Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 184 of 196
Found at i:54010175 original size:96 final size:95
Alignment explanation
Indices: 54009917--54010191 Score: 302
Period size: 96 Copynumber: 2.8 Consensus size: 95
54009907 TTTTTGTATG
* * * * * *
54009917 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTGCATGAATATTAT--A-TATGTGTAGGAATATTG---TAATATTACAATTT
54009982 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
60 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * * * * * *
54010018 AATTTTGTAATTTTGTATGAATATTATATTTTTTGTATGAATGTTGTAATATTATAATTTTGTAT
1 AATATTGTAATTTTGCATGAATATTATA-TATGTGTAGGAATATTGTAATATTACAATTTTGTAT
54010083 GAATATTGCAATTTTTTTGTATGAATATTGT
65 GAATATTGCAATTTTTTTGTATGAATATTGT
* *
54010114 AATATTGTAATTTTGCATGAATATTGTA-ATGTG-AGGATATATTGTAATATTGCAATTTTTTGT
1 AATATTGTAATTTTGCATGAATATTATATATGTGTAGGA-ATATTGTAATATTACAA--TTTTGT
*
54010177 ATGAATATTGTAATT
63 ATGAATATTGCAATT
54010192 AGTTTATAAA
Statistics
Matches: 158, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
93 3 0.02
94 17 0.11
96 94 0.59
99 18 0.11
101 26 0.16
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.52
Consensus pattern (95 bp):
AATATTGTAATTTTGCATGAATATTATATATGTGTAGGAATATTGTAATATTACAATTTTGTATG
AATATTGCAATTTTTTTGTATGAATATTGT
Found at i:54010383 original size:38 final size:38
Alignment explanation
Indices: 54010338--54010411 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
54010328 CATATAAAGT
*
54010338 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCACTAAAAGTTTAA
*
54010376 TTATAAAAAAATTAAAAATCATTTTACTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCACTAAAAGTTT
54010412 GGGTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCACTAAAAGTTTAA
Found at i:54010564 original size:15 final size:16
Alignment explanation
Indices: 54010523--54010564 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
54010513 GTTAACTTAT
*
54010523 TTAATTTTTATATAAG
1 TTAAATTTTATATAAG
* *
54010539 GTAACTTTTATATAA-
1 TTAAATTTTATATAAG
54010554 TTAAATTTTAT
1 TTAAATTTTAT
54010565 TTGATTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (16 bp):
TTAAATTTTATATAAG
Found at i:54012196 original size:6 final size:6
Alignment explanation
Indices: 54012185--54012237 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
54012175 GCATCATACA
*
54012185 CCAGAG CCAGAG CCAGGG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
*
54012233 GCAGA
1 CCAGA
54012238 ACTACATTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:54015462 original size:19 final size:19
Alignment explanation
Indices: 54015440--54015783 Score: 128
Period size: 19 Copynumber: 18.5 Consensus size: 19
54015430 ATTGCAAAAT
*
54015440 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
54015459 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
54015481 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
54015497 TACAACATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* * *
54015512 -AAAAAAATATAATATTCA
1 TACAAAATTACAATATTCA
*
54015530 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
54015546 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
54015561 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
54015579 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
54015597 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
54015613 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
54015631 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
54015650 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
54015671 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
54015694 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
54015714 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
54015733 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
54015753 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
54015775 TACAAAATT
1 TACAAAATT
54015784 CTAATCTAAA
Statistics
Matches: 240, Mismatches: 42, Indels: 86
0.65 0.11 0.23
Matches are distributed among these distances:
13 3 0.01
14 18 0.08
15 3 0.01
16 26 0.11
17 3 0.01
18 10 0.04
19 76 0.32
20 37 0.15
21 21 0.09
22 36 0.15
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:54015476 original size:22 final size:22
Alignment explanation
Indices: 54015446--54015781 Score: 160
Period size: 22 Copynumber: 14.9 Consensus size: 22
54015436 AAATTACAAT
54015446 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
54015468 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
*
54015494 TATTACAACATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
* *
54015517 AATATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATAC--AA--A-AAA
54015544 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
* **
54015566 ATTGCAATATTCATACAAAACT
1 ATTACAATATTCATACAAAAAA
* * *
54015588 ATAATATTATTACAATATTCATACAAAAA
1 ATTACAATATT-C-ATA--C--A-AAAAA
* * * *
54015617 ATT--TATAAT-ATTCATACAAA
1 ATTACAATATTCATACA-AAAAA
54015637 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
* * *
54015658 ATTACTA-ATCCA-A-AACTATAA
1 ATTACAATATTCATACAA--AAAA
* * *
54015679 A-TACAA-ATTTAATTATAAAATA
1 ATTACAATA-TTCA-TACAAAAAA
*
54015701 ATTACAATATTCATAC---AAC
1 ATTACAATATTCATACAAAAAA
54015720 ATTACAATATTCAT--AAAAAA
1 ATTACAATATTCATACAAAAAA
*
54015740 ATTATAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
* *
54015762 TTTAAAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
54015782 TTCTAATCTA
Statistics
Matches: 236, Mismatches: 44, Indels: 68
0.68 0.13 0.20
Matches are distributed among these distances:
19 17 0.07
20 32 0.14
21 16 0.07
22 91 0.39
23 19 0.08
24 11 0.05
25 3 0.01
26 7 0.03
27 34 0.14
28 1 0.00
29 5 0.02
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:54015496 original size:49 final size:49
Alignment explanation
Indices: 54015434--54015647 Score: 304
Period size: 49 Copynumber: 4.3 Consensus size: 49
54015424 ATAAAAATTG
*
54015434 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATA
* * * *
54015483 CAAAATTATAATATTACAACATTCATACAAAAAAAATATAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATA
* *
54015532 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATA
* *
54015581 CAAAACTATA-ATATTATTACAATATTCATACAAAAAATTTATAATATTCATA
1 CAAAA-T-TACA-A-TATTACAATATTCATACAAAAAAATTACAATATTCATA
54015633 CAAAATTACAATATT
1 CAAAATTACAATATT
54015648 CATACAAAAA
Statistics
Matches: 145, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
49 96 0.66
50 5 0.03
51 5 0.03
52 39 0.27
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATA
Found at i:54015537 original size:98 final size:101
Alignment explanation
Indices: 54015434--54015647 Score: 362
Period size: 98 Copynumber: 2.1 Consensus size: 101
54015424 ATAAAAATTG
54015434 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA-T-T-ATAATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
54015496 TTACAACATTCATACAAAAAAAATATAATATTCATA
66 TTACAACATTCATACAAAAAAAATATAATATTCATA
* *
54015532 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
* **
54015597 TTACAATATTCATACAAAAAATTTATAATATTCATA
66 TTACAACATTCATACAAAAAAAATATAATATTCATA
54015633 CAAAATTACAATATT
1 CAAAATTACAATATT
54015648 CATACAAAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
98 53 0.50
99 1 0.01
100 1 0.01
101 52 0.49
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (101 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
TTACAACATTCATACAAAAAAAATATAATATTCATA
Found at i:54015641 original size:41 final size:41
Alignment explanation
Indices: 54015596--54015781 Score: 170
Period size: 41 Copynumber: 4.5 Consensus size: 41
54015586 CTATAATATT
54015596 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * *
54015637 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
54015679 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
54015720 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
54015761 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
54015782 TTCTAATCTA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
39 19 0.16
40 12 0.10
41 38 0.33
42 30 0.26
43 14 0.12
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:54015648 original size:71 final size:72
Alignment explanation
Indices: 54015443--54015656 Score: 209
Period size: 71 Copynumber: 2.9 Consensus size: 72
54015433 GCAAAATTAC
* * **
54015443 AATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACA-AC-ATT
1 AATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAATATT-CATACAAAA
54015506 CATACAAA
65 CATACAAA
* * * *
54015514 AAAAATATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCA
1 AATATTACAATATTCATAC--AA--A-AAAATTACAATATTCATAC---AAAATTACAATATTCA
* *
54015579 TACAAAAC-TATAAT
58 TACAAAACATACAAA
* * *
54015593 ATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATTCATACAAAA
1 AATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAATATTCATACAAAA
54015657 AATTACTAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
71 38 0.33
73 2 0.02
74 17 0.15
75 2 0.02
76 18 0.16
77 2 0.02
78 2 0.02
79 33 0.28
80 2 0.02
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (72 bp):
AATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAATATTCATACAAAAC
ATACAAA
Found at i:54015782 original size:83 final size:84
Alignment explanation
Indices: 54015601--54015782 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 84
54015591 ATATTATTAC
*
54015601 AATATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
1 AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
* *
54015665 ATCCAAAACTATAAATACA
66 ATCCAAAACAAAAAATACA
* * *
54015684 AAT-TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-T
1 AATATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT
* *
54015745 AATATTC-ATACAAAAAATTTA-A
65 -A-ATCCAAAACAAAAAA--TACA
54015767 AATATTCATACAAAAT
1 AATATTCATACAAAAT
54015783 TCTAATCTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
81 1 0.01
82 20 0.24
83 54 0.66
84 7 0.09
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (84 bp):
AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
ATCCAAAACAAAAAATACA
Found at i:54020657 original size:41 final size:41
Alignment explanation
Indices: 54020600--54020728 Score: 195
Period size: 41 Copynumber: 3.1 Consensus size: 41
54020590 ATCTTATGTG
*
54020600 ATCTGAATCAGGTTATAAATCTAGCAGGCTAAGTGCCGGTA
1 ATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTA
* * *
54020641 ATCTGAATTAGGTTATAAACCTAGCAGACTAAGTGCCGGTG
1 ATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTA
* *
54020682 ATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 ATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT-A
54020724 ATCTG
1 ATCTG
54020729 TTAAATTAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 73 0.94
42 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (41 bp):
ATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTA
Found at i:54033797 original size:18 final size:18
Alignment explanation
Indices: 54033774--54033809 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
54033764 GAGAAAAATA
54033774 AATAAAATCATTAAGATC
1 AATAAAATCATTAAGATC
54033792 AATAAAATCATTAAGATC
1 AATAAAATCATTAAGATC
54033810 TTCAATGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (18 bp):
AATAAAATCATTAAGATC
Found at i:54045917 original size:14 final size:14
Alignment explanation
Indices: 54045896--54045929 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
54045886 TATTTAGTAG
54045896 TATAAATTTT-AAT
1 TATAAATTTTAAAT
54045909 TATACAATTTTAAAT
1 TATA-AATTTTAAAT
54045924 TATAAA
1 TATAAA
54045930 AATTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TATAAATTTTAAAT
Found at i:54046824 original size:44 final size:47
Alignment explanation
Indices: 54046760--54046850 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 47
54046750 GCACTAATGG
54046760 ACAGAGAGCACTAAAGTGCTA-T-A-CAGAGAGCA-CAGACGTGCTAA
1 ACAGAGAGCACTAAAGTGCTAGTAATCAGAGAGCACCA-ACGTGCTAA
* *
54046804 ACAGAGAGCACTGACA-TGCTAGTAATCAGAGAGTACCAACGTGCTAA
1 ACAGAGAGCACT-AAAGTGCTAGTAATCAGAGAGCACCAACGTGCTAA
54046851 TAATCAGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 17 0.43
45 3 0.08
46 1 0.03
47 17 0.43
48 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (47 bp):
ACAGAGAGCACTAAAGTGCTAGTAATCAGAGAGCACCAACGTGCTAA
Found at i:54046836 original size:25 final size:24
Alignment explanation
Indices: 54046761--54046862 Score: 90
Period size: 22 Copynumber: 4.3 Consensus size: 24
54046751 CACTAATGGA
*
54046761 CAGAGAGCACTA-AAGTGCTAT-A-
1 CAGAGAGCAC-AGACGTGCTATAAT
54046783 CAGAGAGCACAGACGTGCTA-AA-
1 CAGAGAGCACAGACGTGCTATAAT
* *
54046805 CAGAGAGCACTGACATGCTAGTAAT
1 CAGAGAGCACAGACGTGCTA-TAAT
*
54046830 CAGAGAGTACCA-ACGTGCTAATAAT
1 CAGAGAGCA-CAGACGTGCT-ATAAT
54046855 CAGAGAGC
1 CAGAGAGC
54046863 GCGCTAAAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.02
22 36 0.55
24 2 0.03
25 25 0.38
26 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACAGACGTGCTATAAT
Found at i:54047828 original size:5 final size:5
Alignment explanation
Indices: 54047818--54047886 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
54047808 TTATTTCTTT
54047818 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
54047868 TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATA
54047887 TAACTTAACT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:54049864 original size:142 final size:142
Alignment explanation
Indices: 54049617--54049872 Score: 368
Period size: 142 Copynumber: 1.8 Consensus size: 142
54049607 TCTCTTAGCT
* * * * * *
54049617 CTACTGTCATTAATGATATTATCCTGAAGAGAGAGATATTAGGAGGACCAAATCCTCTTCACAAT
1 CTACTGTCATTAATGATATCATCATAAAGAGAGAGACACTAAGAGGACCAAATCCTCTTCACAAT
* * * * *
54049682 TTTCCTCTCAGTCCTATTGACATTAATGATATCATTGTGAAGAGAGAAACACCCTCTTCATGATT
66 TCTCATCTCAATCCTATTGACATTAATGATATCATCGTGAAAAGAGAAACACCCTCTTCATGATT
54049747 CTTCTCTCAGTC
131 CTTCTCTCAGTC
* *
54049759 CTACTGTCATTAATGATATCATCATAAAGAGAGAGACACTAAGAGGACCACATCCTCTTGACAAT
1 CTACTGTCATTAATGATATCATCATAAAGAGAGAGACACTAAGAGGACCAAATCCTCTTCACAAT
* * *
54049824 TCTCATCTCAATTCTATTGTCATTAATGATGTCATCGTGAAAAGAGAAA
66 TCTCATCTCAATCCTATTGACATTAATGATATCATCGTGAAAAGAGAAA
54049873 TAGAAGAAGG
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
142 98 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (142 bp):
CTACTGTCATTAATGATATCATCATAAAGAGAGAGACACTAAGAGGACCAAATCCTCTTCACAAT
TCTCATCTCAATCCTATTGACATTAATGATATCATCGTGAAAAGAGAAACACCCTCTTCATGATT
CTTCTCTCAGTC
Found at i:54053664 original size:19 final size:18
Alignment explanation
Indices: 54053640--54053680 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
54053630 TAAATTTTAG
*
54053640 AAAAAAACATATAAATAAT
1 AAAAAAACATAGAAA-AAT
*
54053659 AAAAAAATATAGAAAAAT
1 AAAAAAACATAGAAAAAT
54053677 AAAA
1 AAAA
54053681 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAAAACATAGAAAAAT
Found at i:54053668 original size:17 final size:19
Alignment explanation
Indices: 54053641--54053680 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
54053631 AAATTTTAGA
*
54053641 AAAAAACATATA-AATAAT
1 AAAAAACATATAGAAAAAT
54053659 AAAAAA-ATATAGAAAAAT
1 AAAAAACATATAGAAAAAT
54053677 AAAA
1 AAAA
54053681 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAAACATATAGAAAAAT
Found at i:54053895 original size:23 final size:23
Alignment explanation
Indices: 54053868--54053912 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54053858 GTAATTTTTA
54053868 TATATTATTTTA-AAATTTATAAT
1 TATA-TATTTTAGAAATTTATAAT
*
54053891 TATATATTTTAGAATTTTATAA
1 TATATATTTTAGAAATTTATAA
54053913 AAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATATATTTTAGAAATTTATAAT
Found at i:54054100 original size:8 final size:8
Alignment explanation
Indices: 54054087--54054137 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
54054077 TAAAAGTATT
54054087 TTTTAATA
1 TTTTAATA
54054095 TTTTAATA
1 TTTTAATA
*
54054103 -TTTCATA
1 TTTTAATA
*
54054110 TTATAAT-
1 TTTTAATA
54054117 TTTT--TA
1 TTTTAATA
54054123 TTTTAATA
1 TTTTAATA
54054131 TTTTAAT
1 TTTTAAT
54054138 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 1 0.03
6 4 0.11
7 9 0.26
8 21 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTAATA
Found at i:54054116 original size:15 final size:14
Alignment explanation
Indices: 54054092--54054142 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
54054082 GTATTTTTTA
54054092 ATATTTTAATATTT
1 ATATTTTAATATTT
*
54054106 CATATTATAAT-TTT
1 -ATATTTTAATATTT
*
54054120 TTATTTTAATATTT
1 ATATTTTAATATTT
54054134 -TAATTTTAA
1 AT-ATTTTAA
54054143 ATAAACTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 9 0.29
14 13 0.42
15 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTAATATTT
Found at i:54054118 original size:21 final size:22
Alignment explanation
Indices: 54054094--54054142 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
54054084 ATTTTTTAAT
*
54054094 ATTTTAATA-TTTCATATTATA
1 ATTTTAATATTTTAATATTATA
* *
54054115 ATTTT-TTATTTTAATATTTTA
1 ATTTTAATATTTTAATATTATA
54054136 ATTTTAA
1 ATTTTAA
54054143 ATAAACTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTAATATTTTAATATTATA
Found at i:54058209 original size:6 final size:6
Alignment explanation
Indices: 54058198--54058232 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
54058188 ACAATATTTT
*
54058198 TTAAAA TTAAAA TTAAAA TGAAAA TTAAATA TTAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAA-A TTAA
54058233 TTTAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (6 bp):
TTAAAA
Found at i:54066621 original size:18 final size:17
Alignment explanation
Indices: 54066593--54066660 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 17
54066583 ATACATAGAT
54066593 ATTTT-TTTATTTTTATA
1 ATTTTATTTATTTTT-TA
*
54066610 ATTTTATTTATTTTTGTT
1 ATTTTATTTATTTTT-TA
54066628 ATTATTATTGT-TTTATTTA
1 ATT-TTATT-TATTT-TTTA
54066647 ATATTTATTTATTT
1 AT-TTTATTTATTT
54066661 ATGTGTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
17 5 0.12
18 14 0.33
19 19 0.45
20 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTATTTATTTTTTA
Found at i:54066629 original size:27 final size:26
Alignment explanation
Indices: 54066592--54066646 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
54066582 CATACATAGA
*
54066592 TATTTTTTTATTTTTATAATTTTATT
1 TATTTTTTTATTATTATAATTTTATT
**
54066618 TATTTTTGTTATTATTATTGTTTTATT
1 TATTTTT-TTATTATTATAATTTTATT
54066645 TA
1 TA
54066647 ATATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (26 bp):
TATTTTTTTATTATTATAATTTTATT
Found at i:54066635 original size:19 final size:19
Alignment explanation
Indices: 54066598--54066678 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 19
54066588 TAGATATTTT
* *
54066598 TTTATTTTTATAATT-TTA
1 TTTATTTTTGTTATTATTA
54066616 TTTATTTTTGTTATTATTA
1 TTTATTTTTGTTATTATTA
* *
54066635 TTGT-TTTAT-TTAATATTTA
1 TT-TATTTTTGTTATTA-TTA
54066654 TTTATTTATGTGTTCATTATTA
1 TTTATTT-T-TGTT-ATTATTA
54066676 TTT
1 TTT
54066679 TGAAAAACGT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
18 19 0.39
19 17 0.35
20 1 0.02
21 1 0.02
22 8 0.16
23 3 0.06
ACGTcount: A:0.23, C:0.01, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTATTTTTGTTATTATTA
Found at i:54068372 original size:27 final size:26
Alignment explanation
Indices: 54068299--54068372 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
54068289 CCATTTTTTT
* *
54068299 AATAAACACTAAAAATTTATTTTAAA
1 AATAAAAAATAAAAATTTATTTTAAA
**
54068325 AATAAAAAATAAAAAAATATTTTAAA
1 AATAAAAAATAAAAATTTATTTTAAA
*
54068351 AATAAAAAAATAAATATTTATT
1 AAT-AAAAAATAAAAATTTATT
54068373 ATATATTCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 25 0.62
27 15 0.38
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAAAAAATAAAAATTTATTTTAAA
Found at i:54071226 original size:24 final size:24
Alignment explanation
Indices: 54071199--54071245 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
54071189 AATAAAATGG
*
54071199 GTGTAGCTAGTCTATATTGGTTAC
1 GTGTAGCTAGTCTACATTGGTTAC
54071223 GTGTAGCTAGTCTACATTGGTTA
1 GTGTAGCTAGTCTACATTGGTTA
54071246 TCTTTCGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (24 bp):
GTGTAGCTAGTCTACATTGGTTAC
Found at i:54074481 original size:19 final size:19
Alignment explanation
Indices: 54074452--54074495 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
54074442 TCACTTAAAT
*
54074452 AAATAATTTAAAATTTATAA
1 AAAT-ATTTAAAAATTATAA
*
54074472 AAATATTTAAAAATTATTA
1 AAATATTTAAAAATTATAA
54074491 AAATA
1 AAATA
54074496 AAATAATAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATTTAAAAATTATAA
Found at i:54082245 original size:20 final size:19
Alignment explanation
Indices: 54082185--54082245 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
54082175 ATCAACAAAT
* *
54082185 AATTTAAAAATTATAAAAC
1 AATTCAAAAATTATAAAAA
* *
54082204 TATTCAAAAA-AATAAGAAAA
1 AATTCAAAAATTAT-A-AAAA
54082224 AATTCAAAAATTATAAAGAA
1 AATTCAAAAATTATAAA-AA
54082244 AA
1 AA
54082246 ATAACATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (19 bp):
AATTCAAAAATTATAAAAA
Found at i:54082371 original size:31 final size:31
Alignment explanation
Indices: 54082329--54082401 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
54082319 GTTTTTAAAA
* * *
54082329 AAATTCAACTTTTTTTAAAAGATTGATAGTC
1 AAATTCAACTTTTTTCAAAAGATTAAGAGTC
* *
54082360 AAATTCGACTTTTTTCAAAATATTAAGAGTC
1 AAATTCAACTTTTTTCAAAAGATTAAGAGTC
*
54082391 AAATTTAACTT
1 AAATTCAACTT
54082402 GAAAAAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (31 bp):
AAATTCAACTTTTTTCAAAAGATTAAGAGTC
Found at i:54082506 original size:18 final size:18
Alignment explanation
Indices: 54082483--54082517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54082473 AAATGTAATT
54082483 TATCAAATAAACTTTAAG
1 TATCAAATAAACTTTAAG
* *
54082501 TATCAAGTAATCTTTAA
1 TATCAAATAAACTTTAA
54082518 CCAAGAGAAT
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:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (18 bp):
TATCAAATAAACTTTAAG
Found at i:54088916 original size:14 final size:14
Alignment explanation
Indices: 54088897--54088924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
54088887 TCCCTTCCTT
54088897 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
54088911 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
54088925 TCGATTTGCC
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:0.07, C:0.43, G:0.07, T:0.43
Consensus pattern (14 bp):
CCTTCTACCTTCTG
Found at i:54089624 original size:17 final size:16
Alignment explanation
Indices: 54089604--54089635 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
54089594 CCGTTTTCAT
54089604 TTTCTTTTACTTTTATA
1 TTTCTTTTA-TTTTATA
54089621 TTTCTTTTATTTTAT
1 TTTCTTTTATTTTAT
54089636 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:54092391 original size:16 final size:16
Alignment explanation
Indices: 54092367--54092400 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
54092357 ATCATAAGAA
54092367 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
*
54092383 TTTTTTTAAATTATAT
1 TTTTATTAAATTATAT
54092399 TT
1 TT
54092401 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:54092415 original size:26 final size:25
Alignment explanation
Indices: 54092386--54092557 Score: 82
Period size: 26 Copynumber: 7.0 Consensus size: 25
54092376 ATTATATTTT
54092386 TTTTAAATTATATTTAATAATAATTA
1 TTTTAAATTATATTT-ATAATAATTA
*
54092412 TTTTAAATTATATTT-T-AT-AGTA
1 TTTTAAATTATATTTATAATAATTA
* * *
54092434 TTATATATTATGATTT-TAGTAAATTCA
1 TTTTAAATTAT-ATTTATAAT-AATT-A
* * **
54092461 -TATAAGA--ATATTTAATACTAAAAA
1 TTTTAA-ATTATATTT-ATAATAATTA
* *
54092485 TTTT--ATTA-AATTAT-AT-ATTT
1 TTTTAAATTATATTTATAATAATTA
54092505 TTGTTAAATTATATTTAATAATAATTA
1 TT-TTAAATTATATTT-ATAATAATTA
54092532 TTTTAAATTATATTTTATAAT-ATTA
1 TTTTAAATTATA-TTTATAATAATTA
54092557 T
1 T
54092558 ATATTATAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 39
0.66 0.10 0.23
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 15 0.14
23 14 0.13
24 11 0.10
25 13 0.12
26 41 0.37
27 10 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTTAAATTATATTTATAATAATTA
Found at i:54092489 original size:61 final size:60
Alignment explanation
Indices: 54092404--54092584 Score: 151
Period size: 56 Copynumber: 3.0 Consensus size: 60
54092394 TATATTTAAT
**
54092404 AATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG
1 AATAATTATACTAAA-TATATTTTATA-TATTATATATTAT-ATTTTAGTAAATTCATATAAG
* * * *
54092467 AATATTTAATACTAAA-A-ATTTTAT-TA-AAT-TA-TATATTTTTGTTAAATT-ATATTTAAT
1 AATAATT-ATACTAAATATATTTTATATATTATATATTATATTTTAG-TAAATTCATA--TAAG
**
54092524 AATAATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
1 AATAATTATACTAAA-TATATTTTAT-ATATTATATATTAT-ATTTTAGTAAATTCATATA
54092585 TTTTATTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
55 9 0.10
56 15 0.16
57 11 0.12
58 3 0.03
59 9 0.10
61 9 0.10
62 3 0.03
63 10 0.11
64 15 0.16
65 9 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (60 bp):
AATAATTATACTAAATATATTTTATATATTATATATTATATTTTAGTAAATTCATATAAG
Found at i:54092506 original size:18 final size:17
Alignment explanation
Indices: 54092484--54092618 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
54092474 AATACTAAAA
54092484 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
54092501 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
54092517 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
54092531 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
54092550 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
54092566 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
54092584 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
54092601 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
54092619 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:54092527 original size:120 final size:118
Alignment explanation
Indices: 54092365--54092584 Score: 404
Period size: 120 Copynumber: 1.8 Consensus size: 118
54092355 CAATCATAAG
54092365 AATTTTATTAAATTATATTTTTTTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAT
1 AATTTTATTAAATTATATTTTTTTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAT
* *
54092430 AGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
66 AATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
54092483 AATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATAT-TTTTT-TTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
54092548 ATAATATTATATATTATAATTTTAGTAAATTCATATA
64 ATAATATTATATATTATAATTTTAGTAAATTCATATA
54092585 TTTTATTAAA
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
118 18 0.18
119 5 0.05
120 75 0.77
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (118 bp):
AATTTTATTAAATTATATTTTTTTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAT
AATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
Found at i:54092556 original size:15 final size:15
Alignment explanation
Indices: 54092512--54092567 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
54092502 TTTTTGTTAA
*
54092512 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
54092527 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
54092538 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
54092553 ATTATATATTATAAT
1 ATTATATTTTATAAT
54092568 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:54092585 original size:41 final size:40
Alignment explanation
Indices: 54092365--54092603 Score: 119
Period size: 41 Copynumber: 6.0 Consensus size: 40
54092355 CAATCATAAG
* * *
54092365 AATTTTATTAAATTATATTTTTTTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATATTTTATAATATTATATATT-AT
** *
54092404 AATAATTATTTTAAA-T-TATATTTTATAGTATTATATATTAT
1 AAT--TT-TAGTAAATTATATATTTTATAATATTATATATTAT
* * * *
54092445 GATTTTAGTAAATTCATATA----AGAATATT-TAATACTAAA
1 AATTTTAGTAAATT-ATATATTTTATAATATTAT-ATA-TTAT
* *
54092483 AATTTTATTAAATTATATATTTTTGTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATA-TTTT-ATAATATTATATATT-AT
**
54092524 AATAATTATTTTAAA-T-TATATTTTATAATATTATATATTAT
1 AAT--TT-TAGTAAATTATATATTTTATAATATTATATATTAT
54092565 AATTTTAGTAAATTCATATATTTTATTAA-ATTATATATT
1 AATTTTAGTAAATT-ATATATTTTA-TAATATTATATATT
54092604 TTTATTAAAT
Statistics
Matches: 152, Mismatches: 21, Indels: 52
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.09
38 24 0.16
39 9 0.06
40 13 0.09
41 57 0.38
42 22 0.14
43 6 0.04
44 6 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (40 bp):
AATTTTAGTAAATTATATATTTTATAATATTATATATTAT
Found at i:54092830 original size:44 final size:45
Alignment explanation
Indices: 54092775--54092872 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
54092765 CTATTACACC
* *
54092775 TCCATTCCATTCAACCAAACACAAT-A-TTACTGTTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-AATGATTTACTATTACGCCTCTAT
* *
54092819 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAAATGATTTACTATTACGCCTCTAT
*
54092864 TCCAATACA
1 TCCATTACA
54092873 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 2 0.04
44 21 0.45
45 24 0.51
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAAATGATTTACTATTACGCCTCTAT
Found at i:54096109 original size:230 final size:223
Alignment explanation
Indices: 54095821--54096354 Score: 664
Period size: 230 Copynumber: 2.3 Consensus size: 223
54095811 TATACGAAAG
* * **
54095821 AAAAAAAACAAAAAAAAAATTTTTTTTGGTTGCTGGACTGTCAATGGCCGGCACCCAGTGTACAG
1 AAAAAAAA-ATAAAAAAAA--TTTTTTGGGTGCTGG-CTGTCAATGGCCGGCACCCAGTACACAG
***** * * * *
54095886 TACCAAAATTTTTTTTTTTTGTTTTTTTTGTGTCAGAATCAGATTTAAAAATAC-AAAATAAA-A
62 TACCAAAA---AAAAATTAT-TTTTTTTCGTGTAAGAATCAGA-TAAAAAATACGAAAA-AAATA
* *
54095949 AAAAAAA-TTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAATTTT
121 AAAAAAATTTTGGGGTGCTCGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAG-AAAGTTT
54096013 TTTTTACTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
185 TTTTTA-TTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
54096053 AAAAAAAAATAAAAAAAATTTTTTAGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACAGTA
1 AAAAAAAAATAAAAAAAATTTTTT-GGGTGCTGGC-TGTCAATGGCCGGCACCCAGTACACAGTA
*
54096118 CGAAAAAAAAATTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATTTAAAAAAA
64 CCAAAAAAAAATTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAA--TAAAAAAA
**
54096183 ATTTTTTTGGTGCTCGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAGTTTTTTTTA
127 A-TTTTGGGGTGCTCGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAGTTTTTTTTA
54096248 TTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
191 TTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
* **
54096281 -GAAAAAAATAAAAAAAA-AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 AAAAAAAAATAAAAAAAATTTTTTGGGTGCTGG-CTGTCAATGGCCGGCACCCAGTACACAGTAC
*
54096344 GAAGAAAAAAA
65 CAA-AAAAAAA
54096355 AATTTTAATT
Statistics
Matches: 271, Mismatches: 21, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
225 54 0.20
226 35 0.13
227 19 0.07
228 41 0.15
229 19 0.07
230 86 0.32
231 9 0.03
232 8 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (223 bp):
AAAAAAAAATAAAAAAAATTTTTTGGGTGCTGGCTGTCAATGGCCGGCACCCAGTACACAGTACC
AAAAAAAAATTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAATTT
TGGGGTGCTCGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAGTTTTTTTTATTTTT
TTTCGTGTCAGAATCAGATAAAAAATAC
Found at i:54096337 original size:113 final size:114
Alignment explanation
Indices: 54095845--54096350 Score: 645
Period size: 112 Copynumber: 4.4 Consensus size: 114
54095835 AAAAATTTTT
* * ** * * *
54095845 TTTGGTTGCTGGACTGTCAATGGCCGGCACCCAGTGTACAGTACCAA-AATTTTTTTTTTTTGTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAATTTTTTTTTAT-TT
* *
54095909 TTTTTTGTGTCAGAATCAGATTTAAAAATAC-AAAATAAA-AAAAAAAAT--
65 TTTTTCGTGTCAGAATCAGA-TAAAAAATACGAAAA-AAATAAAAAAAATAA
*
54095957 TTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAATTTTTTTTTACTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAG-AAATTTTTTTTTA-TT
* **
54096022 TTTTTTCGTGTCAGAATCAGATAAAAAATACAAAAAAAAATAAAAAAAATTT
64 TTTTTTCGTGTCAGAATCAGATAAAAAATAC-GAAAAAAATAAAAAAAATAA
* ****
54096074 TTTAGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACAGTACGAA-AAA---AAAATTATTT
1 TTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAATTTTTTTTTATTT
* **
54096135 TTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATTTAAAAAAAATTT
65 TTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAA--TAAAAAAAATAA
* * *
54096187 TTTTGGTGCTCGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAGTTTTTTTTATTTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAATTTTTTTTTATTTT
54096252 TTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAA-AA
66 TTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAATAA
54096300 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAA
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAA
54096351 AAAAAATTTT
Statistics
Matches: 349, Mismatches: 30, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
111 7 0.02
112 114 0.33
113 79 0.23
114 44 0.13
115 14 0.04
116 46 0.13
117 2 0.01
118 43 0.12
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (114 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAATTTTTTTTTATTTT
TTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAATAA
Found at i:54096792 original size:109 final size:110
Alignment explanation
Indices: 54096537--54097048 Score: 591
Period size: 109 Copynumber: 4.6 Consensus size: 110
54096527 AAAAAAAAAA
* *
54096537 TTTTCGTATTGTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTATTTTTAT
1 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAAATTTT-TTTTTAT
54096602 TTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAATAAATAAATTTTT
63 TTTTTTCGTATTTTTTATCTGATTCTGACACG--AAAA-AAATAAATTTTT
* *
54096653 TTTTCGTACTGTGCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTAATTT
1 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTATTTT
*
54096718 TTTCGTATTTTTTATCTGATTCTTACACGAAAAAAAT-AATTTTT
66 TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAATAAATTTTT
*
54096762 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCTAGCA-CC-AAAA-----TTTT-TTTT
1 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTATTTT
* * *
54096819 TTGCGTATTTTTTTATCTGATTCTAACACTAAAAAAATTTAAAATTTTTTT
66 TTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAA--T-AAA--TTTTT
* *
54096870 TTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCTAAATTTTTTTTTTATTT
1 TT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTA-TT
* * **
54096934 TTTTTCGTATTTTTAAATCTAATTCTGACA--AAAAAAA-AAAAATTT
64 TTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAATAAATTTTT
* ** * **
54096979 TTTTGGTACTGTACACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAAAAAAATTTTTTTATT
1 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAAATTTTTTTTTATT
54097044 TTTTT
64 TTTTT
54097049 TCTTTCGTAT
Statistics
Matches: 349, Mismatches: 27, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
101 9 0.03
102 31 0.09
104 1 0.00
106 2 0.01
107 4 0.01
108 46 0.13
109 97 0.28
110 14 0.04
111 18 0.05
113 37 0.11
114 9 0.03
115 11 0.03
116 48 0.14
117 22 0.06
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (110 bp):
TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTATTTT
TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAATAAATTTTT
Found at i:54096928 original size:218 final size:213
Alignment explanation
Indices: 54096601--54097028 Score: 576
Period size: 217 Copynumber: 2.0 Consensus size: 213
54096591 TTTATTTTTA
* *
54096601 TTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAATAAATAAATTTTTTTTTCGTACTGTG
1 TTTTTTTCGTATTTTTTATCTGATTCTAACACAAAAAAATAAATAAATTTTTTTTTCGTACTGTG
54096666 CACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTA-ATTTTTTCGTATTTTT
66 CACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTTTTATATTTTTTCGTATTTTT
* * * * ** **
54096730 -TATCTGATTCTTACACGAAAAAAATAATTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTG
130 AAATCTAATTCTGACA--AAAAAAAAAAAATTTTTTTCGTACTGTACACTGGGTGCCGGCCATTG
* *
54096794 ACAGGCTAGCA-CCAAAATTT
193 ACAAGCCAGCACCCAAAATTT
**
54096814 TTTTTTTGCGTATTTTTTTATCTGATTCTAACACTAAAAAAATTTAAA-ATTTTTTTTTCTTCGT
1 TTTTTTT-CGTA-TTTTTTATCTGATTCTAACAC-AAAAAAA--TAAATAAATTTTTTT-TTCGT
* * * *
54096878 ACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCTAAATTTTTTTTTTATTTTTTTTCGTA
60 ACTGTGCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATATTTTTTCGTA
*
54096943 TTTTTAAATCTAATTCTGACAAAAAAAAAAAAATTTTTTTGGTACTGTACACTGGGTGCCGGCCA
125 TTTTTAAATCTAATTCTGACAAAAAAAAAAAAATTTTTTTCGTACTGTACACTGGGTGCCGGCCA
54097008 TTGACAAGCCAGCACCCAAAA
190 TTGACAAGCCAGCACCCAAAA
54097029 AAAAATTTTT
Statistics
Matches: 187, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
213 7 0.04
214 4 0.02
215 20 0.11
216 6 0.03
217 71 0.38
218 67 0.36
219 12 0.06
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (213 bp):
TTTTTTTCGTATTTTTTATCTGATTCTAACACAAAAAAATAAATAAATTTTTTTTTCGTACTGTG
CACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATATTTTTTCGTATTTTTA
AATCTAATTCTGACAAAAAAAAAAAAATTTTTTTCGTACTGTACACTGGGTGCCGGCCATTGACA
AGCCAGCACCCAAAATTT
Found at i:54100134 original size:77 final size:77
Alignment explanation
Indices: 54099997--54100153 Score: 176
Period size: 77 Copynumber: 2.0 Consensus size: 77
54099987 GCTTATTTTA
* * *
54099997 ATTGTTATCTTTGTAGTTGCCTCGGACCAACGGCAACTTTTCACCTTATTTTTTTCAAGG-TTTT
1 ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGCAACTTTT-ACCTTATTTCTTTCAAGGTTTTT
54100061 TAGAGGTTTTCTC
65 TAGAGGTTTTCTC
* * * *
54100074 ATTGTTATCTTTCTAGTTGCCTTAGATCAACGTCAAACTTTT-CGTT-TCTTCTTTCAAAGGTTT
1 ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGC-AACTTTTACCTTAT-TTCTTTC-AAGG--T
54100137 TTTTTAGAGGTTTTCTC
61 TTTTTAGAGGTTTTCTC
54100154 TAATCTCGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
75 1 0.01
76 9 0.13
77 33 0.49
78 7 0.10
80 17 0.25
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (77 bp):
ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGCAACTTTTACCTTATTTCTTTCAAGGTTTTTT
AGAGGTTTTCTC
Found at i:54109755 original size:13 final size:14
Alignment explanation
Indices: 54109737--54109765 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54109727 ATATAATAAT
54109737 ATATT-ATTAAATG
1 ATATTAATTAAATG
54109750 ATATTAATTAAATG
1 ATATTAATTAAATG
54109764 AT
1 AT
54109766 TAATATCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATTAATTAAATG
Found at i:54112383 original size:31 final size:30
Alignment explanation
Indices: 54112320--54112394 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
54112310 TATAAGTTAA
* ** *
54112320 GTACCAACTAGGTACTAAAAAAAAGTTTAG
1 GTACCAACTAAGTAAAAAAAAAAAGTTCAG
*
54112350 GTATCAACTAAGTAAAAAAAAGAAAGTTCAG
1 GTACCAACTAAGTAAAAAAAA-AAAGTTCAG
54112381 GTACCAACTAAGTA
1 GTACCAACTAAGTA
54112395 CTTTTAGACA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 17 0.45
31 21 0.55
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (30 bp):
GTACCAACTAAGTAAAAAAAAAAAGTTCAG
Found at i:54123181 original size:12 final size:12
Alignment explanation
Indices: 54123164--54123188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54123154 GGCTTAGGCT
54123164 TCCTGCCTAATC
1 TCCTGCCTAATC
54123176 TCCTGCCTAATC
1 TCCTGCCTAATC
54123188 T
1 T
54123189 TTTCTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.08, T:0.36
Consensus pattern (12 bp):
TCCTGCCTAATC
Found at i:54129364 original size:8 final size:6
Alignment explanation
Indices: 54129337--54129361 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
54129327 TTATTAATTA
54129337 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
54129362 TTAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:54139749 original size:30 final size:30
Alignment explanation
Indices: 54139694--54139772 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
54139684 GTTGATGTGA
*
54139694 AGAGCTTAATTAATTTTCT--TTATTTTAGG
1 AGAGCTTAATTGATTTT-TAATTATTTTAGG
*
54139723 AGGGCTTAATTGATTTTTAATTATTTTAGG
1 AGAGCTTAATTGATTTTTAATTATTTTAGG
54139753 AGAGCTTAATTGATTTTTAA
1 AGAGCTTAATTGATTTTTAA
54139773 GGATTATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 15 0.33
30 29 0.64
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.49
Consensus pattern (30 bp):
AGAGCTTAATTGATTTTTAATTATTTTAGG
Found at i:54140077 original size:30 final size:30
Alignment explanation
Indices: 54140031--54140103 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
54140021 AAATAATGAT
*
54140031 AAAA-AATTAGAAATGATAGAAAAT-TATATA
1 AAAATAATTA-AAATGATAAAAAATCTATA-A
54140061 AAAATAATTAAAATGATAAAAAATCTATAA
1 AAAATAATTAAAATGATAAAAAATCTATAA
* *
54140091 AAATTAATAAAAA
1 AAAATAATTAAAA
54140104 GTTATAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.26
Consensus pattern (30 bp):
AAAATAATTAAAATGATAAAAAATCTATAA
Found at i:54140109 original size:20 final size:19
Alignment explanation
Indices: 54140050--54140110 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
54140040 GAAATGATAG
* *
54140050 AAAATTATATAAAAATAATT
1 AAAATTA-ATAAAAATTATA
*
54140070 AAAA-TGATAAAAAATCTATA
1 AAAATTAAT-AAAAAT-TATA
54140090 AAAATTAATAAAAAGTTATA
1 AAAATTAATAAAAA-TTATA
54140110 A
1 A
54140111 GAACTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 20 0.61
21 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTAATAAAAATTATA
Found at i:54140519 original size:20 final size:20
Alignment explanation
Indices: 54140494--54140533 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
54140484 TAAAATACAA
54140494 GTTATAAAAAATTATTAAAT
1 GTTATAAAAAATTATTAAAT
54140514 GTTATAAAAAATTATTAAAT
1 GTTATAAAAAATTATTAAAT
54140534 TATTGCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
GTTATAAAAAATTATTAAAT
Found at i:54144142 original size:24 final size:24
Alignment explanation
Indices: 54144092--54144143 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
54144082 AATCAAAGTC
* * *
54144092 AAATATGTTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
54144116 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
54144140 AAAT
1 AAAT
54144144 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:54145347 original size:29 final size:26
Alignment explanation
Indices: 54145293--54145351 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
54145283 AAAGCCCTTT
54145293 TTTTTTAAATTTACCGAAATAAGCCA
1 TTTTTTAAATTTACCGAAATAAGCCA
* **
54145319 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAA--ATTTACCGAAATAAGCCA
54145348 TTTT
1 TTTT
54145352 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (26 bp):
TTTTTTAAATTTACCGAAATAAGCCA
Found at i:54162922 original size:14 final size:14
Alignment explanation
Indices: 54162903--54162942 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
54162893 TTGATTGCCA
54162903 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
54162917 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
54162931 GGAAAATGTTTT
1 GTAAAATGTTTT
54162943 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:54162951 original size:20 final size:20
Alignment explanation
Indices: 54162926--54162965 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
54162916 TGTAAAATGA
*
54162926 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
54162946 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54162966 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:54162954 original size:34 final size:35
Alignment explanation
Indices: 54162911--54162977 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
54162901 CAGTAAAATG
*
54162911 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
54162945 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
54162978 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:54162981 original size:14 final size:15
Alignment explanation
Indices: 54162905--54162981 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
54162895 GATTGCCAGT
*
54162905 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
54162919 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
54162933 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
54162953 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
54162968 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
54162982 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:54165801 original size:18 final size:18
Alignment explanation
Indices: 54165780--54165830 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
54165770 AGGAATGAAG
54165780 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
54165798 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
54165816 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
54165831 CCTGAAAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:54182346 original size:31 final size:30
Alignment explanation
Indices: 54182303--54182399 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 30
54182293 TATCAAAATT
* *
54182303 GTCACTTTTGTTTACCTCATGTTACATTTTA
1 GTCACTTATGTTTA-CTAATGTTACATTTTA
54182334 GTCACTTATGTTTGA--AATGTTACATTTTA
1 GTCACTTATGTTT-ACTAATGTTACATTTTA
* ** *
54182363 GTCACTTATGTTAACGTGTTGTAACATTTTA
1 GTCACTTATGTTTAC-TAATGTTACATTTTA
54182394 GTCACT
1 GTCACT
54182400 GAGCCGTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.45
31 29 0.52
32 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (30 bp):
GTCACTTATGTTTACTAATGTTACATTTTA
Found at i:54204398 original size:33 final size:33
Alignment explanation
Indices: 54204302--54204423 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 33
54204292 CTTAAATAAC
* *
54204302 ATTTGGTACCTGAAA-TTGATATATTTTTTCCCTA
1 ATTTGGTACCT-AAACTTGACAT-TTTTTTTCCTA
* **
54204336 ATTTGGTACTTAAACTT----TTTTTGGT-CTA
1 ATTTGGTACCTAAACTTGACATTTTTTTTCCTA
54204364 ATTTGGTACCTAAACTTGACATTTTTTTTCCTA
1 ATTTGGTACCTAAACTTGACATTTTTTTTCCTA
* *
54204397 ATTTGATACCTAAACTTGACACTTTTT
1 ATTTGGTACCTAAACTTGACATTTTTT
54204424 CTTAAGTTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
28 19 0.26
29 4 0.05
30 1 0.01
32 6 0.08
33 31 0.42
34 12 0.16
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (33 bp):
ATTTGGTACCTAAACTTGACATTTTTTTTCCTA
Found at i:54204434 original size:31 final size:32
Alignment explanation
Indices: 54204361--54204436 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 32
54204351 TTTTTTTGGT
* * *
54204361 CTAATTTGGTACCTAAACTTGACATTTTTTTTC
1 CTAAGTTGATACCTAAACTTGACA-TCTTTTTC
*
54204394 CTAATTTGATACCTAAACTTGACA-CTTTTTC
1 CTAAGTTGATACCTAAACTTGACATCTTTTTC
*
54204425 TTAAGTTGATAC
1 CTAAGTTGATAC
54204437 TTAATCTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 16 0.41
33 23 0.59
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (32 bp):
CTAAGTTGATACCTAAACTTGACATCTTTTTC
Found at i:54204971 original size:59 final size:57
Alignment explanation
Indices: 54204872--54205019 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 57
54204862 AATTGAACTA
* *
54204872 AAAAAAATTTAGGTACCAAATTAGGAAAAAATTATCAAGTTCAGGCAT-CAAATTGGGGCC
1 AAAAAAATTTAGGTACCAAATTA-GAAAAAAGTATCAAGTTCA--CATACAAATT-GGGAC
* *
54204932 CAAAAAATTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCACATACCAAATTGGGAC
1 AAAAAAATTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCACATA-CAAATTGGGAC
* *
54204990 AAAAAAATTTTAAGTACCGAATTA-AAAAAA
1 AAAAAAA-TTTAGGTACCAAATTAGAAAAAA
54205020 TCAAATTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
57 3 0.04
58 16 0.21
59 37 0.47
60 22 0.28
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (57 bp):
AAAAAAATTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCACATACAAATTGGGAC
Found at i:54205536 original size:15 final size:15
Alignment explanation
Indices: 54205501--54205530 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54205491 AAATTTATAA
54205501 AATATTTTTTATTTT
1 AATATTTTTTATTTT
*
54205516 AATATTTTTTGTTTT
1 AATATTTTTTATTTT
54205531 TGTATTGAGT
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:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
AATATTTTTTATTTT
Found at i:54205958 original size:19 final size:19
Alignment explanation
Indices: 54205924--54205960 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54205914 TAAAATAAAA
* *
54205924 AAAATATTTTTTAAATTTT
1 AAAATATTTATAAAATTTT
54205943 AAAATATTTATAAAATTT
1 AAAATATTTATAAAATTT
54205961 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATATTTATAAAATTTT
Found at i:54211388 original size:30 final size:29
Alignment explanation
Indices: 54211342--54211408 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
54211332 AGAAATTATA
*
54211342 AATTGATTTTTCTATTATTTTATAAGCGTTT
1 AATTGATTTTTCTATTATTTT-TAA-AGTTT
*
54211373 AATT-ATTTTTTTATTATTTTTAAAGTTT
1 AATTGATTTTTCTATTATTTTTAAAGTTT
54211401 AATTGATT
1 AATTGATT
54211409 GTTTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 8 0.24
29 6 0.18
30 15 0.45
31 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.61
Consensus pattern (29 bp):
AATTGATTTTTCTATTATTTTTAAAGTTT
Found at i:54212730 original size:16 final size:17
Alignment explanation
Indices: 54212711--54212746 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
54212701 TCTACTTCAA
*
54212711 TATTTTTTGAAT-TTTT
1 TATTTTTTAAATATTTT
54212727 TATTTTTTAAATATTTT
1 TATTTTTTAAATATTTT
54212744 TAT
1 TAT
54212747 AATTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTTTTAAATATTTT
Found at i:54212756 original size:19 final size:19
Alignment explanation
Indices: 54212721--54212762 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
54212711 TATTTTTTGA
* *
54212721 ATTTTTTATTTTTTAAA-T
1 ATTTTTTAATTTGTAAATT
54212739 ATTTTTATAATTTGTAAATT
1 ATTTTT-TAATTTGTAAATT
54212759 ATTT
1 ATTT
54212763 GTTGATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 9 0.45
20 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATTTGTAAATT
Found at i:54214448 original size:25 final size:25
Alignment explanation
Indices: 54214419--54214482 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
54214409 TATATATATC
**
54214419 TAAATACATATTTATTTA-ATTTTCA
1 TAAATACATATACATTTACATTTT-A
*
54214444 TAAATATATATACATTTACATTTTA
1 TAAATACATATACATTTACATTTTA
54214469 T-AATACATATACAT
1 TAAATACATATACAT
54214483 CTTCCACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.35
25 17 0.50
26 5 0.15
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATACATATACATTTACATTTTA
Found at i:54214609 original size:30 final size:30
Alignment explanation
Indices: 54214556--54214614 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
54214546 TTTTAAATTA
*
54214556 TTATAAATATATATTTCATTATATATATAC
1 TTATAAATATATATTTCAATATATATATAC
* * * *
54214586 TTATATATATGTATTTTAATATATGTATA
1 TTATAAATATATATTTCAATATATATATA
54214615 TACATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TTATAAATATATATTTCAATATATATATAC
Found at i:54214658 original size:19 final size:17
Alignment explanation
Indices: 54214635--54214682 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
54214625 CAAAATTTAC
54214635 TTATATATAT-CATACTT
1 TTATATATATACATA-TT
54214652 TTATATATATACATATT
1 TTATATATATACATATT
*
54214669 TTGTA-A-ATACATAT
1 TTATATATATACATAT
54214683 ACATATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 16 0.55
18 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (17 bp):
TTATATATATACATATT
Found at i:54226440 original size:45 final size:45
Alignment explanation
Indices: 54226375--54226949 Score: 456
Period size: 45 Copynumber: 12.9 Consensus size: 45
54226365 AACAGATCGG
* * * **
54226375 TGAAGATAACAAATCATATCTCCATGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * ** **
54226420 TGAAGATAGCAAGTCTTATCTCCCTGAAAATGCAGCAGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * **
54226465 TGAAGATAGAAAATCCTATCTACCTAAAGTTACAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
54226510 TGAAGATAGCAAGTCTTATCTCCCT-AAGGTTGCAGCGGAGTAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAA-GTTGCAGTGGAGCAGAT
**
54226555 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * * *
54226600 TGAAAATAACAAGTCTTATCTCCCTAAAATTGCAGCGGAGCAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
54226645 TGAGGATAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
54226690 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
54226735 TGAAGA-A-AATAATCCTATCTTCCTGAAGTTGCAGTGGAGCTGAT
1 TGAAGATAGCA-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
54226779 T-AAAACT-GTAGATCTTATCTCTCTGAAGTTGCAGAGG-GTAGA-
1 TGAAGA-TAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
54226821 T-CACAT--CTAGTCTTATCTCCCTGAAGTTGCAGAT-GAGCAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAG-TGGAGCAGAT
* * * * *
54226863 TGAATA-AACCAAT-CTGATTTCCCTGAAAATTGCAGTGGAGCAGAT
1 TGAAGATAGCAAATCCT-ATCTCCCTG-AAGTTGCAGTGGAGCAGAT
* * *
54226908 TGAAGATAACAAATCCTATCTCCATGAAGTTGCAATGGAGCA
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCA
54226950 TATAAAAATC
Statistics
Matches: 417, Mismatches: 96, Indels: 34
0.76 0.18 0.06
Matches are distributed among these distances:
40 22 0.05
41 5 0.01
42 4 0.01
43 10 0.02
44 68 0.16
45 291 0.70
46 15 0.04
47 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (45 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:54226528 original size:90 final size:89
Alignment explanation
Indices: 54226375--54226773 Score: 507
Period size: 90 Copynumber: 4.4 Consensus size: 89
54226365 AACAGATCGG
* *
54226375 TGAAGATA-ACAAATCATATCTCCATGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTAT
1 TGAAGATAGA-AAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTAT
* *
54226439 CTCCCTGAAAATGCAGCAGAGCAGAT
65 CTCCCT-AAAATGCAGCGGAGCAGAC
* * *
54226465 TGAAGATAGAAAATCCTATCTACCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
** *
54226530 TCCCTAAGGTTGCAGCGGAGTAGAC
66 TCCCTAA-AATGCAGCGGAGCAGAC
* * *
54226555 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAACAAGTCTTATC
1 TGAAGATAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
54226620 TCCCTAAAATTGCAGCGGAGCAGAC
66 TCCCTAAAA-TGCAGCGGAGCAGAC
* * * * **
54226645 TGAGGATAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
** * *
54226710 TCCCTGAAGTTGCAGTGGAGCAGAT
66 TCCCT-AAAATGCAGCGGAGCAGAC
*
54226735 TGAAGA-A-AATAATCCTATCTTCCTGAAGTTGCAGTGGAG
1 TGAAGATAGAA-AATCCTATCTCCCTGAAGTTGCAGTGGAG
54226774 CTGATTAAAA
Statistics
Matches: 269, Mismatches: 35, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
88 1 0.00
89 29 0.11
90 236 0.88
91 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
TGAAGATAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
TCCCTAAAATGCAGCGGAGCAGAC
Found at i:54228679 original size:19 final size:17
Alignment explanation
Indices: 54228656--54228691 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
54228646 CAAAATTTAC
54228656 TTATATATAT-CATACTT
1 TTATATATATACATA-TT
54228673 TTATATATATACATATT
1 TTATATATATACATATT
54228690 TT
1 TT
54228692 GTAAATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATATACATATT
Found at i:54230038 original size:39 final size:40
Alignment explanation
Indices: 54229995--54230087 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
54229985 AAAAATTATA
* *
54229995 TTTAATAAAATAAAACATTTCTTATATTTAT-TTGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
* *
54230034 TTTAATATAACAAAACATTTATTATATTTATGATAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTAT-ATAGTGTTT
54230075 TTTAATATAAATA
1 TTTAATA-AAATA
54230088 CTTTTTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 28 0.62
41 14 0.31
42 3 0.07
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
Found at i:54231371 original size:8 final size:9
Alignment explanation
Indices: 54231348--54231408 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
54231338 GTGTCATTTC
54231348 ATAAAAAAT
1 ATAAAAAAT
54231357 ATAAAAAAT
1 ATAAAAAAT
*
54231366 ATAAAAATT
1 ATAAAAAAT
* * *
54231375 GTTAAAATT
1 ATAAAAAAT
* *
54231384 TTTAAAAAT
1 ATAAAAAAT
*
54231393 ATAAAAAGT
1 ATAAAAAAT
54231402 -TAAAAAA
1 ATAAAAAA
54231409 AACATTTAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
8 6 0.14
9 37 0.86
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:54231464 original size:19 final size:20
Alignment explanation
Indices: 54231440--54231479 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
54231430 TTTTAAAAAA
54231440 ATAAAAAAT-AAAAAATGTT
1 ATAAAAAATCAAAAAATGTT
**
54231459 ATAAAATTTCAAAAAATGTT
1 ATAAAAAATCAAAAAATGTT
54231479 A
1 A
54231480 AATTGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
ATAAAAAATCAAAAAATGTT
Found at i:54231828 original size:9 final size:9
Alignment explanation
Indices: 54231797--54231845 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
54231787 CATTGTTAAG
54231797 TTAA-ATTT
1 TTAATATTT
54231805 TTAATATTT
1 TTAATATTT
*
54231814 AT-ATATTT
1 TTAATATTT
54231822 TTAATATTTT
1 TTAATA-TTT
*
54231832 TTGA-ATTT
1 TTAATATTT
54231840 TTAATA
1 TTAATA
54231846 AATTTAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 17 0.52
9 10 0.30
10 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTAATATTT
Found at i:54236914 original size:48 final size:48
Alignment explanation
Indices: 54236835--54236928 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
54236825 AGGGAATTCT
* * *
54236835 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACA
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACA
54236883 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCATTTTTA
54236929 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACA
Found at i:54241604 original size:18 final size:18
Alignment explanation
Indices: 54241577--54241669 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
54241567 TACGACCGTT
54241577 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
54241595 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
* *
54241613 TACAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
54241631 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
54241649 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
54241667 TAC
1 TAC
54241670 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:54252498 original size:6 final size:6
Alignment explanation
Indices: 54252487--54252513 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54252477 GCTTTATGCC
54252487 TTTTTG TTTTTG TTTTTG TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTT
54252514 GAACTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:54266432 original size:32 final size:32
Alignment explanation
Indices: 54266358--54266433 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
54266348 AATTAGAGGC
54266358 ATTGATAAATTTGACTTTCATTTTCATTTTCA
1 ATTGATAAATTTGACTTTCATTTTCATTTTCA
*
54266390 ATATTA-AAATTTGACTTT-ATTATT-ATTATTCA
1 AT-TGATAAATTTGACTTTCATT-TTCATT-TTCA
54266422 ATTGATAAATTT
1 ATTGATAAATTT
54266434 TTACTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 8 0.21
32 28 0.74
33 2 0.05
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (32 bp):
ATTGATAAATTTGACTTTCATTTTCATTTTCA
Found at i:54267499 original size:18 final size:18
Alignment explanation
Indices: 54267478--54267518 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
54267468 CAAGTAAAGA
54267478 GAGATGGAAGA-AGAGATG
1 GAGATGG-AGATAGAGATG
*
54267496 GAGATGGAGATGGAGATG
1 GAGATGGAGATAGAGATG
54267514 GAGAT
1 GAGAT
54267519 AGAGGCAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.15
Consensus pattern (18 bp):
GAGATGGAGATAGAGATG
Found at i:54267501 original size:6 final size:6
Alignment explanation
Indices: 54267490--54267518 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
54267480 GATGGAAGAA
54267490 GAGATG GAGATG GAGATG GAGATG GAGAT
1 GAGATG GAGATG GAGATG GAGATG GAGAT
54267519 AGAGGCAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
GAGATG
Found at i:54272405 original size:18 final size:18
Alignment explanation
Indices: 54272364--54272405 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
54272354 GATAATTCTC
54272364 ATATTTTATTTTTAAAAT
1 ATATTTTATTTTTAAAAT
*
54272382 AAATTTTATTTTTAACAA-
1 ATATTTTATTTTTAA-AAT
54272400 ATATTT
1 ATATTT
54272406 AGATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTATTTTTAAAAT
Found at i:54275839 original size:14 final size:14
Alignment explanation
Indices: 54275816--54275845 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54275806 AAAATGTTGG
*
54275816 TTAAATTTCTTATA
1 TTAAACTTCTTATA
54275830 TTAAACTTCTTATA
1 TTAAACTTCTTATA
54275844 TT
1 TT
54275846 GATTGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAACTTCTTATA
Found at i:54280703 original size:38 final size:38
Alignment explanation
Indices: 54280660--54280736 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
54280650 TTAGAAATTA
*
54280660 TTTTCACATTAAAATTATAATTTCTTT-TTCAAATTAAT
1 TTTTCACATTAAAATTAGAATTT-TTTATTCAAATTAAT
*
54280698 TTTTCATATTAAAATTAGAATTTTTTCATTCAAATTAAT
1 TTTTCACATTAAAATTAGAATTTTTT-ATTCAAATTAAT
54280737 CCTTGATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 3 0.09
38 21 0.60
39 11 0.31
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (38 bp):
TTTTCACATTAAAATTAGAATTTTTTATTCAAATTAAT
Found at i:54293974 original size:46 final size:46
Alignment explanation
Indices: 54293871--54294026 Score: 264
Period size: 46 Copynumber: 3.5 Consensus size: 46
54293861 TACGTATGAT
* *
54293871 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
54293914 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
54293960 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
54294006 CACTTATCACTTTATCACTTG
1 CACTTATCACTTTGTCACTTG
54294027 TCACTGATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
43 10 0.09
44 5 0.05
45 20 0.19
46 72 0.67
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:54310689 original size:22 final size:22
Alignment explanation
Indices: 54310661--54310705 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
54310651 TCAATTGAGC
54310661 TGATTTTTCTCAATTAACACTT
1 TGATTTTTCTCAATTAACACTT
54310683 TGATTTTTCTCAATTAACACTT
1 TGATTTTTCTCAATTAACACTT
54310705 T
1 T
54310706 ATCCCATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (22 bp):
TGATTTTTCTCAATTAACACTT
Found at i:54313155 original size:67 final size:66
Alignment explanation
Indices: 54313047--54313172 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 66
54313037 ATTTCATAGG
* * *
54313047 GCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCAGTCCAGGCTAAATCGCCTGCAAGAG
1 GCACACTCCCGCGAACCTCATCCTTACAGAGGGATTACCAGTCCAAGCTAAATCCCCTGCAAGAG
54313112 A
66 A
* *
54313113 GCACACTCCCGCGAACCTTATTCCTTATAGAGGGATTACCAGTCCAAGCTAAATCCCCTG
1 GCACACTCCCGCGAACCTCA-TCCTTACAGAGGGATTACCAGTCCAAGCTAAATCCCCTG
54313173 TAATATAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 19 0.35
67 35 0.65
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (66 bp):
GCACACTCCCGCGAACCTCATCCTTACAGAGGGATTACCAGTCCAAGCTAAATCCCCTGCAAGAG
A
Found at i:54313388 original size:57 final size:59
Alignment explanation
Indices: 54313294--54313440 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 59
54313284 ACCCTAATTC
* * ** *
54313294 GGATTACCCGTCCGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCTTTTTCCACATATTCTTCAGGAGGGCTATATCGATA
*
54313351 -GATCACCCGTCCGAGCTAGATCTTTTTCACACATATTCTTCAGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCTTTTTC-CACATATTCTTCAGGAGGGCTATATC--GATA
54313412 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGAT-CTTTTT
54313441 ACCGTCAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 23 0.30
57 25 0.33
60 1 0.01
61 1 0.01
62 20 0.26
63 6 0.08
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (59 bp):
GGATCACCCGTCCGGGCTAGATCTTTTTCCACATATTCTTCAGGAGGGCTATATCGATA
Found at i:54314541 original size:17 final size:17
Alignment explanation
Indices: 54314509--54314551 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
54314499 CTACCAAATC
54314509 TTAATATAAATTAAT-AT
1 TTAA-ATAAATTAATAAT
*
54314526 TTCAATAAATTTAATAAT
1 TTAAATAAA-TTAATAAT
54314544 TTAAATAA
1 TTAAATAA
54314552 TAGAACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 8 0.36
18 9 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAAATTAATAAT
Found at i:54317556 original size:46 final size:46
Alignment explanation
Indices: 54317400--54317724 Score: 501
Period size: 46 Copynumber: 7.0 Consensus size: 46
54317390 ACAATACTAT
* * *
54317400 AACTTAGTATGATTTTCTTTACTGAAATACCATACCTACCTTTTCA-
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTA-CTTTTCAC
54317446 ACACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTTCA-
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAC-TTTTCAC
* *
54317493 ACACTGAGTATGGTTTTCTTTATTGAAATACCATACCTACATTTCAC
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* *
54317540 AAATCAGTATGATTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54317586 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54317632 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* * * *
54317678 AACTCGGTATGGTTTTCTTTATTAAAATACCATGCCTACTTTACAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
54317724 A
1 A
54317725 CTTTGCCATG
Statistics
Matches: 261, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 181 0.69
47 80 0.31
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
Found at i:54317843 original size:31 final size:31
Alignment explanation
Indices: 54317805--54317868 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
54317795 TACGTATTCC
54317805 TTAATTTGAACTTACAAAGTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
*
54317836 TTAATTTGAACTTACAAATTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
54317867 TT
1 TT
54317869 TTACCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (31 bp):
TTAATTTGAACTTACAAAGTGATTTTCACAT
Found at i:54322125 original size:363 final size:359
Alignment explanation
Indices: 54321387--54322310 Score: 1594
Period size: 363 Copynumber: 2.6 Consensus size: 359
54321377 ACTCAATATC
*
54321387 CTTTAAGTCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
*
54321452 TTGCCAGCTATTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
54321517 CTCTCCACTCTAGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC-T-TATTATTAT
131 CTCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATATTATTAT
54321580 TATT-TTA--A--TAATTTGAAGTACTTAGAATTCAAGTGGGATTTTTATAGGGCAGTGTATGTA
195 TATTATTATTATTTAATTTGAAGTACTTAGAATTCAAGTGGGATTTTTATAGGGCAGTGTATGTA
* *
54321640 TGGGAAGCTGTTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT
260 TGAGAAGCTATTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT
54321705 ACAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
325 ACAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
*
54321740 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGT
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* *
54321805 TTGCCATCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCTACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
54321870 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTACTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTA-TATTATTAT
54321935 TATTATTATTATTTTACAAATTTGAAGTACTTAGAATTCAAGT-GGATTTTTATAGGGCAGTGTA
195 TATTATTATTA-TTT---AATTTGAAGTACTTAGAATTCAAGTGGGATTTTTATAGGGCAGTGTA
* * *
54321999 TGTATGAGAAGCTATTCACGTGAGTGAGTGGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTA
256 TGTATGAGAAGCTATTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTA
* *
54322064 TTATACAAGGGAACCTGAGCTTAACAATGTCATCCTTAT
321 TTATACAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
* *
54322103 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTTTTCGAATACATTGTCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
*
54322168 TTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
54322233 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTA-TATTATTAT
54322298 TATTATTATTATT
195 TATTATTATTATT
54322311 ATTATTATTA
Statistics
Matches: 540, Mismatches: 19, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
352 41 0.08
353 137 0.25
355 13 0.02
356 3 0.01
358 1 0.00
361 1 0.00
362 2 0.00
363 317 0.59
364 25 0.05
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (359 bp):
CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATATTATTATT
ATTATTATTATTTAATTTGAAGTACTTAGAATTCAAGTGGGATTTTTATAGGGCAGTGTATGTAT
GAGAAGCTATTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTATA
CAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
Found at i:54322293 original size:3 final size:3
Alignment explanation
Indices: 54322285--54322340 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
54322275 CTAACTTTGC
54322285 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54322333 TTA TTA TT
1 TTA TTA TT
54322341 TTACGAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:54323000 original size:85 final size:85
Alignment explanation
Indices: 54322857--54323033 Score: 345
Period size: 85 Copynumber: 2.1 Consensus size: 85
54322847 GGCCGGCCAT
54322857 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
54322922 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
54322942 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
54323007 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
54323027 GGGCATG
1 GAGCATG
54323034 AGCAATAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:54324369 original size:18 final size:18
Alignment explanation
Indices: 54324346--54324387 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
54324336 AATGTGATGA
54324346 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
54324364 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
54324382 ATGTGA
1 ATGTGA
54324388 TAAGGCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
ATGTGAAAGTGTATATAT
Found at i:54324391 original size:67 final size:65
Alignment explanation
Indices: 54324302--54324430 Score: 231
Period size: 67 Copynumber: 2.0 Consensus size: 65
54324292 TGAATAAATA
54324302 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
*
54324367 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
54324431 GTGATAAGGC
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 8 0.13
67 53 0.87
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (65 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
Found at i:54324441 original size:47 final size:47
Alignment explanation
Indices: 54324364--54324865 Score: 731
Period size: 47 Copynumber: 10.6 Consensus size: 47
54324354 GTGTATATAT
* *
54324364 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
54324413 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324460 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324507 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
54324556 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
54324603 ATGTGAAAGTGTATATATATATGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324652 ATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324699 ATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324746 ATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
54324793 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324840 ATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
54324866 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 19, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 326 0.76
49 100 0.23
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:54324475 original size:96 final size:94
Alignment explanation
Indices: 54324364--54324865 Score: 731
Period size: 96 Copynumber: 5.3 Consensus size: 94
54324354 GTGTATATAT
* *
54324364 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * *
54324429 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324460 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATAT
* *
54324525 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
54324556 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATAT
*
54324621 ATATGATAAGGCCGAATGGCCAATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
54324652 ATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTAT
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
*
54324715 GTGTGATAAGGCCGAATGGCCAATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324746 ATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
54324810 TGTGATAAGGCCGAATGGCCAATGTGATGG
65 TGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54324840 ATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
54324866 TCCCGAAGGG
Statistics
Matches: 376, Mismatches: 24, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
93 2 0.01
94 183 0.49
96 189 0.50
97 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:54324528 original size:143 final size:141
Alignment explanation
Indices: 54324364--54324865 Score: 731
Period size: 143 Copynumber: 3.5 Consensus size: 141
54324354 GTGTATATAT
* *
54324364 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * *
54324429 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
54324494 GCCAATGTGATGA
129 GCCAATGTGATGA
* *
54324507 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
54324572 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCCGAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAA
54324637 TGGCCAATGTGATGA
127 TGGCCAATGTGATGA
* * *
54324652 ATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTAT
1 ATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
* * *
54324715 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAAT
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAAT
54324779 GGCCAATGTGATGA
128 GGCCAATGTGATGA
* * *
54324793 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
54324858 GTGATAAG
66 GTGATAAG
54324866 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
140 2 0.01
141 95 0.29
143 188 0.57
144 2 0.01
145 42 0.13
146 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CAATGTGATGA
Found at i:54324743 original size:22 final size:22
Alignment explanation
Indices: 54324716--54324837 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
54324706 CATGTGTATG
54324716 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
54324738 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
54324763 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
54324785 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
54324810 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54324832 TGTGAT
1 TGTGAT
54324838 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54327358 original size:38 final size:38
Alignment explanation
Indices: 54327294--54327368 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
54327284 AATCCGAGTT
*
54327294 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
54327332 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
54327369 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:54327476 original size:40 final size:40
Alignment explanation
Indices: 54327421--54327742 Score: 502
Period size: 40 Copynumber: 8.1 Consensus size: 40
54327411 AAGGTCTCGA
54327421 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
54327461 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
*
54327501 TGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
54327541 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
54327581 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGC-AG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
** *
54327620 TGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
* * ** * *
54327660 TGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
* * * * *
54327700 TGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
54327740 TGA
1 TGA
54327743 CGTGTATTCG
Statistics
Matches: 261, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 36 0.14
40 225 0.86
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
Found at i:54327710 original size:119 final size:120
Alignment explanation
Indices: 54327421--54327742 Score: 520
Period size: 119 Copynumber: 2.7 Consensus size: 120
54327411 AAGGTCTCGA
54327421 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
54327486 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAG
66 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAG
54327541 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* *
54327606 GAGCATTCATGC-AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAG
66 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAG
* * ** * * * * *
54327660 TGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* *
54327725 GAGCAATCATGCTGGTGA
66 GAGCATTCATGCTAGTGA
54327743 CGTGTATTCG
Statistics
Matches: 188, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 107 0.57
120 81 0.43
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAG
Found at i:54327711 original size:159 final size:160
Alignment explanation
Indices: 54327421--54327742 Score: 502
Period size: 159 Copynumber: 2.0 Consensus size: 160
54327411 AAGGTCTCGA
54327421 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* *** *
54327486 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCC
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATATCC
*
54327551 GGGCTAAGTCCCGAAGAGCATTCATGCTAG
131 GGGCTAAGTCCCGAAGAGCAATCATGCTAG
**
54327581 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGC-AGTGATGTATCCGGGCTAAGTTTCGAA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* * * * *
54327645 GAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCC
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATATCC
* *
54327710 GGGCTAGGTCCCGAAGAGCAATCATGCTGG
131 GGGCTAAGTCCCGAAGAGCAATCATGCTAG
54327740 TGA
1 TGA
54327743 CGTGTATTCG
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
159 110 0.75
160 37 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (160 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
GAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATATCC
GGGCTAAGTCCCGAAGAGCAATCATGCTAG
Found at i:54328747 original size:13 final size:13
Alignment explanation
Indices: 54328729--54328755 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54328719 CACCCCTAAA
54328729 GTGACCCTAGTCG
1 GTGACCCTAGTCG
54328742 GTGACCCTAGTCG
1 GTGACCCTAGTCG
54328755 G
1 G
54328756 AAAGTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GTGACCCTAGTCG
Found at i:54329156 original size:86 final size:85
Alignment explanation
Indices: 54329011--54329190 Score: 333
Period size: 86 Copynumber: 2.1 Consensus size: 85
54329001 GGCCGGCCAT
54329011 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
54329076 ATTAAGGATTAATAAAATAAA
66 -GTAAGGATTAATAAAATAAA
54329097 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
54329162 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
54329182 GGGCATGGG
1 GAGCATGGG
54329191 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 27 0.29
86 65 0.71
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:54330511 original size:47 final size:47
Alignment explanation
Indices: 54330457--54331006 Score: 836
Period size: 47 Copynumber: 11.6 Consensus size: 47
54330447 TATTTGAATA
*
54330457 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330504 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330553 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54330600 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330647 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54330696 AATGTGAAAGTGTACATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
54330743 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330792 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330839 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330886 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
54330933 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54330980 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54331007 TCCCGAAGGG
Statistics
Matches: 477, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 339 0.71
49 136 0.29
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:54330565 original size:96 final size:94
Alignment explanation
Indices: 54330457--54331006 Score: 836
Period size: 96 Copynumber: 5.8 Consensus size: 94
54330447 TATTTGAATA
*
54330457 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
54330522 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54330553 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
54330618 TGTGATAAGGCCTAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54330647 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
54330712 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
54330743 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
54330807 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54330839 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
54330902 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54330933 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
54330998 TGTGATAAG
66 TGTGATAAG
54331007 TCCCGAAGGG
Statistics
Matches: 426, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 185 0.43
96 237 0.56
97 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:54330715 original size:143 final size:141
Alignment explanation
Indices: 54330457--54331006 Score: 836
Period size: 143 Copynumber: 3.9 Consensus size: 141
54330447 TATTTGAATA
*
54330457 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* * *
54330522 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
54330587 GGCCGATGTGATG
129 GGCCAATGTGATG
*
54330600 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* * *
54330665 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGGCCGAAT
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
54330730 GGCCAATGTGATG
129 GGCCAATGTGATG
*
54330743 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* * *
54330807 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGA
54330871 ATGGCCAATGTGATG
127 ATGGCCAATGTGATG
* *
54330886 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * *
54330950 ATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54331007 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 20, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
140 2 0.01
141 96 0.25
143 235 0.62
144 2 0.01
145 44 0.12
146 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATG
Found at i:54330884 original size:22 final size:22
Alignment explanation
Indices: 54330857--54330978 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
54330847 CATGTGTATG
54330857 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
54330879 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
54330904 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
54330926 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
54330951 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54330973 TGTGAT
1 TGTGAT
54330979 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54333552 original size:344 final size:344
Alignment explanation
Indices: 54332925--54334007 Score: 1745
Period size: 344 Copynumber: 3.1 Consensus size: 344
54332915 ATTATTATTA
* * *
54332925 TTATTATTGTTGTTGTTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAG
1 TTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAG
*
54332990 GGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTAAGTTGACTGGA
66 GGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGA
54333055 AGATTTGTATTATACAAGATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCT
131 AGATTTGTATTATACAAGATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCT
54333120 TTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTT
196 TTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTT
54333185 CGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTT
261 CGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTT
54333250 TAGCAAATCCTAACTTTGC
326 TAGCAAATCCTAACTTTGC
*
54333269 TTATTATTATTATTATTATTATTTTACAAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAG
1 TTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAG
* *
54333334 GGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGGGTAGCCATGGTCAAAGTGAGTTGACTGGA
66 GGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGA
* * *
54333399 AGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACTTGTGGTCCTCAT
131 AGATTTGTATTATACAAGATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCT
*
54333464 TTTTTCTCTTCTTCGAATACATTGCCTATGCTTACAAGCTCTTCCTTAGGTCTAATATACTCTTT
196 TTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTT
54333529 CGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCT-GGGGCAATTGAACTCGTCATTT
261 CGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTT
54333593 TAGCAAATCCTAACTTTGC
326 TAGCAAATCCTAACTTTGC
*
54333612 TTATTATTATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTGCTTAGAATTCAAGT
1 ------------TTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGT
* * *
54333677 GGATTTTTATGGGGCAATGTATGTATGGGAAGCTATTCATGTGAGTGAGTAGCCATGGTCAAAGT
54 GGATTTTTATAGGGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGT
*
54333742 GAGTTGACAGGAAGATTTGTATTATACAAGGGAACATGAGCTTAAAAATGTCACCCTTATCTTTA
119 GAGTTGACTGGAAGATTTGTATTAT--------ACA--AG-------ATGTCACCCTTATCTTTA
54333807 AATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACC
167 AATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACC
*
54333872 AGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGAATGATTCCCACTGCTTGCCAAGCTCTC
232 AGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTC
54333937 CACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC
297 CACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC
54333985 TTATTATTATTATTATTATTATT
1 TTATTATTATTATTATTATTATT
54334008 AAGGGTGCGC
Statistics
Matches: 685, Mismatches: 24, Indels: 43
0.91 0.03 0.06
Matches are distributed among these distances:
343 41 0.06
344 291 0.42
355 135 0.20
361 23 0.03
363 3 0.00
365 2 0.00
372 149 0.22
373 41 0.06
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (344 bp):
TTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAG
GGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGA
AGATTTGTATTATACAAGATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCT
TTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTT
CGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTT
TAGCAAATCCTAACTTTGC
Found at i:54333620 original size:3 final size:3
Alignment explanation
Indices: 54333612--54333646 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
54333602 CTAACTTTGC
54333612 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
54333647 TTACGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.