Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 17 of 320
Found at i:4728862 original size:50 final size:51
Alignment explanation
Indices: 4728785--4728913 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4728775 GACCATGGCA
*
4728785 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
4728836 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
4728886 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
4728914 CTGATCAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:4728929 original size:31 final size:31
Alignment explanation
Indices: 4728889--4729068 Score: 263
Period size: 31 Copynumber: 5.8 Consensus size: 31
4728879 ACAAATGACA
*
4728889 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4728920 AATGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
4728951 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* * *
4728982 AATGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4729013 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4729044 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
4729069 AAATGACAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 2 0.01
31 131 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:4729198 original size:42 final size:42
Alignment explanation
Indices: 4729097--4729251 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
4729087 GATTTCCGTA
* * * * *
4729097 TAAGACCATATCTGGGATATGGCATCGGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
*
4729143 TAAAACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* *
4729185 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
* **
4729227 TAAGACCATAGTTGAACTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
4729252 TGAGAAAACG
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.68
43 7 0.07
46 23 0.24
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:4731058 original size:47 final size:47
Alignment explanation
Indices: 4730985--4731078 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
4730975 CAAAAAAGAA
*
4730985 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTCAAGTGGAAGGAGAGAGAAGATTGTC
4731032 AAAAATAAAGTTGAAATGATTCAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTCAAGTGGAAGGAGAGAGAAGATTGTC
4731079 TTCTTTATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.22
Consensus pattern (47 bp):
AAAAATAAAGTTGAAATGATTCAAGTGGAAGGAGAGAGAAGATTGTC
Found at i:4738094 original size:29 final size:29
Alignment explanation
Indices: 4738059--4738128 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
4738049 GTTTAATGTG
4738059 TATAATTGTATCAAATTAAAATTGATATA
1 TATAATTGTATCAAATTAAAATTGATATA
** *
4738088 TATAATTACACATTAAATTAAAATTGATATA
1 TATAATT--GTATCAAATTAAAATTGATATA
*
4738119 TA-ATTTGTAT
1 TATAATTGTAT
4738129 TTTCAGTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.06
29 7 0.21
30 3 0.09
31 21 0.64
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (29 bp):
TATAATTGTATCAAATTAAAATTGATATA
Found at i:4738915 original size:31 final size:31
Alignment explanation
Indices: 4738877--4738945 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
4738867 GGAATAGTTA
4738877 TATACATGAAACTTAAATTGTGATTC-ATATG
1 TATACATGAAACTTAAATTGTGATTCAAT-TG
* * *
4738908 TATACATGAAGCTTTAATTTTGATTCAATTG
1 TATACATGAAACTTAAATTGTGATTCAATTG
4738939 TATACAT
1 TATACAT
4738946 TTAAAGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (31 bp):
TATACATGAAACTTAAATTGTGATTCAATTG
Found at i:4739255 original size:3 final size:3
Alignment explanation
Indices: 4739247--4739278 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4739237 CCTAAAAATG
*
4739247 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4739279 ACCTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:4743275 original size:23 final size:23
Alignment explanation
Indices: 4743248--4743292 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4743238 GAATTTTTTA
4743248 TTTTATTTAATATTAATATAATT
1 TTTTATTTAATATTAATATAATT
*
4743271 TTTTATTTAATATTGATATAAT
1 TTTTATTTAATATTAATATAAT
4743293 CATTTGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTTAATATTAATATAATT
Found at i:4743567 original size:31 final size:31
Alignment explanation
Indices: 4743502--4743568 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
4743492 TTAATGGAGT
* * *
4743502 GTGACCCAAATAAAAATGATCTAAAACGTGA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
* * *
4743533 GTGACCAAAATAGAAATTATCTAAAATATCA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
4743564 GTGAC
1 GTGAC
4743569 TAAATTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (31 bp):
GTGACCAAAATAAAAATGATCTAAAACATCA
Found at i:4745311 original size:17 final size:17
Alignment explanation
Indices: 4745289--4745323 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4745279 ACAATAATAT
4745289 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
4745306 AAAATATATATATGTAC
1 AAAATATATATATGTAC
4745323 A
1 A
4745324 TATGTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:4745549 original size:23 final size:22
Alignment explanation
Indices: 4745436--4745567 Score: 60
Period size: 23 Copynumber: 5.8 Consensus size: 22
4745426 TATATATATG
* *
4745436 TATAT-ATAATAGTATTTAAGAA
1 TATATAATAATA-TATATAAAAA
*
4745458 TATATACATAAGATGATAT-AAAA
1 TATATA-ATAATAT-ATATAAAAA
* *
4745481 TACATAAATGGAATAGTATA-AGAAA
1 TATAT-AAT--AATA-TATATAAAAA
**
4745506 TATATAACTAATGGCAT-TAAAAA
1 TATATAA-TAAT-ATATATAAAAA
4745529 TATATACATAATATATAT-AAAA
1 TATATA-ATAATATATATAAAAA
*
4745551 TACAT-ATAATATATATA
1 TATATAATAATATATATA
4745568 CGTATTAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 29
0.66 0.10 0.23
Matches are distributed among these distances:
20 11 0.13
22 15 0.18
23 30 0.36
24 12 0.14
25 14 0.17
26 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (22 bp):
TATATAATAATATATATAAAAA
Found at i:4745552 original size:11 final size:11
Alignment explanation
Indices: 4745525--4745567 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4745515 AATGGCATTA
*
4745525 AAAATATATAC
1 AAAATATATAT
*
4745536 ATAATATATAT
1 AAAATATATAT
*
4745547 AAAATACATAT
1 AAAATATATAT
*
4745558 AATATATATA
1 AAAATATATA
4745568 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:4745596 original size:71 final size:70
Alignment explanation
Indices: 4745451--4745590 Score: 158
Period size: 71 Copynumber: 2.0 Consensus size: 70
4745441 ATAATAGTAT
* * **
4745451 TTAAGAATATATACATAAGATGATATAAAATACATAAATGGAATAGTATAAGAAATATATAACTA
1 TTAAAAATATATACATAAGATGATATAAAATACATAAATAGAATAGTATAAGAAATATATAAAAA
4745516 ATGGCA
66 AT-GCA
* * *
4745522 TTAAAAATATATACATAATAT-ATATAAAATACATATAATATATATACGTATTAGAAATGATA-A
1 TTAAAAATATATACATAAGATGATATAAAATACATA-AATAGA-ATA-GTATAAGAAAT-ATATA
4745585 AAAAAT
62 AAAAAT
4745591 TATTAACACA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
70 14 0.24
71 23 0.40
72 3 0.05
73 15 0.26
74 3 0.05
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.31
Consensus pattern (70 bp):
TTAAAAATATATACATAAGATGATATAAAATACATAAATAGAATAGTATAAGAAATATATAAAAA
ATGCA
Found at i:4746322 original size:17 final size:16
Alignment explanation
Indices: 4746272--4746322 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
4746262 GAAAAAGGGA
*
4746272 AAAAATAAAATAAAAAT
1 AAAAATAAGAT-AAAAT
4746289 AAAAATAAGAGTAAAAT
1 AAAAATAAGA-TAAAAT
4746306 AATAAATAAGATAAAAT
1 AA-AAATAAGATAAAAT
4746323 CACCTTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAAATAAGATAAAAT
Found at i:4747051 original size:17 final size:18
Alignment explanation
Indices: 4747017--4747053 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4747007 ATTTAACGAC
4747017 AAAATTAAAGAGAATTGA
1 AAAATTAAAGAGAATTGA
*
4747035 AAAATTAAA-AGATTTGA
1 AAAATTAAAGAGAATTGA
4747052 AA
1 AA
4747054 GCAATATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (18 bp):
AAAATTAAAGAGAATTGA
Found at i:4748358 original size:26 final size:27
Alignment explanation
Indices: 4748297--4748359 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
4748287 CCCGGCTCAA
*
4748297 ATATAT-TATGTTATAAAAATTATTAT
1 ATATATATATGTTATAAAAATAATTAT
*
4748323 ATTAATTATATATGTTA-AATAATAATTAT
1 A-T-A-TATATATGTTATAAAAATAATTAT
4748352 ATATATAT
1 ATATATAT
4748360 TTATAATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 2 0.06
29 14 0.45
30 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATATATATGTTATAAAAATAATTAT
Found at i:4748520 original size:39 final size:39
Alignment explanation
Indices: 4748449--4748525 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
4748439 AATTTTTAAT
*
4748449 AAAATATTTATTATATTTATTTGTGTCATTTAATATAAC
1 AAAATATTTATTATATTTATTGGTGTCATTTAATATAAC
**
4748488 AAAATATTTATTATATTTA-TGGTAGTTTTTTAATATAA
1 AAAATATTTATTATATTTATTGGT-GTCATTTAATATAA
4748526 ATACTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 31 0.91
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (39 bp):
AAAATATTTATTATATTTATTGGTGTCATTTAATATAAC
Found at i:4748528 original size:35 final size:35
Alignment explanation
Indices: 4748441--4748528 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 35
4748431 CAATTTAAAA
*
4748441 TTTTTAATA-AAATATTTATTATATTTATTTGTGT
1 TTTTTAATATAAATATTTATTATATTTATTGGTGT
**
4748475 CATTTAATATAACAAAATATTTATTATATTTA-TGGTAGT
1 TTTTTAATAT----AAATATTTATTATATTTATTGGT-GT
4748514 TTTTTAATATAAATA
1 TTTTTAATATAAATA
4748529 CTTTTTAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
34 7 0.16
35 5 0.12
38 3 0.07
39 28 0.65
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (35 bp):
TTTTTAATATAAATATTTATTATATTTATTGGTGT
Found at i:4748717 original size:15 final size:15
Alignment explanation
Indices: 4748676--4748721 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4748666 TTATATTACA
4748676 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
**
4748691 -TTTA-AAATCTTATG
1 TTTTAGTCA-CTTATG
4748705 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
4748720 TT
1 TT
4748722 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (15 bp):
TTTTAGTCACTTATG
Found at i:4750224 original size:91 final size:88
Alignment explanation
Indices: 4750127--4750343 Score: 246
Period size: 89 Copynumber: 2.4 Consensus size: 88
4750117 CTTAAGGGTG
* * *
4750127 CAAAAAGCCCTTAAACTTTTTAAAAAAAAGTAATTAAGCCTCCTT-CTTTTTTTTTACATTCAAT
1 CAAAAAGCCCTAAAACTTTTTAAAAAAAAGCAATTAAG-C-CCTTGCTTTTTTTTT-CACTCAA-
*
4750191 TTAGCA-A-TTGAACTTTCAAAATGTAT
62 TT-GCATACTTGAACTTTCAAAATGCAT
* * *
4750217 CAAAAAAGTCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTCACTCAATTG
1 C-AAAAAGCCCTAAAACTTTTTAAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTCACTCAATTG
*
4750282 GATACTTGAACTTTCAAAATGCAT
65 CATACTTGAACTTTCAAAATGCAT
* *
4750306 CAAAAAGACCCTAAAA-ATTTT-CAAAAAAGCAATTAAGC
1 CAAAAAG-CCCTAAAACTTTTTAAAAAAAAGCAATTAAGC
4750344 TCCATGCTCT
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
87 18 0.16
88 13 0.12
89 35 0.32
90 12 0.11
91 33 0.30
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (88 bp):
CAAAAAGCCCTAAAACTTTTTAAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTCACTCAATTGC
ATACTTGAACTTTCAAAATGCAT
Found at i:4750302 original size:89 final size:89
Alignment explanation
Indices: 4750127--4750346 Score: 254
Period size: 91 Copynumber: 2.5 Consensus size: 89
4750117 CTTAAGGGTG
* * * * *
4750127 CAAAAAGCCCTTAAACTTTTTAAAAAAAAGTAATTAAGCCTCCTTCTTTTTTTTTACATTCAATT
1 CAAAAAGACCTCAAACTTTTTCAAAAAAAGCAATTAAG-CTCCTTCTTTTTTTTTACACTCAATT
*
4750192 TAGCAATTGAACTTTCAAAATGTAT
65 TAGCAATTGAACTTTCAAAATGCAT
*
4750217 CAAAAAAGTCCTCAAACTTTTTCAAAAAAAGCAATTAAGC-CCTTGCTTTTTTTTT-CACTCAA-
1 C-AAAAAGACCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTT-CTTTTTTTTTACACTCAAT
*
4750279 TT-GGATACTTGAACTTTCAAAATGCAT
64 TTAGCA-A-TTGAACTTTCAAAATGCAT
**
4750306 CAAAAAGACC-CTAAAAATTTTC-AAAAAAGCAATTAAGCTCC
1 CAAAAAGACCTC-AAACTTTTTCAAAAAAAGCAATTAAGCTCC
4750347 ATGCTCTTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
87 19 0.17
88 21 0.18
89 29 0.25
90 12 0.11
91 33 0.29
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (89 bp):
CAAAAAGACCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTTCTTTTTTTTTACACTCAATTT
AGCAATTGAACTTTCAAAATGCAT
Found at i:4750464 original size:18 final size:18
Alignment explanation
Indices: 4750420--4750464 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4750410 TTAATAAAAA
4750420 TTTTAAAAATTTAAAATT
1 TTTTAAAAATTTAAAATT
* *
4750438 TATTAAAAA-TTAGAATT
1 TTTTAAAAATTTAAAATT
4750455 TTTTATAAAA
1 TTTTA-AAAA
4750465 ATCATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTTAAAAATTTAAAATT
Found at i:4750697 original size:18 final size:18
Alignment explanation
Indices: 4750674--4750726 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
4750664 ACTTTATAAA
4750674 ATTTTATAAGTTTTTTAT
1 ATTTTATAAGTTTTTTAT
4750692 ATTTTAT-A-TTTTTTAT
1 ATTTTATAAGTTTTTTAT
* * *
4750708 ATTTTTTATGATTTTTAT
1 ATTTTATAAGTTTTTTAT
4750726 A
1 A
4750727 AAATTTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.47
17 1 0.03
18 15 0.50
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
ATTTTATAAGTTTTTTAT
Found at i:4750705 original size:16 final size:16
Alignment explanation
Indices: 4750674--4750726 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
4750664 ACTTTATAAA
4750674 ATTTTATAAGTTTTTTAT
1 ATTTTAT-A-TTTTTTAT
4750692 ATTTTATATTTTTTAT
1 ATTTTATATTTTTTAT
*
4750708 ATTTTTTATGATTTTTAT
1 ATTTTATAT--TTTTTAT
4750726 A
1 A
4750727 AAATTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 16 0.50
17 1 0.03
18 15 0.47
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
ATTTTATATTTTTTAT
Found at i:4750770 original size:10 final size:9
Alignment explanation
Indices: 4750684--4750777 Score: 70
Period size: 9 Copynumber: 10.4 Consensus size: 9
4750674 ATTTTATAAG
4750684 TTTTTTATA
1 TTTTTTATA
4750693 --TTTTATA
1 TTTTTTATA
4750700 TTTTTTATA
1 TTTTTTATA
4750709 TTTTTTATGA
1 TTTTTTAT-A
4750719 -TTTTTATAA
1 TTTTTTAT-A
** *
4750728 AATTTTACAA
1 TTTTTTA-TA
*
4750738 TATTTTATA
1 TTTTTTATA
*
4750747 TTTTTTCTA
1 TTTTTTATA
*
4750756 ATTTTTAGTA
1 TTTTTTA-TA
4750766 -TTTTTATA
1 TTTTTTATA
4750774 TTTT
1 TTTT
4750778 ATTAAAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 7 0.10
8 2 0.03
9 45 0.65
10 15 0.22
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTTATA
Found at i:4750777 original size:55 final size:54
Alignment explanation
Indices: 4750666--4750787 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 54
4750656 TTCTTACGAC
* *
4750666 TTTATAAAATTTTATAAGTTTTTTATATTTTATATTTTTTATATTTTTTATGATT
1 TTTATAAAATTTTACAAGTTTTTTATATTTTATAATTTTTATATTTTTTATGA-T
* *
4750721 TTTATAAAATTTTACAA-TATTTTATATTTTTTCTAATTTTTAGTA-TTTTTAT-AT
1 TTTATAAAATTTTACAAGT-TTTT-TATATTTTATAATTTTTA-TATTTTTTATGAT
4750775 TTTATTAAAATTT
1 TTTA-TAAAATTT
4750788 AATCATATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
54 6 0.10
55 29 0.49
56 22 0.37
57 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (54 bp):
TTTATAAAATTTTACAAGTTTTTTATATTTTATAATTTTTATATTTTTTATGAT
Found at i:4751016 original size:82 final size:82
Alignment explanation
Indices: 4750868--4751019 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
4750858 GCTTAATTGC
* * *
4750868 TTTTTTGAAAAAGTTTAAGGGTTTTTTTGATGCATTTTGAAAATTAAGTACCCAATTGAGAGCAA
1 TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATTAAGTACCCAAATAAGAGCAA
4750933 AAAAAGTAGGGGCTTAA
66 AAAAAGTAGGGGCTTAA
* * * * **
4750950 TTTTTTTAAAAGGTTTAAGGGCTTTTTTGATGTA-TTTGAAAGTTCAAGTATTCAAATAAGTA-C
1 TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATT-AAGTACCCAAATAAG-AGC
4751013 AAAAAAA
64 AAAAAAA
4751020 AAAGAAGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 9 0.15
82 49 0.83
83 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (82 bp):
TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATTAAGTACCCAAATAAGAGCAA
AAAAAGTAGGGGCTTAA
Found at i:4751429 original size:3 final size:3
Alignment explanation
Indices: 4751421--4751466 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4751411 ATAAACAATG
4751421 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4751467 TGTTGTCGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:4761148 original size:263 final size:266
Alignment explanation
Indices: 4760635--4761192 Score: 652
Period size: 263 Copynumber: 2.1 Consensus size: 266
4760625 GGTTTAAGTC
* * ** * * * *
4760635 TATTTTTATTG-TTT-TTTAAAAATAAAAAAA-TAAAAAATCTTTAAATAATATAAATTATTTTG
1 TATTTTTATTGATTTATTTTAAAATAAAAAAACTATAGTACCCTCAAATAATATAAATTATTTTA
* * * ** *
4760697 AATTGAAAATGATATTTTTGTAATTTTTCTAATTGAGTTGGTGTCTAGTTGACTCATGACACCAA
66 AATTCAAAAGGATATTTTTATAATTTTTCTAACCGAGTTGGTGTCCAGTTGACTCATGACACCAA
* *
4760762 TTCAGTCAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAATATATTAAAATAATAAAATAA
131 TTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAATATATTAAAATAACAAAATAA
* * * * * * *
4760827 AGTTTTGGTTGAGTGATTAATTTAAAATTTTGCTGATGTAATTGGCATGAGTTCAAATCCCAC-A
196 AGTTTTGGTTGAGTGAGTAAATTAAAATTTTACTAATGCAATTAGCATGAGATCAAATCCCACTA
4760891 TATACA
261 TATACA
* *
4760897 TAATTTTTTATT-A-TTATTTT-AAATAAAAAAACTATAGTACCCTCAAATAATATGACTTATTT
1 T-A-TTTTTATTGATTTATTTTAAAATAAAAAAACTATAGTACCCTCAAATAATATAAATTATTT
* * * **
4760959 TAAATTCAAAAGGATATTTTTATAATTTTTCTAACCGATTTGTTGTCCGGTTGACTTGTGACACC
64 TAAATTCAAAAGGATATTTTTATAATTTTTCTAACCGAGTTGGTGTCCAGTTGACTCATGACACC
* * *
4761024 AACTT-GGTAAGG-GTTTAAATAATAGTATAGATACTAAAATAAAAATGTATTAAATTAACAAAA
129 AA-TTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAATATATTAAAATAACAAAA
* *
4761087 TAAAGTTTTGGTTGAAG-G-GTAAATTAAAAGTTTTACTAATGCAATTAGCATGGGATCAAATCT
193 TAAAGTTTTGGTTG-AGTGAGTAAATTAAAA-TTTTACTAATGCAATTAGCATGAGATCAAATCC
* *
4761150 CACTATGTGCA
256 CACTATATACA
*
4761161 TATTTTTATTGATTTTTTTTAAAATAAAAAAA
1 TATTTTTATTGATTTATTTTAAAATAAAAAAA
4761193 TAAAGTAGCA
Statistics
Matches: 246, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
262 18 0.07
263 108 0.44
264 107 0.43
265 13 0.05
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (266 bp):
TATTTTTATTGATTTATTTTAAAATAAAAAAACTATAGTACCCTCAAATAATATAAATTATTTTA
AATTCAAAAGGATATTTTTATAATTTTTCTAACCGAGTTGGTGTCCAGTTGACTCATGACACCAA
TTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAATATATTAAAATAACAAAATAA
AGTTTTGGTTGAGTGAGTAAATTAAAATTTTACTAATGCAATTAGCATGAGATCAAATCCCACTA
TATACA
Found at i:4762299 original size:126 final size:127
Alignment explanation
Indices: 4762147--4762459 Score: 378
Period size: 126 Copynumber: 2.4 Consensus size: 127
4762137 GCCAAACGGT
* * * * * ** * * *
4762147 AAATCAAAACCCAGCATGATTGGGCACGATTTGTCGAA-TTTCAAGATACGAAATATTGTCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAA-ACACAAAATATTGCCTCAT
* ** *
4762211 TTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTTGAATG-AAA
65 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
* *
4762273 AAATCGAAACCCAGCACGATTGGGCACGACATCTCAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATTGCCTCATT
*
4762338 TTAATTTAAGAAAACATGGACGAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAAA
66 TTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATG--AAAA
* * * * *
4762402 AAAGTCGAAACCTAGCACGATTGGGCACGATCTCTCAGACTTCCAAACACGAAATATT
1 AAA-TCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATT
4762460 TCCTTATGTT
Statistics
Matches: 159, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
126 101 0.64
127 4 0.03
129 6 0.04
130 48 0.30
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
Found at i:4762789 original size:3 final size:3
Alignment explanation
Indices: 4762783--4762953 Score: 80
Period size: 3 Copynumber: 56.3 Consensus size: 3
4762773 CATATAAAAA
* * * * * *
4762783 AAT AAT AGT AA- AAT AAC AGT AAA AAT AAT AAT AAC AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
4762827 AAT AAT AAT AAT -GT ATAT AAAT AAT AGT AAT AAA AAT AAT AAT GAA-
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * **
4762873 AAT AGT AAT GAT AAT AAT ATAT AAT AGT AAC GAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
4762919 ATAT AAT AGC AAG AAT AAT AAT AAT AAT GAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4762954 TATTAGCGAT
Statistics
Matches: 120, Mismatches: 38, Indels: 20
0.67 0.21 0.11
Matches are distributed among these distances:
2 6 0.05
3 101 0.84
4 12 0.10
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4762856 original size:52 final size:52
Alignment explanation
Indices: 4762793--4762895 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
4762783 AATAATAGTA
*
4762793 AAATAACAGTAA-AAATAATAATAACAG-AAATAGTAATAATAATAATGTATAT
1 AAATAACAGTAATAAA-AATAATAA-AGAAAATAGTAATAATAATAATATATAT
* * *
4762845 AAATAATAGTAATAAAAATAATAATGAAAATAGTAATGATAATAATATATA
1 AAATAACAGTAATAAAAATAATAAAGAAAATAGTAATAATAATAATATATA
4762896 ATAGTAACGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 1 0.02
52 41 0.91
53 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (52 bp):
AAATAACAGTAATAAAAATAATAAAGAAAATAGTAATAATAATAATATATAT
Found at i:4762909 original size:28 final size:27
Alignment explanation
Indices: 4762878--4762946 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
4762868 ATGAAAATAG
*
4762878 TAATGATAATAATATATAATAGTAACG-A
1 TAAT-ATAATAATATATAATAGCAA-GAA
*
4762906 TAATAGCAATAATATATAATAGCAAGAA
1 TAATA-TAATAATATATAATAGCAAGAA
4762934 TAATAATAATAAT
1 TAAT-ATAATAAT
4762947 GATAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 32 0.91
29 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (27 bp):
TAATATAATAATATATAATAGCAAGAA
Found at i:4762926 original size:16 final size:15
Alignment explanation
Indices: 4762905--4762941 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
4762895 AATAGTAACG
*
4762905 ATAATAGCAATAATA
1 ATAATAGCAAGAATA
4762920 TATAATAGCAAGAATA
1 -ATAATAGCAAGAATA
4762936 ATAATA
1 ATAATA
4762942 ATAATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (15 bp):
ATAATAGCAAGAATA
Found at i:4764576 original size:86 final size:84
Alignment explanation
Indices: 4764378--4765269 Score: 972
Period size: 84 Copynumber: 10.4 Consensus size: 84
4764368 ATTTGTAATC
* * * * * * * * *
4764378 TTCAGCCTGTTACCCTATTGCTTCGGGGGTTAAAG-TTCACTATCTTTGATCTACTCCCCCACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-GCTGTCTTCGATCTGCTCCACTACTG
* *
4764442 CTTAGGGAGATAAGATCCGTAATTT
65 TTTA-GG-G--AAGATCTGT-ATTT
* * *
4764467 TT-AACCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-CTGTCTTCGATCTACTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGCTGTCTTCGATCTGCTCCACTACTG
4764530 TTTAGGGATAAGATCTGTATTT
65 TTTAGGG--AAGATCTGTATTT
*
4764552 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCTACTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
4764617 TTAGGGATAAGATCTGTATTT
66 TTAGGG--AAGATCTGTATTT
* * * * * * * *
4764638 TCCAGCCTATTACCCTATTGCTTAGGGAGTTAAGGC-T-CATCGTCTTCAACCTACCCCACTACT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC-T-GTCTTCGATCTGCTCCACTACT
* *
4764701 GTATAGGGAGATAGTGTCTGTATTT
64 GTTTA-GG-GA-AG-ATCTGTATTT
* * * *
4764726 TCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATTTGCTCCATTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
4764791 TTAGAGG-AGATCTGTA-TT
66 TTAG-GGAAGATCTGTATTT
* *
4764809 TTCTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCACTACTG
1 TTC-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTG
4764874 TTTACGGG-AGATCTGTATTT
65 TTTA-GGGAAGATCTGTATTT
* * * * *
4764894 TCCAGCCTATTACCCTACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGATCTGCTCCACTATTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
* *
4764959 TTAGGGGAGATTTGTATTT
66 TTAGGGAAGATCTGTATTT
* *
4764978 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGTTCCACTACTAT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
*
4765043 TTAGGGAATATCTGTATTTT
66 TTAGGGAAGATCTGTA-TTT
* * * * ** *
4765063 TTTAGCATGTTTCCCTACCGCTTAGGGGGTTAAGGCTTGCTACCTTCAATCTGCTCCACTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
4765128 TTAGGGAAGATCTGTATTT
66 TTAGGGAAGATCTGTATTT
* ** * ** * * *
4765147 TCCAGCCTGTTACATTACTGCTTAAGGGGTTAAGGCTCACTGTCTTTGATCTACTCCGCTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
4765212 TTAGGGATAAGATCTGTATTT
66 TTAGGG--AAGATCTGTATTT
* * * *
4765233 TCCAACTTGTTACCCTACTTCTTAGGGGGTTAAGGCT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
4765270 CGTGAATTCA
Statistics
Matches: 691, Mismatches: 92, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
83 7 0.01
84 277 0.40
85 90 0.13
86 186 0.27
87 8 0.01
88 116 0.17
89 5 0.01
90 2 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (84 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGT
TTAGGGAAGATCTGTATTT
Found at i:4765040 original size:44 final size:44
Alignment explanation
Indices: 4764825--4765040 Score: 109
Period size: 44 Copynumber: 5.1 Consensus size: 44
4764815 CCTGTTACCT
*
4764825 TACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCAC
1 TACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGTTCCAC
* * * * * * *
4764869 TACTGTTTA-CGGG---A-GATCTG-TATTTTCCAGCCTATTACC-C
1 TACTGCTTAGGGGGTTAAGGCT-TGCTATCTTCGA-TCTGTT-CCAC
* * * *
4764909 TACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGATCTGCTCCAC
1 TACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGTTCCAC
* * ** * *
4764953 TATTGTTTA-GGGG---AGATTTG-TATTTTTC-AGCCTGTTACC-C
1 TACTGCTTAGGGGGTTAAGGCTTGCTA-TCTTCGA-TCTGTT-CCAC
*
4764993 TACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGTTCCAC
1 TACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGTTCCAC
4765037 TACT
1 TACT
4765041 ATTTAGGGAA
Statistics
Matches: 117, Mismatches: 35, Indels: 40
0.61 0.18 0.21
Matches are distributed among these distances:
39 11 0.09
40 34 0.29
41 11 0.09
43 11 0.09
44 40 0.34
45 10 0.09
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (44 bp):
TACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGTTCCAC
Found at i:4765270 original size:86 final size:84
Alignment explanation
Indices: 4764471--4765269 Score: 987
Period size: 84 Copynumber: 9.4 Consensus size: 84
4764461 TAATTTTTAA
* *
4764471 CCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-CTGTCTTCGATCTACTCCACTACTGTTTAG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGCTGTCTTCGATCTGCTCCACTACTGTTTAG
*
4764535 GGATAAGATCTGTATTTTTCAG
65 GG--AAGATCTGTATTTTCCAG
*
4764557 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCTACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
4764622 GATAAGATCTGTATTTTCCAG
66 G--AAGATCTGTATTTTCCAG
* * * * * * * *
4764643 CCTATTACCCTATTGCTTAGGGAGTTAAGGC-T-CATCGTCTTCAACCTACCCCACTACTGTATA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC-T-GTCTTCGATCTGCTCCACTACTGTTTA
*
4764706 GGGAGATAGTGTCTGTATTTTCCAG
64 -GG-GA-AG-ATCTGTATTTTCCAG
* * *
4764731 CCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATTTGCTCCATTACTGTTTAGA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG-
*
4764796 GG-AGATCTGTATTTTCTAG
65 GGAAGATCTGTATTTTCCAG
* *
4764815 CCTGTTACCTTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCACTACTGTTTACG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTA-G
4764880 GG-AGATCTGTATTTTCCAG
65 GGAAGATCTGTATTTTCCAG
* * * *
4764899 CCTATTACCCTACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGATCTGCTCCACTATTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* * *
4764964 GGAGATTTGTATTTTTCAG
66 GAAGATCTGTATTTTCCAG
* *
4764983 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGTTCCACTACTATTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* **
4765048 GAATATCTGTATTTTTTTAG
66 GAAGATCTGTA-TTTTCCAG
* * * ** *
4765068 CATGTTTCCCTACCGCTTAGGGGGTTAAGGCTTGCTACCTTCAATCTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
4765133 GAAGATCTGTATTTTCCAG
66 GAAGATCTGTATTTTCCAG
** * ** * * *
4765152 CCTGTTACATTACTGCTTAAGGGGTTAAGGCTCACTGTCTTTGATCTACTCCGCTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
*
4765217 GATAAGATCTGTATTTTCCAA
66 G--AAGATCTGTATTTTCCAG
* *
4765238 CTTGTTACCCTACTTCTTAGGGGGTTAAGGCT
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
4765270 CGTGAATTCA
Statistics
Matches: 616, Mismatches: 82, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
83 3 0.00
84 287 0.47
85 80 0.13
86 174 0.28
87 6 0.01
88 63 0.10
89 2 0.00
90 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (84 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
GAAGATCTGTATTTTCCAG
Found at i:4765440 original size:64 final size:64
Alignment explanation
Indices: 4765339--4765463 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
4765329 TCCTGTATCT
* *
4765339 ATGCTTATGCCAAATAATTAGGATGCTATTATCGAAATGAATCAAATGCTTCTAACTAGATATA
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
*
4765403 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
4765464 GTATCATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
Found at i:4778117 original size:125 final size:126
Alignment explanation
Indices: 4777975--4778329 Score: 311
Period size: 127 Copynumber: 2.8 Consensus size: 126
4777965 CTCATGCACT
* * **
4777975 TGAAATTTGAAAAGGATATT-TGGCTA-TTTGGCCAAACG-GTAAATCGAAACCCAACACGATTG
1 TGAAATTTCAAAAGGATATTCT-G-TATTTTAGCCAAACGAAAAAATCGAAACCCAACACGATTG
* * * * * * * *
4778037 GACACGATTTGTCAAATTTCCAGATACGAAATATTGCCTCATTTTAATTTAAGAAAGCATAGA
64 GACACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATAGA
* * *
4778100 TGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAAAATCGAAACCCAACACGATTGG
1 TGAAATTTCAAAAGGATATTCTGTATTTTAGCCAAACG-AAAAAATCGAAACCCAACACGATTGG
* * *
4778165 GCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCGTTTTAATTTAAGAAAACATGGA
65 ACACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATAGA
** * ** * ** ** *
4778227 CAAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAAAAAAAGTCGAAACCCAGCACGA
1 TGAAATTTCAAAAGGATATTCTGTATTTTAG--CCA--AACGAAAAAA-TCGAAACCCAACACGA
* * * * *
4778292 TTGGGCACGATCTCTCAGACTTCCGAACACGAAATATT
61 TTGGACACGATCTCTCAAACTCCCAAACACAAAATATT
4778330 TCCTTACGTT
Statistics
Matches: 187, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
124 2 0.01
125 28 0.15
126 1 0.01
127 99 0.53
130 6 0.03
131 51 0.27
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (126 bp):
TGAAATTTCAAAAGGATATTCTGTATTTTAGCCAAACGAAAAAATCGAAACCCAACACGATTGGA
CACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATAGA
Found at i:4778170 original size:127 final size:128
Alignment explanation
Indices: 4778015--4778329 Score: 389
Period size: 127 Copynumber: 2.4 Consensus size: 128
4778005 GCCAAACGGT
* * * * * * * *
4778015 AAATCGAAACCCAACACGATTGGACACGATTTGTCAAATTTCCAGATACGAAATATTGCCTCATT
1 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATT
* ** ** *
4778080 TTAATTTAAGAAAGCATAGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATG-AAAA
66 TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
*
4778142 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATT
* * *
4778207 TTAATTTAAGAAAACATGGACAAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAAAA
66 TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATG--AAAAA
* * * * *
4778272 AAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCGAACACGAAATATT
1 AAA-TCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATT
4778330 TCCTTACGTT
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 105 0.65
130 7 0.04
131 49 0.30
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (128 bp):
AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
Found at i:4778718 original size:3 final size:3
Alignment explanation
Indices: 4778688--4778863 Score: 97
Period size: 3 Copynumber: 57.3 Consensus size: 3
4778678 GCATATAAAA
* * * * * *
4778688 AAT AAT AGT AAA AAA AAT AGT AAA AAT AAT AAT AAT AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
4778733 AAT AAT AAT -GT ATAT AAAT AATT AAT AGT AAT AAA AAT AAT AAT GAA-
1 AAT AAT AAT AAT A-AT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * **
4778780 AAT AGT AAT GAT AAT AAT AAT ATAT AAT AGT AAT GAT AAT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
** * *
4778826 AAT ATAT AAT AGC AAG AAT AAT AAT AAT AAT GAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4778864 TATTAGCGAT
Statistics
Matches: 128, Mismatches: 35, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
2 4 0.03
3 108 0.84
4 15 0.12
5 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4778835 original size:28 final size:25
Alignment explanation
Indices: 4778703--4778863 Score: 116
Period size: 24 Copynumber: 6.2 Consensus size: 25
4778693 TAGTAAAAAA
** *
4778703 AATAGTAAAAATAATAATAATAGA-
1 AATAGTAATGATAATAATAATATAT
*
4778727 AATAGTAATAATAATGTATATAA-ATAATT
1 AATAGTAATGATAA--TA-ATAATAT-A-T
* *
4778756 AATAGTAATAAAAATAATAATGA-A-
1 AATAGTAATGATAATAATAAT-ATAT
4778780 AATAGTAATGATAATAATAATATAT
1 AATAGTAATGATAATAATAATATAT
4778805 AATAGTAATGATAATAGCAATAATATAT
1 AATAGTAATGATAAT---AATAATATAT
*
4778833 AATAGCAA-GAATAATAATAATAATGAT
1 AATAGTAATG-ATAATAATAAT-AT-AT
4778860 AATA
1 AATA
4778864 TATTAGCGAT
Statistics
Matches: 115, Mismatches: 6, Indels: 29
0.77 0.04 0.19
Matches are distributed among these distances:
23 1 0.01
24 33 0.29
25 21 0.18
26 10 0.09
27 14 0.12
28 23 0.20
29 13 0.11
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (25 bp):
AATAGTAATGATAATAATAATATAT
Found at i:4778836 original size:16 final size:16
Alignment explanation
Indices: 4778795--4778851 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
4778785 TAATGATAAT
4778795 AATAATATATAATAG-
1 AATAATATATAATAGC
*
4778810 --TAAT-GATAATAGC
1 AATAATATATAATAGC
4778823 AATAATATATAATAGC
1 AATAATATATAATAGC
*
4778839 AAGAATA-ATAATA
1 AATAATATATAATA
4778852 ATAATGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
15 10 0.29
16 14 0.40
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.30
Consensus pattern (16 bp):
AATAATATATAATAGC
Found at i:4779644 original size:17 final size:17
Alignment explanation
Indices: 4779617--4779649 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
4779607 GGACCCAAAT
4779617 GGAAAAAAGAA-AAAAA
1 GGAAAAAAGAACAAAAA
4779633 GGAAAAATAGAACAAAA
1 GGAAAAA-AGAACAAAA
4779650 TTGCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (17 bp):
GGAAAAAAGAACAAAAA
Found at i:4786924 original size:9 final size:10
Alignment explanation
Indices: 4786900--4786924 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4786890 AAAAATTATT
4786900 TAAAAAGCTA
1 TAAAAAGCTA
4786910 TAAAAAGCTA
1 TAAAAAGCTA
4786920 TAAAA
1 TAAAA
4786925 TATTAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
TAAAAAGCTA
Found at i:4787539 original size:34 final size:34
Alignment explanation
Indices: 4787501--4787581 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
4787491 ATAGTATTTA
*
4787501 ATTATGCTTTTAACAAAACAATAC-GATAGCAATC
1 ATTATGCTTATAACAAAACAATACAG-TAGCAATC
** *
4787535 ATTATGCTTATAACAATTCAATACAGTAGCAATT
1 ATTATGCTTATAACAAAACAATACAGTAGCAATC
* *
4787569 AATACGCTTATAA
1 ATTATGCTTATAA
4787582 TAGTTCAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (34 bp):
ATTATGCTTATAACAAAACAATACAGTAGCAATC
Found at i:4792062 original size:53 final size:53
Alignment explanation
Indices: 4792001--4792109 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
4791991 CTTCACCAAA
4792001 TTTTTCATGCAGTAATATAAACATGCTATAATCCTAAAATAAGAAAAAAATAC
1 TTTTTCATGCAGTAATATAAACATGCTATAATCCTAAAATAAGAAAAAAATAC
4792054 TTTTTCATGCAGTAATATAAACATGCTATAATCCTAAAATAAGAAAAAAATAC
1 TTTTTCATGCAGTAATATAAACATGCTATAATCCTAAAATAAGAAAAAAATAC
4792107 TTT
1 TTT
4792110 CTCTAACCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (53 bp):
TTTTTCATGCAGTAATATAAACATGCTATAATCCTAAAATAAGAAAAAAATAC
Found at i:4798038 original size:21 final size:21
Alignment explanation
Indices: 4797999--4798038 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4797989 TTTACATGAG
* *
4797999 ATGAAACAAAATACCTATAAT
1 ATGAAACAAAAAAACTATAAT
*
4798020 ATGAAACAAAAAAATTATA
1 ATGAAACAAAAAAACTATA
4798039 TGAGTATGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (21 bp):
ATGAAACAAAAAAACTATAAT
Found at i:4808892 original size:22 final size:22
Alignment explanation
Indices: 4808845--4808894 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4808835 ATTTAATTTT
* *
4808845 AAAAAATTGAATGACTAAATTA
1 AAAAAATTGAATAACTAAATGA
*
4808867 AAAAAATT-AATAATTAAATGA
1 AAAAAATTGAATAACTAAATGA
*
4808888 CAAAAAT
1 AAAAAAT
4808895 ATAACTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (22 bp):
AAAAAATTGAATAACTAAATGA
Found at i:4809202 original size:45 final size:45
Alignment explanation
Indices: 4809151--4809243 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
4809141 TAAAAATGTC
4809151 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
1 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
4809196 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
1 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
4809241 TTT
1 TTT
4809244 AACCTTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (45 bp):
TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
Found at i:4812473 original size:18 final size:18
Alignment explanation
Indices: 4812450--4812486 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4812440 GTGACCATCA
*
4812450 ATAACTAACTAACAGAAG
1 ATAACTAACTAACAAAAG
*
4812468 ATAACTAATTAACAAAAG
1 ATAACTAACTAACAAAAG
4812486 A
1 A
4812487 ATGAATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (18 bp):
ATAACTAACTAACAAAAG
Found at i:4818619 original size:3 final size:3
Alignment explanation
Indices: 4818611--4818648 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4818601 AACATTTACA
4818611 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4818649 AACCAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4820636 original size:16 final size:18
Alignment explanation
Indices: 4820593--4820627 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4820583 TTTAATGGCG
4820593 AAATAGAAATAATAGTTT
1 AAATAGAAATAATAGTTT
4820611 AAATAAGAAA-AATAGTT
1 AAAT-AGAAATAATAGTT
4820628 AATAGGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATAGAAATAATAGTTT
Found at i:4822160 original size:20 final size:21
Alignment explanation
Indices: 4822127--4822166 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4822117 TTTTGTAATT
4822127 TTATTCTTGGGTTT-TGTTTA
1 TTATTCTTGGGTTTCTGTTTA
4822147 TTATT-TTGGTGTTTCTGTTT
1 TTATTCTTGG-GTTTCTGTTT
4822167 GGGCTGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (21 bp):
TTATTCTTGGGTTTCTGTTTA
Found at i:4822745 original size:45 final size:45
Alignment explanation
Indices: 4822597--4822751 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
4822587 CTTTCTTCAG
* **
4822597 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAAC
1 TCTGCTCCACTGCAACTTCAGGGGGATAAGGTTTATAACTTCAAC
* * **
4822642 T-TGCCCCACTGCAACTTCAGAGGGATAAGGATTCGTAACTTCAAC
1 TCTGCTCCACTGCAACTTCAGGGGGATAAGG-TTTATAACTTCAAC
* * *
4822687 -CTG-TCACATTGCAACTTCAGGGGGATAAGGTTTATAGCTTTAAC
1 TCTGCTC-CACTGCAACTTCAGGGGGATAAGGTTTATAACTTCAAC
* *
4822731 TCTGCTCTACTGCAATTTCAG
1 TCTGCTCCACTGCAACTTCAG
4822752 AAAGATAAGA
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
44 36 0.41
45 50 0.57
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGGGATAAGGTTTATAACTTCAAC
Found at i:4822950 original size:44 final size:42
Alignment explanation
Indices: 4822900--4823294 Score: 126
Period size: 44 Copynumber: 9.0 Consensus size: 42
4822890 AAAAATTATG
4822900 GCTTCGAGCCGCTCCAATGTCATTTCAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCGCTCCAATG-CATTTCAGGGAGAAGA-ATTTGTA
* ** * * * **
4822944 GCTTCGATCTACTCCACTAGAACTTCAAAGAGATACGAATTATG-A
1 GCTTCGAGCCGCTCCAAT-GCATTTCAGGGAGA-A-GAATT-TGTA
* *
4822989 -CTTCGAGCCGTTCCAATGTCATTTCAGGGAGAAGAGA-TTATA
1 GCTTCGAGCCGCTCCAATG-CATTTCAGGGAGAAGA-ATTTGTA
* * ** * * * *
4823031 GCCTCGA-CCTACTCCGCTAGAACTTCAAGGAGATACGAA-TTGTG
1 GCTTCGAGCC-GCTCCAAT-GCATTTCAGGGAGA-A-GAATTTGTA
* *
4823075 GCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAAAAATTTGTA
1 GCTTCGAGCCGCTCCAATG-CATTTCAGGGAG-AAGAATTTGTA
* ** * * *
4823119 GCCTCG-GTCTACT-CAACTGGAATTTCAAGGAGATACGAACTATG--
1 GCTTCGAG-CCGCTCCAA-T-GCATTTCAGGGAGA-A-GAA-TTTGTA
* * *
4823163 GCTTCGAGCTGCTCTAATGCCATTTCAGGGAGAAGAGATTTGCA
1 GCTTCGAGCCGCTCCAATG-CATTTCAGGGAGAAGA-ATTTGTA
* * ** ** * * * *
4823207 GCTTTGATCTACTCCGCTGGAGCTTCAAGGAGATACGAA-TTGTG
1 GCTTCGAGCCGCTCCAATGCA-TTTCAGGGAGA-A-GAATTTGTA
4823251 GCTTCGAGCCGCTCCAATGTCATTTCAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCGCTCCAATG-CATTTCAGGGAGAAGA-ATTTGTA
4823295 ACTTTGATCT
Statistics
Matches: 244, Mismatches: 73, Indels: 68
0.63 0.19 0.18
Matches are distributed among these distances:
41 1 0.00
42 13 0.05
43 36 0.15
44 165 0.68
45 20 0.08
46 9 0.04
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (42 bp):
GCTTCGAGCCGCTCCAATGCATTTCAGGGAGAAGAATTTGTA
Found at i:4823336 original size:88 final size:88
Alignment explanation
Indices: 4822797--4823337 Score: 683
Period size: 88 Copynumber: 6.2 Consensus size: 88
4822787 ACAACTTTAG
* ** * * *
4822797 GGAGATAAGAATTGTGGCTTC-AATCGCTACAATGCCATTTTAAGGAGAAGAGATTTGTAGCTTC
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
*
4822861 AATCTACTCCGCTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
** * *
4822884 GGAGATAAAAATTATGGCTTCGAGCCGCTCCAATGTCATTTCAGGGAGAAGAGATTTGTAGCTTC
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
*
4822949 GATCTACTCCACTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * * * * *
4822972 AGAGATACGAATTATGACTTCGAGCCGTTCCAATGTCATTTCAGGGAGAAGAGA-TTATAGCCTC
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
*
4823036 GACCTACTCCGCTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * *
4823059 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAAAAATTTGTAGCCTC
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
* ** * *
4823124 GGTCTACTCAACTGGAATTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * * * *
4823147 GGAGATACGAACTATGGCTTCGAGCTGCTCTAATGCCATTTCAGGGAGAAGAGATTTGCAGCTTT
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
* *
4823212 GATCTACTCCGCTGGAGCTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * *
4823235 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGTCATTTCAGGGAGAAGAGATTTGTAACTTT
1 GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
*
4823300 GATCTACTCTGCT-GAAACTTCAA
66 GATCTACTCCGCTAG-AACTTCAA
4823323 GGAGATACGAATTGT
1 GGAGATACGAATTGT
4823338 TGATTTCAAC
Statistics
Matches: 393, Mismatches: 58, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
87 95 0.24
88 298 0.76
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
GGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTC
GATCTACTCCGCTAGAACTTCAA
Found at i:4845037 original size:14 final size:15
Alignment explanation
Indices: 4845008--4845038 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4844998 AAAATTAGCC
4845008 AAAAGCATATAAATT
1 AAAAGCATATAAATT
4845023 AAAAGCATA-AAATT
1 AAAAGCATATAAATT
4845037 AA
1 AA
4845039 CTTGCTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAGCATATAAATT
Found at i:4855247 original size:54 final size:54
Alignment explanation
Indices: 4855183--4855291 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
4855173 CACTTTTGGG
*
4855183 GCATTTTCTACTTTTGAAAAATGTTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
*
4855237 GCATTTTCTACTTTTGAAAAGTATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
4855291 G
1 G
4855292 TACTTTTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (54 bp):
GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
Found at i:4863466 original size:31 final size:30
Alignment explanation
Indices: 4863426--4863490 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
4863416 AAATACATGT
*
4863426 TATTTTATACAT-ATAATTTTTGTTAAAATC
1 TATTTTATACATAATAATGTTT-TTAAAATC
*
4863456 TATTTGTATACATAATTATGTTTTTAAAATC
1 TATTT-TATACATAATAATGTTTTTAAAATC
4863487 TATT
1 TATT
4863491 GCATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 19 0.61
32 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (30 bp):
TATTTTATACATAATAATGTTTTTAAAATC
Found at i:4864207 original size:26 final size:28
Alignment explanation
Indices: 4864156--4864207 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
4864146 AGTTAATAAA
*
4864156 TTCTCTCTGAGTTTTTCTTTTCAAGAAT
1 TTCTCTCTGAGTTTTTCTTTACAAGAAT
*
4864184 TTCTCT-TGAGTTTTT-TTTAGAAGA
1 TTCTCTCTGAGTTTTTCTTTACAAGA
4864208 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 9 0.41
28 6 0.27
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.54
Consensus pattern (28 bp):
TTCTCTCTGAGTTTTTCTTTACAAGAAT
Found at i:4867113 original size:36 final size:36
Alignment explanation
Indices: 4867039--4867119 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
4867029 ATTTCAAAAA
4867039 TAATATTATTTTAATATATTTAATATTAAATTTAATT
1 TAATATTATTTTAATATATTT-ATATTAAATTTAATT
*
4867076 TAATACTTATTTTGATAGTATTT-TATT-AATTTAATT
1 TAATA-TTATTTTAATA-TATTTATATTAAATTTAATT
4867112 TAATATTA
1 TAATATTA
4867120 AATCTGGTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 14 0.34
37 9 0.22
38 10 0.24
39 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATATATTTATATTAAATTTAATT
Found at i:4870138 original size:37 final size:37
Alignment explanation
Indices: 4870077--4870222 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4870067 TACGTATGAT
* *
4870077 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4870112 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4870149 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4870186 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4870223 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:4870239 original size:46 final size:46
Alignment explanation
Indices: 4870186--4870454 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
4870176 TAAGTGTAGC
* **
4870186 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4870232 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4870278 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4870330 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
4870376 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4870428 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4870455 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:4870305 original size:52 final size:52
Alignment explanation
Indices: 4870229--4870448 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
4870219 TAGCTAAAGC
* *
4870229 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4870282 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4870334 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4870380 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4870432 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
4870449 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4870351 original size:98 final size:98
Alignment explanation
Indices: 4870186--4870454 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4870176 TAAGTGTAGC
* * *
4870186 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
4870251 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
4870285 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
4870350 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
4870383 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
4870448 GATCAGA
66 GATCAGA
4870455 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:4874089 original size:39 final size:39
Alignment explanation
Indices: 4874035--4874114 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
4874025 TGATATACTA
* * *
4874035 AGAAAAAAACTATAACACCCCTCGCCCGGTCCGGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCAGTAATC
*
4874074 AGAAAAAAACTATAACACCCCTCACCTAGTCCAGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCAGTAATC
4874113 AG
1 AG
4874115 GCCCGAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.16
Consensus pattern (39 bp):
AGAAAAAAACTATAACACCCCTCACCCAGTCCAGTAATC
Found at i:4877396 original size:36 final size:36
Alignment explanation
Indices: 4877355--4877438 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
4877345 AATTGCACTC
*
4877355 CGCACCTCATCAATATAACCGAAGTAAAATGTTCTAT
1 CGCACCTCATCAATATAACCGAAGTAAAATGTGC-AT
* * *
4877392 -GCACCCCATCAATATAGCTGAAGTAAAATGTGCAT
1 CGCACCTCATCAATATAACCGAAGTAAAATGTGCAT
4877427 CGCACCTCATCA
1 CGCACCTCATCA
4877439 GATGTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 2 0.05
36 39 0.95
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (36 bp):
CGCACCTCATCAATATAACCGAAGTAAAATGTGCAT
Found at i:4877942 original size:9 final size:9
Alignment explanation
Indices: 4877930--4877956 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4877920 CAACATATTT
4877930 TTCATTTTA
1 TTCATTTTA
4877939 TTCATTTTA
1 TTCATTTTA
4877948 TTCATTTTA
1 TTCATTTTA
4877957 GCCCCTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTA
Found at i:4884663 original size:6 final size:6
Alignment explanation
Indices: 4884652--4884693 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
4884642 TAACAACACC
4884652 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
4884694 AATCGAATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:4886135 original size:22 final size:20
Alignment explanation
Indices: 4886100--4886158 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
4886090 TAAAAAGAAG
4886100 AAATGAAAA-AAAAT-ATAGAA
1 AAAT-AAAAGAAAATAAT-GAA
*
4886120 AAATAAAGAGATAAATAATGTA
1 AAATAAA-AGA-AAATAATGAA
4886142 AAATAAAAGAAAATAAT
1 AAATAAAAGAAAATAAT
4886159 TAATTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 4 0.12
22 13 0.38
23 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
AAATAAAAGAAAATAATGAA
Found at i:4886462 original size:27 final size:26
Alignment explanation
Indices: 4886401--4886476 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
4886391 TACCAACTTG
* ***
4886401 GGAAAAAAATAGTTTAGATATCATTT
1 GGAAAAAAAAAGTTTAGATATCAGAA
*
4886427 GTGACAAAAAAAGTTTAGATATCAAGAA
1 G-GAAAAAAAAAGTTTAGATATC-AGAA
4886455 GGAAAAAAAGATAGTTTAGATA
1 GGAAAAAAA-A-AGTTTAGATA
4886477 CCAATTTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 26 0.65
28 3 0.08
29 10 0.25
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.26
Consensus pattern (26 bp):
GGAAAAAAAAAGTTTAGATATCAGAA
Found at i:4896175 original size:17 final size:17
Alignment explanation
Indices: 4896153--4896185 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4896143 AATCGAAAAA
*
4896153 GCCCGATTAATGATAAT
1 GCCCGATAAATGATAAT
4896170 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
4896186 ATAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:4897733 original size:44 final size:43
Alignment explanation
Indices: 4897664--4897820 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
4897654 TGTGTTCTCG
* * *
4897664 TGTAAGACCACGTCTAGGACGTTGGCATCGAATTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGAATT-TGATTTACA
* *
4897708 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTACA
* * *
4897750 TGTAAGACC-CTGTTTGGGATAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGA-ATTTGATTTACA
*
4897793 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
4897821 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 31 0.33
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTACA
Found at i:4899641 original size:16 final size:17
Alignment explanation
Indices: 4899620--4899651 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4899610 TTTTCCTGAA
4899620 ATACATGA-AAATGATG
1 ATACATGATAAATGATG
4899636 ATACATGATAAATGAT
1 ATACATGATAAATGAT
4899652 ATATGGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (17 bp):
ATACATGATAAATGATG
Found at i:4905455 original size:3 final size:3
Alignment explanation
Indices: 4905447--4905483 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4905437 AGATATTTAC
4905447 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4905484 CTAATAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4905720 original size:21 final size:20
Alignment explanation
Indices: 4905696--4905740 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
4905686 AGAACCAAAC
4905696 GAAATAG-AAAGAAAGAAAGGA
1 GAAATAGAAAAG-AA-AAAGGA
4905717 GAAA-AGAAAAGAAAAAGGA
1 GAAATAGAAAAGAAAAAGGA
4905736 GAAAT
1 GAAAT
4905741 TAGGGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 10 0.45
20 4 0.18
21 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (20 bp):
GAAATAGAAAAGAAAAAGGA
Found at i:4908052 original size:30 final size:26
Alignment explanation
Indices: 4907989--4908044 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
4907979 GTAGATAAAC
* *
4907989 ATTATATTAAATTAAATATTAAGATA
1 ATTATTTTAAATTAAATATTAAAATA
4908015 ATTATTTTAATATTAAACTATTAAAATA
1 ATTATTTTAA-ATTAAA-TATTAAAATA
4908043 AT
1 AT
4908045 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 9 0.35
27 6 0.23
28 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTTTAAATTAAATATTAAAATA
Found at i:4915929 original size:40 final size:40
Alignment explanation
Indices: 4915844--4915981 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
4915834 CTCGAGAATA
* ** * *
4915844 TAAAGTGGATAGAATTCATTCCTAATTCACTAT--AACACC
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTA-ACC
** **
4915883 TCAAAGTGGATAGGATTTGTTTTTGATTCACTATGGTAATT
1 T-AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
* * * *
4915924 TAAAGTGAATATGATTTATTCCTGATTCATTATGGTAACC
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
*
4915964 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
4915982 ACCTGAAAAG
Statistics
Matches: 75, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.95
41 2 0.03
42 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
Found at i:4916037 original size:78 final size:78
Alignment explanation
Indices: 4915946--4916097 Score: 286
Period size: 78 Copynumber: 1.9 Consensus size: 78
4915936 GATTTATTCC
*
4915946 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
*
4916011 GTTACATGATATA
66 ATTACATGATATA
4916024 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
4916089 ATTACATGA
66 ATTACATGA
4916098 GATGTGACTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
ATTACATGATATA
Found at i:4916934 original size:29 final size:29
Alignment explanation
Indices: 4916899--4916971 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
4916889 ATAATTAAAA
*
4916899 AATTGAGCCCTTTGTTGAAAAGT-TCAATC
1 AATTGAGCCCTTTATTGAAAAGTAT-AATC
* * * *
4916928 AATTGAGCTCTTAATTGAAAGGTAGTAATT
1 AATTGAGCCCTTTATTGAAAAGTA-TAATC
4916958 AATTGAGCCCTTTA
1 AATTGAGCCCTTTA
4916972 AATATGACTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 19 0.54
30 15 0.43
31 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (29 bp):
AATTGAGCCCTTTATTGAAAAGTATAATC
Found at i:4917401 original size:13 final size:13
Alignment explanation
Indices: 4917383--4917409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4917373 AATGCCTGAA
4917383 ATTCGCCCCCTCG
1 ATTCGCCCCCTCG
4917396 ATTCGCCCCCTCG
1 ATTCGCCCCCTCG
4917409 A
1 A
4917410 GGTCAAGACA
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:0.11, C:0.52, G:0.15, T:0.22
Consensus pattern (13 bp):
ATTCGCCCCCTCG
Found at i:4918436 original size:27 final size:27
Alignment explanation
Indices: 4918365--4918437 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
4918355 TTTTAACCCT
*
4918365 TATTTATACTTTAATATATTTTATGTAA
1 TATTTATA-TTAAATATATTTTATGTAA
*
4918393 TATTTATATTAAGTATATTTCTAT-TGAA
1 TATTTATATTAAATATATTT-TATGT-AA
4918421 -ATTTAT-TTAAAATATAT
1 TATTTATATT-AAATATAT
4918438 AAAAGTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.05
27 24 0.62
28 13 0.33
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (27 bp):
TATTTATATTAAATATATTTTATGTAA
Found at i:4919469 original size:4 final size:4
Alignment explanation
Indices: 4919460--4919492 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
4919450 TGATGAATTA
*
4919460 TATG TATG TATA TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
4919493 TTGTTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:4925090 original size:52 final size:52
Alignment explanation
Indices: 4925029--4925133 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
4925019 ATAGAAGCTC
*
4925029 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTCAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
*
4925081 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
4925133 A
1 A
4925134 TGAATGAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (52 bp):
AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
Found at i:4934126 original size:5 final size:5
Alignment explanation
Indices: 4934116--4934143 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4934106 TATATATATA
4934116 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
4934144 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:4941771 original size:30 final size:30
Alignment explanation
Indices: 4941735--4941793 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4941725 TATTTTATTA
*
4941735 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
4941765 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
4941794 TCTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:4942806 original size:26 final size:26
Alignment explanation
Indices: 4942772--4942824 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4942762 TAGTGAGAAT
4942772 AAGATTCACGAGGTTGATCTAATTAG
1 AAGATTCACGAGGTTGATCTAATTAG
4942798 AAGATTCACGAGGTTGATCTAATTAG
1 AAGATTCACGAGGTTGATCTAATTAG
4942824 A
1 A
4942825 GAAACAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (26 bp):
AAGATTCACGAGGTTGATCTAATTAG
Found at i:4950257 original size:26 final size:26
Alignment explanation
Indices: 4950221--4950330 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
4950211 TGATACAAAT
4950221 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
4950247 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
4950273 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
4950299 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
4950325 TGATAA
1 TGATAA
4950331 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:4951989 original size:27 final size:27
Alignment explanation
Indices: 4951948--4952087 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
4951938 GAGGAAGCGT
* *
4951948 TCTGGTGGCTATGCCAGAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
4951975 TCTGGTGGCTCTGCCACAAATATCGGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
4952002 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
4952029 TCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
4952057 TCTTGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
4952083 TCTGG
1 TCTGG
4952088 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.04
27 80 0.82
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:4952033 original size:54 final size:55
Alignment explanation
Indices: 4951948--4952087 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
4951938 GAGGAAGCGT
* * * *
4951948 TCTGGTGGCTATGCCAGAAATATCTGATCTGGTGGCTCTGCCACAAATATC-GGA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGGA
* *
4952002 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGGA
* * *
4952057 TCTTGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
4952088 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGGA
Found at i:4966814 original size:2 final size:2
Alignment explanation
Indices: 4966807--4966856 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4966797 AGCATATAAA
*
4966807 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4966849 CT CT CT CT
1 CT CT CT CT
4966857 GGTATTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4972115 original size:58 final size:57
Alignment explanation
Indices: 4972046--4972189 Score: 202
Period size: 55 Copynumber: 2.5 Consensus size: 57
4972036 TTAATCAAAT
* *
4972046 TTGCATTCATAAATAAAGTTGTTTTTATTTATTTATTTATGTTTCATTGAATGTTTTG
1 TTGCATTCATAAATAAAGTTG-TTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* * *
4972104 TTGCATTCATAAATAAAGTTG-TGT-TTTCTTTACTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* *
4972159 TTACATTCATAAATAAAGTTATTTTATTTAT
1 TTGCATTCATAAATAAAGTTGTTTTATTTAT
4972190 GCTTTCATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 46 0.61
56 4 0.05
57 4 0.05
58 21 0.28
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (57 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
Found at i:4972160 original size:55 final size:52
Alignment explanation
Indices: 4972077--4972271 Score: 225
Period size: 55 Copynumber: 3.7 Consensus size: 52
4972067 TTTTTATTTA
* *
4972077 TTTATTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGTTGTGTTTT
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAG-TG-GTTTT
* * *
4972131 CTTTACTTATGCTTCATTGATTGTTTTGTTACATTCATAAATAAA---GTTAT
1 -TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4972181 TTTATTTATGCTTTCATTGATTGTTTTGTTGCATTTATAAATATAGTGGTGTT
1 TTTATTTATGC-TTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4972234 TTTAATTATGTTTCATTGTTTGTTTTTGTTGCATTCAT
1 TTTATTTATGCTTCATTGATTG-TTTTGTTGCATTCAT
4972272 TTTTTTCGGT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 10 0.08
50 34 0.28
52 10 0.08
53 26 0.22
55 40 0.33
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.56
Consensus pattern (52 bp):
TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
Found at i:4982630 original size:15 final size:15
Alignment explanation
Indices: 4982610--4982658 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
4982600 CGATGAATTT
4982610 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
4982625 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
4982639 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4982654 ATTGA
1 ATTGA
4982659 CTTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4983149 original size:21 final size:21
Alignment explanation
Indices: 4983049--4983165 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
4983039 AGACACTTTA
4983049 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
4983072 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
4983093 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
4983114 TGTGTCGTATCAGGCACCTAG
1 TGTGTCGTATCAGGCACCTCG
* * * **
4983135 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
4983156 TGTGTCGTAT
1 TGTGTCGTAT
4983166 ACTGATCAGG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
21 76 0.89
23 9 0.11
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:4985559 original size:26 final size:26
Alignment explanation
Indices: 4985525--4985576 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4985515 GTTTTACGCT
4985525 TAGTAAGCTCGCATGAAAATAATAAG
1 TAGTAAGCTCGCATGAAAATAATAAG
4985551 TAGTAAGCTCGCATGAAAATAATAAG
1 TAGTAAGCTCGCATGAAAATAATAAG
4985577 CAATTTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (26 bp):
TAGTAAGCTCGCATGAAAATAATAAG
Found at i:4986443 original size:21 final size:21
Alignment explanation
Indices: 4986419--4986483 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
4986409 AAGTCTAGCT
*
4986419 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
4986440 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
4986458 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
4986479 GAAGC
1 GAAGC
4986484 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:4986460 original size:39 final size:39
Alignment explanation
Indices: 4986401--4986501 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
4986391 ATCATAATCT
* * * *
4986401 GAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4986440 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4986479 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4986502 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:5000837 original size:22 final size:22
Alignment explanation
Indices: 5000800--5000852 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
5000790 ACTTAAAAAT
5000800 TAATTAAAC--TAAAAATCAA-C
1 TAATTAAACAATAAAAAT-AACC
5000820 TAATTAAACAATAAAAATAACC
1 TAATTAAACAATAAAAATAACC
*
5000842 TAATAAAACAA
1 TAATTAAACAA
5000853 GCAAAAGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 18 0.62
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (22 bp):
TAATTAAACAATAAAAATAACC
Found at i:5001063 original size:17 final size:17
Alignment explanation
Indices: 5001043--5001076 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5001033 TTATCTCTCG
5001043 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
5001060 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
5001077 TGACTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
ACCTCGTTTATCCTAAA
Found at i:5001958 original size:20 final size:18
Alignment explanation
Indices: 5001922--5001966 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
5001912 AACACAAAGC
5001922 AATAAAAAATGAAAACGA
1 AATAAAAAATGAAAACGA
*
5001940 AATAAAAACATGTAAAACGC
1 AATAAAAA-ATG-AAAACGA
5001960 AATAAAA
1 AATAAAA
5001967 CAAGCTCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 13 0.54
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (18 bp):
AATAAAAAATGAAAACGA
Found at i:5001966 original size:19 final size:18
Alignment explanation
Indices: 5001920--5001968 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
5001910 TAAACACAAA
*
5001920 GCAATAAAAAATGAAAAC
1 GCAATAAAACATGAAAAC
*
5001938 GAAATAAAAACATGTAAAAC
1 GCAAT-AAAACATG-AAAAC
5001958 GCAATAAAACA
1 GCAATAAAACA
5001969 AGCTCGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (18 bp):
GCAATAAAACATGAAAAC
Found at i:5009550 original size:30 final size:30
Alignment explanation
Indices: 5009516--5009576 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5009506 TCCTTAACTC
5009516 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
5009546 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
5009576 A
1 A
5009577 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:5010648 original size:16 final size:16
Alignment explanation
Indices: 5010627--5010658 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5010617 TCAATTAATC
*
5010627 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
5010643 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
5010659 AAATCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:5019403 original size:19 final size:19
Alignment explanation
Indices: 5019379--5019417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5019369 AATCTATATG
5019379 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
5019398 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
5019417 A
1 A
5019418 GGTTGCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTCAGCTAGATAGATTCA
Found at i:5019579 original size:26 final size:26
Alignment explanation
Indices: 5019543--5019596 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
5019533 ACAAGAAGTA
5019543 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
5019569 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
5019595 AA
1 AA
5019597 GCTACAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
AATTTGATCATTGCGTGTATTTTCAG
Found at i:5021822 original size:19 final size:18
Alignment explanation
Indices: 5021772--5021822 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
5021762 GATTATTTGA
*
5021772 TTTCTTGTTTTTCATTTAT
1 TTTCTT-TTTTTTATTTAT
5021791 TTTCTTTTCTTTTATTTAT
1 TTTCTTTT-TTTTATTTAT
5021810 TTTCTTATTTTTT
1 TTTCTT-TTTTTT
5021823 TAATATAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTTTTATTTAT
Found at i:5038551 original size:49 final size:49
Alignment explanation
Indices: 5038321--5038552 Score: 241
Period size: 49 Copynumber: 4.7 Consensus size: 49
5038311 CTGGTAAGCA
* * ** *
5038321 TAGTAGCCTGCACTTAATACTACACATGTAACCAATTATTTGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
5038370 TAGGAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
5038420 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCG-GTACACG
*
5038471 TACTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * *
5038520 TAGTAACCTGCACTTAGTACTTCACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
5038553 TCACAATAGA
Statistics
Matches: 148, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 67 0.45
50 46 0.31
51 35 0.24
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:5038829 original size:27 final size:27
Alignment explanation
Indices: 5038799--5038852 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5038789 TCATACAACC
* *
5038799 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
5038826 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
5038853 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:5052169 original size:5 final size:5
Alignment explanation
Indices: 5052159--5052184 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5052149 TTAAACTTTT
5052159 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
5052185 TATTTTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:5053344 original size:10 final size:10
Alignment explanation
Indices: 5053329--5053362 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
5053319 TGAGCGTTAT
5053329 AGAGAGAAAG
1 AGAGAGAAAG
5053339 AGAGAGAAAG
1 AGAGAGAAAG
5053349 AGAAAGAGAAAG
1 AG--AGAGAAAG
5053361 AG
1 AG
5053363 GCAGTGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AGAGAGAAAG
Found at i:5053350 original size:6 final size:6
Alignment explanation
Indices: 5053331--5053362 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
5053321 AGCGTTATAG
5053331 AGAGAA AGAG-- AGAGAA AGAGAA AGAGAA AGAG
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAG
5053363 GCAGTGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:5058483 original size:28 final size:28
Alignment explanation
Indices: 5058452--5058514 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
5058442 TCCCATATTA
5058452 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
5058480 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
5058508 ATGGGGT
1 ATGGGGT
5058515 TGATAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:5062799 original size:12 final size:12
Alignment explanation
Indices: 5062782--5062811 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5062772 TATATGTCTG
*
5062782 CGGCCACGCCCA
1 CGGCCACGACCA
5062794 CGGCCACGACCA
1 CGGCCACGACCA
5062806 CGGCCA
1 CGGCCA
5062812 TGCACACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.53, G:0.27, T:0.00
Consensus pattern (12 bp):
CGGCCACGACCA
Found at i:5063894 original size:28 final size:28
Alignment explanation
Indices: 5063863--5063925 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
5063853 TCCCATATTA
5063863 ATGGGGTATAGAAAAAGTCTCATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
* * * *
5063891 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
5063919 ATGGGGT
1 ATGGGGT
5063926 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGAAAAAGTCTCATAACTT
Found at i:5064089 original size:24 final size:25
Alignment explanation
Indices: 5064043--5064089 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
5064033 AAAAGAAATA
**
5064043 GAAAAACAAGGAAAAATGGCGAAAG
1 GAAAAACAAGGAAAAATAACGAAAG
*
5064068 GAAAAATAA-GAAAAATAACGAA
1 GAAAAACAAGGAAAAATAACGAA
5064090 GCTCGGAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.66, C:0.06, G:0.21, T:0.06
Consensus pattern (25 bp):
GAAAAACAAGGAAAAATAACGAAAG
Found at i:5067473 original size:21 final size:22
Alignment explanation
Indices: 5067433--5067479 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
5067423 CTCTGCTCAA
*
5067433 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
5067454 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5067476 ACTC
1 ACTC
5067480 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5078343 original size:2 final size:2
Alignment explanation
Indices: 5078336--5078368 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5078326 AGTTAACCTT
5078336 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5078369 TTCATTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5086227 original size:35 final size:35
Alignment explanation
Indices: 5086181--5086251 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
5086171 TGAACCTATG
5086181 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
1 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
5086216 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
1 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
5086251 A
1 A
5086252 ACTTTAGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (35 bp):
AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
Done.