Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 281 of 344
Found at i:94358427 original size:43 final size:42
Alignment explanation
Indices: 94358380--94358477 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
94358370 CCCAAATGTA
*
94358380 GTCTTACATGTAATCAAACATCGATGCC-ACTGTCCCAGACAGG
1 GTCTTACACGTAATCAAACAT-GATGCCGA-TGTCCCAGACAGG
* * * *
94358423 GTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACATG
1 GTCTTACACGTAATCAAACATGATGCCGATGTCCCAGACAGG
94358465 GTCTTACACGTAA
1 GTCTTACACGTAA
94358478 AATAGAAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GTCTTACACGTAATCAAACATGATGCCGATGTCCCAGACAGG
Found at i:94358504 original size:44 final size:41
Alignment explanation
Indices: 94358402--94358517 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 41
94358392 ATCAAACATC
*
94358402 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAGATAT
1 GATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAGATAT
*
94358444 GATGCCGATGTCCCAGACATGGTCTTACACGTAAAAT-AGA-AGTT
1 GATGCC-ACGTCCCAGACATGGTCTTACACG--AAATCAGATA--T
*
94358488 GATGCCAACGTCCCAGACGTGGTCTTACAC
1 GATGCC-ACGTCCCAGACATGGTCTTACAC
94358518 ACAAAACAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
42 28 0.44
43 4 0.06
44 32 0.50
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
GATGCCACGTCCCAGACATGGTCTTACACGAAATCAGATAT
Found at i:94362998 original size:138 final size:138
Alignment explanation
Indices: 94362650--94363043 Score: 408
Period size: 131 Copynumber: 2.9 Consensus size: 138
94362640 ACACTCCAAC
* * * * * *
94362650 TGATATTCTAAAAGCTCTAAAGGTTAAGCTCGAAGCTCCAACACAACTAGCGAACCTATG-TTCC
1 TGATATTCTAAGAGCTCAAAAGGTTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGTTTCC
* * *
94362714 TAGCTGATGTTATAAAAGTTTGTCAGTTTATGATCGCAACCTCCAAAAATAGCTAGCGGACTTAT
66 -AACTGATGTTATAAAGGTTTGTCAATTTATGATCGCAACCTCCAAAAATAGCTAGCGGACTTAT
*
94362779 GCTCCCAGT
130 GCTCCCAGG
*** * * * * * * *
94362788 TG--A---T--GAGCTTGCAGGGTTAAGCTCGCAACTCTAATATAGCTAGCAGACCTACGTTCCC
1 TGATATTCTAAGAGCTCAAAAGGTTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGTTTCC
* * * * * *
94362846 AACTGATGTGATAAAGGTTTGTTAATTTATGATTGCAACCTTCGAAAATAGCTAGTGGACTTATG
66 AACTGATGTTATAAAGGTTTGTCAATTTATGATCGCAACCTCCAAAAATAGCTAGCGGACTTATG
* *
94362911 CTGCTAGG
131 CTCCCAGG
* *
94362919 TGATATTCTAAGAGCTCAAAAGGTTAAGCTCGCAGCTCCGACACAGCCAGCGGACCTACGTTTCC
1 TGATATTCTAAGAGCTCAAAAGGTTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGTTTCC
* ** * *
94362984 ATCTGATGTTATAAAGGTTTACCGATTTATGATCGCAACATCCAAAAATAGCTAGCGGAC
66 AACTGATGTTATAAAGGTTTGTCAATTTATGATCGCAACCTCCAAAAATAGCTAGCGGAC
94363044 CAACGTTCTC
Statistics
Matches: 198, Mismatches: 50, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
131 98 0.49
132 3 0.02
133 2 0.01
136 2 0.01
138 93 0.47
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (138 bp):
TGATATTCTAAGAGCTCAAAAGGTTAAGCTCGCAGCTCCAACACAGCTAGCGGACCTACGTTTCC
AACTGATGTTATAAAGGTTTGTCAATTTATGATCGCAACCTCCAAAAATAGCTAGCGGACTTATG
CTCCCAGG
Found at i:94363352 original size:15 final size:16
Alignment explanation
Indices: 94363323--94363353 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94363313 CACTAATAAC
94363323 TAAACTTCAAAATTTT
1 TAAACTTCAAAATTTT
94363339 TAAACTTC-AAATTTT
1 TAAACTTCAAAATTTT
94363354 CTTATTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAACTTCAAAATTTT
Found at i:94368407 original size:20 final size:20
Alignment explanation
Indices: 94368382--94368448 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
94368372 ATTTTAGTAA
94368382 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
94368402 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
94368422 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94368442 ACATGAT
1 ACATGAT
94368449 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94368610 original size:24 final size:24
Alignment explanation
Indices: 94368497--94368667 Score: 220
Period size: 25 Copynumber: 7.0 Consensus size: 24
94368487 GGAGGAAGTG
*
94368497 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
94368521 GATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
94368546 AATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
94368571 GATAAATGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
94368596 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
94368620 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
94368643 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
94368668 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 19 0.14
24 39 0.29
25 77 0.57
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:94371022 original size:20 final size:20
Alignment explanation
Indices: 94370997--94371063 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
94370987 ATTTTAGTAA
94370997 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
94371017 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
94371037 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94371057 ACATGAT
1 ACATGAT
94371064 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94371225 original size:24 final size:24
Alignment explanation
Indices: 94371112--94371282 Score: 220
Period size: 25 Copynumber: 7.0 Consensus size: 24
94371102 GGAGGAAGAG
*
94371112 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
94371136 GATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
94371161 AATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
94371186 GATAAATGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
94371211 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
94371235 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
94371258 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
94371283 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 19 0.14
24 39 0.29
25 77 0.57
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:94373637 original size:20 final size:20
Alignment explanation
Indices: 94373612--94373678 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
94373602 ATTTTAGTAA
94373612 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
94373632 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
94373652 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94373672 ACATGAT
1 ACATGAT
94373679 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94373757 original size:25 final size:25
Alignment explanation
Indices: 94373729--94373906 Score: 204
Period size: 25 Copynumber: 7.2 Consensus size: 25
94373719 AGGAAGTGTA
*
94373729 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
94373754 AAAGGGCTTATGCCCTAGTTATAAT
1 AAAGGGCTTATGCCCCAGTTATGAT
94373779 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
94373804 AAATGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
94373828 AAAAGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
94373852 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
94373875 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
94373903 AAAG
1 AAAG
94373907 CAACTATGCT
Statistics
Matches: 138, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 19 0.14
24 37 0.27
25 73 0.53
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:94373894 original size:72 final size:74
Alignment explanation
Indices: 94373727--94373897 Score: 197
Period size: 72 Copynumber: 2.3 Consensus size: 74
94373717 GGAGGAAGTG
* * * * *
94373727 TAAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCTAGTTATAATAAAGGGCTTATGC
1 TAAAA-GGCTTAGGCCCCAGTTATTA-AAAAGGCTTATGCCCCAGTTATAATAAAGGGCTTATGC
94373792 CCCAGTTATGA
64 CCCAGTTATGA
* * *
94373803 TAAATGGCTTATGCCCCAGTTATTAAAAAGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCC
1 TAAAAGGCTTAGGCCCCAGTTATTAAAAAGGCTTATGCCCCAGTTATAATAAAGGGCTTATGCCC
*
94373866 CAGTTATTA
66 CAGTTATGA
94373875 -AAAGAGGC-TAGGCCTCCAGTTAT
1 TAAA-AGGCTTAGGCC-CCAGTTAT
94373898 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
71 8 0.10
72 24 0.29
73 9 0.11
74 21 0.25
75 18 0.21
76 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (74 bp):
TAAAAGGCTTAGGCCCCAGTTATTAAAAAGGCTTATGCCCCAGTTATAATAAAGGGCTTATGCCC
CAGTTATGA
Found at i:94386026 original size:43 final size:43
Alignment explanation
Indices: 94385961--94386079 Score: 202
Period size: 43 Copynumber: 2.8 Consensus size: 43
94385951 TACATGAATT
* *
94385961 GCATCCATTATGAACTCGGACCTCTCAACGAGCCCTGATACTC
1 GCATCCATAATAAACTCGGACCTCTCAACGAGCCCTGATACTC
* *
94386004 GCATCCATAATAAACTCAGACCTCTCAACGAGCCTTGATACTC
1 GCATCCATAATAAACTCGGACCTCTCAACGAGCCCTGATACTC
94386047 GCATCCATAATAAACTCGGACCTCTCAACGAGC
1 GCATCCATAATAAACTCGGACCTCTCAACGAGC
94386080 TTAGATGCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (43 bp):
GCATCCATAATAAACTCGGACCTCTCAACGAGCCCTGATACTC
Found at i:94391538 original size:38 final size:38
Alignment explanation
Indices: 94391487--94391560 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
94391477 TCCCTAAAGA
94391487 GAATGTAACAATATGTAATGAATTTGAAAGCTATAAGG
1 GAATGTAACAATATGTAATGAATTTGAAAGCTATAAGG
94391525 GAATGTAACAATATGTAATGAATTTGAAAGCTATAA
1 GAATGTAACAATATGTAATGAATTTGAAAGCTATAA
94391561 TCTTTAACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (38 bp):
GAATGTAACAATATGTAATGAATTTGAAAGCTATAAGG
Found at i:94391547 original size:19 final size:19
Alignment explanation
Indices: 94391487--94391547 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
94391477 TCCCTAAAGA
94391487 GAATGTAACAATATGTAAT
1 GAATGTAACAATATGTAAT
* * ** * *
94391506 GAATTTGA-AAGCTATAAGG
1 GAATGTAACAATATGTAA-T
94391525 GAATGTAACAATATGTAAT
1 GAATGTAACAATATGTAAT
94391544 GAAT
1 GAAT
94391548 TTGAAAGCTA
Statistics
Matches: 28, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 6 0.21
19 16 0.57
20 6 0.21
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (19 bp):
GAATGTAACAATATGTAAT
Found at i:94395511 original size:10 final size:10
Alignment explanation
Indices: 94395484--94395539 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
94395474 TTAAATTCTC
94395484 AAAGATAAAT
1 AAAGATAAAT
94395494 ATAA-ATAAAT
1 A-AAGATAAAT
*
94395504 AAAGATAATT
1 AAAGATAAAT
94395514 AAAGATAAAT
1 AAAGATAAAT
* *
94395524 AAGGACAAAT
1 AAAGATAAAT
94395534 AAAGAT
1 AAAGAT
94395540 GAAAGCTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 34 0.89
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:94402174 original size:20 final size:20
Alignment explanation
Indices: 94402148--94402202 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
94402138 GATCCATAAT
*
94402148 AGGGGCACCAAAGTGCAGAC
1 AGGGGCACCAAAGTGCAAAC
* *
94402168 TGGGGCA-CATATGTGCAAAC
1 AGGGGCACCA-AAGTGCAAAC
*
94402188 AGGGGCACCATAGTG
1 AGGGGCACCAAAGTG
94402203 TGAATAGGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.35, T:0.13
Consensus pattern (20 bp):
AGGGGCACCAAAGTGCAAAC
Found at i:94402211 original size:20 final size:20
Alignment explanation
Indices: 94402145--94402216 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
94402135 ATAGATCCAT
* *
94402145 AATAGGGGCACCAAAGTGCAG
1 AATAGGGGCACCATAGTG-TG
*
94402166 ACT-GGGGCA-CATA-TGTG
1 AATAGGGGCACCATAGTGTG
*
94402183 CAAACAGGGGCACCATAGTGTG
1 --AATAGGGGCACCATAGTGTG
*
94402205 AATAGGGACACC
1 AATAGGGGCACC
94402217 GAAGAGTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 4 0.10
20 22 0.56
21 6 0.15
22 4 0.10
ACGTcount: A:0.33, C:0.21, G:0.32, T:0.14
Consensus pattern (20 bp):
AATAGGGGCACCATAGTGTG
Found at i:94403360 original size:22 final size:22
Alignment explanation
Indices: 94403321--94403386 Score: 96
Period size: 22 Copynumber: 2.9 Consensus size: 22
94403311 AGAAGAAAAC
*
94403321 CTTTTGTTTTCTTATTTTATTAA
1 CTTTTATTTT-TTATTTTATTAA
94403344 CTTTTATTTTTTATTTTATTAA
1 CTTTTATTTTTTATTTTATTAA
94403366 CTTTTATTTTTTTTATTTTAT
1 CTTTTA--TTTTTTATTTTAT
94403387 CTTTTAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 18 0.45
23 9 0.22
24 13 0.32
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
CTTTTATTTTTTATTTTATTAA
Found at i:94408585 original size:32 final size:32
Alignment explanation
Indices: 94408549--94408616 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
94408539 GATTTGTCTT
94408549 AAATTAGTTATTTATCCAAACAAAGCAATTAC
1 AAATTAGTTATTTATCCAAACAAAGCAATTAC
* *
94408581 AAATTAGTTATTTATCCCAATAAAGCAATTAC
1 AAATTAGTTATTTATCCAAACAAAGCAATTAC
94408613 AAAT
1 AAAT
94408617 GTTAGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (32 bp):
AAATTAGTTATTTATCCAAACAAAGCAATTAC
Found at i:94412571 original size:25 final size:25
Alignment explanation
Indices: 94412468--94412572 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 25
94412458 CACTATTAAA
*
94412468 CAGAGAGCACTAAAGTTC-TAT-AT
1 CAGAGAGCACTAAAGTGCTTATAAT
* *
94412491 -AGAGATCA-TAAATGTGCTAATAAT
1 CAGAGAGCACTAAA-GTGCTTATAAT
* * * *
94412515 CGGAGAACAATAACGTGCTTATAAT
1 CAGAGAGCACTAAAGTGCTTATAAT
*
94412540 CAAAGAGCACTAAAGTGCTTATAAT
1 CAGAGAGCACTAAAGTGCTTATAAT
*
94412565 CGGAGAGC
1 CAGAGAGC
94412573 GCATAAGATC
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
21 4 0.06
22 10 0.16
23 2 0.03
24 2 0.03
25 42 0.67
26 3 0.05
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (25 bp):
CAGAGAGCACTAAAGTGCTTATAAT
Found at i:94428441 original size:16 final size:15
Alignment explanation
Indices: 94428420--94428465 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
94428410 ATCCTCCTTT
94428420 TTTTTATTTAGTCTTA
1 TTTTTATTTA-TCTTA
*
94428436 TTTTTATTTTATTTTA
1 TTTTTA-TTTATCTTA
*
94428452 TTTTTATTTTTCTT
1 TTTTTATTTATCTT
94428466 TTGATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.23
16 16 0.62
17 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTATTTATCTTA
Found at i:94428447 original size:5 final size:5
Alignment explanation
Indices: 94428437--94428504 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
94428427 TTAGTCTTAT
* *
94428437 TTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA
94428488 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
94428505 CCAAGACAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
5 26 0.50
6 19 0.37
7 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:94428449 original size:11 final size:11
Alignment explanation
Indices: 94428433--94428504 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
94428423 TTATTTAGTC
94428433 TTATTTTTATT
1 TTATTTTTATT
94428444 TTA-TTTTATTT
1 TTATTTTTA-TT
*
94428455 TTATTTTTCTT
1 TTATTTTTATT
94428466 TTGATTTTTATT
1 TT-ATTTTTATT
**
94428478 TTCATTTCAATT
1 TT-ATTTTTATT
94428490 TTATTATTTTATT
1 TTA-T-TTTTATT
94428503 TT
1 TT
94428505 CCAAGACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 5 0.10
11 13 0.27
12 24 0.49
13 7 0.14
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:94428474 original size:7 final size:6
Alignment explanation
Indices: 94428433--94428484 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
94428423 TTATTTAGTC
* *
94428433 TTATTT TTA-TT TTA-TT TTATTT TTATTT TTCTTT TGATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
94428479 TCATTT
1 TTATTT
94428485 CAATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:94432723 original size:14 final size:14
Alignment explanation
Indices: 94432706--94432733 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94432696 TCAAAACAAG
94432706 AATTAAGAACACAT
1 AATTAAGAACACAT
94432720 AATTAAGAACACAT
1 AATTAAGAACACAT
94432734 CATATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:94433671 original size:13 final size:14
Alignment explanation
Indices: 94433648--94433680 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
94433638 TACAAATAAC
*
94433648 AGAATCAGATATGT
1 AGAATCAGATATAT
94433662 AGAA-CAGATATAT
1 AGAATCAGATATAT
94433675 AGAATC
1 AGAATC
94433681 CTACCCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (14 bp):
AGAATCAGATATAT
Found at i:94435458 original size:22 final size:21
Alignment explanation
Indices: 94435432--94435476 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94435422 TTTACACCAA
*
94435432 GTTGTGGGTAAAACCACTCATT
1 GTTGTGGAT-AAACCACTCATT
*
94435454 GTTGTGGATGAACCACTCATT
1 GTTGTGGATAAACCACTCATT
94435475 GT
1 GT
94435477 AGATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (21 bp):
GTTGTGGATAAACCACTCATT
Found at i:94436140 original size:29 final size:29
Alignment explanation
Indices: 94436110--94436216 Score: 105
Period size: 28 Copynumber: 3.8 Consensus size: 29
94436100 AATTCTAGGT
*
94436110 AAAATTGTAAAATATGAAAAACATGAGGT
1 AAAATTGTAAAATATGAAAAACATGAGGG
*
94436139 AAAATTGTAAAA-ACT-AAAAA-ATAAGGG
1 AAAATTGTAAAATA-TGAAAAACATGAGGG
* * *
94436166 GAAATTGTAAAATTTGAAAAATA-GAGGG
1 AAAATTGTAAAATATGAAAAACATGAGGG
* * *
94436194 ACAATTGTAAAATCTAAAAAACA
1 AAAATTGTAAAATATGAAAAACA
94436217 GGGGTCACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 17 0.27
28 33 0.52
29 14 0.22
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAATTGTAAAATATGAAAAACATGAGGG
Found at i:94436157 original size:56 final size:54
Alignment explanation
Indices: 94436110--94436213 Score: 136
Period size: 56 Copynumber: 1.9 Consensus size: 54
94436100 AATTCTAGGT
*
94436110 AAAATTGTAAAATATGAAAAACATGAGGTAAAATTGTAAAAACTAAAAAATAAGGG
1 AAAATTGTAAAATATGAAAAACA-GAGGGAAAATTGTAAAAACT-AAAAATAAGGG
* * * * *
94436166 GAAATTGTAAAATTTGAAAAATAGAGGGACAATTGTAAAATCTAAAAA
1 AAAATTGTAAAATATGAAAAACAGAGGGAAAATTGTAAAAACTAAAAA
94436214 ACAGGGGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 5 0.12
55 17 0.40
56 20 0.48
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.23
Consensus pattern (54 bp):
AAAATTGTAAAATATGAAAAACAGAGGGAAAATTGTAAAAACTAAAAATAAGGG
Found at i:94436170 original size:27 final size:27
Alignment explanation
Indices: 94436111--94436214 Score: 104
Period size: 27 Copynumber: 3.7 Consensus size: 27
94436101 ATTCTAGGTA
* *
94436111 AAATTGTAAAATATGAAAAACAT-GAGGTA
1 AAATTGTAAAATCT-AAAAA-ATAGAGG-G
*
94436140 AAATTGTAAAAACTAAAAAATA-AGGGG
1 AAATTGTAAAATCTAAAAAATAGA-GGG
* *
94436167 AAATTGTAAAATTTGAAAAATAGAGGG
1 AAATTGTAAAATCTAAAAAATAGAGGG
94436194 ACAATTGTAAAATCTAAAAAA
1 A-AATTGTAAAATCTAAAAAA
94436215 CAGGGGTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
27 26 0.41
28 25 0.40
29 12 0.19
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.23
Consensus pattern (27 bp):
AAATTGTAAAATCTAAAAAATAGAGGG
Found at i:94437387 original size:21 final size:21
Alignment explanation
Indices: 94437358--94437399 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
94437348 TAATTATTAC
* *
94437358 ATAATTTATAGTATTTGAAAT
1 ATAACTTATAATATTTGAAAT
94437379 ATAACTTATAATATTTGAAAT
1 ATAACTTATAATATTTGAAAT
94437400 TTTGAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (21 bp):
ATAACTTATAATATTTGAAAT
Found at i:94438349 original size:17 final size:18
Alignment explanation
Indices: 94438327--94438362 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
94438317 AAAAAATATA
94438327 TAATTTTTTTAT-ATTTT
1 TAATTTTTTTATGATTTT
94438344 TAATTTTTTTATGATTTT
1 TAATTTTTTTATGATTTT
94438362 T
1 T
94438363 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TAATTTTTTTATGATTTT
Found at i:94438855 original size:30 final size:30
Alignment explanation
Indices: 94438819--94438878 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
94438809 AATATTTCGT
94438819 TTTTTTGGCTTAGCTTAAAATTTC-ATATTA
1 TTTTTTGGCTTAGCTTAAAA-TTCAATATTA
94438849 TTTTTTGGCTTAGCTTAAAATTCAATATTA
1 TTTTTTGGCTTAGCTTAAAATTCAATATTA
94438879 AAATCAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (30 bp):
TTTTTTGGCTTAGCTTAAAATTCAATATTA
Found at i:94439318 original size:6 final size:6
Alignment explanation
Indices: 94439307--94439331 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94439297 TCATTTTCCT
94439307 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
94439332 AGTGTTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:94445237 original size:106 final size:106
Alignment explanation
Indices: 94445111--94445312 Score: 314
Period size: 106 Copynumber: 1.9 Consensus size: 106
94445101 GGTCACCCCA
* *
94445111 CACAATCGTGTGTCATTATTGTTTTTGGTGTAGGTTTCACATGGTTTGCAACATGGCTGTGTGAC
1 CACAATCGTGTGTCATTATTGTTTTTGGTGTAGGTTTCACATGGTCTGCAACATGGCCGTGTGAC
** * *
94445176 TCAACATTGAGTGCACACACTATTTGGCACATGTTCTGCAT
66 TCAACATCAAATGCACACACGATTTGGCACATGTTCTGCAT
* **
94445217 CACAGTCGTGTGTCATTATTGTTTTTGGTGTAGGTTTCACATGGTCTGTGACATGGCCGTGTGAC
1 CACAATCGTGTGTCATTATTGTTTTTGGTGTAGGTTTCACATGGTCTGCAACATGGCCGTGTGAC
*
94445282 TCAACATCAAATGCACACACGGTTTGGCACA
66 TCAACATCAAATGCACACACGATTTGGCACA
94445313 GGTGTAACAC
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 86 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (106 bp):
CACAATCGTGTGTCATTATTGTTTTTGGTGTAGGTTTCACATGGTCTGCAACATGGCCGTGTGAC
TCAACATCAAATGCACACACGATTTGGCACATGTTCTGCAT
Found at i:94445944 original size:38 final size:38
Alignment explanation
Indices: 94445901--94445976 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
94445891 TTCATCCTTT
94445901 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
94445939 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
94445977 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:94447266 original size:40 final size:41
Alignment explanation
Indices: 94447165--94447269 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
94447155 TACTCGAATG
* * * *
94447165 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
* * * *
94447206 ACATCCGGACTAAGATCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
*
94447246 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
94447270 CTTGTGCGAG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 25 0.48
41 27 0.52
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
Found at i:94453965 original size:38 final size:38
Alignment explanation
Indices: 94453922--94453997 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
94453912 TTCATCCTTT
*
94453922 TTCATTTCTTTTGGCCGAAAATTCTAAGGAATGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
94453960 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
94453998 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:94455288 original size:40 final size:41
Alignment explanation
Indices: 94455184--94455288 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
94455174 TACTCGAATG
* * * *
94455184 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
* * * * *
94455225 ACATCCAGACTAAGATCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
*
94455265 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
94455289 CTTGTGCGAG
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
40 24 0.48
41 26 0.52
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
Found at i:94458587 original size:48 final size:46
Alignment explanation
Indices: 94458519--94458844 Score: 248
Period size: 48 Copynumber: 6.9 Consensus size: 46
94458509 GTGAATTGCT
* * *
94458519 GATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
* * * *
94458567 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCCATGTCC-A-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
* * * * ***
94458615 GAGGCTATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCAAGGCC
**
94458661 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-GTCAACACC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
** * ** *
94458708 GATGCCATGTCCAACATGGTCTTACACCAGCTCTCATAACATA-GTC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCA-AGGCC
* * * *
94458754 AATGCCATGTTCCAAACATGGTTTTACACTGGCATGCGAAATGT---GGCT
1 GATGCCATG-TCC-AACATGGTCTTACACTGGC-T-C-ACATGTCAAGGCC
*
94458802 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCA
1 GATGCCATGT-CC-AACATGGTCTTACACTGGCTCACATGTCA
94458845 CCCCAAATGT
Statistics
Matches: 218, Mismatches: 46, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
45 25 0.11
46 50 0.23
47 25 0.11
48 114 0.52
49 1 0.00
50 1 0.00
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCAAGGCC
Found at i:94458744 original size:93 final size:94
Alignment explanation
Indices: 94458519--94458786 Score: 295
Period size: 93 Copynumber: 2.8 Consensus size: 94
94458509 GTGAATTGCT
* * * * * *
94458519 GATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCTAGAC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGAC
* * **
94458584 ATGGTCTTACACTAGCTCTCATCTCAATGCC
64 ATGGTCTTACACTGGCTCACATCTCAACACC
* * *
94458615 GAGGCTATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGATGCCATGTCCCAGACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
*
94458680 GGTCTTACACTGGCTCACA-GTCAACACC
66 GGTCTTACACTGGCTCACATCTCAACACC
** * * * * * * *
94458708 GATGCCATGTCCAACATGGTCTTACACCAGCTCTCATAACATAGTCAATGCCATGTTCCAAACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
*
94458773 GGTTTTACACTGGC
66 GGTCTTACACTGGC
94458787 ATGCGAAATG
Statistics
Matches: 145, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
93 72 0.50
94 63 0.43
95 3 0.02
96 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (94 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTCACATCTCAACACC
Found at i:94458806 original size:141 final size:142
Alignment explanation
Indices: 94458516--94458844 Score: 400
Period size: 141 Copynumber: 2.3 Consensus size: 142
94458506 AGGGTGAATT
* * * ** *
94458516 GCTGATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCTA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
* ** * *
94458581 GACATGGTCTTACACTAGCTCTCATCTCAATGCCGAGGCTATGTCCAACATGGTCTTACACTGGC
66 GACATGGTCTTACACCAGCTCTCATAACAATGCCAAGGCCATGTCCAACATGGTCTTACACTGGC
*
94458646 TCTCATATGGTG
131 TCTCAAATGGTG
* *
94458658 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-GTCAACACCGATGCCATGTCC-A
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
* * *
94458721 -ACATGGTCTTACACCAGCTCTCATAAC-ATAGTCAATGCCATGTTCCAAACATGGTTTTACACT
66 GACATGGTCTTACACCAGCTCTCATAACAAT-GCCAAGGCCATG-TCC-AACATGGTCTTACACT
*
94458784 GGCATGC-GAAAT-GTG
128 GGC-T-CTCAAATGGTG
*
94458799 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCA
94458845 CCCCAAATGT
Statistics
Matches: 161, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
138 2 0.01
139 32 0.20
140 4 0.02
141 76 0.47
142 46 0.29
143 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (142 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
GACATGGTCTTACACCAGCTCTCATAACAATGCCAAGGCCATGTCCAACATGGTCTTACACTGGC
TCTCAAATGGTG
Found at i:94461080 original size:31 final size:30
Alignment explanation
Indices: 94461054--94461112 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
94461044 AATTTACATT
*
94461054 TTATATACCATTATATTAAATTATTTAAACA
1 TTATATAACATTA-ATTAAATTATTTAAACA
*
94461085 TTATGTAACATTAATTAAATTATTTAAA
1 TTATATAACATTAATTAAATTATTTAAA
94461113 TATCAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (30 bp):
TTATATAACATTAATTAAATTATTTAAACA
Found at i:94461750 original size:5 final size:6
Alignment explanation
Indices: 94461723--94461748 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94461713 ATGTTCTTAG
94461723 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
94461749 ATGAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:94468527 original size:26 final size:26
Alignment explanation
Indices: 94468491--94468572 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
94468481 TGAAATTCCA
94468491 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94468517 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94468543 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94468569 ATCA
1 ATCA
94468573 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94472247 original size:10 final size:10
Alignment explanation
Indices: 94472232--94472258 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
94472222 TCAAACTCTA
94472232 TTGCCCGTAC
1 TTGCCCGTAC
94472242 TTGCCCGTAC
1 TTGCCCGTAC
94472252 TTGCCCG
1 TTGCCCG
94472259 GCAACCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.41, G:0.22, T:0.30
Consensus pattern (10 bp):
TTGCCCGTAC
Found at i:94475525 original size:26 final size:26
Alignment explanation
Indices: 94475486--94475567 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
94475476 TGAAATTCCA
94475486 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94475512 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94475538 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94475564 ATCA
1 ATCA
94475568 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94481112 original size:94 final size:95
Alignment explanation
Indices: 94481002--94481180 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 95
94480992 CTCGTCGGTT
94481002 TTTTTTTTCAATTTCAAATATAACGGTAAAA-TTTATGTTTTG-GCCTCACTATTAAACTCGAAT
1 TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTA-GTTTTGAGCC-CACTATTAAACTCGAAT
* *
94481065 TTAAGATTTAATTTTTATATTTTATATTTTTA
64 TTAAAATTTAATCTTTATATTTTATATTTTTA
* * * * *
94481097 TTTTTTTTC-ATTTCAATTATAATGGTAAAATTTTAGTTTTGATCCCTCTTTTAAACTCGAATTT
1 TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTAGTTTTGAGCCCACTATTAAACTCGAATTT
*
94481161 AAAATTTACTCTTTATATTT
66 AAAATTTAATCTTTATATTT
94481181 CTATGTCCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 59 0.80
95 15 0.20
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (95 bp):
TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTAGTTTTGAGCCCACTATTAAACTCGAATTT
AAAATTTAATCTTTATATTTTATATTTTTA
Found at i:94497488 original size:48 final size:48
Alignment explanation
Indices: 94497163--94497491 Score: 251
Period size: 48 Copynumber: 6.9 Consensus size: 48
94497153 GGGTAGGATA
*
94497163 CCGATGCCATG-CCCTAGAAATGGTCTTACACTGG--CTCATACATCAAT-
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCAT-C-TCAATG
* * * * * *
94497210 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGCA-ATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATCTCAATG
** * * * **
94497259 CCGACACCATGTCCCAGGCATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAATG
* * * * *
94497309 CCTATGCCATATCCCAGACATGGTCTTACA-TTG-ACACATCTC-ATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-G
* * * *
94497355 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
* * ** * *
94497403 CCAATGCCATGTCCTAGACACAGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
* *
94497451 CCGATGACATGTCTCAGACATGGTCTTACACTGGCTCTCAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
94497492 AATGTGACCG
Statistics
Matches: 218, Mismatches: 51, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.00
46 33 0.15
47 31 0.14
48 87 0.40
49 34 0.16
50 29 0.13
51 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:94501217 original size:21 final size:21
Alignment explanation
Indices: 94501183--94501223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94501173 GTCAGTAACC
*
94501183 AAATGTTCACACAAATAGACA
1 AAATGTTCACACAAACAGACA
**
94501204 AAATGTTCTGACAAACAGAC
1 AAATGTTCACACAAACAGAC
94501224 GTCTATTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATGTTCACACAAACAGACA
Found at i:94503386 original size:41 final size:41
Alignment explanation
Indices: 94503329--94503434 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
94503319 CCTGCCTACC
* *
94503329 AGGCACAAAGCTTGATATAATACACCGGCACGAAGCCTGCT
1 AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
* *
94503370 AGGCACAACGCCTGATATAATACATAGGCACGAAGCCTGCT
1 AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
*
94503411 AGGCACAACGCTTGGTATAATACA
1 AGGCACAACGCTTGATATAATACA
94503435 GGAAATCTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (41 bp):
AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
Found at i:94504021 original size:23 final size:23
Alignment explanation
Indices: 94503995--94504038 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
94503985 TCGAATCCAA
94503995 GTCT-GAAAACAAGAATAAAACTT
1 GTCTAGAAAACAA-AATAAAACTT
*
94504018 GTCTAGAAAATAAAATAAAAC
1 GTCTAGAAAACAAAATAAAAC
94504039 CTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.20
Consensus pattern (23 bp):
GTCTAGAAAACAAAATAAAACTT
Found at i:94506179 original size:25 final size:24
Alignment explanation
Indices: 94506113--94506183 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
94506103 TATGCTCCTA
*
94506113 CGAGC-GATAATCGGTAAGCTTCTC
1 CGAGCTGAGAATCGGTAAGC-TCTC
*
94506137 CGAGCTGAGTATCGGTAAGCTCTC
1 CGAGCTGAGAATCGGTAAGCTCTC
*
94506161 ACGAGCTGTA-AATCAGTAAGCTC
1 -CGAGCTG-AGAATCGGTAAGCTC
94506184 ATATGAGCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.22
25 30 0.75
26 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (24 bp):
CGAGCTGAGAATCGGTAAGCTCTC
Found at i:94511290 original size:25 final size:25
Alignment explanation
Indices: 94511261--94511312 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
94511251 GGGTAAAATG
94511261 AACTAGAAGACAAAATTAAAAGCCA
1 AACTAGAAGACAAAATTAAAAGCCA
94511286 AACTAGAAGACAAAATTAAAAGCCA
1 AACTAGAAGACAAAATTAAAAGCCA
94511311 AA
1 AA
94511313 TGTGTCCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.12, T:0.12
Consensus pattern (25 bp):
AACTAGAAGACAAAATTAAAAGCCA
Found at i:94512799 original size:24 final size:24
Alignment explanation
Indices: 94512772--94512825 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
94512762 TGAAAGGTAT
*
94512772 GTATATATGTGTTTATATGTATAA
1 GTATATATGTGTTCATATGTATAA
* * *
94512796 GTATGTATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATATGTATAA
94512820 GTATAT
1 GTATAT
94512826 GAAGGTGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (24 bp):
GTATATATGTGTTCATATGTATAA
Found at i:94514321 original size:22 final size:22
Alignment explanation
Indices: 94514296--94514369 Score: 130
Period size: 22 Copynumber: 3.4 Consensus size: 22
94514286 TGGCCTGAGG
94514296 ACACGGGCGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
94514318 ACACGGGCGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
* *
94514340 ACATGGGTGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
94514362 ACACGGGC
1 ACACGGGC
94514370 CTGTGACTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.11, C:0.38, G:0.32, T:0.19
Consensus pattern (22 bp):
ACACGGGCGTGCCCCTGTGTCC
Found at i:94517746 original size:25 final size:25
Alignment explanation
Indices: 94517707--94517755 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94517697 GGCTAAAATC
*
94517707 GAAGCTCGCTTTCATTTCTCTCGTT
1 GAAGCTCGCTCTCATTTCTCTCGTT
*
94517732 GAAGCTCTCTCTCATTTCTCTCGT
1 GAAGCTCGCTCTCATTTCTCTCGT
94517756 CTCTAGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.31, G:0.14, T:0.43
Consensus pattern (25 bp):
GAAGCTCGCTCTCATTTCTCTCGTT
Found at i:94521070 original size:9 final size:9
Alignment explanation
Indices: 94521052--94521082 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
94521042 TGACAAGAAT
*
94521052 GATGATGAC
1 GATGAGGAC
94521061 GATGAGGAC
1 GATGAGGAC
94521070 GATGAGGAC
1 GATGAGGAC
94521079 GATG
1 GATG
94521083 TTTCTTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.42, T:0.16
Consensus pattern (9 bp):
GATGAGGAC
Found at i:94521355 original size:21 final size:22
Alignment explanation
Indices: 94521321--94521362 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
94521311 TGTACTGCTG
94521321 TTTTGATGCTGTTTTATTGTTC
1 TTTTGATGCTGTTTTATTGTTC
*
94521343 TTTTG-TGGTGTTTTATTGTT
1 TTTTGATGCTGTTTTATTGTT
94521363 TTGTTGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.67
Consensus pattern (22 bp):
TTTTGATGCTGTTTTATTGTTC
Found at i:94533113 original size:43 final size:43
Alignment explanation
Indices: 94533052--94533140 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
94533042 AATCTGGCTT
94533052 ATTTTTAACTACCTCTTTTATTTGTCCACAAAACAAAAATTAC
1 ATTTTTAACTACCTCTTTTATTTGTCCACAAAACAAAAATTAC
94533095 ATTTTTAACTACCTCTTTTATTTGTCCACAAAACAAAAATTAC
1 ATTTTTAACTACCTCTTTTATTTGTCCACAAAACAAAAATTAC
94533138 ATT
1 ATT
94533141 ATCTATAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.40
Consensus pattern (43 bp):
ATTTTTAACTACCTCTTTTATTTGTCCACAAAACAAAAATTAC
Found at i:94535738 original size:23 final size:24
Alignment explanation
Indices: 94535694--94535749 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
94535684 TGAGTATTTA
*
94535694 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
94535717 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
94535740 AAT-TAT-TGAT
1 AATGTATATGAT
94535750 CATTAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:94536242 original size:20 final size:20
Alignment explanation
Indices: 94536188--94536260 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
94536178 ATAAGATATG
94536188 TGTTTATATAGAA-GAACTAC
1 TGTTTATAT-GAATGAACTAC
* *
94536208 TGTTTATACGGATGAACTAC
1 TGTTTATATGAATGAACTAC
*
94536228 T-TGTTATATGAATGAATTAC
1 TGT-TTATATGAATGAACTAC
**
94536248 AATTTATATGAAT
1 TGTTTATATGAAT
94536261 AGAAATGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 40 0.91
21 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTTTATATGAATGAACTAC
Found at i:94537931 original size:20 final size:20
Alignment explanation
Indices: 94537906--94537955 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
94537896 AGATCATATT
*
94537906 GAGAGATTGAATTTATTTCA
1 GAGAGATTAAATTTATTTCA
94537926 GAGAGATTAAATTTATTTCA
1 GAGAGATTAAATTTATTTCA
94537946 GAGAGATTAA
1 GAGAGATTAA
94537956 GGATATTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (20 bp):
GAGAGATTAAATTTATTTCA
Found at i:94537962 original size:20 final size:20
Alignment explanation
Indices: 94537919--94537962 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
94537909 AGATTGAATT
**
94537919 TATTTCAGAGAGATTAAATT
1 TATTTCAGAGAGATTAAAGA
*
94537939 TATTTCAGAGAGATTAAGGA
1 TATTTCAGAGAGATTAAAGA
94537959 TATT
1 TATT
94537963 GAGGGTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
TATTTCAGAGAGATTAAAGA
Found at i:94543291 original size:16 final size:16
Alignment explanation
Indices: 94543272--94543302 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94543262 CTAGTTTTTT
*
94543272 AAAATTGTAAATTATA
1 AAAATTATAAATTATA
94543288 AAAATTATAAATTAT
1 AAAATTATAAATTAT
94543303 TGTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTATAAATTATA
Found at i:94543319 original size:19 final size:19
Alignment explanation
Indices: 94543295--94543351 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
94543285 ATAAAAATTA
94543295 TAAATTATTGTAATTTTTT
1 TAAATTATTGTAATTTTTT
* * *
94543314 TAAATTATAG-AAATATTT
1 TAAATTATTGTAATTTTTT
* *
94543332 TAAA-TGTTATAATTTTTT
1 TAAATTATTGTAATTTTTT
94543350 TA
1 TA
94543352 CAAAATACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 2 0.07
18 18 0.62
19 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TAAATTATTGTAATTTTTT
Found at i:94543319 original size:35 final size:36
Alignment explanation
Indices: 94543279--94543351 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
94543269 TTTAAAATTG
*
94543279 TAAATTATA-AAA-ATTATAAATTATTGTAATTTTTT
1 TAAATTATAGAAATATTATAAA-TATTATAATTTTTT
* *
94543314 TAAATTATAGAAATATTTTAAATGTTATAATTTTTT
1 TAAATTATAGAAATATTATAAATATTATAATTTTTT
94543350 TA
1 TA
94543352 CAAAATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 9 0.27
36 17 0.52
37 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (36 bp):
TAAATTATAGAAATATTATAAATATTATAATTTTTT
Found at i:94551626 original size:18 final size:18
Alignment explanation
Indices: 94551603--94551638 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
94551593 TATAGAAGTC
*
94551603 AAACTTTCTAGCAGAATA
1 AAACTTTCTAGCAAAATA
94551621 AAACTTTCTAGCAAAATA
1 AAACTTTCTAGCAAAATA
94551639 GGTAAAATGA
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:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (18 bp):
AAACTTTCTAGCAAAATA
Found at i:94553677 original size:87 final size:87
Alignment explanation
Indices: 94553531--94553700 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 87
94553521 ATGAAACAAC
*
94553531 TTTGAATATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
1 TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
94553596 CATTAGATAGACTTAAATGTTG
66 CATTAGATAGACTTAAATGTTG
* *
94553618 TTTGAACATCATGAACGTGTGAACCAAAATCCAAACAATTTTTTTCTTTGATATTCGACATTGAC
1 TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
94553683 CATTAGATAGACTTAAAT
66 CATTAGATAGACTTAAAT
94553701 CTAAGATATG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (87 bp):
TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
CATTAGATAGACTTAAATGTTG
Found at i:94557398 original size:48 final size:47
Alignment explanation
Indices: 94557330--94557606 Score: 238
Period size: 48 Copynumber: 5.8 Consensus size: 47
94557320 CAGCCATATT
* *
94557330 ATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATTGGCATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGC-TTGAG
* * * * *
94557378 ACGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGAT
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CT--TGAG
*
94557428 ATGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
* * * * * *
94557475 ATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CTTGAG
* * *
94557521 ATGTGAGAG-TCAGTGTAAGACCATGTCTAGGACATGGCATTGACTTTGATG
1 A--TGAGAGCT-AGTGTAAGACCATGTTTGGGACATGGCATTGGC-TTGA-G
* * * * *
94557572 -TGTGAACCAGTGTAAGACCATGTCTAGGACATGGC
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGC
94557607 GTCGGCATCT
Statistics
Matches: 187, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
45 30 0.16
46 6 0.03
47 5 0.03
48 71 0.38
49 4 0.02
50 71 0.38
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
Found at i:94557449 original size:50 final size:50
Alignment explanation
Indices: 94557281--94557612 Score: 235
Period size: 48 Copynumber: 6.9 Consensus size: 50
94557271 ACATTTGGGT
* * *
94557281 GATATGTGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CATA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-A
* * * * * *
94557328 -TTATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATTGGCAT--T
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
94557375 GAGACGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
94557425 GATATGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CT--T
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
94557472 GAGATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * * * **
94557520 TATGTGAGAG-TCAGTGTAAGACCATGTCTAGGACATGGCAT-TGACT-TT
1 GATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * * * *
94557568 GATGTGTGAACCAGTGTAAGACCATGTCTAGGACATGGCGTCGGC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
94557613 ATCTTACCCT
Statistics
Matches: 222, Mismatches: 48, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
45 30 0.14
46 19 0.09
47 18 0.08
48 82 0.37
49 6 0.03
50 67 0.30
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (50 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
Found at i:94557536 original size:95 final size:96
Alignment explanation
Indices: 94557291--94557612 Score: 363
Period size: 95 Copynumber: 3.4 Consensus size: 96
94557281 GATATGTGTG
*
94557291 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CATATTATGAGAGCCAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATA-TATGAGAG-CAGTGTAAGACCAT
* * *
94557352 GTATGGGACATGGCATTGGCATTGAGACGAGAG
64 GTATGGGACATGGCATTGGCATTGAGATGTGAT
* * * *
94557385 CTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGATATGAAAGCTAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATATATGAGAGC-AGTGTAAGACCAT
*
94557450 GTTTGGGACATGGCATTGGC-TTGAGATGTG-T
64 GTATGGGACATGGCATTGGCATTGAGATGTGAT
*
94557481 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGAGTCAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATATATGAGAG-CAGTGTAAGACCAT
* * * * *
94557545 GTCTAGGACATGGCATTGACTTTGATG-TGTGAA
64 GTATGGGACATGGCATTGGCATTGA-GATGTGAT
* * *
94557578 CCAGTGTAAGACCATGTCTAGGACATGGCGTCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
94557613 ATCTTACCCT
Statistics
Matches: 196, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
94 10 0.05
95 85 0.43
96 16 0.08
97 12 0.06
98 71 0.36
99 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATATATGAGAGCAGTGTAAGACCATGT
ATGGGACATGGCATTGGCATTGAGATGTGAT
Found at i:94560628 original size:44 final size:44
Alignment explanation
Indices: 94560561--94560651 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
94560551 ATTTGCAGGT
* **
94560561 AAAATAATATTAAAGTAACCTACACTAATTAGAGTTTAAG-TGG
1 AAAATAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
*
94560604 AAAACTAATATTAAAGTAACCTACAATAACCAGAGTTTACGTTGG
1 AAAA-TAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
94560649 AAA
1 AAA
94560652 CGAAAAGCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 4 0.10
44 32 0.76
45 6 0.14
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
AAAATAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
Found at i:94563054 original size:151 final size:147
Alignment explanation
Indices: 94562784--94563056 Score: 368
Period size: 151 Copynumber: 1.8 Consensus size: 147
94562774 CGTGTGGTCC
* * *
94562784 ACACGGCTTGACCCAATAACCCACACGTGTGGCCCACACGCCCAACTTAGCCTGACCTGTGTGGC
1 ACACGGCTTGACCCAATAACCCACACGTGTGACCCACACGCCCAAATTAGCCTGACCCGTGTGGC
* * * *
94562849 CCACACGGCCACACTCAAGCCACTACACGACCGTGTCTTGTGTACGGCCATGCCTTCATCAATCA
66 CCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTCATCAATCA
94562914 CACGGTTGTATCCTCAT
131 CACGGTTGTATCCTCAT
* * * *
94562931 ACACGGTTTGGCCCAATAACCCACACGCCCGTGTGACCCACATGCCCAAATTGGCCT-AGCCCGT
1 ACACGGCTTGACCCAATAACCCACA----CGTGTGACCCACACGCCCAAATTAGCCTGA-CCCGT
* * *
94562995 GTGGCCCACACGACTACACTCAAGCCACCACACAATCGTGTCTTGCGTATGGCCATGCCTTC
61 GTGGCCCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTC
94563057 GTCAGTTATA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
147 23 0.21
150 1 0.01
151 83 0.78
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.20
Consensus pattern (147 bp):
ACACGGCTTGACCCAATAACCCACACGTGTGACCCACACGCCCAAATTAGCCTGACCCGTGTGGC
CCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTCATCAATCA
CACGGTTGTATCCTCAT
Found at i:94563570 original size:7 final size:7
Alignment explanation
Indices: 94563531--94563568 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
94563521 TGAGAGAAAC
94563531 AAAAGAG
1 AAAAGAG
94563538 AAAAGAG
1 AAAAGAG
*
94563545 GAAAGAG
1 AAAAGAG
94563552 AAAAGAG
1 AAAAGAG
*
94563559 AAAGGAG
1 AAAAGAG
94563566 AAA
1 AAA
94563569 GGGAACGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:94564326 original size:33 final size:33
Alignment explanation
Indices: 94564284--94564350 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
94564274 GCCTCAACAT
94564284 CGAAACATGAAAAACATCATGGATATGATCTAA
1 CGAAACATGAAAAACATCATGGATATGATCTAA
*
94564317 CGAAACATGAAAAACATCATGGATATGGTCTAA
1 CGAAACATGAAAAACATCATGGATATGATCTAA
94564350 C
1 C
94564351 TCTGGAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (33 bp):
CGAAACATGAAAAACATCATGGATATGATCTAA
Found at i:94570634 original size:26 final size:26
Alignment explanation
Indices: 94570604--94570656 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
94570594 ACCATTATTA
94570604 AGTTTA-TATATTAT-TTCATTAAGGAT
1 AGTTTAGTA-ATTATGTT-ATTAAGGAT
*
94570630 AGTTTAGTAATTATGTTATTAATGAT
1 AGTTTAGTAATTATGTTATTAAGGAT
94570656 A
1 A
94570657 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (26 bp):
AGTTTAGTAATTATGTTATTAAGGAT
Found at i:94574053 original size:7 final size:7
Alignment explanation
Indices: 94574038--94574075 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
94574028 TGAGAGAAAC
94574038 AAAAGAG
1 AAAAGAG
*
94574045 AACAGAG
1 AAAAGAG
*
94574052 AAGAGAG
1 AAAAGAG
94574059 AAAAGAG
1 AAAAGAG
94574066 AAAAGAG
1 AAAAGAG
94574073 AAA
1 AAA
94574076 GGGAACGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:94575424 original size:44 final size:44
Alignment explanation
Indices: 94575361--94575451 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
94575351 GTAGGTCAAA
*
94575361 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
* *
94575405 TAATATTAAAGTAACCTACACTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
94575449 TAA
1 TAA
94575452 CAATAGAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
Found at i:94577960 original size:14 final size:14
Alignment explanation
Indices: 94577941--94577968 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94577931 TAGCTTGTAG
94577941 CATCTAGATAAAAA
1 CATCTAGATAAAAA
94577955 CATCTAGATAAAAA
1 CATCTAGATAAAAA
94577969 GATAAGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
CATCTAGATAAAAA
Found at i:94580695 original size:57 final size:58
Alignment explanation
Indices: 94580603--94580720 Score: 193
Period size: 57 Copynumber: 2.1 Consensus size: 58
94580593 ATAGAAATGG
*
94580603 TGAAAATGGAGAAATGAGAAACATTTGGAACTGAATATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
* * *
94580661 TGAAAATGGAGAAATTA-AAACATTTGGAAATGAATGTGGTTTTCTCCACAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
94580718 TGA
1 TGA
94580721 CCTAGAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:94599205 original size:48 final size:49
Alignment explanation
Indices: 94599101--94599206 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
94599091 AGGGACACAC
* * *
94599101 CCGTGTGAG-GTGACTTAGGCTGTGTTTAAAGTCTGCTAAATAGACACGG
1 CCGTGTG-GTGTGCCTTAGGCCGTGTTTAAAGTCTGCTAAATAAACACGG
*
94599150 CCGTGTGGTGTGCCTTAGGCCGTG-TTACAA-TCTGTTAAATAAACACGG
1 CCGTGTGGTGTGCCTTAGGCCGTGTTTA-AAGTCTGCTAAATAAACACGG
**
94599198 GGGTGTGGT
1 CCGTGTGGT
94599207 CTACCCGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 27 0.55
49 22 0.45
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (49 bp):
CCGTGTGGTGTGCCTTAGGCCGTGTTTAAAGTCTGCTAAATAAACACGG
Found at i:94607990 original size:48 final size:48
Alignment explanation
Indices: 94607930--94608094 Score: 174
Period size: 48 Copynumber: 3.5 Consensus size: 48
94607920 TAAGCTGACA
* * * * *
94607930 GCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
* * ** *
94607978 ACATGTCCTAGACATGTCTTACAATAGC-TCT-CGTCTC-AATGCCGAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAA-GCCAAT
* * * *
94608024 GCATGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGAAGCCAAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
94608072 GCATGTCCTAGACATGTCTTACA
1 GCATGTCCTAGACATGTCTTACA
94608095 TTGGCTCTCA
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 32 0.34
47 3 0.03
48 56 0.60
49 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
Found at i:94608043 original size:94 final size:94
Alignment explanation
Indices: 94607930--94608145 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 94
94607920 TAAGCTGACA
* ** *
94607930 GCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAATACATGTCCTAGACATGT
1 GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
*
94607995 CTTACAATAGCTCTCGT-CTCAAT-GCCGAT
66 CTTACAATAGCTCTCATGCT--ATGGCCGAT
* * * * *
94608024 GCATGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGAAGCCAATGCATGTCCTAGACATGT
1 GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
* * * *
94608089 CTTACATTGGCTCTCATGCTGTGGCTGAT
66 CTTACAATAGCTCTCATGCTATGGCCGAT
*
94608118 GCATGTCCTAAACATGTCTTACACTAGC
1 GCATGTCCTAGACATGTCTTACACTAGC
94608146 ACACATATCA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.01
94 99 0.97
95 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
CTTACAATAGCTCTCATGCTATGGCCGAT
Found at i:94613292 original size:43 final size:43
Alignment explanation
Indices: 94613209--94613295 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
94613199 GGAAGGGGAG
*
94613209 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
94613252 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
94613295 T
1 T
94613296 TTATTAACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (43 bp):
TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
Found at i:94618276 original size:43 final size:44
Alignment explanation
Indices: 94618240--94618323 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
94618230 TCACATATTG
* *
94618240 ATGCCACTGTCCCACACAGGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATATACA
* * **
94618283 ATGCCAATGTCCCAGACATGGCCTTACATTTAATCACATAT
1 ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATAT
94618324 CGAGTCGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATATACA
Found at i:94618350 original size:47 final size:47
Alignment explanation
Indices: 94618283--94618547 Score: 204
Period size: 47 Copynumber: 5.6 Consensus size: 47
94618273 TCACAATACA
*
94618283 ATGCCAATGTCCCAGACATGGCCTTACATTTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
* * *
94618331 ATGCCATGTCTCAGACATGGTCTTACA-CTAACTCTCTTATATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATTTAA-TCAC--ATATCGA-GTCG
* * ** ** *
94618381 ATGCCACTGTCCCACACAGGGTCTTAC-TCGAAATTGCA-AT--A--CA
1 ATGCCA-TGTCCCAGACATGGTCTTACAT-TTAATCACATATCGAGTCG
*
94618424 ATGCCAATGCCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
* * * * * *
94618472 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTTAATCAC--ATATCGA-GTCG
*
94618522 ATGCCATATCCCAGAC-TGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
94618548 CTGGCTCTCC
Statistics
Matches: 171, Mismatches: 29, Indels: 33
0.73 0.12 0.14
Matches are distributed among these distances:
43 28 0.16
44 4 0.02
46 5 0.03
47 48 0.28
48 13 0.08
49 25 0.15
50 27 0.16
51 19 0.11
52 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
Found at i:94618493 original size:141 final size:141
Alignment explanation
Indices: 94618239--94618548 Score: 489
Period size: 141 Copynumber: 2.2 Consensus size: 141
94618229 ATCACATATT
* *
94618239 GATGCCACTGTCCCACACAGGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACATGG
1 GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
* *
94618304 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCTCAGACATGGTCTTACACTAACTCTCTT
66 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
*
94618369 ATATCGAGGTC
131 ATATCGAGGCC
* **
94618380 GATGCCACTGTCCCACACAGGGTCTTACTCGAAATTGCAATACAATGCCAATGCCCCAGACATGG
1 GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
* *
94618445 TCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTT
66 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
94618510 ATATCGAGGCC
131 ATATCGAGGCC
* * *
94618521 GATGCCA-TATCCCAGAC-TGGTCTTACAC
1 GATGCCACTGTCCCACACAGGGTCTTACAC
94618549 TGGCTCTCCT
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
139 9 0.06
140 8 0.05
141 138 0.89
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (141 bp):
GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
ATATCGAGGCC
Found at i:94618517 original size:49 final size:50
Alignment explanation
Indices: 94618461--94618595 Score: 177
Period size: 49 Copynumber: 2.7 Consensus size: 50
94618451 ATTTAATCAC
*
94618461 ATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTCT-CTT
1 ATATCGAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
* * *
94618510 ATATCGAGGCCGATGCCATATCCCAGAC-TGGTCTTACACTGGCTCTCCTT
1 ATATCGA-GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
* *
94618560 -TTTCCGTGTCGATGCCATGTCCCAGACATGGTCTTA
1 ATAT-CGAGTCGATGCCATGTCCCAGACATGGTCTTA
94618596 AACTAGCTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 44 0.59
50 30 0.41
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (50 bp):
ATATCGAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
Found at i:94619961 original size:27 final size:27
Alignment explanation
Indices: 94619904--94619993 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 27
94619894 GTGACAGAGT
94619904 CACCAGATACAGATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAAG-GC
*
94619933 CACCAGAACAGATATATGTGGCAAGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
94619960 CACCAGAACAGATAATTTGTGGCATA-GC
1 CACCAGAACAGAT-ATTTGTGGCA-AGGC
94619988 CACCAG
1 CACCAG
94619994 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.39
28 26 0.46
29 8 0.14
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:94619989 original size:28 final size:28
Alignment explanation
Indices: 94619904--94619993 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
94619894 GTGACAGAGT
*
94619904 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
94619933 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
94619960 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
94619988 CACCAG
1 CACCAG
94619994 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 8 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:94625586 original size:28 final size:27
Alignment explanation
Indices: 94625529--94625625 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
94625519 TAAATTGTGC
*
94625529 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
94625556 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
94625584 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94625611 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94625626 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 38 0.58
28 27 0.42
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:94625636 original size:27 final size:27
Alignment explanation
Indices: 94625529--94625638 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
94625519 TAAATTGTGC
* * *
94625529 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGACTTGAATATAT
* * *
94625556 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
94625584 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
94625611 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
94625638 A
1 A
94625639 TTCTTGAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 44 0.59
28 30 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:94630994 original size:27 final size:28
Alignment explanation
Indices: 94630942--94631011 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
94630932 GTGACAGAGT
* *
94630942 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
94630971 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
94630998 CACCAGAACAGATA
1 CACCAGAACAGATA
94631012 ATTTATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:94631029 original size:28 final size:27
Alignment explanation
Indices: 94630942--94631031 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
94630932 GTGACAGAGT
*
94630942 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
94630971 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
94630998 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
94631026 CACCAG
1 CACCAG
94631032 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:94631184 original size:28 final size:28
Alignment explanation
Indices: 94631137--94631201 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
94631127 AAATTAACCG
*
94631137 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
94631165 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
94631193 TAGGGGTAT
1 TAGGGGTAT
94631202 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:94635107 original size:28 final size:28
Alignment explanation
Indices: 94635050--94635147 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
94635040 GATGTCTCGC
* * * * *
94635050 ACACTATGTACCATACTCGATACCTCGT
1 ACACTAAGTGCCATCCTCGATACTTTGT
* * * **
94635078 ACACTAAGTGCTATTCTGGATGTTTTGT
1 ACACTAAGTGCCATCCTCGATACTTTGT
*
94635106 ACACTAAGTGCCATCCTCGATACTTTGC
1 ACACTAAGTGCCATCCTCGATACTTTGT
94635134 ACACTAAGTGCCAT
1 ACACTAAGTGCCAT
94635148 TTATGTGACA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGCCATCCTCGATACTTTGT
Found at i:94636799 original size:40 final size:40
Alignment explanation
Indices: 94636740--94636957 Score: 330
Period size: 40 Copynumber: 5.5 Consensus size: 40
94636730 CGGATGACAA
*
94636740 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
94636780 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
94636820 CTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
94636860 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** *
94636900 CCGGGCTAAGTCCCGAAGGCAGTTGAACGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
94636940 CC-GGATAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94636958 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94644735 original size:40 final size:40
Alignment explanation
Indices: 94644679--94644816 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
94644669 CGGATGACAA
*
94644679 CCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
94644719 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
94644759 CCGGGCTAAGTCCCAAAGGCAGTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
94644799 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94644817 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.18
40 74 0.82
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94651024 original size:49 final size:48
Alignment explanation
Indices: 94650944--94651074 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 48
94650934 GGTTCATATG
* * *
94650944 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTTTATATAGCGAGA
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATAGCG-GA
* * * * *
94650994 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGGA
* *
94651042 CTTGATGCCATGTCACAGACAGGTCTTACACTA
1 C-CGATGCCATGTCCCAGACAGGTCTTACACTA
94651075 ACGCAGCACA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.03
49 48 0.71
50 18 0.26
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGGA
Found at i:94651248 original size:48 final size:46
Alignment explanation
Indices: 94651102--94651308 Score: 159
Period size: 46 Copynumber: 4.4 Consensus size: 46
94651092 GCCATATTCC
* * * *
94651102 AGACAGGTCTTACACTAGCTTGTATATCGTGAGGTCAATGCATGTCCT
1 AGACATGTCTTACACTAGC-T-TATATCTTGAGGCCGATGCATGTCCT
** ** * * *
94651150 AGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATGCATGGCCC
1 AGACATGTCTTACACTAGCT-TATATCTTGAGGCCGATGCATGTCCT
*
94651196 AGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTT--ATATCTTGAGGCCGATGCATGTCCT
* * * ** *
94651244 AGACATGTCTTACACTGGCTCTCAT-GC-TGTGGCTAATGCATGTCCA
1 AGACATGTCTTACACTAGCT-T-ATATCTTGAGGCCGATGCATGTCCT
*
94651290 AGACATTTCTTACACTAGC
1 AGACATGTCTTACACTAGC
94651309 ACACATATCA
Statistics
Matches: 127, Mismatches: 28, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 65 0.51
47 3 0.02
48 57 0.45
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTTATATCTTGAGGCCGATGCATGTCCT
Found at i:94651283 original size:94 final size:93
Alignment explanation
Indices: 94651100--94651308 Score: 249
Period size: 94 Copynumber: 2.2 Consensus size: 93
94651090 ATGCCATATT
* ** *
94651100 CCAGACAGGTCTTACACTAGCTTGTATATCGTGAGGTCAATGCATGTCCTAGACATGTCTTACAC
1 CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
* *
94651165 TAGCTCTCGTCTCAATGCCGATGCATGGC
66 TAGCTCTCATCT-AATGCCAATGCATGGC
* * *
94651194 CCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
1 CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
* * * *
94651259 TGGCTCTCATGCT-GTGGCTAATGCATGTC
66 TAGCTCTCAT-CTAAT-GCCAATGCATGGC
* *
94651288 CAAGACATTTCTTACACTAGC
1 CCAGACATGTCTTACACTAGC
94651309 ACACATATCA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 94 0.97
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (93 bp):
CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
TAGCTCTCATCTAATGCCAATGCATGGC
Found at i:94653231 original size:33 final size:33
Alignment explanation
Indices: 94653194--94653275 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
94653184 TGCTTGAAAC
*
94653194 ACATACCAAATCATATCATTCCATAAGCAAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
*
94653227 ACATACCAAATTATATCATTCCATAAGCCAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
*
94653260 GCATACCAAATTATAT
1 ACATACCAAATTATAT
94653276 GATTTATAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.24
Consensus pattern (33 bp):
ACATACCAAATTATATCATTCCATAAGCAAAAA
Found at i:94654133 original size:42 final size:42
Alignment explanation
Indices: 94654025--94654182 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
94654015 AGCTCGTACA
***
94654025 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
** *
94654068 ATGCCATTGT-CCAGACAGGGGTCTTACACAAAATCAAATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
* *
94654110 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AA-TACG
* * *
94654154 ATGCCAATGTCACAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
94654183 GATAACATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 26 0.27
43 39 0.41
44 29 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:94654493 original size:61 final size:61
Alignment explanation
Indices: 94654398--94654519 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
94654388 CTCGTACAAA
94654398 TTCGAATAAACATAATCGGCTACTCGACGACTTTCGACTTTCCCCAATCTAATTCTGTTTT
1 TTCGAATAAACATAATCGGCTACTCGACGACTTTCGACTTTCCCCAATCTAATTCTGTTTT
94654459 TTCGAATAAACATAATCGGCTACTCGACGACTTTCGACTTTCCCCAATCTAATTCTGTTTT
1 TTCGAATAAACATAATCGGCTACTCGACGACTTTCGACTTTCCCCAATCTAATTCTGTTTT
94654520 CTTTAGTTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (61 bp):
TTCGAATAAACATAATCGGCTACTCGACGACTTTCGACTTTCCCCAATCTAATTCTGTTTT
Found at i:94661747 original size:20 final size:22
Alignment explanation
Indices: 94661722--94661762 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
94661712 TTATTTTCAC
94661722 TATTTTA-AATATAA-AAATTT
1 TATTTTATAATATAATAAATTT
*
94661742 TATTTTATATTATAATAAATT
1 TATTTTATAATATAATAAATT
94661763 AAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTATAATATAATAAATTT
Found at i:94666380 original size:23 final size:23
Alignment explanation
Indices: 94666354--94666398 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
94666344 GGGGGATGGT
*
94666354 AGTGGGGGAGGTCCGGTGGGGGG
1 AGTGGGAGAGGTCCGGTGGGGGG
94666377 AGTGGGAGAGGTCCGGTGGGGG
1 AGTGGGAGAGGTCCGGTGGGGG
94666399 AGGTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.67, T:0.13
Consensus pattern (23 bp):
AGTGGGAGAGGTCCGGTGGGGGG
Found at i:94674607 original size:10 final size:10
Alignment explanation
Indices: 94674592--94674631 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
94674582 CCCACTATTT
94674592 TATTATATAA
1 TATTATATAA
*
94674602 TATTATATCA
1 TATTATATAA
94674612 TATTATAT--
1 TATTATATAA
94674620 TA-TATATAA
1 TATTATATAA
94674629 TAT
1 TAT
94674632 GGGGAGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
7 5 0.19
8 2 0.08
9 2 0.08
10 17 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATATAA
Found at i:94675802 original size:18 final size:19
Alignment explanation
Indices: 94675766--94675806 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
94675756 AAGAGAATTT
*
94675766 AAAATGGCAAAGAAGAGAG
1 AAAATGGCAAAGAAAAGAG
*
94675785 AAAATGG-AGAGAAAAGAG
1 AAAATGGCAAAGAAAAGAG
94675803 AAAA
1 AAAA
94675807 GATGTGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.05
Consensus pattern (19 bp):
AAAATGGCAAAGAAAAGAG
Found at i:94676980 original size:21 final size:22
Alignment explanation
Indices: 94676945--94677003 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
94676935 ATTAGTATAA
* *
94676945 GACACATAA-GTGCCTGAA-AT
1 GACACACAAGGTGCCTGAATAC
*
94676965 GACACACGAGGTGCCT-AATAC
1 GACACACAAGGTGCCTGAATAC
94676986 GACACACAAGGTGCCTGA
1 GACACACAAGGTGCCTGA
94677004 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.28
21 22 0.69
22 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (22 bp):
GACACACAAGGTGCCTGAATAC
Found at i:94678027 original size:7 final size:7
Alignment explanation
Indices: 94678007--94678045 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
94677997 ATTTTTATTA
94678007 ATATAAT
1 ATATAAT
94678014 AATATAAT
1 -ATATAAT
94678022 ATATAAT
1 ATATAAT
94678029 ATATAAT
1 ATATAAT
94678036 ATATAA-
1 ATATAAT
94678042 ATAT
1 ATAT
94678046 CTTTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:94678193 original size:16 final size:16
Alignment explanation
Indices: 94678174--94678215 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
94678164 AATCTCATAA
94678174 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
94678190 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
94678205 TAATAA-TAATA
1 T-ATAATTAATA
94678216 ATACACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:94678555 original size:23 final size:23
Alignment explanation
Indices: 94678529--94678585 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
94678519 TTATTTCCTA
94678529 TAATATAATATATTAA-CTTTAAT
1 TAATATAATATA-TAAGCTTTAAT
* *
94678552 TAATATAATTTATAATGTTTTAAT
1 TAATATAATATATAA-GCTTTAAT
94678576 TAA-ATAATAT
1 TAATATAATAT
94678586 TTTTATAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATATAATATATAAGCTTTAAT
Found at i:94685194 original size:21 final size:20
Alignment explanation
Indices: 94685170--94685215 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
94685160 CGGAATGCAA
94685170 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
94685191 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
94685211 T-AACC
1 TCAACC
94685216 ATTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:94688598 original size:18 final size:19
Alignment explanation
Indices: 94688577--94688619 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
94688567 TAAAATAGAC
* *
94688577 ATAACAAGAAGAATAAAA-
1 ATAAAAAGAAAAATAAAAG
*
94688595 ATAAAAATAAAAATAAAAG
1 ATAAAAAGAAAAATAAAAG
94688614 ATAAAA
1 ATAAAA
94688620 TAAACATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (19 bp):
ATAAAAAGAAAAATAAAAG
Found at i:94688607 original size:7 final size:6
Alignment explanation
Indices: 94688588--94688646 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
94688578 TAACAAGAAG
* * *
94688588 AATAAA AATAAA AATAAA AATAAA AGAT-AA AATAAA CATAAA CATGAA
1 AATAAA AATAAA AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA
*
94688636 CATAAA AATAA
1 AATAAA AATAA
94688647 TTGGACTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 2 0.04
6 43 0.91
7 2 0.04
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:94690027 original size:8 final size:8
Alignment explanation
Indices: 94690014--94690042 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
94690004 TAAAAAAAAG
94690014 TAAATAAT
1 TAAATAAT
94690022 TAAATAAT
1 TAAATAAT
94690030 TAAATAAT
1 TAAATAAT
94690038 TAAAT
1 TAAAT
94690043 TAAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATAAT
Found at i:94691126 original size:196 final size:196
Alignment explanation
Indices: 94690852--94691263 Score: 500
Period size: 196 Copynumber: 2.1 Consensus size: 196
94690842 CTCATCATAC
** * * *
94690852 GGCCTAGGACATGCCTGTGTGTCCAGGCCGTGTAGTTCACACAACCTTATCCCACGGCTGTGTGC
1 GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
* ** * * ** * * *
94690917 TATGTTGTTCGCTTCTCCCATACCCGTATGGTCTTTCATACGCCCATATGTCTGAACACACGGCC
66 TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
* * * * * *
94690982 ATGTGCTTCGCCCGTGGAGCTCTCTGACTTGTTTAAAATTTGAAAATTAATCTTCAGTTTTCACA
131 ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
94691047 T
196 T
* * * * ** *
94691048 GGCCTAGGACACCCCCGTGTGTCTAGGCTGTGTAGTTTACACGGCCGTATCGCACGGCCGTGTGC
1 GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
* * * * *
94691113 TACGTCATTCGCTTCTCCCATGCCCATGTGGTATCCCACATGCCCGTGTATCAGAACACACGGCC
66 TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
* * *
94691178 ATGTACCTCACCTGTGGAGCTCTCTGACTTGTTTTAAATTTAAAAATTTAGCTCCAGTTTTCACA
131 ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
94691243 T
196 T
94691244 GGCCTAGGACACACCCGTGT
1 GGCCTAGGACACACCCGTGT
94691264 CGCCAAGCTG
Statistics
Matches: 180, Mismatches: 36, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
196 180 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (196 bp):
GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
T
Found at i:94700073 original size:18 final size:18
Alignment explanation
Indices: 94700050--94700085 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94700040 CTGGAAAGTA
94700050 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
94700068 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
94700086 CATACAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AACTTACCGGTTAATTAG
Found at i:94711575 original size:19 final size:19
Alignment explanation
Indices: 94711517--94711577 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
94711507 CAAATATCAT
94711517 TATTTACTAAAAAT-A-AA
1 TATTTACTAAAAATAATAA
* * *
94711534 TATTACACATAAAAA-AGTTA
1 TATT-TAC-TAAAAATAATAA
94711554 TATTTACTAAAAATAATAA
1 TATTTACTAAAAATAATAA
94711573 TATTT
1 TATTT
94711578 GACAATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 16 0.48
20 5 0.15
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
TATTTACTAAAAATAATAA
Done.