Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009637.1 Hibiscus syriacus cultivar Beakdansim tig00117046_pilon, whole genome shotgun sequence
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: 867493
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:684187 original size:482 final size:482
Alignment explanation
Indices: 683259--684197 Score: 1718
Period size: 482 Copynumber: 1.9 Consensus size: 482
683249 TTTCCAAAAT
*
683259 AGTTAACAAAGCAACTTGAACATTTATAAGTACATGCCACTAAATAAGTCAGAATTACATCAAAG
1 AGTTAACAAAGCAACTAGAACATTTATAAGTACATGCCACTAAATAAGTCAGAATTACATCAAAG
683324 GATGTCTTACTGATATTGTATTATACTCCTCGATGCTTGATGTTGCTCAGTACTCCTTACTTCTA
66 GATGTCTTACTGATATTGTATTATACTCCTCGATGCTTGATGTTGCTCAGTACTCCTTACTTCTA
* *
683389 CTCCTGACGTTTACCTACGCGTGAAAATCATCACACGCTAAGTATATACTTAGTGAGGCAATCAA
131 CTCCTAACGTTTACCTACGCGTGAAAATCATCACACACTAAGTATATACTTAGTGAGGCAATCAA
683454 CAATAATAAACCGTGCAATACATCATTAATATACAACCATATGTCATAATCAATGTAGCATGATC
196 CAATAATAAACCGTGCAATACATCATTAATATACAACCATATGTCATAATCAATGTAGCATGATC
* *
683519 GCTTACTTGTATAACCATTTAATTACTATAGTAAACATGATAATGGTGCATTATAAAATATTTTC
261 ACTTACATGTATAACCATTTAATTACTATAGTAAACATGATAATGGTGCATTATAAAATATTTTC
* * * *
683584 AATAAACCATAGCATAATATGTAGACCTTTAGGACCCTAGGTACACGAGTCAATATAAATAAACA
326 AATAAACCATAGCACAATATATAGACCTTGAGGACCCTAGGTACACGAGCCAATATAAATAAACA
683649 CCGTAGTGCTAACCCGAGTATGAAACATAAGGTCGTGTCCACCATCTGCACTAGGTATACTTAAG
391 CCGTAGTGCTAACCCGAGTATGAAACATAAGGTCGTGTCCACCATCTGCACTAGGTATACTTAAG
683714 TATAGTGATTATGCATAGATTATCAGC
456 TATAGTGATTATGCATAGATTATCAGC
683741 AGTTAAACAAAGCAACTAGAACA-TTATAAGTACATGCCACTAAATAAGTCAGAATTACATCAAA
1 AGTT-AACAAAGCAACTAGAACATTTATAAGTACATGCCACTAAATAAGTCAGAATTACATCAAA
683805 GGATGTCTTACTGATATTGTATTATACTCCTCGATGCTTGATGTTGCTCAGTACTCCTTACTTCT
65 GGATGTCTTACTGATATTGTATTATACTCCTCGATGCTTGATGTTGCTCAGTACTCCTTACTTCT
*
683870 ACTTCTAACGTTTACCTACGCGTGAAAATCATCACACACTAAGTATATACTTAGTGAGGCAATCA
130 ACTCCTAACGTTTACCTACGCGTGAAAATCATCACACACTAAGTATATACTTAGTGAGGCAATCA
683935 ACAATAATAAACCGTGCAATACATCATTAATATACAACCATATGTCATAATCAATGTAGCATGAT
195 ACAATAATAAACCGTGCAATACATCATTAATATACAACCATATGTCATAATCAATGTAGCATGAT
684000 CACTTACATGTATAACCATTTAATTACTATAGTAAACATGATAATGGTGCATTATAAAATATTTT
260 CACTTACATGTATAACCATTTAATTACTATAGTAAACATGATAATGGTGCATTATAAAATATTTT
* *
684065 CAATAAATCATAGCCCAATATATAGACCTTGAGGACCCTAGGTACACGAGCCAATATAAATAAAC
325 CAATAAACCATAGCACAATATATAGACCTTGAGGACCCTAGGTACACGAGCCAATATAAATAAAC
* * * *
684130 ACTGTAGTGCTAACTCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATACTTAA
390 ACCGTAGTGCTAACCCGAGTATGAAACATAAGGTCGTGTCCACCATCTGCACTAGGTATACTTAA
684195 GTA
455 GTA
684198 CAGTCTCGAA
Statistics
Matches: 440, Mismatches: 16, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
482 423 0.96
483 17 0.04
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (482 bp):
AGTTAACAAAGCAACTAGAACATTTATAAGTACATGCCACTAAATAAGTCAGAATTACATCAAAG
GATGTCTTACTGATATTGTATTATACTCCTCGATGCTTGATGTTGCTCAGTACTCCTTACTTCTA
CTCCTAACGTTTACCTACGCGTGAAAATCATCACACACTAAGTATATACTTAGTGAGGCAATCAA
CAATAATAAACCGTGCAATACATCATTAATATACAACCATATGTCATAATCAATGTAGCATGATC
ACTTACATGTATAACCATTTAATTACTATAGTAAACATGATAATGGTGCATTATAAAATATTTTC
AATAAACCATAGCACAATATATAGACCTTGAGGACCCTAGGTACACGAGCCAATATAAATAAACA
CCGTAGTGCTAACCCGAGTATGAAACATAAGGTCGTGTCCACCATCTGCACTAGGTATACTTAAG
TATAGTGATTATGCATAGATTATCAGC
Found at i:684752 original size:452 final size:452
Alignment explanation
Indices: 683908--684808 Score: 1559
Period size: 452 Copynumber: 2.0 Consensus size: 452
683898 TCATCACACA
*
683908 CTAAGTATATACTTAGTGAGGCAATCAACAATAATAAACCGTGCAATACATCATTAATATACAAC
1 CTAAGTATATACTTAGTGAGGCAATCAACAATAATAAACAGTGCAATACATCATTAATATACAAC
*
683973 CATATGTCATAATCAATGTAGCATGATCACTTACATGTATAACCATTTAATTACTATAGTAAACA
66 CATATGTCATAATCAATGTAGCATGATCACTTACATGTATAACCATTTAATTACTACAGTAAACA
684038 TGATAATGGTGCATTATAAAATATTTTCAATAAATCATAGCCCAATATATAGACCTTGAGGACCC
131 TGATAATGGTGCATTATAAAATATTTTCAATAAATCATAGCCCAATATATAGACCTTGAGGACCC
* * *
684103 TAGGTACACGAGCCAATATAAATAAACACTGTAGTGCTAACTCGAGTATGACACATAAGGTCGTG
196 TAGGTACACGAGCCAATATAAATAAACACCGAAGTGCTAACCCGAGTATGACACATAAGGTCGTG
* *
684168 TCCACCATCTGTACTAGGTATACTTAAGTACAGTCTCGAATATGACACATAAGATTGTGCCCACT
261 TCCACCATCTGTACTAGGTATACTTAAGTACAGTCCCGAATATGACACATAAGATTATGCCCACT
* *
684233 ATATACACTAATTATACTTTAGTGTAATCCCGAATATGCAACTTGCTGCTGGACTCTATGGCATG
326 ATATACACTAATTATACTTTAGTGTAATCCCGAATATACAACCTGCTGCTGGACTCTATGGCATG
** *
684298 CCAACTATACCATGTCCCTCAATAATTCACTTGGGCTTATAGTCTATTCTTGATTCATCATG
391 CCAACTATACCATGTCCCTCAATAATTCACTTGGAATTATAATCTATTCTTGATTCATCATG
* * *
684360 CTAAGTATATACTTAGTGAGGTAATCAATAGTAATAAACAGTGCAATACATCATTAATATACAAC
1 CTAAGTATATACTTAGTGAGGCAATCAACAATAATAAACAGTGCAATACATCATTAATATACAAC
*
684425 CATATGTCATAATCAATGTAGCATGATCACTTACCTGTATAACCATTTAATTACTACAGTAAACA
66 CATATGTCATAATCAATGTAGCATGATCACTTACATGTATAACCATTTAATTACTACAGTAAACA
*
684490 TGATAATGGTGCATTATAAAATATTTTCAATAAATCATAGCCTAATATATAGACCTTGAGGACCC
131 TGATAATGGTGCATTATAAAATATTTTCAATAAATCATAGCCCAATATATAGACCTTGAGGACCC
* * *
684555 TAGGTACACGAGTCAATATAAATAAACACCGAAGTGCTAACCCTAGTATGACACATAAGGTGGTG
196 TAGGTACACGAGCCAATATAAATAAACACCGAAGTGCTAACCCGAGTATGACACATAAGGTCGTG
*
684620 TTCACCATCTGTACTAGGTATACTTAAGTACAGTCCCGAATATGACACATAAGATTATGCCCACT
261 TCCACCATCTGTACTAGGTATACTTAAGTACAGTCCCGAATATGACACATAAGATTATGCCCACT
* * * * *
684685 ATATACACTAATTATACTTTAGTGTAATGCCGAATATATAGCCTGTTGTTGGACTCTATGGCATG
326 ATATACACTAATTATACTTTAGTGTAATCCCGAATATACAACCTGCTGCTGGACTCTATGGCATG
*
684750 CCAACTATATCATGTCCCTCAATAATTCACTTGGAATTATAATCTATTCTTGATTCATC
391 CCAACTATACCATGTCCCTCAATAATTCACTTGGAATTATAATCTATTCTTGATTCATC
684809 CATAATAATG
Statistics
Matches: 422, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
452 422 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (452 bp):
CTAAGTATATACTTAGTGAGGCAATCAACAATAATAAACAGTGCAATACATCATTAATATACAAC
CATATGTCATAATCAATGTAGCATGATCACTTACATGTATAACCATTTAATTACTACAGTAAACA
TGATAATGGTGCATTATAAAATATTTTCAATAAATCATAGCCCAATATATAGACCTTGAGGACCC
TAGGTACACGAGCCAATATAAATAAACACCGAAGTGCTAACCCGAGTATGACACATAAGGTCGTG
TCCACCATCTGTACTAGGTATACTTAAGTACAGTCCCGAATATGACACATAAGATTATGCCCACT
ATATACACTAATTATACTTTAGTGTAATCCCGAATATACAACCTGCTGCTGGACTCTATGGCATG
CCAACTATACCATGTCCCTCAATAATTCACTTGGAATTATAATCTATTCTTGATTCATCATG
Found at i:686003 original size:31 final size:29
Alignment explanation
Indices: 685959--686045 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 29
685949 AAACAACACA
685959 TTTAGTA-TCTAAACTATCAATTTTGTTT-TGT
1 TTTAGTACT-TAAACT-TCAA-TTTGTTTCT-T
**
685990 TTTAGTACTTAAACTTTTATTTGTTTCTT
1 TTTAGTACTTAAACTTCAATTTGTTTCTT
**
686019 TTTAGTACTTAAACTTTTATTTGTTTC
1 TTTAGTACTTAAACTTCAATTTGTTTC
686046 AAAATCATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
29 35 0.67
30 3 0.06
31 13 0.25
32 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (29 bp):
TTTAGTACTTAAACTTCAATTTGTTTCTT
Found at i:686022 original size:29 final size:30
Alignment explanation
Indices: 685980--686045 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 30
685970 AACTATCAAT
685980 TTTGTTT-TGTTTTAGTACTTAAACTTTTA
1 TTTGTTTCTGTTTTAGTACTTAAACTTTTA
686009 TTTGTTTCT-TTTTAGTACTTAAACTTTTA
1 TTTGTTTCTGTTTTAGTACTTAAACTTTTA
686038 TTTGTTTC
1 TTTGTTTC
686046 AAAATCATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (30 bp):
TTTGTTTCTGTTTTAGTACTTAAACTTTTA
Found at i:688994 original size:14 final size:14
Alignment explanation
Indices: 688963--689038 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 14
688953 TTAATACAGA
688963 AAATTAAAAGG-CTGG
1 AAATT-AAAGGACT-G
688978 AAATTAAAGGACTG
1 AAATTAAAGGACTG
**
688992 AAA-TAAAATACTGG
1 AAATTAAAGGACT-G
689006 AAAATTAAAGGACTG
1 -AAATTAAAGGACTG
**
689021 AAA-TAAAATACTG
1 AAATTAAAGGACTG
689034 AAATT
1 AAATT
689039 TAAAATGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
13 18 0.36
14 14 0.28
15 11 0.22
16 7 0.14
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (14 bp):
AAATTAAAGGACTG
Found at i:689042 original size:15 final size:14
Alignment explanation
Indices: 688963--689051 Score: 65
Period size: 15 Copynumber: 6.2 Consensus size: 14
688953 TTAATACAGA
**
688963 AAATTAAAAGGCTGG
1 AAATTAAAATACT-G
**
688978 AAATTAAAGGACTG
1 AAATTAAAATACTG
688992 AAA-TAAAATACTGG
1 AAATTAAAATACT-G
**
689006 AAAATTAAAGGACTG
1 -AAATTAAAATACTG
689021 AAA-TAAAATACTG
1 AAATTAAAATACTG
*
689034 AAATTTAAAATGCTG
1 AAA-TTAAAATACTG
689049 AAA
1 AAA
689052 AAAAATCATA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
13 18 0.30
14 8 0.13
15 27 0.45
16 7 0.12
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (14 bp):
AAATTAAAATACTG
Found at i:689057 original size:28 final size:29
Alignment explanation
Indices: 688974--689042 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
688964 AATTAAAAGG
688974 CTGG-AAATTAAAGGACTGAAATAAAATA
1 CTGGAAAATTAAAGGACTGAAATAAAATA
689002 CTGGAAAATTAAAGGACTGAAATAAAATA
1 CTGGAAAATTAAAGGACTGAAATAAAATA
*
689031 CT-GAAATTTAAA
1 CTGGAAAATTAAA
689043 ATGCTGAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.54, C:0.07, G:0.16, T:0.23
Consensus pattern (29 bp):
CTGGAAAATTAAAGGACTGAAATAAAATA
Found at i:691345 original size:39 final size:38
Alignment explanation
Indices: 691289--691362 Score: 130
Period size: 39 Copynumber: 1.9 Consensus size: 38
691279 TTCCCTTACC
*
691289 ATATATATATACGTATATTCTTTTTTATATGCATATAT
1 ATATATATATACATATATTCTTTTTTATATGCATATAT
691327 ATATATTATATACATATATTCTTTTTTATATGCATA
1 ATATA-TATATACATATATTCTTTTTTATATGCATA
691363 AGTAAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (38 bp):
ATATATATATACATATATTCTTTTTTATATGCATATAT
Found at i:692042 original size:20 final size:20
Alignment explanation
Indices: 692017--692059 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
692007 ATTGTGTCAT
*
692017 CGTCAAATACGCCAGACCAC
1 CGTCAAATACACCAGACCAC
*
692037 CGTCAAATACACCAGATCAC
1 CGTCAAATACACCAGACCAC
692057 CGT
1 CGT
692060 GGAAAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.14, T:0.14
Consensus pattern (20 bp):
CGTCAAATACACCAGACCAC
Found at i:692211 original size:142 final size:143
Alignment explanation
Indices: 691943--692217 Score: 333
Period size: 142 Copynumber: 1.9 Consensus size: 143
691933 TTAACGCATC
* * * * **
691943 GAAAAAAGATCATTTATAAATACCTCTGATCATTGCCTATACGTATGTTAAAATTTAAGATTTGA
1 GAAAAAAGATCATTTATAAATACATCTGATCATTGCCTAAACGCATCTTAAAATCCAAGATTTGA
* * * * * * *
692008 TTGTGTCATCGTCAAATACGCCAGACCACCGTCAAATACACCAGATCACCGTGGAAAACTTTGAA
66 TTGTATCACCGTCAAATACACCAGACCACCATCAAACACACCAGATCACCGTGCAAAACTTTAAA
692073 TTTGGTTGTGTAT
131 TTTGGTTGTGTAT
* *
692086 GAAAAAAGATCATTTAT-AATACATCTGGTCATTGCCTAAAGGCATCTTAAAATCCAAGATTTGA
1 GAAAAAAGATCATTTATAAATACATCTGATCATTGCCTAAACGCATCTTAAAATCCAAGATTTGA
* * *
692150 TTGTATCACCGTCAAATACACCAGGCTACCATC-AAC-CACCTCGAATCACCGT-CAAACACTTT
66 TTGTATCACCGTCAAATACACCAGACCACCATCAAACACACC-AG-ATCACCGTGCAAA-ACTTT
692212 AAATTT
128 AAATTT
692218 AGCTGTACGA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
140 4 0.04
141 6 0.05
142 84 0.76
143 17 0.15
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (143 bp):
GAAAAAAGATCATTTATAAATACATCTGATCATTGCCTAAACGCATCTTAAAATCCAAGATTTGA
TTGTATCACCGTCAAATACACCAGACCACCATCAAACACACCAGATCACCGTGCAAAACTTTAAA
TTTGGTTGTGTAT
Found at i:699348 original size:18 final size:20
Alignment explanation
Indices: 699315--699357 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
699305 AATATTTTAC
*
699315 TTTAATAATTAAAATAA-TG
1 TTTAATAATAAAAATAAGTG
699334 TTTAATAA-AAAAATAAGTG
1 TTTAATAATAAAAATAAGTG
699353 TTTAA
1 TTTAA
699358 ATTATATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTAATAATAAAAATAAGTG
Found at i:703454 original size:82 final size:82
Alignment explanation
Indices: 703296--703467 Score: 229
Period size: 82 Copynumber: 2.1 Consensus size: 82
703286 CGCCACGACG
** ** * *
703296 TTTGTATAAAAAAACTGCTAAAGTACTACTCTGTTGCGGCGTTTGTTTAAAAAAGCCACTATGGA
1 TTTGTATAAAAAAACCACTAAAGTACTACTCTGTCACGGCGTTTGTTAAAAAAAGCCACTATGAA
*
703361 TGAACCCTATTGAGGCA
66 TGAACCCTATTGAGACA
* *
703378 TTTGTATAAAAACACCACTAAAGTACTACTCTGTCACGGTGTTTGTTGAAAAAAAGCCACTATGA
1 TTTGTATAAAAAAACCACTAAAGTACTACTCTGTCACGGCGTTTGTT-AAAAAAAGCCACTATGA
* *
703443 ATGAA-CTTATTGCGACA
65 ATGAACCCTATTGAGACA
703460 TTTGTATA
1 TTTGTATA
703468 GAATGAACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 58 0.74
83 20 0.26
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (82 bp):
TTTGTATAAAAAAACCACTAAAGTACTACTCTGTCACGGCGTTTGTTAAAAAAAGCCACTATGAA
TGAACCCTATTGAGACA
Found at i:703479 original size:27 final size:27
Alignment explanation
Indices: 703441--703494 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
703431 AAGCCACTAT
703441 GAATGAACTTATTGCGACATTTGTATA
1 GAATGAACTTATTGCGACATTTGTATA
*
703468 GAATGAACTTATTGCGGCATTTGTATA
1 GAATGAACTTATTGCGACATTTGTATA
703495 AAAACGCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
GAATGAACTTATTGCGACATTTGTATA
Found at i:705125 original size:40 final size:40
Alignment explanation
Indices: 705081--705258 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
705071 ATTTCAGACA
** * *
705081 AAGAGTATTTATACCTTCCAATAGTATGGATACCTTACCC
1 AAGAGTATCGATACTTTCCAAGAGTATGGATACCTTACCC
* * * *
705121 AAGAGTATCTATACTTTCCAAAAGAATGGATACTTTACCC
1 AAGAGTATCGATACTTTCCAAGAGTATGGATACCTTACCC
* * *
705161 AAGAGTATCGATACTTTCCAAGAGTATTGACACTTTACCC
1 AAGAGTATCGATACTTTCCAAGAGTATGGATACCTTACCC
*
705201 AAGAGTATCGATACTTTTCCCAAGAGTATGGATA-CTT-TCC
1 AAGAGTATCGATAC-TTT-CCAAGAGTATGGATACCTTACCC
705241 AAGAGTATCGATACTTTC
1 AAGAGTATCGATACTTTC
705259 AGCAACAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 100 0.82
41 5 0.04
42 13 0.11
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (40 bp):
AAGAGTATCGATACTTTCCAAGAGTATGGATACCTTACCC
Found at i:705127 original size:21 final size:20
Alignment explanation
Indices: 705081--705254 Score: 131
Period size: 19 Copynumber: 8.7 Consensus size: 20
705071 ATTTCAGACA
**
705081 AAGAGTATTTATACCTT-CC
1 AAGAGTATCGATACCTTCCC
* *
705100 AATAGTATGGATACCTTACCC
1 AAGAGTATCGATACCTT-CCC
* *
705121 AAGAGTATCTATA-CTTTCC
1 AAGAGTATCGATACCTTCCC
* * * *
705140 AAAAGAATGGATACTTTACCC
1 AAGAGTATCGATACCTT-CCC
*
705161 AAGAGTATCGATA-CTTTCC
1 AAGAGTATCGATACCTTCCC
* * *
705180 AAGAGTATTGACACTTTACCC
1 AAGAGTATCGATACCTT-CCC
*
705201 AAGAGTATCGATACTTTTCCC
1 AAGAGTATCGATAC-CTTCCC
* *
705222 AAGAGTATGGATA-CTTTCC
1 AAGAGTATCGATACCTTCCC
705241 AAGAGTATCGATAC
1 AAGAGTATCGATAC
705255 TTTCAGCAAC
Statistics
Matches: 119, Mismatches: 28, Indels: 15
0.73 0.17 0.09
Matches are distributed among these distances:
19 54 0.45
20 9 0.08
21 53 0.45
22 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGAGTATCGATACCTTCCC
Found at i:714695 original size:12 final size:12
Alignment explanation
Indices: 714678--714707 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
714668 TTTGTTGTGC
714678 TTGCTCCTCGGG
1 TTGCTCCTCGGG
714690 TTGCTCCTCGGG
1 TTGCTCCTCGGG
*
714702 CTGCTC
1 TTGCTC
714708 AGGCTCACCT
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:0.00, C:0.37, G:0.30, T:0.33
Consensus pattern (12 bp):
TTGCTCCTCGGG
Found at i:720066 original size:14 final size:13
Alignment explanation
Indices: 720047--720077 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
720037 CAATTTTCTT
720047 TTGATGATCATCAA
1 TTGATGATCATC-A
720061 TTGATGATCATCA
1 TTGATGATCATCA
720074 TTGA
1 TTGA
720078 CCTTTGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
TTGATGATCATCA
Found at i:720236 original size:22 final size:21
Alignment explanation
Indices: 720194--720233 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
720184 GAGTTTATTT
*
720194 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
720215 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
720234 ACAATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:733588 original size:3 final size:3
Alignment explanation
Indices: 733576--733725 Score: 282
Period size: 3 Copynumber: 49.7 Consensus size: 3
733566 TAAATATAAT
*
733576 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
733624 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
733672 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC -AAC
733721 AAC AA
1 AAC AA
733726 TAATAATAAT
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
3 141 0.98
4 3 0.02
ACGTcount: A:0.67, C:0.32, G:0.00, T:0.01
Consensus pattern (3 bp):
AAC
Found at i:733730 original size:3 final size:3
Alignment explanation
Indices: 733724--733759 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
733714 AACAAACAAC
733724 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
733760 GACATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:734134 original size:130 final size:131
Alignment explanation
Indices: 733949--734293 Score: 399
Period size: 130 Copynumber: 2.6 Consensus size: 131
733939 GAGATTTTTG
* * * * * * * *
733949 AAGATCAAATATGAAAAAAG-GATATGCTCCGCTGC-TCTTCAGGGCATATCGGATCTGGAAACT
1 AAGATCAAATCTGAAAAAAGAGATCTGCTCCACTGCAT-TCCAAGGTAAATCAGATCTGGAAACT
* * *
734012 TTGATTTAGTTCACTGTTCTTAAGGGAAGATTGAATCGAGGTTGATTTGCTTCACTACTATTCAG
65 TTGATTCACTTCACTGTTCTTAAGGGAAGATTAAATCGAGGTTGATTTGCTTCACTACTATTCAG
734077 GA
130 GA
** * ** ** *
734079 AAGATTGAATCTGAAAAAA-AGATTTGCTCCGTTGTGTTCCAAGGTAAATCAGATCTGGAGACTT
1 AAGATCAAATCTGAAAAAAGAGATCTGCTCCACTGCATTCCAAGGTAAATCAGATCTGGAAACTT
* * * * *
734143 TGATTCACTTCATTGCTCTTTAGGGAAGATTAAATCGGGGTTGATTTGCTTCACTACTCTTCAGG
66 TGATTCACTTCACTGTTCTTAAGGGAAGATTAAATCGAGGTTGATTTGCTTCACTACTATTCAGG
*
734208 G
131 A
* * * *
734209 AAGATCAAATCTGAAAAAAGAGATCTGCTCCACTGCATTCCATGGTAGATCAAATCTGGAAAATT
1 AAGATCAAATCTGAAAAAAGAGATCTGCTCCACTGCATTCCAAGGTAAATCAGATCTGGAAACTT
734274 TGATTCACTTCACTGTTCTT
66 TGATTCACTTCACTGTTCTT
734294 CAGAGAAAAT
Statistics
Matches: 177, Mismatches: 35, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
130 123 0.69
131 54 0.31
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (131 bp):
AAGATCAAATCTGAAAAAAGAGATCTGCTCCACTGCATTCCAAGGTAAATCAGATCTGGAAACTT
TGATTCACTTCACTGTTCTTAAGGGAAGATTAAATCGAGGTTGATTTGCTTCACTACTATTCAGG
A
Found at i:734285 original size:90 final size:90
Alignment explanation
Indices: 734191--734390 Score: 242
Period size: 90 Copynumber: 2.2 Consensus size: 90
734181 GGTTGATTTG
* * * * *
734191 CTTCACTACTCTTCAGGGAAGATCAAATCTG-AAAAAAGAGATCTGCTCCACTGCATTCCATGGT
1 CTTCACTACTCTTCAGAGAAAATCAAATCTGAAAAAAAG-GATATGCTCCACTACATTCCAGGGT
734255 AGATCAAATCTGGAAAATTTGATTCA
65 AGATCAAATCTGGAAAATTTGATTCA
** * ** * **
734281 CTTCACTGTTCTTCAGAGAAAATCAAATCTGAAAAAAAGGATATGTTCTGCTACTTTTTAGGGTA
1 CTTCACTACTCTTCAGAGAAAATCAAATCTGAAAAAAAGGATATGCTCCACTACATTCCAGGGTA
* *
734346 GATCAGATCTGGAAAGTTTGATTCA
66 GATCAAATCTGGAAAATTTGATTCA
734371 CTTCACTACTCTTCA-AGAAA
1 CTTCACTACTCTTCAGAGAAA
734391 GTAAGAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
89 5 0.05
90 80 0.87
91 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (90 bp):
CTTCACTACTCTTCAGAGAAAATCAAATCTGAAAAAAAGGATATGCTCCACTACATTCCAGGGTA
GATCAAATCTGGAAAATTTGATTCA
Found at i:734477 original size:133 final size:132
Alignment explanation
Indices: 734281--734958 Score: 626
Period size: 133 Copynumber: 5.2 Consensus size: 132
734271 ATTTGATTCA
* * * * * * *
734281 CTTCACTGTTCTTCAGAGAAAATCAAATCTGAAAAAAAGGATATGTTCTGCTACTTTTTAGGGTA
1 CTTCACTGCTCTTCAGAGAAGATCAAATATGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTA
* * * * * ** *
734346 GATCAGATCTGGAAAGTTTGATTCACTTCACTACTCTTCAAGAAAGTA-AGAATTTAGGTTGATT
66 GATCAGATCTAGAAAGATTGATTCAATTCACTACTCTTCAGGAAAGTATTGAATCGAGGTAGATT
734410 TG
131 TG
* * **
734412 CTTCACTACTCTTCAGGGAAGATTGAAT-TGGGAAGAAAAGGGATATGCTCTGCTACTCTTCAGG
1 CTTCACTGCTCTTCAGAGAAGATCAAATAT--GAA-AAAAGGGATATGCTCTGCTACTCTTCAGG
* * * * * **
734476 GTAGATCAGATCTAAAAACATTGATTCAATTAACTTCTCTTCAGGGAAG-ATTGAATATAGGTAG
63 GTAGATCAGATCTAGAAAGATTGATTCAATTCACTACTCTTCAGGAAAGTATTGAATCGAGGTAG
734540 ATTTG
128 ATTTG
* * * * * * *
734545 CTTCACTGCTCTTGAGAGATGATCAAA-ACTGAAAAAAGGGGATCTTCTTTGTTGCTCTTCAGGG
1 CTTCACTGCTCTTCAGAGAAGATCAAATA-TGAAAAAA-GGGATATGCTCTGCTACTCTTCAGGG
* * *
734609 TAGATAAGATCTAG-AAGCATTGATTCAATTCACTGCTCTTTAGGAAA-TATTGAATCGAGGT--
64 TAGATCAGATCTAGAAAG-ATTGATTCAATTCACTACTCTTCAGGAAAGTATTGAATCGAGGTAG
734670 A---G
128 ATTTG
* * *
734672 ------TGCTCTTCAGGGAAGATCAAATATGAAAAAA-GGATATGCTTTTCTACTCTTCAGGGTA
1 CTTCACTGCTCTTCAGAGAAGATCAAATATGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTA
*
734730 GATCAGATCTAGAATG-TTGATTCAATTCACTACTCTTCAGGGAAA--ATTGAATCGAGGTAGAT
66 GATCAGATCTAGAAAGATTGATTCAATTCACTACTCTTCA-GGAAAGTATTGAATCGAGGTAGAT
*
734792 TTA
130 TTG
* * * * *
734795 CTTCACTGTTCTTCAGAGAAGATCAAATATGGAAAAAAAGGGATTTGCTATGCTGCTCTTAAGGG
1 CTTCACTGCTCTTCAGAGAAGATCAAATAT-G-AAAAAAGGGATATGCTCTGCTACTCTTCAGGG
* * ** * *
734860 TAGGTCAGATTTAGAAACTTTGATTCACTTCACTACTCTTCAGGGAAG-ATTGAATCGAGGTAGA
64 TAGATCAGATCTAGAAAGATTGATTCAATTCACTACTCTTCAGGAAAGTATTGAATCGAGGTAGA
*
734924 TTTT
129 TTTG
* *
734928 CTTCATTGCACTTCAGAGAAGATCAAATATG
1 CTTCACTGCTCTTCAGAGAAGATCAAATATG
734959 TAGACCAAAA
Statistics
Matches: 447, Mismatches: 72, Indels: 55
0.78 0.13 0.10
Matches are distributed among these distances:
118 34 0.08
119 38 0.09
120 3 0.01
121 26 0.06
122 1 0.00
127 1 0.00
129 22 0.05
130 3 0.01
131 34 0.08
132 115 0.26
133 169 0.38
134 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (132 bp):
CTTCACTGCTCTTCAGAGAAGATCAAATATGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTA
GATCAGATCTAGAAAGATTGATTCAATTCACTACTCTTCAGGAAAGTATTGAATCGAGGTAGATT
TG
Found at i:734914 original size:251 final size:253
Alignment explanation
Indices: 734420--734922 Score: 649
Period size: 251 Copynumber: 2.0 Consensus size: 253
734410 TGCTTCACTA
**
734420 CTCTTCAGGGAAGATTGAATTGGGAAGAAAAGGGATATGCTCTGCTACTCTTCAGGGTAGATCAG
1 CTCTTCAGGGAAGATCAAATT-GGAAGAAAAGGGATATGCTCTGCTACTCTTCAGGGTAGATCAG
* * * *
734485 ATCTAAAAACATTGATTCAATTAACTTCTCTTCAGGGAAGATTGAATATAGGTAGATTTGCTTCA
65 ATCTAAAAACATTGATTCAATTAACTACTCTTCAGGGAAAATTGAATAGAGGTAGATTTACTTCA
* * * * * *
734550 CTGCTCTTGAGAGATGATCAAAACTGAAAAAAGGGGATCTTCTTTGTTGCTCTTCAGGGTAGATA
130 CTGCTCTTCAGAGAAGATCAAAACTGAAAAAAAGGGATCTTCTATGCTGCTCTTAAGGGTAGATA
* * * *
734615 AGATCTAGAAGCATTGATTCAATTCACTGCTCTTTAGGAAATATTGAATCGAGGTAGTG
195 AGATCTAGAAACATTGATTCAATTCACTACTCTTCAGGAAAGATTGAATCGAGGTAGTG
* *
734674 CTCTTCAGGGAAGATCAAATAT-GAA-AAAA-GGATATGCTTTTCTACTCTTCAGGGTAGATCAG
1 CTCTTCAGGGAAGATCAAAT-TGGAAGAAAAGGGATATGCTCTGCTACTCTTCAGGGTAGATCAG
* ** * *
734736 ATCT-AGAATGTTGATTCAATTCACTACTCTTCAGGGAAAATTGAATCGAGGTAGATTTACTTCA
65 ATCTAAAAACATTGATTCAATTAACTACTCTTCAGGGAAAATTGAATAGAGGTAGATTTACTTCA
*
734800 CTGTTCTTCAGAGAAGATCAAATA-TGGAAAAAAAGGGAT-TTGCTATGCTGCTCTTAAGGGTAG
130 CTGCTCTTCAGAGAAGATCAAA-ACT-GAAAAAAAGGGATCTT-CTATGCTGCTCTTAAGGGTAG
* * * * * *
734863 GTCAGATTTAGAAACTTTGATTCACTTCACTACTCTTCAGGGAAGATTGAATCGAGGTAG
192 ATAAGATCTAGAAACATTGATTCAATTCACTACTCTTCAGGAAAGATTGAATCGAGGTAG
734923 ATTTTCTTCA
Statistics
Matches: 215, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
250 73 0.34
251 116 0.54
252 4 0.02
253 3 0.01
254 18 0.08
255 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (253 bp):
CTCTTCAGGGAAGATCAAATTGGAAGAAAAGGGATATGCTCTGCTACTCTTCAGGGTAGATCAGA
TCTAAAAACATTGATTCAATTAACTACTCTTCAGGGAAAATTGAATAGAGGTAGATTTACTTCAC
TGCTCTTCAGAGAAGATCAAAACTGAAAAAAAGGGATCTTCTATGCTGCTCTTAAGGGTAGATAA
GATCTAGAAACATTGATTCAATTCACTACTCTTCAGGAAAGATTGAATCGAGGTAGTG
Found at i:735213 original size:20 final size:20
Alignment explanation
Indices: 735190--735245 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
735180 AAATCCCATG
**
735190 CCTGGTTTTGAAATGCACTA
1 CCTGGTTTTGAAACCCACTA
*
735210 CCTGGTTTTGAAACCCTCTA
1 CCTGGTTTTGAAACCCACTA
*
735230 CCTAGTTTTGAAACCC
1 CCTGGTTTTGAAACCC
735246 CTTAACTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (20 bp):
CCTGGTTTTGAAACCCACTA
Found at i:735257 original size:20 final size:20
Alignment explanation
Indices: 735191--735257 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
735181 AATCCCATGC
** * *
735191 CTGGTTTTGAAATGCACTAC
1 CTGGTTTTGAAACCCTCTAA
*
735211 CTGGTTTTGAAACCCTCTAC
1 CTGGTTTTGAAACCCTCTAA
*
735231 CTAGTTTTGAAACCC-CTTAA
1 CTGGTTTTGAAACCCTC-TAA
735251 CTGGTTT
1 CTGGTTT
735258 CTAACTATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (20 bp):
CTGGTTTTGAAACCCTCTAA
Found at i:738027 original size:22 final size:22
Alignment explanation
Indices: 737999--738048 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
737989 ATTTGAATTT
*
737999 AAAAAAAATTAGAAAAAATACA
1 AAAAAAAATCAGAAAAAATACA
**
738021 AAAAAAAATCAGAAAATTTACA
1 AAAAAAAATCAGAAAAAATACA
738043 AAAAAA
1 AAAAAA
738049 TTAGTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAAAATCAGAAAAAATACA
Found at i:738136 original size:18 final size:19
Alignment explanation
Indices: 738107--738156 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
738097 AATTTACTTG
* *
738107 AATTTAAAAAAATAATAAA
1 AATTAAAAAAAATAAGAAA
* *
738126 AA-TACAAAAAATCAGAAA
1 AATTAAAAAAAATAAGAAA
738144 AATTAAAAAAAAT
1 AATTAAAAAAAAT
738157 TAGTATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AATTAAAAAAAATAAGAAA
Found at i:745439 original size:195 final size:195
Alignment explanation
Indices: 745102--745495 Score: 653
Period size: 195 Copynumber: 2.0 Consensus size: 195
745092 AATAGACAAG
*
745102 AATTTTATTATAATCAACAGTAAAATATAAAAAGATTATATGAGAGTACATTAAACTTAATAACC
1 AATTTTATTATAATCAACAGTAAAATATAAAAAGATTATATGAGAGTACATTAAACTCAATAACC
* *
745167 ATACATATATATATATAGTTGTGAAGATATAGTAATTTCAGTTGAATCAACAAGGGAATCGCACC
66 ATACATATATATATATAGTTGTGAAGATATAGTAATTTCAGTTGAATCAACAAGCGAATCACACC
* * *
745232 GTAAATTTTGAGTTAGAACCAAGAGAATTTGGATCACAAAATCTAACTATTTTTAAATTGACATA
131 GTAAAATTTGAGTTAGAACAAAGAGAATTTGGATCACAAAATCTAACTATTTTTAAATTGACACA
* *
745297 AATTTTATTATAATCAACAGTAAATTATAAAAAGATTATATGAGAGTATATTAAACTCAATAACC
1 AATTTTATTATAATCAACAGTAAAATATAAAAAGATTATATGAGAGTACATTAAACTCAATAACC
* * * * *
745362 ATATATATGTATATATAGTTGTGCAGTTATAGTAATTTCAGTTGAATCATCAAGCGAATCACACC
66 ATACATATATATATATAGTTGTGAAGATATAGTAATTTCAGTTGAATCAACAAGCGAATCACACC
* *
745427 GTAAAATTTGAGTTAGATCAAAGAGAATTTGTATCACAAAATCTAACTATTTTTAAATTGACACA
131 GTAAAATTTGAGTTAGAACAAAGAGAATTTGGATCACAAAATCTAACTATTTTTAAATTGACACA
745492 AATT
1 AATT
745496 CTAGTAGTGT
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
195 184 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (195 bp):
AATTTTATTATAATCAACAGTAAAATATAAAAAGATTATATGAGAGTACATTAAACTCAATAACC
ATACATATATATATATAGTTGTGAAGATATAGTAATTTCAGTTGAATCAACAAGCGAATCACACC
GTAAAATTTGAGTTAGAACAAAGAGAATTTGGATCACAAAATCTAACTATTTTTAAATTGACACA
Found at i:745911 original size:2 final size:2
Alignment explanation
Indices: 745904--745930 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
745894 CTCTAAATAC
745904 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
745931 CATAGGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:751308 original size:27 final size:27
Alignment explanation
Indices: 751278--751333 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
751268 GCATTTAAAA
751278 TAACCATTCATTGATTACAAATATTTC
1 TAACCATTCATTGATTACAAATATTTC
751305 TAACCATTCATTGATTACAAATATTTC
1 TAACCATTCATTGATTACAAATATTTC
751332 TA
1 TA
751334 CTCATAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.41
Consensus pattern (27 bp):
TAACCATTCATTGATTACAAATATTTC
Found at i:759001 original size:182 final size:182
Alignment explanation
Indices: 758693--759733 Score: 1280
Period size: 182 Copynumber: 5.6 Consensus size: 182
758683 TACACGTATT
*
758693 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCAAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCGAGACCG
*
758758 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
758823 TTATAGGCAGTATTAATGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTATAGGCAGTATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
758875 TATTAAAGTATCGACACTTTCAACATATCCGGAAGCGTTTTACCCATTTTTTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCGAGACCG
* * *
758940 ATATTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAATTATCGACATT
66 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* * * *
759005 TTATAGACAGTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCAATATTTA
131 TTATAGGCAGTATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
759057 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCGAGACTG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCGAGACCG
759122 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT-TAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
759186 TTATAGG-TGCTA-TAACTGCTTCTCTTTTAAATTCCAAAAGT-TCGATTCTTA
131 TTATAGGCAG-TATTAA-TGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * **
759237 TATTAAAATATCGACACTTTCAACATATCCGATAGC-TCTTT-TTCGATTTTGTCATTTCGAGAC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGT-TTTACCCG-TTTTGTCATTTCGAGAC
* * * *
759300 CGGTTTTGTCATA-TTTTACATGTTATATTGTTATGGAACGATACATTTTTTTAAAGTATCGACA
64 CGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACA
* *
759364 CTTTATAGGCACTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 CTTTATAGGCAGTATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
759418 TATTAAAGTATC-ACCACTTTCAACATATCCGGTAGC-TCTTTACCGGTTTTGTCATTTCGAGAC
1 TATTAAAGTATCGA-CACTTTCAACATATCCGGTAGCGT-TTTACCCGTTTTGTCATTTCGAGAC
** * *
759481 CGATTTTGTCATTTCGAGACCTGTTTTGTTATATTTTTACCTATTACATTGTTATGGATCGATAC
64 CGATTTTGTCA--T----A-----TTT-TTA-CCTGTTA--TATT---GT--TATGGATCGATAC
* * * * *
759546 ATTTTTTTAAAGTATCGACATTTTATAGG-TGCTATTACTGCTTCTCTTTTAAATTACAAAAGTG
109 ATTTTTATAAAGTATCGACACTTTATAGGCAG-TATTAATGCTTCTCTTTTAAATTCCAAAAGTG
759610 TCGATACTTA
173 TCGATACTTA
** * * * * * * *
759620 T-TTCAATCTAATCGATACTTTCAACATATCTGGTACCGCTTTA-CGGTTTTGTCATAAT-GAAA
1 TATT-AAAGT-ATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCAT-TTCGAGA
* * * *
759682 CCGATTTTGTCAAATTTTAACCTATTATATTGCTATGGATCGATACATTTTT
63 CCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
759734 TATTTGTATC
Statistics
Matches: 753, Mismatches: 69, Indels: 74
0.84 0.08 0.08
Matches are distributed among these distances:
179 38 0.05
180 125 0.17
181 121 0.16
182 298 0.40
183 1 0.00
187 5 0.01
189 4 0.01
190 2 0.00
191 3 0.00
193 2 0.00
194 3 0.00
195 4 0.01
196 1 0.00
197 4 0.01
200 1 0.00
201 2 0.00
202 111 0.15
203 27 0.04
204 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCCGTTTTGTCATTTCGAGACCG
ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCAGTATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:759487 original size:20 final size:20
Alignment explanation
Indices: 759459--759501 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
759449 GTAGCTCTTT
*
759459 ACCGGTTTTGTCATTTCGAG
1 ACCGATTTTGTCATTTCGAG
759479 ACCGATTTTGTCATTTCGAG
1 ACCGATTTTGTCATTTCGAG
759499 ACC
1 ACC
759502 TGTTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ACCGATTTTGTCATTTCGAG
Found at i:759507 original size:20 final size:19
Alignment explanation
Indices: 759463--759509 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
759453 CTCTTTACCG
759463 GTTTTGTCATTTCGAGACC
1 GTTTTGTCATTTCGAGACC
759482 GATTTTGTCATTTCGAGACC
1 G-TTTTGTCATTTCGAGACC
759502 TGTTTTGT
1 -GTTTTGT
759510 TATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (19 bp):
GTTTTGTCATTTCGAGACC
Found at i:759669 original size:202 final size:201
Alignment explanation
Indices: 759280--759693 Score: 584
Period size: 202 Copynumber: 2.1 Consensus size: 201
759270 AGCTCTTTTT
* *
759280 CGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTACATGTTATATTGTTATGGAACGATACA
1 CGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTACATATTACATTGTTATGGAACGATACA
* *
759345 TTTTTTTAAAGTATCGACACTTTATAGGCACTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTC
66 TTTTTTTAAAGTATCGACACTTTATAGGCACTATTACTGCTTCTCTTTTAAATTACAAAAGTGTC
* * * *
759410 GATACTTATATTAAAGTATCACCACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT-T
131 GATACTTATATTAAACTATCACCACTTTCAACATATCCGGTACCGCTTTACCGGTTTTGTCATAA
*
759474 TCGAGAC
196 T-GAAAC
* * * *
759481 CGATTTTGTCATTTCGAGACCTGTTTTGTTATATTTTTACCTATTACATTGTTATGGATCGATAC
1 CGATTTTGTCATTTCGAGACCGGTTTTGTCATA-TTTTACATATTACATTGTTATGGAACGATAC
* **
759546 ATTTTTTTAAAGTATCGACATTTTATAGGTGCTATTACTGCTTCTCTTTTAAATTACAAAAGTGT
65 ATTTTTTTAAAGTATCGACACTTTATAGGCACTATTACTGCTTCTCTTTTAAATTACAAAAGTGT
* * *
759611 CGATACTTAT-TTCAATCTAATCGA-TACTTTCAACATATCTGGTACCGCTTTA-CGGTTTTGTC
130 CGATACTTATATT-AAACT-ATC-ACCACTTTCAACATATCCGGTACCGCTTTACCGGTTTTGTC
759673 ATAATGAAAC
192 ATAATGAAAC
759683 CGATTTTGTCA
1 CGATTTTGTCA
759694 AATTTTAACC
Statistics
Matches: 189, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
201 33 0.17
202 127 0.67
203 28 0.15
204 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (201 bp):
CGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTACATATTACATTGTTATGGAACGATACA
TTTTTTTAAAGTATCGACACTTTATAGGCACTATTACTGCTTCTCTTTTAAATTACAAAAGTGTC
GATACTTATATTAAACTATCACCACTTTCAACATATCCGGTACCGCTTTACCGGTTTTGTCATAA
TGAAAC
Found at i:764970 original size:21 final size:21
Alignment explanation
Indices: 764944--764990 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
764934 ATCAGTTGGT
764944 GTTACCTCCAGAGATGGATAA
1 GTTACCTCCAGAGATGGATAA
764965 GTTACCTCCAGAGATGGATAA
1 GTTACCTCCAGAGATGGATAA
764986 GTTAC
1 GTTAC
764991 ATAATGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
GTTACCTCCAGAGATGGATAA
Found at i:766855 original size:17 final size:17
Alignment explanation
Indices: 766810--766848 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
766800 AATAGAAATA
766810 TGATTTAGTTTTATATC
1 TGATTTAGTTTTATATC
766827 TGATTTAGTTTTATATC
1 TGATTTAGTTTTATATC
766844 -GATTT
1 TGATTT
766849 TTATTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (17 bp):
TGATTTAGTTTTATATC
Found at i:769632 original size:20 final size:20
Alignment explanation
Indices: 769575--769633 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
769565 ATATATACTT
* *
769575 ATATACTT-TAGTTTTTATA
1 ATATACTTATACTTTATATA
*
769594 ATTATACTTTATAC-ATATATA
1 A-TATAC-TTATACTTTATATA
769615 ATATACTTATACTTTATAT
1 ATATACTTATACTTTATAT
769634 TATTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 7 0.22
20 15 0.47
21 8 0.25
22 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATACTTATACTTTATATA
Found at i:770000 original size:2 final size:2
Alignment explanation
Indices: 769914--769992 Score: 74
Period size: 2 Copynumber: 40.0 Consensus size: 2
769904 TAAGTGTGTG
* * *
769914 TA TA TA TA TA TA CT- TA TA TG TA TA TA TT TT TA TA T- TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
769954 TA TA TA CTT TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
769993 ACTATATACT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
1 3 0.05
2 59 0.92
3 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:770078 original size:20 final size:20
Alignment explanation
Indices: 770046--770086 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
770036 TATAATGTAC
770046 ATTATATATACATGCATCAT
1 ATTATATATACATGCATCAT
*
770066 ATTATCATA-ACATTCATCAT
1 ATTAT-ATATACATGCATCAT
770086 A
1 A
770087 CACACACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTATATATACATGCATCAT
Found at i:770506 original size:20 final size:20
Alignment explanation
Indices: 770481--770532 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
770471 TTTGGTACTT
770481 TATATATATAAACTACAAAG
1 TATATATATAAACTACAAAG
* *
770501 TATATATA-AAAGTATAAAG
1 TATATATATAAACTACAAAG
770520 TATATAATATAAA
1 TATAT-ATATAAA
770533 GTAATAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 11 0.39
21 3 0.11
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TATATATATAAACTACAAAG
Found at i:770521 original size:19 final size:20
Alignment explanation
Indices: 770481--770580 Score: 87
Period size: 22 Copynumber: 4.8 Consensus size: 20
770471 TTTGGTACTT
* *
770481 TATATATATAAACTACAAAG
1 TATATATATAAAGTATAAAG
770501 TATATATA-AAAGTATAAAG
1 TATATATATAAAGTATAAAG
770520 TATATAATATAAAGTAATAAAG
1 TATAT-ATATAAAGT-ATAAAG
* *
770542 TGTTTGGATAT-AAGTATTAAAG
1 TATAT--ATATAAAGTA-TAAAG
*
770564 TATATAAATATAAGTAT
1 TATATATATA-AAGTAT
770581 TAAATATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
19 14 0.22
20 14 0.22
21 7 0.11
22 26 0.40
23 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (20 bp):
TATATATATAAAGTATAAAG
Found at i:770529 original size:22 final size:23
Alignment explanation
Indices: 770504--770595 Score: 79
Period size: 22 Copynumber: 4.2 Consensus size: 23
770494 TACAAAGTAT
770504 ATATAAAAGTA-TAAAGTATATA
1 ATATAAAAGTATTAAAGTATATA
* * * *
770526 ATAT-AAAGTAATAAAGTGTTTGG
1 ATATAAAAGTATTAAAGTATAT-A
770549 ATAT--AAGTATTAAAGTATATA
1 ATATAAAAGTATTAAAGTATATA
* *
770570 A-ATATAAGTATTAAA-TATAAA
1 ATATAAAAGTATTAAAGTATATA
770591 ATATA
1 ATATA
770596 TAATTACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 38 0.67
23 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (23 bp):
ATATAAAAGTATTAAAGTATATA
Found at i:770532 original size:14 final size:14
Alignment explanation
Indices: 770513--770632 Score: 51
Period size: 14 Copynumber: 8.7 Consensus size: 14
770503 TATATAAAAG
770513 TATAAAGTATATAA
1 TATAAAGTATATAA
770527 TATAAAGTA-ATAA
1 TATAAAGTATATAA
*** *
770540 -AGTGTTTGGATATAA
1 TA-T-AAAGTATATAA
770555 GTATTAAAGTATATAA
1 -TA-TAAAGTATATAA
770571 -ATATAAGTAT-TAAA
1 TATA-AAGTATAT-AA
*
770585 TATAAAATATATAA
1 TATAAAGTATATAA
*
770599 T-TACA-TA-AGT-A
1 TATAAAGTATA-TAA
*
770610 -CTAAAGTATATAA
1 TATAAAGTATATAA
770623 TATAAAGTAT
1 TATAAAGTAT
770633 TAAAGTAGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 30
0.64 0.11 0.25
Matches are distributed among these distances:
11 5 0.06
12 7 0.09
13 13 0.17
14 36 0.46
15 8 0.10
16 7 0.09
17 2 0.03
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.36
Consensus pattern (14 bp):
TATAAAGTATATAA
Found at i:770636 original size:22 final size:21
Alignment explanation
Indices: 770603--770664 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
770593 ATATAATTAC
* *
770603 ATAAGTACTAAAGTAT-ATAAT
1 ATAAGTATTAAA-TATAAAAAT
* *
770624 ATAAAGTATTAAAGTAGATAAAT
1 AT-AAGTATTAAA-TATAAAAAT
770647 ATAAGTATTAAATATAAA
1 ATAAGTATTAAATATAAA
770665 GTAAATAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.18
22 22 0.67
23 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (21 bp):
ATAAGTATTAAATATAAAAAT
Found at i:770650 original size:28 final size:28
Alignment explanation
Indices: 770617--770673 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
770607 GTACTAAAGT
*
770617 ATATAA-TA-TAAAGTATTAAAGTAGATAA
1 ATATAAGTATTAAA-TA-TAAAGTAAATAA
770645 ATATAAGTATTAAATATAAAGTAAATAA
1 ATATAAGTATTAAATATAAAGTAAATAA
770673 A
1 A
770674 CCCCTTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 18 0.69
29 4 0.15
30 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (28 bp):
ATATAAGTATTAAATATAAAGTAAATAA
Found at i:771913 original size:27 final size:29
Alignment explanation
Indices: 771883--771938 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
771873 GAAATACTCT
771883 TGAACTATAAAATGACC-AAAAT-GCCCC
1 TGAACTATAAAATGACCTAAAATAGCCCC
* * *
771910 TGAAGTGTGAAATGACCTAAAATAGCCCC
1 TGAACTATAAAATGACCTAAAATAGCCCC
771939 AAGTCCTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.58
28 5 0.21
29 5 0.21
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (29 bp):
TGAACTATAAAATGACCTAAAATAGCCCC
Found at i:773055 original size:31 final size:32
Alignment explanation
Indices: 773020--773126 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
773010 TAAGGTGACA
* * *
773020 CTTGGGTAGGCTTTGAGG-GCCAAGGTATTTC
1 CTTGGGTAGGCTTTAAGGCCCCAAGGTATTCC
* *
773051 CTTGGGTAAGCTCTAAGGCCCCAAGGTATTCC
1 CTTGGGTAGGCTTTAAGGCCCCAAGGTATTCC
* * ** *
773083 CTTGGGTAGGCTTTTAGGCCCCAATGTACACT
1 CTTGGGTAGGCTTTAAGGCCCCAAGGTATTCC
773115 CTTGGGTAGGCT
1 CTTGGGTAGGCT
773127 CCCAAGGTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 15 0.24
32 48 0.76
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (32 bp):
CTTGGGTAGGCTTTAAGGCCCCAAGGTATTCC
Found at i:774830 original size:17 final size:16
Alignment explanation
Indices: 774808--774843 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
774798 ATTTTAAAAT
774808 AAAAATAAAAAATTATA
1 AAAAAT-AAAAATTATA
774825 AAAAATAAAAATTATA
1 AAAAATAAAAATTATA
774841 AAA
1 AAA
774844 TTAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAAAATTATA
Found at i:783307 original size:23 final size:23
Alignment explanation
Indices: 783260--783324 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
783250 TTTTTAATTA
783260 TATTTTTTTATTTAT-TTACTGTAT
1 TATTTTTTTATTTATATTAC--TAT
*
783284 TCCTTTTTTTATTTATATTA-TAT
1 T-ATTTTTTTATTTATATTACTAT
*
783307 TATTTTTATTATATATAT
1 TATTTTT-TTATTTATAT
783325 CTTATATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 5 0.14
23 13 0.37
24 1 0.03
25 13 0.37
26 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTTTTTATTTATATTACTAT
Found at i:783311 original size:14 final size:14
Alignment explanation
Indices: 783292--783331 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
783282 ATTCCTTTTT
783292 TTATTTATATTATA
1 TTATTTATATTATA
*
783306 TTATTTTTATTATA
1 TTATTTATATTATA
783320 TATATCTTATAT
1 T-TAT-TTATAT
783332 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:783323 original size:2 final size:2
Alignment explanation
Indices: 783316--783358 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
783306 TTATTTTTAT
*
783316 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
783357 TA
1 TA
783359 GATGTATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.05
2 33 0.89
3 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:783413 original size:18 final size:18
Alignment explanation
Indices: 783390--783450 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 18
783380 TTACTATGTA
783390 TATATTTTTTCTTAATAT
1 TATATTTTTTCTTAATAT
* *
783408 TATA-TTTTACGT-ATA-
1 TATATTTTTTCTTAATAT
*
783423 TATATATATTTCTTAATAT
1 TATAT-TTTTTCTTAATAT
*
783442 TCTATTTTT
1 TATATTTTT
783451 GTTTTTATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 11 0.34
18 10 0.31
19 4 0.12
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATTTTTTCTTAATAT
Found at i:783465 original size:34 final size:34
Alignment explanation
Indices: 783379--783449 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
783369 TTTTTCTACA
* *
783379 TTTAC-TATGTATATATTTTTTCTTAATATTATAT
1 TTTACGTATATATATA-TATTTCTTAATATTATAT
*
783413 TTTACGTATATATATATATTTCTTAATATTCTAT
1 TTTACGTATATATATATATTTCTTAATATTATAT
783447 TTT
1 TTT
783450 TGTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (34 bp):
TTTACGTATATATATATATTTCTTAATATTATAT
Found at i:783466 original size:2 final size:2
Alignment explanation
Indices: 783459--783491 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
783449 TTGTTTTTAT
783459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
783492 TTTTTACTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:783644 original size:18 final size:17
Alignment explanation
Indices: 783612--783656 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
783602 TGTACACATT
783612 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
783629 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
783647 ATTTTTTTAC
1 ATTTTTTTAC
783657 TCCATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:783654 original size:17 final size:17
Alignment explanation
Indices: 783610--783656 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
783600 TATGTACACA
783610 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
783627 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
783645 TTATTTTTTTAC
1 TTATTTTTTTAC
783657 TCCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:786883 original size:14 final size:14
Alignment explanation
Indices: 786842--786884 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
786832 ACAAAAAGAG
786842 AAAAAAAGAGAAAA
1 AAAAAAAGAGAAAA
**
786856 AAGCAAAGAGAAAA
1 AAAAAAAGAGAAAA
786870 TAAAAAAAGA-AAAA
1 -AAAAAAAGAGAAAA
786884 A
1 A
786885 CAAACGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 1 0.04
14 16 0.67
15 7 0.29
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAGAAAA
Found at i:787078 original size:69 final size:69
Alignment explanation
Indices: 786967--787104 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
786957 GATTCAAACT
* *
786967 ATGAGATTGATCAAGCATAATCATTTCTGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
787032 TCAA
66 TCAA
*
787036 ATGAGATTGATTAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
787101 TCAA
66 TCAA
787105 GAGAGAGACA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:787422 original size:16 final size:16
Alignment explanation
Indices: 787401--787470 Score: 104
Period size: 16 Copynumber: 4.2 Consensus size: 16
787391 GGGGGTTCAA
787401 GACGTAAATTACGAAT
1 GACGTAAATTACGAAT
787417 GACGTAAATTATTACGAAT
1 GACGT-AA--ATTACGAAT
787436 GACGTAAATTACGAAT
1 GACGTAAATTACGAAT
*
787452 GGCGTAAATTACGAAT
1 GACGTAAATTACGAAT
787468 GAC
1 GAC
787471 ATCTTGAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 31 0.63
17 2 0.04
18 2 0.04
19 14 0.29
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (16 bp):
GACGTAAATTACGAAT
Found at i:787432 original size:19 final size:19
Alignment explanation
Indices: 787408--787462 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
787398 CAAGACGTAA
787408 ATTACGAATGACGTAAATT
1 ATTACGAATGACGTAAATT
787427 ATTACGAATGACGT-AA--
1 ATTACGAATGACGTAAATT
*
787443 ATTACGAATGGCGTAAATT
1 ATTACGAATGACGTAAATT
787462 A
1 A
787463 CGAATGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 13 0.41
17 2 0.06
18 2 0.06
19 15 0.47
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (19 bp):
ATTACGAATGACGTAAATT
Found at i:788635 original size:36 final size:36
Alignment explanation
Indices: 788588--788813 Score: 171
Period size: 36 Copynumber: 6.4 Consensus size: 36
788578 ATTGAAAACA
* *
788588 TTTCCCTTGAAATAAATTTTGTATCTGTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACAG
*
788624 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACAG
* * *
788660 TTTCCCTTAAAACAAA---T-TA--T-TTGA-ATATA
1 TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACA-G
*** * * * *
788689 TTTTATTTGAAAAAAATTTTATCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACAG
** * * *
788725 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTATCTCTTGAGACAG
* * * * *
788762 TTTCTCTTGAAACAAATTTCGTCTCTTTTGAGACAA
1 TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACAG
788798 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
788814 AAAGTTGAAT
Statistics
Matches: 150, Mismatches: 30, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.01
29 15 0.10
30 1 0.01
32 2 0.01
33 2 0.01
36 95 0.63
37 33 0.22
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTATCTCTTGAGACAG
Found at i:788684 original size:101 final size:101
Alignment explanation
Indices: 788501--788779 Score: 308
Period size: 101 Copynumber: 2.8 Consensus size: 101
788491 TAAAAAGAAG
* * * * * *
788501 ATTTTATTTCGCTTGAGATAGTTTGCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATATCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
** * *
788566 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACA-AATTATTGAAAACATTTCACTTGAAAAAA
* ** *
788603 ATTTTGTATCTGTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTATATCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * * * *
788667 TAAAACAAATTATTTGAATATATTTTATTTGAAAAAA
66 TGAAACAAATTA-TTGAAAACATTTCACTTGAAAAAA
* ** * * *
788704 ATTTTATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTATATCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
788769 TGAAACAAATT
66 TGAAACAAATT
788780 TCGTCTCTTT
Statistics
Matches: 147, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
100 3 0.02
101 78 0.53
102 66 0.45
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (101 bp):
ATTTTATATCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACAAATTATTGAAAACATTTCACTTGAAAAAA
Found at i:788775 original size:138 final size:138
Alignment explanation
Indices: 788604--788867 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 138
788594 TTGAAATAAA
* * *
788604 TTTTGTATCTGTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 TTTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAATTTCCCTTA
** * * **
788669 AAACAAATTATTTGAATATATTTTATTTGAAAA-AAATTTTATCTCCCTTGAGACAGTTTCTTTT
66 AAACAAAAAAGTTGAATATATTTCACCT-AAAACAAATTTTATCTCCCTTGAGACAGTTTCTTTT
788733 GGAACTAAG
130 GGAACTAAG
* * * *
788742 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTTTTGAGACAATTTCCCTTG
1 TTTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAATTTCCCTTA
* * *
788807 AAACAAAAAAGTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 AAACAAAAAAGTTGAATATATTTCACCTAAAACAAATTTTATCTCCCTTGAGACAGTTTCT
788868 CTTGAAACCC
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
137 4 0.04
138 105 0.96
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (138 bp):
TTTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAATTTCCCTTA
AAACAAAAAAGTTGAATATATTTCACCTAAAACAAATTTTATCTCCCTTGAGACAGTTTCTTTTG
GAACTAAG
Found at i:788875 original size:65 final size:65
Alignment explanation
Indices: 788771--788944 Score: 190
Period size: 65 Copynumber: 2.6 Consensus size: 65
788761 GTTTCTCTTG
* ** * * *
788771 AAACAAATTTCGTCTCTTTTGAGACAATTTCCCTTGAAACAAAAAAGTT-GAATTTATTTCCCCT
1 AAACAAATTTTGTCTCCCTTGAGAC-ATTTCTCTTGAAACAAAAAACTTCAAATTTATTTCCCCT
788835 A
65 A
* * *
788836 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACCCAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACA-TTTCTCTTGAAA-CAAAAAACTTCAAATTTATTTCCCC
788901 TA
64 TA
* *
788903 AAACAAAATTTTGTTTCCCTTGAGACCATTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGA-CATTTCTCTTGAAACAA
788945 CAATTATCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
64 1 0.01
65 33 0.36
66 9 0.10
67 25 0.27
68 22 0.24
69 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACATTTCTCTTGAAACAAAAAACTTCAAATTTATTTCCCCTA
Found at i:789859 original size:110 final size:110
Alignment explanation
Indices: 789661--789867 Score: 335
Period size: 110 Copynumber: 1.9 Consensus size: 110
789651 GCTTCCCAAT
* *
789661 TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
789726 CAACGAAGGGGTGACTGATTGTCAACAAACAACTTTTTAGTGTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTGTCA
* *
789771 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
789836 CAACGAAGGGGCGGCT-AGCTGTCAACAAACAA
66 CAACGAAGGGGCGACTGA-CTGTCAACAAACAA
789868 TTTCCCAGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 1 0.01
110 88 0.99
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTGTCA
Found at i:791270 original size:14 final size:14
Alignment explanation
Indices: 791245--791279 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
791235 GTCCCCTATA
791245 TATATATTTTTTAAT
1 TATAT-TTTTTTAAT
*
791260 TATATTTTTTTATT
1 TATATTTTTTTAAT
791274 TATATT
1 TATATT
791280 ATATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTTTTTTAAT
Found at i:791280 original size:19 final size:20
Alignment explanation
Indices: 791241--791299 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
791231 TTTCGTCCCC
*
791241 TATATATATATTT-TTTA-AT
1 TATAT-TATTTTTATTTATAT
791260 TATATT-TTTTTATTTATAT
1 TATATTATTTTTATTTATAT
791279 TATATTATTTTTATTATATAT
1 TATATTATTTTTATT-TATAT
791300 ACCTTATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 13 0.37
20 8 0.23
21 5 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATTATTTTTATTTATAT
Found at i:791286 original size:14 final size:14
Alignment explanation
Indices: 791259--791297 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
791249 TATTTTTTAA
* *
791259 TTATATTTTTTTAT
1 TTATATTATATTAT
791273 TTATATTATATTAT
1 TTATATTATATTAT
*
791287 TTTTATTATAT
1 TTATATTATAT
791298 ATACCTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATATTATATTAT
Found at i:791317 original size:2 final size:2
Alignment explanation
Indices: 791312--791341 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
791302 CTTATATCAT
791312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
791342 CAGATGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:791420 original size:2 final size:2
Alignment explanation
Indices: 791413--791444 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
791403 TGTTTTTATT
791413 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
791445 TTTTACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:791610 original size:18 final size:18
Alignment explanation
Indices: 791587--791621 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
791577 TTTTTATTCA
791587 TTTTTAATTTCTTTTACC
1 TTTTTAATTTCTTTTACC
*
791605 TTTTTAATTTTTTTTAC
1 TTTTTAATTTCTTTTAC
791622 TCCATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTCTTTTACC
Found at i:795363 original size:45 final size:45
Alignment explanation
Indices: 795308--795618 Score: 437
Period size: 45 Copynumber: 7.0 Consensus size: 45
795298 TTCCATACCG
*
795308 ATAATGCACCCATATGCATTTCAATTATGCCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* * *
795353 ATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* * *
795398 ATAATGCACCCATATTCATTTTAATTATGGCATCCTTTCATACCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* *
795443 ATAATGCACCCATATGCATTTCAATTATGGAATCCTATCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* *
795488 ATAATACACCCATATGCCTTTCAATTATGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* * * *
795533 ATAATGCACCCATATGAATTTCAATTATGGTATCCTTTCATGTCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
* * * *
795578 ATAATACACCCATATGC--TTCAATTATAGAATCCGTTCATGC
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGC
795619 ATTTTATACA
Statistics
Matches: 236, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 20 0.08
45 216 0.92
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
Found at i:795478 original size:135 final size:135
Alignment explanation
Indices: 795281--795618 Score: 484
Period size: 135 Copynumber: 2.5 Consensus size: 135
795271 CATTATGCCT
* * **
795281 TTTTATTTATAGCAT-CTTTCCATACCGATAATGCACCCATATGCATTTCAATTATGCCATCCTT
1 TTTTAATTATGGCATCCTTT-CATACCGATAATGCACCCATATGCATTTCAATTATGGAATCCTT
795345 TCATGCCTATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCTATAATGCACCCA
65 TCATGCCTATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCTATAATGCACCCA
**
795410 TATTCA
130 TATGAA
* *
795416 TTTTAATTATGGCATCCTTTCATACCTATAATGCACCCATATGCATTTCAATTATGGAATCCTAT
1 TTTTAATTATGGCATCCTTTCATACCGATAATGCACCCATATGCATTTCAATTATGGAATCCTTT
* * *
795481 CATGCCTATAATACACCCATATGCCTTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCAT
66 CATGCCTATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCTATAATGCACCCAT
795546 ATGAA
131 ATGAA
* * ** * * *
795551 TTTCAATTATGGTATCCTTTCATGTCGATAATACACCCATATGC--TTCAATTATAGAATCCGTT
1 TTTTAATTATGGCATCCTTTCATACCGATAATGCACCCATATGCATTTCAATTATGGAATCCTTT
795614 CATGC
66 CATGC
795619 ATTTTATACA
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
133 21 0.12
135 157 0.86
136 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (135 bp):
TTTTAATTATGGCATCCTTTCATACCGATAATGCACCCATATGCATTTCAATTATGGAATCCTTT
CATGCCTATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCTATAATGCACCCAT
ATGAA
Found at i:795851 original size:68 final size:68
Alignment explanation
Indices: 795757--796150 Score: 592
Period size: 68 Copynumber: 5.8 Consensus size: 68
795747 AGATATTGAA
* * * * *
795757 CCTTTCATCTAACTGGCATCATTGACACCTTTCTGTTAAATGCACAATCAGGCCTCAATGGCACT
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
795822 TAG
66 TAG
* * * * * *
795825 CCTTTCATCTAAATGACATGATTGACACCTTTCTGTCAAGTGCACAATTAGTCCTCAAAGGTACT
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
795890 TAG
66 TAG
795893 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
795958 TAG
66 TAG
* ** *
795961 CCTTTCATCTACCTGGCATGATTGACATATTTCTGTCAAGTGCACAGTTAGGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
796026 TAG
66 TAG
*
796029 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTAAAAGG-AC
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCC-TCAAAGGCAC
796093 TTAG
65 TTAG
* * * *
796097 CCTTTCATTTAACTGACATGATTGACACATTTTTGTCAAATGCACAGTTAGGCC
1 CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
796151 ATTAACCTTG
Statistics
Matches: 297, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
68 291 0.98
69 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
CCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
TAG
Found at i:797056 original size:58 final size:58
Alignment explanation
Indices: 796366--797048 Score: 1018
Period size: 58 Copynumber: 11.8 Consensus size: 58
796356 TATATTTCTC
* * * * * *
796366 ATACGAAAATTCATACACTTAGTATGAATTTCTT-A-GTTCTGTACACATAGTGTCC-
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * * *
796421 ATACAGAAATTCATACACTTAATATGAATTTCTT-A-GTTTTGCACACATAGTGCCCG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
796477 ATACGGAAACTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCTA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
796535 ATACAGAAATTCATACACTTAGTATGACTTTCTTAACTTTTTGCACACAAAAGTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC-AAAGTGCCCA
* *
796594 ATACGGAAATTTATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
796652 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAAGTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC-AAAGTGCCCA
* * * * *
796711 ATACGAAAATTTATACACTTTGTATGAATTTCTTAACTTTTTGTACACAAAGTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
796769 ATACGGAAATTCATACAATTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
796827 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACGTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
796885 ATACGGAAATTCATACACTTAGTATGAATTTCTTAA-TGTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACT-TTTTGCACACAAAGTGCCCA
* *
796943 ATAAGGAAATTCATACACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
797001 ATACGGAAATTCATACATTTAGTATGAATTTCTTAACTTTTTGGACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
797049 TTAGTGCCAT
Statistics
Matches: 578, Mismatches: 43, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
55 49 0.08
56 31 0.05
57 1 0.00
58 389 0.67
59 108 0.19
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:797735 original size:9 final size:9
Alignment explanation
Indices: 797716--797748 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
797706 ATACTCATCT
797716 AAAAAAG-G
1 AAAAAAGAG
797724 AAAAAAGAG
1 AAAAAAGAG
797733 -AAAAAGAG
1 AAAAAAGAG
797741 AAAAAAGA
1 AAAAAAGA
797749 AAGCAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:797743 original size:17 final size:16
Alignment explanation
Indices: 797717--797748 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
797707 TACTCATCTA
797717 AAAAAGGAAAAAAGAG
1 AAAAAGGAAAAAAGAG
797733 AAAAAGAGAAAAAAGA
1 AAAAAG-GAAAAAAGA
797749 AAGCAATCAA
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:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGGAAAAAAGAG
Found at i:799456 original size:38 final size:39
Alignment explanation
Indices: 799414--799504 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 39
799404 ATGATCCATG
* * *
799414 TGGGGCATTTTGAAGCCTCACGTCAGTATGAAA-AATGT
1 TGGGGCATTTTGAAGCCTCACATCAGCAAGAAATAATGT
* *
799452 TGGGGCATTTTGAAGGCTCATATCAGCAAGAAATAATGT
1 TGGGGCATTTTGAAGCCTCACATCAGCAAGAAATAATGT
*
799491 TGGAGCATTTTGAA
1 TGGGGCATTTTGAA
799505 CGTTCATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 28 0.61
39 18 0.39
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (39 bp):
TGGGGCATTTTGAAGCCTCACATCAGCAAGAAATAATGT
Found at i:799501 original size:39 final size:38
Alignment explanation
Indices: 799418--799515 Score: 115
Period size: 39 Copynumber: 2.6 Consensus size: 38
799408 TCCATGTGGG
* ** * * *
799418 GCATTTTGAAGCCTCACGTCAGTATGAAAAATGTTGGG
1 GCATTTTGAAGGCTCATATCAGCAAGAAAAATGTTGGA
799456 GCATTTTGAAGGCTCATATCAGCAAGAAATAATGTTGGA
1 GCATTTTGAAGGCTCATATCAGCAAGAAA-AATGTTGGA
* *
799495 GCATTTTGAACGTTCATATCA
1 GCATTTTGAAGGCTCATATCA
799516 ACAAATGTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 24 0.47
39 27 0.53
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (38 bp):
GCATTTTGAAGGCTCATATCAGCAAGAAAAATGTTGGA
Found at i:801120 original size:98 final size:98
Alignment explanation
Indices: 800951--801385 Score: 597
Period size: 98 Copynumber: 4.4 Consensus size: 98
800941 CTAAAGATGA
** * * *
800951 TAAGTCCTCCGGGCCATCCATAAAACCTCAGTGTAGGATGTATTCACATGAAAATGAGAAAGCGA
1 TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
* *
801016 TTACCAAAGTTTCTCATTTAATGTTCAGAAAGT
66 TTACCAAAGTTTCTCATTTAATATTCAGAAAAT
* *
801049 TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAAGATGTTTTCACATGAAGATGAGAAAGCGA
1 TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
801114 TTACCAAAGTTTCTCATTTAATATTC-GAAAAGT
66 TTACCAAAGTTTCTCATTTAATATTCAGAAAA-T
* * * *
801147 TAAGTCCT-CTGACCATCTGTAAAACTTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGTGA
1 TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
* * * *
801211 TTACCAAAGTTTCTCATTCAATGTTTAAAAAAT
66 TTACCAAAGTTTCTCATTTAATATTCAGAAAAT
** ** *
801244 TAAGTCCTCCGGGTTAT-TCGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAATCG
1 TAAGTCCTCCGGGCCATCT-GTAAAACCTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGCG
*
801308 ATTACCAAAGTTTCTCATTTAATATTTAGAAAAT
65 ATTACCAAAGTTTCTCATTTAATATTCAGAAAAT
* * *
801342 TAAGTCCTCCGGGCCATCCGTAAGACCTCTAGGTAGGATGTTTT
1 TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAGGATGTTTT
801386 TACTTTTTAT
Statistics
Matches: 296, Mismatches: 36, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
97 87 0.29
98 209 0.71
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCTCCGGGCCATCTGTAAAACCTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATATTCAGAAAAT
Found at i:801249 original size:195 final size:196
Alignment explanation
Indices: 800951--801385 Score: 617
Period size: 195 Copynumber: 2.2 Consensus size: 196
800941 CTAAAGATGA
* * *
800951 TAAGTCCTCCGGGCCATCCATAAAACCTC-AGTGTAGGATGTATTCACATGAAAATGAGAAAGCG
1 TAAGTCCTCCGGACCATCCGTAAAACCTCTAG-GTAGGATGTTTTCACATGAAAATGAGAAAGCG
* * * *
801015 ATTACCAAAGTTTCTCATTTAATGTTCAGAAAGTTAAGTCCTCCGGGCCA-TCTGTAAAACCTCT
65 ATTACCAAAGTTTCTCATTCAATGTTCAAAAAATTAAGTCCTCCGGGCCATTC-GTAAAACCTCA
* * *
801079 GGGTAAGATGTTTTCACATGAAGATGAGAAAGCGATTACCAAAGTTTCTCATTTAATA-TTCGAA
129 AGGTAAGATGTTTTCACATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATATTTAGAA
801143 AAGT
194 AA-T
* * * * *
801147 TAAGTCCT-CTGACCATCTGTAAAACTTCTGGGTAGGATGTTTTCACATGAAAATGAGAAAGTGA
1 TAAGTCCTCCGGACCATCCGTAAAACCTCTAGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
* **
801211 TTACCAAAGTTTCTCATTCAATGTTTAAAAAATTAAGTCCTCCGGGTTATTCGTAAAACCTCAAG
66 TTACCAAAGTTTCTCATTCAATGTTCAAAAAATTAAGTCCTCCGGGCCATTCGTAAAACCTCAAG
* *
801276 GTAGGATGTTTTCACATGAAAATGAGAAATCGATTACCAAAGTTTCTCATTTAATATTTAGAAAA
131 GTAAGATGTTTTCACATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATATTTAGAAAA
801341 T
196 T
* *
801342 TAAGTCCTCCGGGCCATCCGTAAGACCTCTAGGTAGGATGTTTT
1 TAAGTCCTCCGGACCATCCGTAAAACCTCTAGGTAGGATGTTTT
801386 TACTTTTTAT
Statistics
Matches: 209, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
195 162 0.78
196 47 0.22
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (196 bp):
TAAGTCCTCCGGACCATCCGTAAAACCTCTAGGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
TTACCAAAGTTTCTCATTCAATGTTCAAAAAATTAAGTCCTCCGGGCCATTCGTAAAACCTCAAG
GTAAGATGTTTTCACATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATATTTAGAAAA
T
Found at i:801492 original size:3 final size:3
Alignment explanation
Indices: 801484--801513 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
801474 ATTTATTTAT
*
801484 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
801514 CTACTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:812597 original size:22 final size:20
Alignment explanation
Indices: 812572--812614 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
812562 TACAAATGAT
812572 AATGATGTGGCAAAATGGAATG
1 AATGATGTGG--AAATGGAATG
*
812594 AATGGTGTGGAAATGGAATG
1 AATGATGTGGAAATGGAATG
812614 A
1 A
812615 TGGTGGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.35, T:0.23
Consensus pattern (20 bp):
AATGATGTGGAAATGGAATG
Found at i:816630 original size:311 final size:311
Alignment explanation
Indices: 816046--816971 Score: 1385
Period size: 311 Copynumber: 3.0 Consensus size: 311
816036 AGTTATTGAT
* * * *
816046 TTACTGAATATTTTAACT-TTCGATATTCTGACTTACTAATGTATTGATTTACTGTTTATGAATT
1 TTACTGGATATTTTAACTGTTCGATATTCTGACTTACTGATGTATTGATTTACTGTTTATAAACT
* * * *
816110 ATGGCTACATGATATGTGCTCTCTAGTTACCTATTTTCACTATAAAATATAATTATGCCTAATTT
66 ATGGCTACATGATATGTGCTCTCTGGTTACCTATTTTCACTAAAAAATATAATTATGTCTGATTT
* *
816175 ATGGATCATGGAAATTACTGGATTACTGTATGAACTGATTTATTGGGATACTGTCTGGGTAGAAT
131 ATAGATCATGGAAATTACTGGATTAATGTATGAACTGATTTATTGGGATACTGTCTGGGTAGAAT
* * * * *
816240 TCTGGAGTATGGAGATTCAACTCTGATCAAGCAGGTAAATCCTTACAGGCCTAAGGTGACACTTG
196 TCTGGAGTATGGAGGTTCAGCTCTGATCAAGCTGGTAAATCCTTAGA-ACCTAAGGTGACACTTG
* * * *
816305 GGTAGGCTTTGAGGCCCAAAGGTATTT-CTTTAGATCAGTAAACTTGTTTTA
260 GGTAGGCTTTGAGGCCCCAAGGTATTTACTTGACATCAGTAAACTTGTTTAA
* **
816356 TTACTGGATATTTTAACTGTTTGATATTCTGAAGTACTGATGTATTGATTTACTGTTTATAAACT
1 TTACTGGATATTTTAACTGTTCGATATTCTGACTTACTGATGTATTGATTTACTGTTTATAAACT
* * *
816421 ATGGCTACATGATTTGTACTCTCTGGTTACCTATTTTCACTAAAAAATATAATTATATCTGATTT
66 ATGGCTACATGATATGTGCTCTCTGGTTACCTATTTTCACTAAAAAATATAATTATGTCTGATTT
* * * *
816486 ATAGATCATGGAAATTACTGGATTAATGTATAAACGGATTTATTGAGATACTGTCTGGGTTGAAT
131 ATAGATCATGGAAATTACTGGATTAATGTATGAACTGATTTATTGGGATACTGTCTGGGTAGAAT
* * *
816551 TCTGGAATATGGAGGTTCAGCTCTGATCAAGCTGGTAAATCTTTATGAACCTAAGGTGACACCTG
196 TCTGGAGTATGGAGGTTCAGCTCTGATCAAGCTGGTAAATCCTTA-GAACCTAAGGTGACACTTG
816616 GGTAGGCTTTGAGGCCCCAAGGTATTTACTTGACATCAGTAAACTTGTTTAA
260 GGTAGGCTTTGAGGCCCCAAGGTATTTACTTGACATCAGTAAACTTGTTTAA
** *
816668 TTGTTGGATATTTTAACTGTTCGATATTCTGACTTACTGATGTATTGATTTATTGTTTATAAACT
1 TTACTGGATATTTTAACTGTTCGATATTCTGACTTACTGATGTATTGATTTACTGTTTATAAACT
* * *
816733 ATGGCTACATGATATGTGTTCTCTGGTTACCTATTTTCACTAGAAAATATAATTATGTTTGATTT
66 ATGGCTACATGATATGTGCTCTCTGGTTACCTATTTTCACTAAAAAATATAATTATGTCTGATTT
* *
816798 ATAGATCATGGAAATTACTGGATT-AT-TATGAATTGATATT-TTGGGATATTGTCTGGGTAGAA
131 ATAGATCATGGAAATTACTGGATTAATGTATGAACTGAT-TTATTGGGATACTGTCTGGGTAGAA
* *
816860 TTCTGGAGTATGGAGGTTCAGCTCTGATCAAGTTGGTAAATCCTTACGGACCTAAGGTGACACTT
195 TTCTGGAGTATGGAGGTTCAGCTCTGATCAAGCTGGTAAATCCTTA-GAACCTAAGGTGACACTT
* *
816925 GGGTAGGCTTTGAGGCCCCAAGGTATTTCCTTGACATTAGTAAACTT
259 GGGTAGGCTTTGAGGCCCCAAGGTATTTACTTGACATCAGTAAACTT
816972 AGGTAGGCTT
Statistics
Matches: 554, Mismatches: 58, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
310 148 0.27
311 242 0.44
312 164 0.30
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (311 bp):
TTACTGGATATTTTAACTGTTCGATATTCTGACTTACTGATGTATTGATTTACTGTTTATAAACT
ATGGCTACATGATATGTGCTCTCTGGTTACCTATTTTCACTAAAAAATATAATTATGTCTGATTT
ATAGATCATGGAAATTACTGGATTAATGTATGAACTGATTTATTGGGATACTGTCTGGGTAGAAT
TCTGGAGTATGGAGGTTCAGCTCTGATCAAGCTGGTAAATCCTTAGAACCTAAGGTGACACTTGG
GTAGGCTTTGAGGCCCCAAGGTATTTACTTGACATCAGTAAACTTGTTTAA
Found at i:829794 original size:2 final size:2
Alignment explanation
Indices: 829776--829853 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
829766 TTCTTACATT
*
829776 TA TA TA TG T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
829816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
829854 CAGTATGTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
1 2 0.03
2 71 0.97
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:830633 original size:2 final size:2
Alignment explanation
Indices: 830626--830651 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
830616 TTTAATTTAA
830626 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
830652 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:831572 original size:65 final size:65
Alignment explanation
Indices: 831394--831601 Score: 185
Period size: 65 Copynumber: 3.2 Consensus size: 65
831384 TATCAAAGTG
* * * ** *
831394 ATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCAAATGCAT
1 ATGCATCGATGCACCATA-CCATGCACCGATGCACTCA-GGATTTTA-TGAAACATCGAATGCAT
*
831456 TTC
63 TTA
*
831459 ATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATG-AAACATCGAATGCATTT
*
831523 G
65 A
* * * * * *
831524 ATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATTCACTT
1 ATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATGAAACATCGAATGCATTT
831587 A
65 A
*
831588 ATGCATTGATGCAC
1 ATGCATCGATGCAC
831602 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 50 0.42
65 63 0.52
66 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (65 bp):
ATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAACATCGAATGCATTTA
Found at i:837442 original size:21 final size:22
Alignment explanation
Indices: 837396--837443 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
837386 CCACCTAACA
* * *
837396 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATACATCCATGAAG
837418 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATACATCCATGAAG
837439 GTGCA
1 GTGCA
837444 CCAATCCACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (22 bp):
GTGCATCGATACATCCATGAAG
Found at i:840205 original size:65 final size:63
Alignment explanation
Indices: 840136--840295 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
840126 AATTAAATTG
* *
840136 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TG-
840200 A
63 A
* * * *
840201 AACATCGAATGCATTTGATGCATCGATGCACCAACCATGCATCGATGCAGTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGA
* *
840265 AACATCGAATGCACTTGATGCATCGCTGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
840296 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 29 0.34
65 50 0.59
66 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:848022 original size:32 final size:31
Alignment explanation
Indices: 847929--848061 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 31
847919 CAAAGAATTA
* *
847929 ACCTAAGGAAACATCTTAGGGCCTG-AGAGCCT
1 ACCTAA-GAAACATCTCAGGGCC-GCAGGGCCT
* * * * * **
847961 ACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
*
847992 ACCTAAGAACACATCTTAGGGCCGCAGGGCCT
1 ACCTAAGAA-ACATCTCAGGGCCGCAGGGCCT
** ** *
848024 ACCCGAGAATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
848055 ACCTAAG
1 ACCTAAG
848062 TGTCACATTA
Statistics
Matches: 75, Mismatches: 24, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
30 1 0.01
31 46 0.61
32 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (31 bp):
ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
Found at i:848045 original size:63 final size:62
Alignment explanation
Indices: 847929--848061 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 62
847919 CAAAGAATTA
* * ** *
847929 ACCTAAGGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAA-GAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
* *
847992 ACCTAAGAACACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAA-ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCT
848055 ACCTAAG
1 ACCTAAG
848062 TGTCACATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
62 5 0.08
63 55 0.92
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (62 bp):
ACCTAAGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
Found at i:850899 original size:7 final size:7
Alignment explanation
Indices: 850887--850925 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
850877 GGTCAACGTG
850887 GGTCAAC
1 GGTCAAC
850894 GGTCAAC
1 GGTCAAC
850901 GGGTCAAC
1 -GGTCAAC
850909 GGTCAAC
1 GGTCAAC
850916 GGGTCAAC
1 -GGTCAAC
850924 GG
1 GG
850926 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:850906 original size:15 final size:15
Alignment explanation
Indices: 850886--850925 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
850876 TGGTCAACGT
850886 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
850901 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
850916 GGGTCAACGG
1 GGGTCAACGG
850926 GTCGGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:850933 original size:13 final size:13
Alignment explanation
Indices: 850928--850972 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
850918 GTCAACGGGT
*
850928 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
850941 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
850954 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
850967 CGGGTC
1 CGGGTC
850973 AGGTCGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:850938 original size:18 final size:18
Alignment explanation
Indices: 850915--850950 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
850905 CAACGGTCAA
850915 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
850933 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
850951 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:850946 original size:8 final size:8
Alignment explanation
Indices: 850886--850928 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
850876 TGGTCAACGT
850886 GGGTCAAC
1 GGGTCAAC
850894 -GGTCAAC
1 GGGTCAAC
850901 GGGTCAAC
1 GGGTCAAC
850909 -GGTCAAC
1 GGGTCAAC
850916 GGGTCAAC
1 GGGTCAAC
850924 GGGTC
1 GGGTC
850929 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGGTCAAC
Found at i:853117 original size:32 final size:31
Alignment explanation
Indices: 853024--853156 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 31
853014 CAAAGAATTA
* *
853024 ACCTAAGGAAACATCTTAGGGCCTG-AGAGCCT
1 ACCTAA-GAAACATCTCAGGGCC-GCAGGGCCT
* * * * * **
853056 ACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
*
853087 ACCTAAGAACACATCTTAGGGCCGCAGGGCCT
1 ACCTAAGAA-ACATCTCAGGGCCGCAGGGCCT
** ** *
853119 ACCCGAGAATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
853150 ACCTAAG
1 ACCTAAG
853157 TGTCACATTA
Statistics
Matches: 75, Mismatches: 24, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
30 1 0.01
31 46 0.61
32 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (31 bp):
ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
Found at i:853140 original size:63 final size:62
Alignment explanation
Indices: 853024--853156 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 62
853014 CAAAGAATTA
* * ** *
853024 ACCTAAGGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAA-GAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
* *
853087 ACCTAAGAACACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAA-ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCT
853150 ACCTAAG
1 ACCTAAG
853157 TGTCACATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
62 5 0.08
63 55 0.92
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (62 bp):
ACCTAAGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
Found at i:855989 original size:7 final size:7
Alignment explanation
Indices: 855977--856015 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
855967 GGTCAACGTG
855977 GGTCAAC
1 GGTCAAC
855984 GGTCAAC
1 GGTCAAC
855991 GGGTCAAC
1 -GGTCAAC
855999 GGTCAAC
1 GGTCAAC
856006 GGGTCAAC
1 -GGTCAAC
856014 GG
1 GG
856016 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:855996 original size:15 final size:15
Alignment explanation
Indices: 855976--856015 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
855966 TGGTCAACGT
855976 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
855991 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
856006 GGGTCAACGG
1 GGGTCAACGG
856016 GTCGGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:856023 original size:13 final size:13
Alignment explanation
Indices: 856018--856062 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
856008 GTCAACGGGT
*
856018 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
856031 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
856044 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
856057 CGGGTC
1 CGGGTC
856063 AGGTCGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:856028 original size:18 final size:18
Alignment explanation
Indices: 856005--856040 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
855995 CAACGGTCAA
856005 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
856023 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
856041 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:856036 original size:8 final size:8
Alignment explanation
Indices: 855976--856018 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
855966 TGGTCAACGT
855976 GGGTCAAC
1 GGGTCAAC
855984 -GGTCAAC
1 GGGTCAAC
855991 GGGTCAAC
1 GGGTCAAC
855999 -GGTCAAC
1 GGGTCAAC
856006 GGGTCAAC
1 GGGTCAAC
856014 GGGTC
1 GGGTC
856019 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGGTCAAC
Found at i:858204 original size:32 final size:31
Alignment explanation
Indices: 858111--858243 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 31
858101 CAAAGAATTA
* *
858111 ACCTAAGGAAACATCTTAGGGCCTG-AGAGCCT
1 ACCTAA-GAAACATCTCAGGGCC-GCAGGGCCT
* * * * * **
858143 ACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
*
858174 ACCTAAGAACACATCTTAGGGCCGCAGGGCCT
1 ACCTAAGAA-ACATCTCAGGGCCGCAGGGCCT
** ** *
858206 ACCCGAGAATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
858237 ACCTAAG
1 ACCTAAG
858244 TGTCACATTA
Statistics
Matches: 75, Mismatches: 24, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
30 1 0.01
31 46 0.61
32 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (31 bp):
ACCTAAGAAACATCTCAGGGCCGCAGGGCCT
Found at i:858227 original size:63 final size:62
Alignment explanation
Indices: 858111--858243 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 62
858101 CAAAGAATTA
* * ** *
858111 ACCTAAGGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCT
1 ACCTAA-GAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
* *
858174 ACCTAAGAACACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCT
1 ACCTAAGAA-ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCT
858237 ACCTAAG
1 ACCTAAG
858244 TGTCACATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
62 5 0.08
63 55 0.92
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (62 bp):
ACCTAAGAAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCT
Found at i:861069 original size:7 final size:7
Alignment explanation
Indices: 861057--861094 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
861047 GGTCAACGTG
861057 GGTCAAC
1 GGTCAAC
861064 GGTCAAC
1 GGTCAAC
861071 GGGTCAAC
1 -GGTCAAC
861079 GGTCAAC
1 GGTCAAC
861086 GGTCAAC
1 GGTCAAC
861093 GG
1 GG
861095 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:861097 original size:15 final size:15
Alignment explanation
Indices: 861056--861094 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
861046 TGGTCAACGT
861056 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
861071 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
861086 -GGTCAACGG
1 GGGTCAACGG
861095 GTCGGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:861129 original size:12 final size:13
Alignment explanation
Indices: 861097--861143 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 13
861087 GTCAACGGGT
*
861097 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
861110 CTGGTCGGGT-AA
1 CGGGTCGGGTAAA
861122 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
861135 C-GGTCGGGT
1 CGGGTCGGGT
861144 CGGGTCGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 19 0.61
13 12 0.39
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:862100 original size:20 final size:20
Alignment explanation
Indices: 862075--862143 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
862065 GGAGGGTAAG
*
862075 GTTGGGCTGTACGAAGAGAT
1 GTTGGGCTGTATGAAGAGAT
* * *
862095 GTTGGGTTGTATGATGGTGAT
1 GTTGGGCTGTATGA-AGAGAT
* *
862116 GTTGGGCTGTATGATGAGAA
1 GTTGGGCTGTATGAAGAGAT
862136 GTTGGGCT
1 GTTGGGCT
862144 ATATTCGGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.19, C:0.06, G:0.42, T:0.33
Consensus pattern (20 bp):
GTTGGGCTGTATGAAGAGAT
Found at i:862118 original size:21 final size:21
Alignment explanation
Indices: 862037--862131 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
862027 GGTGAAGTAC
* * *
862037 GGCTGTATGATAGAGATGTGG
1 GGCTGTATGATGGTGATGTTG
* * * * *
862058 GGCTATAGGAGGGTAAGGTTG
1 GGCTGTATGATGGTGATGTTG
* * *
862079 GGCTGTACGA-AGAGATGTTG
1 GGCTGTATGATGGTGATGTTG
*
862099 GGTTGTATGATGGTGATGTTG
1 GGCTGTATGATGGTGATGTTG
862120 GGCTGTATGATG
1 GGCTGTATGATG
862132 AGAAGTTGGG
Statistics
Matches: 54, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
20 14 0.26
21 40 0.74
ACGTcount: A:0.21, C:0.05, G:0.43, T:0.31
Consensus pattern (21 bp):
GGCTGTATGATGGTGATGTTG
Found at i:862598 original size:16 final size:17
Alignment explanation
Indices: 862573--862605 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
862563 AACTCTAATT
*
862573 ATTGTTACAA-AAATAA
1 ATTGTCACAACAAATAA
862589 ATTGTCACAACAAATAA
1 ATTGTCACAACAAATAA
862606 TGAGATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (17 bp):
ATTGTCACAACAAATAA
Found at i:863080 original size:57 final size:58
Alignment explanation
Indices: 863019--863127 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
863009 AATTATACTA
* * * *
863019 TCATAACCA-TTTA-TCCTTATTTT-TTAGTGTCAAAATATTATATAGTAACAAATATAT
1 TCATAAACATTTTACTCCATATTTTATT-GTGCCAAAA-ATCATATAGTAACAAATATAT
*
863076 TCATAAAGATTTTACTCCATATTTTATTGTGCCAAAAATCATATAGTAACAA
1 TCATAAACATTTTACTCCATATTTTATTGTGCCAAAAATCATATAGTAACAA
863128 TTTTTGTAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
57 7 0.16
58 18 0.41
59 17 0.39
60 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.40
Consensus pattern (58 bp):
TCATAAACATTTTACTCCATATTTTATTGTGCCAAAAATCATATAGTAACAAATATAT
Found at i:863180 original size:15 final size:16
Alignment explanation
Indices: 863160--863190 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
863150 TAATTATTAC
863160 AAAAAT-ATTGTCACA
1 AAAAATAATTGTCACA
863175 AAAAATAATTGTCACA
1 AAAAATAATTGTCACA
863191 TTTTTGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAAATAATTGTCACA
Found at i:864387 original size:2 final size:2
Alignment explanation
Indices: 864339--864374 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
864329 AGTCATTGCA
864339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
864375 TAGGTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:864750 original size:20 final size:19
Alignment explanation
Indices: 864723--864782 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
864713 ATCTTAGTCA
864723 TATAAATATATATATATTT
1 TATAAATATATATATATTT
* * * *
864742 GTTTAAATAAATAAATATCCT
1 -TATAAATATATATATAT-TT
864763 TATAAAT-TATATATATTT
1 TATAAATATATATATATTT
864781 TA
1 TA
864783 AATTTATTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 20 0.65
21 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (19 bp):
TATAAATATATATATATTT
Found at i:864995 original size:135 final size:139
Alignment explanation
Indices: 864793--865049 Score: 425
Period size: 135 Copynumber: 1.9 Consensus size: 139
864783 AATTTATTTC
*
864793 ATTATTATTTTAAGAAAATATTTTAGTTATTTATTTATTTTTTTAAATCGAAGAAATGAGTTGTC
1 ATTATTATTTTAAGAAAATATTTTAGTTATTTATTTA-TTTTTTAAATCGAAGAAAAGAGTTGTC
* *
864858 TTAAAGCAACTAGAAGCCCTTTTCTGATATTTTTAAAT-AATAAATATCTTACTATATTAAAATA
65 TTAAAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAATA
864922 ATTTTTTATT
130 ATTTTTTATT
864932 ATTATTATTTTAAG-AAA-ATTTTAGTTATTTATTTA-TTTTTAATATC-AAGAAAAGAGTTGTC
1 ATTATTATTTTAAGAAAATATTTTAGTTATTTATTTATTTTTTAA-ATCGAAGAAAAGAGTTGTC
*
864993 TTAAAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTATTATA
65 TTAAAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATA
865050 AAAATATATA
Statistics
Matches: 112, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
135 57 0.51
136 20 0.18
137 18 0.16
138 3 0.03
139 14 0.12
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (139 bp):
ATTATTATTTTAAGAAAATATTTTAGTTATTTATTTATTTTTTAAATCGAAGAAAAGAGTTGTCT
TAAAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAATAA
TTTTTTATT
Done.