
Indices: 6084763--6084796 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6084753 GATTTTAATG
* *
6084763 TATAAGATAGATGTA
1 TATAAGATAAATATA
6084778 TATAAGATAAATATA
1 TATAAGATAAATATA
6084793 TATA
1 TATA
6084797 TGAAAAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:6085771 original size:10 final size:10
Alignment explanation
Indices: 6085756--6085786 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6085746 GCGTGTTAGA
6085756 TAAATTCATG
1 TAAATTCATG
*
6085766 TAAATTTATG
1 TAAATTCATG
6085776 TAAATTCATG
1 TAAATTCATG
6085786 T
1 T
6085787 TTGCTCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (10 bp):
TAAATTCATG
Found at i:6088474 original size:136 final size:136
Alignment explanation
Indices: 6088231--6088515 Score: 500
Period size: 136 Copynumber: 2.1 Consensus size: 136
6088221 TATTGGGCCT
**
6088231 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
6088296 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
6088360 ATATGC
131 ATATGC
* *
6088366 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGGCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
*
6088431 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
6088496 CATATGC
130 CATATGC
*
6088503 AAACCCATTTGGG
1 AAGCCCATTTGGG
6088516 GAGACTACTC
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
135 40 0.28
136 81 0.57
137 21 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:6090329 original size:26 final size:26
Alignment explanation
Indices: 6090293--6090376 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6090283 ACATGAATTC
6090293 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6090319 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6090345 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6090371 TTATCA
1 TTATCA
6090377 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6094375 original size:134 final size:135
Alignment explanation
Indices: 6094135--6094416 Score: 498
Period size: 134 Copynumber: 2.1 Consensus size: 135
6094125 TATTGGGCCT
**
6094135 AAGCCCATTCAGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
1 AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
6094200 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACA
66 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
6094264 TATGC
131 TATGC
6094269 -AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAG-CCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACT-GGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
*
6094332 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
64 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
6094397 CATATGC
129 CATATGC
6094404 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6094417 GAGACTACTC
Statistics
Matches: 141, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
133 31 0.22
134 89 0.63
135 9 0.06
136 12 0.09
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
TATGC
Found at i:6096226 original size:26 final size:26
Alignment explanation
Indices: 6096190--6096273 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6096180 ACATGAATTC
6096190 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6096216 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6096242 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6096268 TTATCA
1 TTATCA
6096274 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6098339 original size:15 final size:15
Alignment explanation
Indices: 6098295--6098350 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
6098285 AACGACATGT
6098295 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
6098311 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
6098324 ATATTATTTAATTAA
1 ATATTATTTAATTAA
6098339 ATATTATTTAAT
1 ATATTATTTAAT
6098351 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:6098467 original size:9 final size:9
Alignment explanation
Indices: 6098455--6098689 Score: 152
Period size: 9 Copynumber: 25.6 Consensus size: 9
6098445 TATTTGATAT
*
6098455 CATAATTTA
1 CATAACTTA
6098464 CATAACTTA
1 CATAACTTA
* **
6098473 TATAACAGA
1 CATAACTTA
*
6098482 TATAACTTA
1 CATAACTTA
6098491 CATAACTTA
1 CATAACTTA
*
6098500 TATAACTTA
1 CATAACTTA
6098509 CATAACTTA
1 CATAACTTA
* *
6098518 TATAACATA
1 CATAACTTA
6098527 CATAACTTA
1 CATAACTTA
*
6098536 TATAACTTA
1 CATAACTTA
* *
6098545 GATAA-ATA
1 CATAACTTA
*
6098553 TATAACTTA
1 CATAACTTA
6098562 CATAACTTA
1 CATAACTTA
6098571 CATAATACTTA
1 CAT-A-ACTTA
* *
6098582 AATATATTTTATA
1 CATA-A--CT-TA
*
6098595 TCATAATTTA
1 -CATAACTTA
6098605 CATAACTTA
1 CATAACTTA
6098614 CATAACTTA
1 CATAACTTA
*
6098623 TATAACTTA
1 CATAACTTA
* *
6098632 GATAA-ATA
1 CATAACTTA
* *
6098640 TATAATTTA
1 CATAACTTA
*
6098649 CATAA-ATA
1 CATAACTTA
* * *
6098657 TATATCATA
1 CATAACTTA
*
6098666 TCATAAATTA
1 -CATAACTTA
6098676 CATAACTTA
1 CATAACTTA
6098685 CATAA
1 CATAA
6098690 TACTTAAATA
Statistics
Matches: 179, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
8 17 0.09
9 135 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:6098513 original size:27 final size:27
Alignment explanation
Indices: 6098455--6098689 Score: 170
Period size: 27 Copynumber: 8.5 Consensus size: 27
6098445 TATTTGATAT
* * **
6098455 CATAATTTACATAACTTATATAACAGA
1 CATAACTTACATAACATATATAACTTA
* *
6098482 TATAACTTACATAACTTATATAACTTA
1 CATAACTTACATAACATATATAACTTA
* *
6098509 CATAACTTATATAACATACATAACTTA
1 CATAACTTACATAACATATATAACTTA
* *
6098536 TATAACTTAGATAA-ATATATAACTTA
1 CATAACTTACATAACATATATAACTTA
* **
6098562 CATAACTTACATAATACTTAAATATATTTTATA
1 CATAACTTACAT-A-AC--ATATATA-ACT-TA
* * *
6098595 TCATAATTTACATAACTTACATAACTTA
1 -CATAACTTACATAACATATATAACTTA
* * *
6098623 TATAACTTAGATAA-ATATATAATTTA
1 CATAACTTACATAACATATATAACTTA
* * * *
6098649 CATAA-ATATATATCATATCATAAATTA
1 CATAACTTACATAACATAT-ATAACTTA
6098676 CATAACTTACATAA
1 CATAACTTACATAA
6098690 TACTTAAATA
Statistics
Matches: 161, Mismatches: 36, Indels: 21
0.74 0.17 0.10
Matches are distributed among these distances:
25 5 0.03
26 38 0.24
27 82 0.51
28 8 0.05
29 1 0.01
30 4 0.02
31 6 0.04
32 3 0.02
33 3 0.02
34 11 0.07
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
CATAACTTACATAACATATATAACTTA
Found at i:6098677 original size:114 final size:114
Alignment explanation
Indices: 6098483--6098713 Score: 313
Period size: 114 Copynumber: 2.0 Consensus size: 114
6098473 TATAACAGAT
* * * *
6098483 ATAACTTACATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGAT
1 ATAACTTACATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGAT
* * *
6098548 AAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATC
66 AAATATATAAATTACATAACTTACATAATACTTAAATATATATCATATC
* * * * *
6098597 ATAATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATAT
1 ATAACTTACATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGAT
*
6098660 ATCATATCATAAATTACATAACTTACATAATACTTAAATATATATCATATC
66 A-AATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATATC
6098711 ATA
1 ATA
6098714 CATAACTAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
112 5 0.05
113 18 0.18
114 79 0.77
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGAT
AAATATATAAATTACATAACTTACATAATACTTAAATATATATCATATC
Found at i:6104362 original size:21 final size:21
Alignment explanation
Indices: 6104329--6104379 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6104319 ACAACTTAGA
*
6104329 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
6104350 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
6104371 GCAGAGGCA
1 GCAGAGGCA
6104380 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:6104680 original size:31 final size:31
Alignment explanation
Indices: 6104634--6104700 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
6104624 TGGTTGTATT
* *
6104634 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
6104665 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
6104696 TTTTA
1 TTTTA
6104701 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:6104799 original size:43 final size:42
Alignment explanation
Indices: 6104752--6104889 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 42
6104742 ATCTGCCAAA
* * *
6104752 TTTAGCGGCG-TTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGCTTT-CAAACAAA-CGCCGCTAAAAGCCTTGACC
* * *
6104795 TTTAGCGACGCTTTCACTACAAACGCCGCTAAAAGCATTGACC
1 TTTAGCGGCGCTTTCA-AACAAACGCCGCTAAAAGCCTTGACC
**
6104838 TTTAGCGGCGCTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTCAAACAAACGCCGCTAAAAGCCTTGACC
6104880 TTTAGCGGCG
1 TTTAGCGGCG
6104890 TTTTTTCCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.41
43 42 0.51
44 7 0.08
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (42 bp):
TTTAGCGGCGCTTTCAAACAAACGCCGCTAAAAGCCTTGACC
Found at i:6104872 original size:42 final size:43
Alignment explanation
Indices: 6104775--6104889 Score: 187
Period size: 42 Copynumber: 2.7 Consensus size: 43
6104765 GTAAAAAAAG
* * *
6104775 CGCCGCTAAAAGCCTTGACGTTTAGCGACGCTTTCACTACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCACCACAAA
*
6104818 CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTC-CCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCACCACAAA
6104860 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
6104890 TTTTTTCCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 35 0.52
43 32 0.48
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCACCACAAA
Found at i:6105765 original size:20 final size:20
Alignment explanation
Indices: 6105736--6105774 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6105726 TCAAACAAAT
*
6105736 AAAATTTATATAAAA-TAAAC
1 AAAATGTATA-AAAACTAAAC
6105756 AAAATGTATAAAAACTAAA
1 AAAATGTATAAAAACTAAA
6105775 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATGTATAAAAACTAAAC
Found at i:6109139 original size:144 final size:144
Alignment explanation
Indices: 6108953--6109260 Score: 499
Period size: 144 Copynumber: 2.1 Consensus size: 144
6108943 CAAAGAGGAA
* * * *
6108953 GGGATGGGACCAACAAGCATATTAGACGATAGATACAGTGTAATCAAATTGGTTAGCCTCCCAAT
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATACAATGTAATCAAATTGGTCAGCCTCCCAAT
* * *
6109018 TTCTTGCGGAATGGATCCATTGAGTTGGTTTGCATAAAGAACCAACGATGCAAGATTGGTTAAGT
66 TTCTTGCGGAATGGATCCATTAAGTTGGTTGGCAGAAAGAACCAACGATGCAAGATTGGTTAAGT
6109083 TGTTGACAGAAGAT
131 TGTTGACAGAAGAT
* * * *
6109097 GGTATTGGACCAACAAGCATATTAGAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAAT
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATACAATGTAATCAAATTGGTCAGCCTCCCAAT
*
6109162 TTCTTGCGGAATGGATCCATTAAGTTGGTTGGTAGAAAGAACCAACGATGCAAGATTGGTTAAGT
66 TTCTTGCGGAATGGATCCATTAAGTTGGTTGGCAGAAAGAACCAACGATGCAAGATTGGTTAAGT
*
6109227 TGTTGACAGAAGTT
131 TGTTGACAGAAGAT
6109241 GGGATTGGACCAACAAGCAT
1 GGGATTGGACCAACAAGCAT
6109261 GTTGCTTGAG
Statistics
Matches: 150, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 150 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (144 bp):
GGGATTGGACCAACAAGCATATTAGAAGATAGATACAATGTAATCAAATTGGTCAGCCTCCCAAT
TTCTTGCGGAATGGATCCATTAAGTTGGTTGGCAGAAAGAACCAACGATGCAAGATTGGTTAAGT
TGTTGACAGAAGAT
Found at i:6110466 original size:18 final size:18
Alignment explanation
Indices: 6110436--6110503 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
6110426 AATTATTAAT
*
6110436 ATTTT-ATAATTTATTTA
1 ATTTTAATATTTTATTTA
6110453 ATTTTAATATTTTATTT-
1 ATTTTAATATTTTATTTA
* *
6110470 -CTTTAATATTTT-TATA
1 ATTTTAATATTTTATTTA
*
6110486 ATCTTTAAAATATTTATT
1 AT-TTTAATAT-TTTATT
6110504 AACATGACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
15 2 0.05
16 11 0.28
17 5 0.13
18 17 0.44
19 3 0.08
20 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTAATATTTTATTTA
Found at i:6116517 original size:5 final size:5
Alignment explanation
Indices: 6116507--6116538 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
6116497 CAATTTGTGA
6116507 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6116539 GAATACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:6116532 original size:9 final size:9
Alignment explanation
Indices: 6116508--6116538 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
6116498 AATTTGTGAA
6116508 AAATAAAAT
1 AAATAAAAT
6116517 AAAATAAAAT
1 -AAATAAAAT
6116527 AAATAAAAT
1 AAATAAAAT
6116536 AAA
1 AAA
6116539 GAATACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:6120945 original size:36 final size:36
Alignment explanation
Indices: 6120873--6120948 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
6120863 TGACAGCTCC
*
6120873 AGCAGCTGCCACATATTCTGCCTCAACAGTTGACTA
1 AGCAGCTGCCACATATTCTGCCTCAACAGTTAACTA
* **
6120909 AGCAGCTGCCACATATTCTGCCTTAGTAGTTAACTA
1 AGCAGCTGCCACATATTCTGCCTCAACAGTTAACTA
6120945 AGCA
1 AGCA
6120949 ACGATATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (36 bp):
AGCAGCTGCCACATATTCTGCCTCAACAGTTAACTA
Found at i:6130270 original size:41 final size:41
Alignment explanation
Indices: 6130224--6130306 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
6130214 TTTGAGAAGA
*
6130224 AAAGTCTAATTTGAGTAAAAAAATAAAACAAAGGGTAAACT
1 AAAGTCTAATTTGAGTAAAAAAATAAAACAAAGGGCAAACT
6130265 AAAGTCTAATTTGAGTAAAAAAATAAAACAAAGGGCAAACT
1 AAAGTCTAATTTGAGTAAAAAAATAAAACAAAGGGCAAACT
6130306 A
1 A
6130307 TTTCGTAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.20
Consensus pattern (41 bp):
AAAGTCTAATTTGAGTAAAAAAATAAAACAAAGGGCAAACT
Found at i:6134011 original size:32 final size:32
Alignment explanation
Indices: 6133975--6134041 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
6133965 CCTAAATTAT
*
6133975 ATTAATATCCCTTTTGAGAGTAAAAATAACTG
1 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
6134007 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
1 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
6134039 ATT
1 ATT
6134042 CTAGGTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTAATATCCCTTTCGAGAGTAAAAATAACTG
Found at i:6134477 original size:28 final size:29
Alignment explanation
Indices: 6134432--6134486 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
6134422 TGCAAAATTT
*
6134432 TTTATCTATATATTTATT-ATTTAAATGG
1 TTTATCTATATATTTATTGATTAAAATGG
*
6134460 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATCTATATATT-TATTGATTAAAAT
6134487 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTATCTATATATTTATTGATTAAAATGG
Found at i:6134811 original size:7 final size:7
Alignment explanation
Indices: 6134801--6134898 Score: 61
Period size: 7 Copynumber: 13.3 Consensus size: 7
6134791 AGTGGGTAAA
6134801 GGTTAAG
1 GGTTAAG
*
6134808 GGTTATG
1 GGTTAAG
* *
6134815 GATTATG
1 GGTTAAG
6134822 GGTTTAAG
1 GG-TTAAG
*
6134830 GATTAAG
1 GGTTAAG
*
6134837 GGTTATG
1 GGTTAAG
* *
6134844 AGTTTAAT
1 -GGTTAAG
6134852 GGTTAAGG
1 GGTTAA-G
* *
6134860 GGATATG
1 GGTTAAG
6134867 GGTTAAG
1 GGTTAAG
6134874 GGTTAAGG
1 GGTTAA-G
*
6134882 GGTTTAAT
1 GG-TTAAG
6134890 GGTTAAG
1 GGTTAAG
6134897 GG
1 GG
6134899 GACATGGGTA
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
7 46 0.68
8 18 0.26
9 4 0.06
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (7 bp):
GGTTAAG
Found at i:6134828 original size:22 final size:22
Alignment explanation
Indices: 6134803--6134881 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
6134793 TGGGTAAAGG
*
6134803 TTAAGGGTTATGGATTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
* * *
6134825 TTAAGGATTAAGGGTTATGAGT
1 TTAAGGGTTAAGGATTATGGGT
*
6134847 TTAATGGTTAAGGGGA-TATGGG-
1 TTAAGGGTTAA--GGATTATGGGT
6134869 TTAAGGGTTAAGG
1 TTAAGGGTTAAGG
6134882 GGTTTAATGG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.04
22 37 0.80
23 5 0.11
24 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (22 bp):
TTAAGGGTTAAGGATTATGGGT
Found at i:6134841 original size:29 final size:28
Alignment explanation
Indices: 6134786--6134843 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
6134776 TAAAGTTTAG
6134786 GGATTAGTGGGTAAAGGTTAAGGGTTAT
1 GGATTAGTGGGTAAAGGTTAAGGGTTAT
*
6134814 GGATTA-TGGGTTTAAGGATTAAGGGTTAT
1 GGATTAGTGGG-TAAAGG-TTAAGGGTTAT
6134843 G
1 G
6134844 AGTTTAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 11 0.41
29 12 0.44
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (28 bp):
GGATTAGTGGGTAAAGGTTAAGGGTTAT
Found at i:6134892 original size:38 final size:37
Alignment explanation
Indices: 6134832--6134912 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 37
6134822 GGTTTAAGGA
* *
6134832 TTAAGGGTTATGAGTTTAATGGTTAAGGGGATATGGG
1 TTAAGGGTTAGGAGTTTAATGGTTAAGGGGACATGGG
*
6134869 TTAAGGGTTAAGGGGTTTAATGGTTAAGGGGACATGGG
1 TTAAGGGTT-AGGAGTTTAATGGTTAAGGGGACATGGG
6134907 -TAAGGG
1 TTAAGGG
6134913 GTTTATGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 15 0.38
38 25 0.62
ACGTcount: A:0.27, C:0.01, G:0.41, T:0.31
Consensus pattern (37 bp):
TTAAGGGTTAGGAGTTTAATGGTTAAGGGGACATGGG
Found at i:6134893 original size:16 final size:16
Alignment explanation
Indices: 6134869--6134899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6134859 GGGATATGGG
6134869 TTAAGGGTTAAGGGGT
1 TTAAGGGTTAAGGGGT
*
6134885 TTAATGGTTAAGGGG
1 TTAAGGGTTAAGGGG
6134900 ACATGGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (16 bp):
TTAAGGGTTAAGGGGT
Found at i:6134922 original size:7 final size:7
Alignment explanation
Indices: 6134912--6135044 Score: 61
Period size: 7 Copynumber: 17.9 Consensus size: 7
6134902 ATGGGTAAGG
6134912 GGTTTAT
1 GGTTTAT
6134919 GGTTTAT
1 GGTTTAT
*
6134926 GAGTTAAT
1 G-GTTTAT
* *
6134934 GTTTTAA
1 GGTTTAT
*
6134941 GATTTAT
1 GGTTTAT
* *
6134948 TGATTAT
1 GGTTTAT
*
6134955 GGGTTTAG
1 -GGTTTAT
6134963 GGATTT-T
1 GG-TTTAT
6134970 GGTTTAT
1 GGTTTAT
*
6134977 GGTTTAA
1 GGTTTAT
*
6134984 GGTTTAG
1 GGTTTAT
*
6134991 GGGTTAGT
1 GGTTTA-T
6134999 GGTTAATTAT
1 GG-T--TTAT
*
6135009 GGTTTAA
1 GGTTTAT
6135016 GGTTTCAT
1 GGTTT-AT
*
6135024 GGTTTAGG
1 GGTTTA-T
*
6135032 GGTTTAA
1 GGTTTAT
6135039 GGTTTA
1 GGTTTA
6135045 AGATTTAGAG
Statistics
Matches: 94, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
6 3 0.03
7 57 0.61
8 27 0.29
9 1 0.01
10 3 0.03
11 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:6135057 original size:23 final size:23
Alignment explanation
Indices: 6135009--6135057 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
6134999 GGTTAATTAT
* *
6135009 GGTTTAAGGTTTCATGGTTTAGG
1 GGTTTAAGGTTTCAAGATTTAGG
6135032 GGTTTAAGGTTT-AAGATTTAGAG
1 GGTTTAAGGTTTCAAGATTTAG-G
6135055 GGT
1 GGT
6135058 ATGGGATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (23 bp):
GGTTTAAGGTTTCAAGATTTAGG
Found at i:6135135 original size:23 final size:23
Alignment explanation
Indices: 6135098--6135165 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
6135088 GGGCTTAAAT
*
6135098 GGATAGGCGTT-TAGGGTTTAAG
1 GGATAGGGGTTATAGGGTTTAAG
* * *
6135120 GGTTATGGGTTATA-GGATTACAG
1 GGATAGGGGTTATAGGGTTTA-AG
*
6135143 GGATAGGGGTTA-GGGGTTTAAG
1 GGATAGGGGTTATAGGGTTTAAG
6135165 G
1 G
6135166 TAATTAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.24, C:0.03, G:0.43, T:0.31
Consensus pattern (23 bp):
GGATAGGGGTTATAGGGTTTAAG
Found at i:6135345 original size:26 final size:27
Alignment explanation
Indices: 6135279--6135346 Score: 113
Period size: 26 Copynumber: 2.6 Consensus size: 27
6135269 TTCAAAACAA
6135279 AAGATTTCAAA-TTTAGAATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
6135305 AAGATTTCAAATTTTA-AATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
*
6135331 AATATTTCAAATTTTA
1 AAGATTTCAAATTTTA
6135347 TCTAATTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
AAGATTTCAAATTTTAGAATAATTTTC
Found at i:6135493 original size:17 final size:15
Alignment explanation
Indices: 6135461--6135490 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6135451 TAGCTGATTG
6135461 TTTTTTAATTTATAT
1 TTTTTTAATTTATAT
6135476 TTTTTTAATTTATAT
1 TTTTTTAATTTATAT
6135491 ATTAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTAATTTATAT
Found at i:6136694 original size:38 final size:35
Alignment explanation
Indices: 6136635--6136735 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
6136625 TCAATCATGC
*
6136635 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
6136674 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
6136705 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
6136736 ACTGTAAACG
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:6136696 original size:31 final size:31
Alignment explanation
Indices: 6136658--6136739 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
6136648 CCTTTTCATA
*
6136658 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
6136689 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
6136720 TTTCATATTTCATATTACTG
1 TTTCATATTTCATATTACTG
6136740 TAAACGGTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:6136978 original size:24 final size:24
Alignment explanation
Indices: 6136927--6137093 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
6136917 GCTTTATCAT
* *
6136927 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
6136952 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
6136976 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
6136999 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
6137023 ATAACTGGGGTATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
6137047 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
6137071 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6137094 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.17
24 98 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:6137027 original size:71 final size:71
Alignment explanation
Indices: 6136926--6137093 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
6136916 TGCTTTATCA
*
6136926 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
6136990 AGCCCTTT
64 AGCCCTTT
* * * **
6136998 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGTATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
6137063 CCCTTT
66 CCCTTT
6137069 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
6137094 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 52 0.59
72 36 0.41
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:6137169 original size:20 final size:20
Alignment explanation
Indices: 6137144--6137203 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
6137134 TATGATTACC
6137144 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
6137164 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
6137184 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
6137204 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:6137278 original size:25 final size:25
Alignment explanation
Indices: 6137246--6137293 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6137236 ATACATAAAC
* * *
6137246 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
6137271 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
6137294 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:6138552 original size:27 final size:27
Alignment explanation
Indices: 6138532--6138878 Score: 364
Period size: 27 Copynumber: 12.9 Consensus size: 27
6138522 AGGGTATTTT
6138532 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
6138559 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
6138586 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
6138613 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
6138640 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
6138667 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTTTGTAAATCGAGGGTAAAAC
* *
6138694 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTTTGTAAATC-GAGGGTAAAAC
* * *
6138721 GGTAATTATGTAAAT-TAGGGGTAAAA-
1 AGTAATTTTGTAAATCGA-GGGTAAAAC
* * * *
6138747 TGATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTTTGTAAATCGAGGGTAAAAC
*
6138775 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-GAGGGTAAAAC
* * *
6138802 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* **
6138829 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
6138856 GGTAATTTTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
6138879 CTTTGGTAAT
Statistics
Matches: 287, Mismatches: 23, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
26 3 0.01
27 279 0.97
28 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:6138886 original size:27 final size:27
Alignment explanation
Indices: 6138802--6139054 Score: 208
Period size: 27 Copynumber: 9.4 Consensus size: 27
6138792 AGGGTAAAAC
* * ****
6138802 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
6138829 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
6138856 GGTAATTTTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
6138883 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
6138910 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
6138937 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
6138964 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
6138991 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
6139018 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
6139045 GGTAATTTTA
1 GGTAATTTTA
6139055 TAAACCAAAG
Statistics
Matches: 200, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 199 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:6138889 original size:81 final size:81
Alignment explanation
Indices: 6138532--6138878 Score: 407
Period size: 81 Copynumber: 4.3 Consensus size: 81
6138522 AGGGTATTTT
* ** * * * *
6138532 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTTTG
1 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTA
*
6138596 TAAATCAAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* *
6138613 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGT
1 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTAT
6138678 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
6138694 -GATAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAATGATAATTC
1 AG-TAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGA-GGGTAAAACGATAATTC
*
6138756 TATAAATCGAGGGTAAAAT
63 TATAAATCGAGGGTAAAAC
* * * *
6138775 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 AGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTA
*
6138839 CAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * *
6138856 GGTAATTTTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
6138879 CTTTGGTAAT
Statistics
Matches: 230, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
80 5 0.02
81 220 0.96
82 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTAT
AAATCGAGGGTAAAAC
Found at i:6138916 original size:54 final size:54
Alignment explanation
Indices: 6138534--6138919 Score: 287
Period size: 54 Copynumber: 7.1 Consensus size: 54
6138524 GGTATTTTAG
* * ** * *
6138534 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAG
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
* * * * * ***
6138588 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
* * * * ** *
6138642 TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
* * * * * **
6138696 TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTA-AATTAG-GGGTAAAATGA
1 TAATTTTATAAATC-GAGGGTAAAACGGTAATT-T-TACAAATCGAGGGTAAAACAA
* ** * **
6138750 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA-AACT-GAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAACGGTAATT-T-TACAAATCGAGGGTAAAACAA
* **
6138804 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
**** * ***
6138858 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
6138912 TAATTTTA
1 TAATTTTA
6138920 CAGGTCGAGG
Statistics
Matches: 283, Mismatches: 42, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 6 0.02
54 269 0.95
55 5 0.02
56 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
TAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAA
Found at i:6139059 original size:27 final size:27
Alignment explanation
Indices: 6138928--6139059 Score: 210
Period size: 27 Copynumber: 4.9 Consensus size: 27
6138918 TACAGGTCGA
** * *
6138928 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
6138955 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
6138982 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
6139009 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
6139036 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
6139060 CAAAGTATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:6140145 original size:12 final size:13
Alignment explanation
Indices: 6140116--6140152 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6140106 CCTTAAGTGT
6140116 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
6140129 TTTTCCCTTAAAA
1 TTTTCCCCTAAAA
*
6140142 TTTCCCCCTAA
1 TTTTCCCCTAA
6140153 CCCTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:6142191 original size:9 final size:9
Alignment explanation
Indices: 6142179--6142345 Score: 105
Period size: 9 Copynumber: 19.1 Consensus size: 9
6142169 TATATCATAT
6142179 CATAACTTA
1 CATAACTTA
6142188 CATAACTTA
1 CATAACTTA
*
6142197 CAAAACTTA
1 CATAACTTA
6142206 CATAA--TA
1 CATAACTTA
*
6142213 CATAA-ATA
1 CATAACTTA
*
6142221 TATAACTTA
1 CATAACTTA
6142230 CATAACTTA
1 CATAACTTA
*
6142239 CGTAA--TA
1 CATAACTTA
* *
6142246 AATAA-ATA
1 CATAACTTA
* ** *
6142254 TATTTCATA
1 CATAACTTA
*
6142263 TCATAATTTA
1 -CATAACTTA
6142273 CATAACTTA
1 CATAACTTA
*
6142282 CATACCTTA
1 CATAACTTA
*
6142291 CATAAATT-
1 CATAACTTA
* * *
6142299 TATATCATA
1 CATAACTTA
6142308 TCATAACTTA
1 -CATAACTTA
6142318 CATAACTTA
1 CATAACTTA
*
6142327 CAAAACTTA
1 CATAACTTA
*
6142336 CTTAACTTA
1 CATAACTTA
6142345 C
1 C
6142346 GTAATACATA
Statistics
Matches: 121, Mismatches: 30, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
7 12 0.10
8 14 0.12
9 85 0.70
10 10 0.08
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:6142226 original size:33 final size:33
Alignment explanation
Indices: 6142189--6142256 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
6142179 CATAACTTAC
*
6142189 ATAACTTACAAAACTTACATAATACATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
* *
6142222 ATAACTTACATAACTTACGTAATAAATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
6142255 AT
1 AT
6142257 TTCATATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (33 bp):
ATAACTTACAAAACTTACATAATAAATAAATAT
Found at i:6142265 original size:85 final size:88
Alignment explanation
Indices: 6142163--6142327 Score: 246
Period size: 85 Copynumber: 1.9 Consensus size: 88
6142153 ATCTTAATGT
6142163 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACAT-AATACATA-AATAT-ATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
6142225 ACTTACATAACTTACGTAATAAA
66 ACTTACATAACTTACGTAATAAA
* * * * ** *
6142248 TAAATATATTTCATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATCATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
6142313 ACTTACATAACTTAC
66 ACTTACATAACTTAC
6142328 AAAACTTACT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
85 42 0.60
86 6 0.09
87 4 0.06
88 18 0.26
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (88 bp):
TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
ACTTACATAACTTACGTAATAAA
Found at i:6147212 original size:35 final size:35
Alignment explanation
Indices: 6147173--6147243 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6147163 CACTTGCCTC
*
6147173 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
6147208 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
6147243 T
1 T
6147244 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:6147649 original size:11 final size:12
Alignment explanation
Indices: 6147622--6147675 Score: 92
Period size: 12 Copynumber: 4.6 Consensus size: 12
6147612 ATTAAAACAT
6147622 AAAAAAATATAC
1 AAAAAAATATAC
*
6147634 AAAAAGATATAC
1 AAAAAAATATAC
6147646 -AAAAAATATAC
1 AAAAAAATATAC
6147657 AAAAAAATATAC
1 AAAAAAATATAC
6147669 AAAAAAA
1 AAAAAAA
6147676 AAATTTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.26
12 29 0.74
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:6147653 original size:23 final size:23
Alignment explanation
Indices: 6147615--6147674 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
6147605 TATATATATT
*
6147615 AAAACATA-AAAAAATATACAAA
1 AAAATATACAAAAAATATACAAA
*
6147637 AAGATATACAAAAAATATACAAA
1 AAAATATACAAAAAATATACAAA
6147660 AAAATATACAAAAAA
1 AAAATATACAAAAAA
6147675 AAAATTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 6 0.18
23 28 0.82
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (23 bp):
AAAATATACAAAAAATATACAAA
Found at i:6148283 original size:3 final size:3
Alignment explanation
Indices: 6148275--6148314 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6148265 TGCATTTCAA
6148275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6148315 GAAATACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6148424 original size:3 final size:3
Alignment explanation
Indices: 6148416--6148468 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6148406 TTGTGTTTCG
6148416 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6148464 ATT AT
1 ATT AT
6148469 ATATCCTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6148742 original size:33 final size:30
Alignment explanation
Indices: 6148684--6148754 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
6148674 TAATATTATG
*
6148684 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
*
6148714 CTATATGATTTCTAATACTATTA-TT-TATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
6148745 TATATATTTT
1 TATATATTTT
6148755 CTTAGTACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 1 0.03
29 4 0.11
30 5 0.14
31 11 0.31
32 6 0.17
33 9 0.25
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:6158806 original size:14 final size:14
Alignment explanation
Indices: 6158787--6158815 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6158777 CGCTGAGGTA
6158787 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6158801 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6158815 T
1 T
6158816 CATCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:6158977 original size:14 final size:15
Alignment explanation
Indices: 6158953--6158981 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6158943 CGCTGAGGTA
6158953 TTTCTAATTTCTGTT
1 TTTCTAATTTCTGTT
6158968 TTTC-AATTTCTGTT
1 TTTCTAATTTCTGTT
6158982 CGTCAAAATC
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:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTCTAATTTCTGTT
Found at i:6159135 original size:14 final size:14
Alignment explanation
Indices: 6159116--6159144 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6159106 CGCTGAGGTA
6159116 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159130 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159144 T
1 T
6159145 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:6159138 original size:163 final size:162
Alignment explanation
Indices: 6158728--6160683 Score: 2509
Period size: 163 Copynumber: 12.5 Consensus size: 162
6158718 CAAATTCTAC
*
6158728 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
*
6158793 ATTTCTGTTTTTCAATTTCTGTTCATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 ATTTCTGTTTTTCAATTTCTGTTCGTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
6158858 CTCAGGACACGTTAAGGTAATTTTAATTTCTGTTCAT
127 CTCAAGACACGTTGAGGTAATTTTAATTTCTGTT-AT
* *
6158895 C-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTA-TTTCT
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTC-
6158958 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
6159023 AGGACACGTTGAGGTAATTTTAATTTCTGTTCAT
130 AAGACACGTTGAGGTAATTTTAATTTCTGTT-AT
*
6159057 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
6159122 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6159187 AGACACGTTGAGGTAATTTTAATTTCTGTTTT
131 AGACACGTTGAGGTAATTTTAATTTCTGTTAT
* *
6159219 C--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTC
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTATTTTC
**
6159279 AATTTC------T--A----T-TT--TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
65 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
6159329 CAAGACACGTTGAGGT-ATTTTCAATTTCTGTTTT
129 CAAGACACGTTGAGGTAATTTT-AATTTCTGTTAT
* * * * *
6159363 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* *** *
6159428 ATTTCTGTCTTTCAA---------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6159484 GGACACGTTGAGGTAATTTTAATTTCTGTTCAT
131 AGACACGTTGAGGTAATTTTAATTTCTGTT-AT
* * * *
6159517 CAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGTCTCAGCTCACGCGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
*
6159582 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6159647 GGACACGTTGAGGTAATTTTAATTTCTGTTCAT
131 AGACACGTTGAGGTAATTTTAATTTCTGTT-AT
*
6159680 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
6159745 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6159810 AGACACGTTGAGGTAA---T-ATTTCTGTTTT
131 AGACACGTTGAGGTAATTTTAATTTCTGTTAT
* * *
6159838 C--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAG---ACACGTTGAGGTAATTTC
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTATTTTC
* **
6159898 AATTTCTG-TTTTC-A------------AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
65 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
6159949 AAGACACGTTGAGGT-ATTTTCAATTTCTGTTTT
130 AAGACACGTTGAGGTAATTTT-AATTTCTGTTAT
* * * * *
6159982 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* ***
6160047 ATTTCTGTCTTTCAA---------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6160103 GGACACGTTGAGGTAATTTTAATTTCTGTTCAT
131 AGACACGTTGAGGTAATTTTAATTTCTGTT-AT
* * *
6160136 CAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* *
6160201 ATTTCTATTTTTCAATTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
6160266 GGACACGTTGAGGTAATTTTAATTTCTGTTCAT
131 AGACACGTTGAGGTAATTTTAATTTCTGTT-AT
*
6160299 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
6160364 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
6160429 AGACACGTTGAGGTAATTTCAATTTCTGTTTT
131 AGACACGTTGAGGTAATTTTAATTTCTGTTAT
* *
6160461 C--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTC
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTATTTTC
* **
6160521 AATTTCTG-TTTTC-A------------AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
65 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
6160572 AAGACACGTTGAGGT-ATTTTCAATTTCTGTTTT
130 AAGACACGTTGAGGTAATTTT-AATTTCTGTTAT
* * * * *
6160605 C-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
*
6160669 ATTTCTGTCTTTCAA
66 ATTTCTGTTTTTCAA
6160684 AAAAAAAAAA
Statistics
Matches: 1624, Mismatches: 99, Indels: 150
0.87 0.05 0.08
Matches are distributed among these distances:
139 1 0.00
140 49 0.03
142 1 0.00
143 15 0.01
144 134 0.08
145 41 0.03
146 74 0.05
147 22 0.01
148 46 0.03
149 5 0.00
150 2 0.00
152 2 0.00
153 117 0.07
154 181 0.11
156 38 0.02
157 7 0.00
158 48 0.03
159 9 0.01
160 75 0.05
161 4 0.00
162 75 0.05
163 586 0.36
164 4 0.00
165 4 0.00
166 83 0.05
167 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (162 bp):
CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
AGACACGTTGAGGTAATTTTAATTTCTGTTAT
Found at i:6159252 original size:72 final size:72
Alignment explanation
Indices: 6159149--6160723 Score: 1481
Period size: 72 Copynumber: 20.5 Consensus size: 72
6159139 TCTGTTCGTC
6159149 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
6159214 GTTTTC-A
65 GTTTTCAA
*
6159221 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
*
6159286 ATTTTC-A
65 GTTTTCAA
* **
6159293 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-AATTTCT
6159358 GTTTTCAAA
65 GTTTTC-AA
* * * * *
6159367 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTCTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATT-TTAATT
6159431 TCTGTCTTTCAAAAA
62 TCTGT-TTTC---AA
* *
6159446 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
*
6159511 GTTCATCAAA
65 GTT-TTC-AA
* * * * *
6159521 AAAATTAACTCATATTGCGAGAGGTGAGTTAAGTCTC-AGCTCACGCGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTT-AATT
6159585 TCTGTTTTTCAA
62 TCTG-TTTTCAA
* *
6159597 TTTCTGTTCGTCAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTA
1 ------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-
*
6159662 ATTTTAATTTCTGTTCATCAAA
53 ATTTTAATTTCTGTT-TTC-AA
* *
6159684 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTT-AATT
6159748 TCTGTTTTTCAA
62 TCTG-TTTTCAA
6159760 TTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
1 ------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
*
6159825 --AT-ATTTCTGTTTTC-A
54 TTTTAATTTCTGTTTTCAA
* *
6159840 AAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
6159905 GTTTTC-A
65 GTTTTCAA
* **
6159912 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-AATTTCT
6159977 GTTTTCAAA
65 GTTTTC-AA
* * * * *
6159986 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTCTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATT-TTAATT
6160050 TCTGTCTTTCAAAAA
62 TCTGT-TTTC---AA
*
6160065 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
*
6160130 GTTCATCAAA
65 GTT-TTC-AA
* * * *
6160140 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCACGCGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTT-AATT
*
6160204 TCTATTTTTCAA
62 TCT-GTTTTCAA
*
6160216 TTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTA
1 ------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-
*
6160281 ATTTTAATTTCTGTTCATCAAA
53 ATTTTAATTTCTGTT-TTC-AA
* *
6160303 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTT-AATT
6160367 TCTGTTTTTCAA
62 TCTG-TTTTCAA
6160379 TTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
1 ------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-
*
6160444 ATTTCAATTTCTGTTTTC-A
53 ATTTTAATTTCTGTTTTCAA
*
6160463 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTAATTTCT
6160528 GTTTTC-A
65 GTTTTCAA
* **
6160535 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-AATTTCT
6160600 GTTTTCAA
65 GTTTTCAA
* * * * *
6160608 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTCTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATT-TTAATT
6160672 TCTGTCTTTCAAAAAAAA
62 TCTGT-TTTC------AA
*
6160690 AAAATCAACTCATATTGCGAGAGGTGAATTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
6160724 TTCAGATCAC
Statistics
Matches: 1282, Mismatches: 99, Indels: 234
0.79 0.06 0.14
Matches are distributed among these distances:
68 51 0.04
69 1 0.00
71 12 0.01
72 340 0.27
73 36 0.03
74 72 0.06
75 169 0.13
76 79 0.06
77 135 0.11
78 14 0.01
79 77 0.06
80 5 0.00
81 5 0.00
82 41 0.03
84 2 0.00
85 9 0.01
86 70 0.05
87 18 0.01
88 140 0.11
89 6 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAATTTCTG
TTTTCAA
Found at i:6159595 original size:14 final size:14
Alignment explanation
Indices: 6159576--6159604 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6159566 CGCTGAGGTA
6159576 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159590 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159604 T
1 T
6159605 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:6159758 original size:14 final size:14
Alignment explanation
Indices: 6159739--6159767 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6159729 CGCTGAGGTA
6159739 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159753 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6159767 T
1 T
6159768 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Done.