Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 149 of 208
Found at i:48427371 original size:25 final size:25
Alignment explanation
Indices: 48427343--48427447 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
48427333 TGATATATAT
*
48427343 TTATTTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
48427368 TTATGTATGT--GTATAAGTTATGTAAG
1 TTATGTAT-TAAGTA-AA-TTATGTAAG
**
48427394 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
48427419 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
48427444 TTAT
1 TTAT
48427448 CAAAGTAATG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.04
25 43 0.63
26 19 0.28
27 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:48427393 original size:9 final size:9
Alignment explanation
Indices: 48427354--48427609 Score: 186
Period size: 9 Copynumber: 29.8 Consensus size: 9
48427344 TATTTATTAA
*
48427354 GTAAATTAT
1 GTAAGTTAT
48427363 GTAAGTTAT
1 GTAAGTTAT
*
48427372 GTATGTGTA-
1 GTAAGT-TAT
48427381 -TAAGTTAT
1 GTAAGTTAT
48427389 GTAAGTTAT
1 GTAAGTTAT
*
48427398 GT-A-TTAA
1 GTAAGTTAT
*
48427405 GTAAGCTAT
1 GTAAGTTAT
*
48427414 GTAAGTTGT
1 GTAAGTTAT
48427423 GT-A-TTAT
1 GTAAGTTAT
48427430 GTAAGTTAT
1 GTAAGTTAT
48427439 GTAAGTTAT
1 GTAAGTTAT
** *
48427448 CAAAGTAAT
1 GTAAGTTAT
*
48427457 GTATGTTAT
1 GTAAGTTAT
*
48427466 TTAAG-T-T
1 GTAAGTTAT
48427473 GTAAGTTAT
1 GTAAGTTAT
*
48427482 -TATGTATTAT
1 GTAAG--TTAT
48427492 GTAAGTTAT
1 GTAAGTTAT
48427501 GTAAGTTAAAT
1 GTAAGTT--AT
48427512 GT-A-TTAT
1 GTAAGTTAT
*
48427519 GTAGGTTAT
1 GTAAGTTAT
48427528 GTAAGTTAT
1 GTAAGTTAT
*
48427537 GTAAGTTTT
1 GTAAGTTAT
48427546 GT-A-TTAT
1 GTAAGTTAT
48427553 GTAAGTTAT
1 GTAAGTTAT
*
48427562 GTAAGTTTT
1 GTAAGTTAT
48427571 GT-A-TTAT
1 GTAAGTTAT
*
48427578 GCAAGTTAT
1 GTAAGTTAT
** *
48427587 GTTTGCTAT
1 GTAAGTTAT
48427596 GT-A-TTAT
1 GTAAGTTAT
48427603 GTAAGTT
1 GTAAGTT
48427610 GTTATGTTAT
Statistics
Matches: 191, Mismatches: 34, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
7 35 0.18
8 18 0.09
9 124 0.65
10 7 0.04
11 7 0.04
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48427552 original size:25 final size:25
Alignment explanation
Indices: 48427524--48427609 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
48427514 ATTATGTAGG
48427524 TTATGTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGTTTTGTA
48427549 TTATGTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGTTTTGTA
* ** * *
48427574 TTATGCAAGTTATGTTTGCTATGTA
1 TTATGTAAGTTATGTAAGTTTTGTA
48427599 TTATGTAAGTT
1 TTATGTAAGTT
48427610 GTTATGTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTTTGTA
Found at i:48427568 original size:34 final size:36
Alignment explanation
Indices: 48427354--48427609 Score: 186
Period size: 34 Copynumber: 7.4 Consensus size: 36
48427344 TATTTATTAA
* *
48427354 GTAAATTATGTAAGTTATGTATGTGTA--TAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGT-TATGTAAGTTAT
* * *
48427389 GTAAGTTATGT-A-TTAAGTAAGCTATGTAAGTTGT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
** *
48427423 GT-A-TTATGTAAGTTATGTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * *
48427457 GTATGTTATTTAAG-T-TGTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAG--TTAT
*
48427492 GTAAGTTATGTAAGTTAAATGT-A-TTATGTAGGTTAT
1 GTAAGTTATGTAAGTT--ATGTAAGTTATGTAAGTTAT
*
48427528 GTAAGTTATGTAAGTTTTGT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * ** *
48427562 GTAAGTTTTGT-A-TTATGCAAGTTATGTTTGCTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
48427596 GT-A-TTATGTAAGTT
1 GTAAGTTATGTAAGTT
48427610 GTTATGTTAT
Statistics
Matches: 176, Mismatches: 28, Indels: 35
0.74 0.12 0.15
Matches are distributed among these distances:
32 17 0.10
33 15 0.09
34 78 0.44
35 26 0.15
36 29 0.16
37 4 0.02
38 4 0.02
39 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (36 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:48427734 original size:67 final size:66
Alignment explanation
Indices: 48427661--48427897 Score: 213
Period size: 67 Copynumber: 3.6 Consensus size: 66
48427651 TGTAGATAAC
* *
48427661 TTATGTAAGTTAATATGTAAGTAATGTGTTATGTAAGTTTATGTAAAAAAATTTTATAAGTTATG
1 TTATGTAAGTTAACATGTAAGTAATGTATTATGTAAGTTTAT-TAAAAAAATTTTATAAGTTATG
48427726 TA
65 TA
* * * * *
48427728 TTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTA-T--ATAAA-TAT-TAA--
1 TTATGTAAGTTAACATGTAAG--TA-ATG-TA-TTATGTAAGTTTATTAAAAAAATTTTATAAGT
*
48427786 TAAG--
61 TATGTA
* ***
48427790 TTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAATTTTTTTATAAGTTATG
1 TTATGTAAGTTAACATGTAAGTAATGTATTATGTAAGTTTAT-TAAAAAAATTTTATAAGTTATG
48427855 TA
65 TA
* * *
48427857 TTATGTAAGTTAACATGAAAGTTATGTATTGTGTAAGTTTA
1 TTATGTAAGTTAACATGTAAGTAATGTATTATGTAAGTTTA
48427898 CATATAAGTT
Statistics
Matches: 133, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
57 13 0.10
58 2 0.02
59 3 0.02
60 2 0.02
61 1 0.01
62 20 0.15
63 3 0.02
64 3 0.02
65 3 0.02
66 3 0.02
67 57 0.43
68 4 0.03
69 2 0.02
70 3 0.02
71 1 0.01
72 13 0.10
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.46
Consensus pattern (66 bp):
TTATGTAAGTTAACATGTAAGTAATGTATTATGTAAGTTTATTAAAAAAATTTTATAAGTTATGT
A
Found at i:48427753 original size:29 final size:28
Alignment explanation
Indices: 48427715--48427835 Score: 83
Period size: 28 Copynumber: 4.2 Consensus size: 28
48427705 AAAAAAATTT
48427715 TATAAGTTATGTA-TTATGTAAGTTTACA
1 TATAAGTTATGTAGTTATGTAAGTTTA-A
48427743 TATAAGTTTATGTGATAGTTATGTAAGTTT-A
1 TATAAG-TTA--TG-TAGTTATGTAAGTTTAA
* *
48427774 TATAAATATTAAT-AAGTTATGTAAG-TTAA
1 TAT-AA-GTT-ATGTAGTTATGTAAGTTTAA
*
48427803 TATGTAAGTAATGTA-TTATGTAAGTTT-A
1 TA--TAAGTTATGTAGTTATGTAAGTTTAA
48427831 TATAA
1 TATAA
48427836 AATTTTTTTA
Statistics
Matches: 75, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
26 3 0.04
28 22 0.29
29 21 0.28
30 2 0.03
31 8 0.11
32 6 0.08
33 13 0.17
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (28 bp):
TATAAGTTATGTAGTTATGTAAGTTTAA
Found at i:48427883 original size:157 final size:158
Alignment explanation
Indices: 48427715--48428115 Score: 709
Period size: 157 Copynumber: 2.5 Consensus size: 158
48427705 AAAAAAATTT
48427715 TATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAAA
1 TATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAAA
****
48427780 TATTAATAAGTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAATTTTTTT
66 TATTAATAAGTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAA-AAAATT
48427845 ATAAGTTATGTA-T-TATGTAAGTTAACA
130 ATAAGTTATGTATTATATGTAAGTTAACA
*
48427872 TGA-AAGTTATGTATTGTGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAA
1 T-ATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAA
48427936 ATATTAATAAGTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAAAAAATT
65 ATATTAATAAGTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAAAAAATT
*
48428001 ATAAGTTATGTATTATATGTAAGTTTACA
130 ATAAGTTATGTATTATATGTAAGTTAACA
48428030 TATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAAA
1 TATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAAA
48428095 TATTAATAAGTTATGTAAGTT
66 TATTAATAAGTTATGTAAGTT
48428116 CTTGTACATA
Statistics
Matches: 233, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
156 14 0.06
157 122 0.52
158 97 0.42
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (158 bp):
TATAAGTTATGTATTATGTAAGTTTACATATAAGTTTATGTGATAGTTATGTAAGTTTATATAAA
TATTAATAAGTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGTTTATATAAAAAAAATTA
TAAGTTATGTATTATATGTAAGTTAACA
Found at i:48427990 original size:28 final size:28
Alignment explanation
Indices: 48427844--48427991 Score: 102
Period size: 28 Copynumber: 5.1 Consensus size: 28
48427834 AAAATTTTTT
* * *
48427844 TATAAGTTATGTATTATGTAAGTTAACA
1 TATAAGTAATGTATTATGTAAGTTTATA
* * *
48427872 TGA-AAGTTATGTATTGTGTAAGTTTACA
1 T-ATAAGTAATGTATTATGTAAGTTTATA
*
48427900 TATAAGTTTATGTGATAGTTATGTAAGTTTATA
1 TATAAG--TA-ATG-TA-TTATGTAAGTTTATA
* * * *
48427933 TAAATATTAAT-AAGTTATGTAAGTTAATA
1 TATA-AGTAATGTA-TTATGTAAGTTTATA
*
48427962 TGTAAGTAATGTATTATGTAAGTTTATA
1 TATAAGTAATGTATTATGTAAGTTTATA
48427990 TA
1 TA
48427992 AAAAAAATTA
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 48 0.51
29 20 0.21
30 1 0.01
31 3 0.03
32 4 0.04
33 16 0.17
34 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (28 bp):
TATAAGTAATGTATTATGTAAGTTTATA
Found at i:48428056 original size:28 final size:29
Alignment explanation
Indices: 48428000--48428088 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 29
48427990 TAAAAAAAAT
*
48428000 TATAAGTTATGTATTATATGTAAGTTTACA
1 TATAAGTTATGTAGT-TATGTAAGTTTACA
48428030 TATAAGTTATGTA-TTATGTAAGTTTACA
1 TATAAGTTATGTAGTTATGTAAGTTTACA
48428058 TATAAGTTTATGTGATAGTTATGTAAGTTTA
1 TATAAG-TTA--TG-TAGTTATGTAAGTTTA
48428089 TATAAATATT
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
28 20 0.37
29 4 0.07
30 13 0.24
31 2 0.04
32 2 0.04
33 13 0.24
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (29 bp):
TATAAGTTATGTAGTTATGTAAGTTTACA
Found at i:48428275 original size:13 final size:13
Alignment explanation
Indices: 48428257--48428474 Score: 145
Period size: 13 Copynumber: 16.5 Consensus size: 13
48428247 TAAATTTTAG
*
48428257 TAAGTAATGTATT
1 TAAGTAATATATT
*
48428270 TAAGTAACATATT
1 TAAGTAATATATT
*
48428283 TAAGTAATAAATT
1 TAAGTAATATATT
** *
48428296 TAACCAA-ATTTT
1 TAAGTAATATATT
*
48428308 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
48428323 TAAGTAACATATT
1 TAAGTAATATATT
*
48428336 TAAGTAATAAATT
1 TAAGTAATATATT
** *
48428349 TAAACAA-ATTTT
1 TAAGTAATATATT
*
48428361 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
48428376 TAAGTAACATATT
1 TAAGTAATATATT
* *
48428389 TAAGTAAGAAATT
1 TAAGTAATATATT
** *
48428402 TAACCAA-ATTTT
1 TAAGTAATATATT
* *
48428414 AGTAAGTAATGTGTT
1 --TAAGTAATATATT
*
48428429 TAAGTAATTTATT
1 TAAGTAATATATT
48428442 TAAGTAATATATT
1 TAAGTAATATATT
*
48428455 CAAGTAATATATT
1 TAAGTAATATATT
*
48428468 AAAGTAA
1 TAAGTAA
48428475 ATTTTAGTAA
Statistics
Matches: 155, Mismatches: 41, Indels: 18
0.72 0.19 0.08
Matches are distributed among these distances:
12 9 0.06
13 122 0.79
14 15 0.10
15 9 0.06
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:48428313 original size:53 final size:53
Alignment explanation
Indices: 48428248--48428450 Score: 361
Period size: 53 Copynumber: 3.8 Consensus size: 53
48428238 ATATATACTT
48428248 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
*
48428301 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
*
48428354 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAAGAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
* **
48428407 AAATTTTAGTAAGTAATGTGTTTAAGTAATTTATTTAAGTAATA
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
48428451 TATTCAAGTA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 143 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
Found at i:48428495 original size:66 final size:66
Alignment explanation
Indices: 48428363--48428504 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 66
48428353 CAAATTTTAG
* * ** *
48428363 TAAGTAATGTATTTAAGTAACATATTTAAGTAAGAAATTTAACCAAATTTTAGTAAGTAATGTGT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAAGAAATTAAACCAAATTTTAGTAAAAAATATGT
48428428 T
66 T
* * * * **
48428429 TAAGTAATTTATTTAAGTAATATATTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATATGT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAAGAAATTAAACCAAATTTTAGTAAAAAATATGT
48428494 T
66 T
*
48428495 TTAGT-ATGTA
1 TAAGTAATGTA
48428505 ATGTAAGTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
65 4 0.06
66 59 0.94
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.42
Consensus pattern (66 bp):
TAAGTAATGTATTTAAGTAACATATTCAAGTAAGAAATTAAACCAAATTTTAGTAAAAAATATGT
T
Found at i:48429462 original size:15 final size:15
Alignment explanation
Indices: 48429442--48429473 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48429432 GTGATAACAG
*
48429442 TAAATTAGTACTAAA
1 TAAATTAGTACCAAA
48429457 TAAATTAGTACCAAA
1 TAAATTAGTACCAAA
48429472 TA
1 TA
48429474 CTTCAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (15 bp):
TAAATTAGTACCAAA
Found at i:48430634 original size:147 final size:147
Alignment explanation
Indices: 48430327--48430637 Score: 317
Period size: 147 Copynumber: 2.1 Consensus size: 147
48430317 GTTTATAAAT
* * * *
48430327 AAGCGCCACTAACTA-AAAGTCAAAACGAAGCCGTTTCATCAACAAATAGCTCACACCTGCGGCA
1 AAGCGCCACTAACTATAAAGTCAAAACGAAGCCGCTTCATCAACAAATACCTCAAACCCGCGGCA
* ** *
48430391 TTTTTGAATAAGCGCCACTAATAATACAGCAAAATGGCCTCGTATCAATAAATGTTAAAACATTT
66 TTTTTGAATAAACGCCACTAATAATACAGCAAAATGGCAGCGTATCAATAAATGTTAAAACAATT
*
48430456 TTGCGGCGTTTTAACCG
131 TTGCGGCGTTTTAACCA
* * * * * ** *
48430473 AAGTGGCACAAACTATAAA-TCAAAACGCAGTCGCTTCATCAACAGTTACCTCAAACCCGTGGC-
1 AAGCGCCACTAACTATAAAGTCAAAACGAAGCCGCTTCATCAACAAATACCTCAAACCCGCGGCA
** * * *
48430536 TTTTTCGCAA-AAACGCCACTAATAACATTTA-CAAAATGGCAGCGTTTCTATAAATGTTAGAAC
66 TTTTT-G-AATAAACGCCACTAAT-A-ATACAGCAAAATGGCAGCGTATCAATAAATGTTAAAAC
* * **
48430599 AATTTTGTGGCGTTTTGAGTA
127 AATTTTGCGGCGTTTTAACCA
48430620 AAGCGCCACTAACTATAA
1 AAGCGCCACTAACTATAA
48430638 GCTCAAACAA
Statistics
Matches: 131, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
145 5 0.04
146 60 0.46
147 63 0.48
148 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (147 bp):
AAGCGCCACTAACTATAAAGTCAAAACGAAGCCGCTTCATCAACAAATACCTCAAACCCGCGGCA
TTTTTGAATAAACGCCACTAATAATACAGCAAAATGGCAGCGTATCAATAAATGTTAAAACAATT
TTGCGGCGTTTTAACCA
Found at i:48431586 original size:7 final size:7
Alignment explanation
Indices: 48431565--48431617 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
48431555 TCTAAACCTT
48431565 AAACCCC
1 AAACCCC
*
48431572 AAA-ACC
1 AAACCCC
48431578 AAACCCC
1 AAACCCC
*
48431585 AAACTCC
1 AAACCCC
*
48431592 AAACCCT
1 AAACCCC
48431599 AAACCCC
1 AAACCCC
*
48431606 AAATCCC
1 AAACCCC
48431613 AAACC
1 AAACC
48431618 GTAATATTCC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (7 bp):
AAACCCC
Found at i:48431989 original size:14 final size:14
Alignment explanation
Indices: 48431972--48432011 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
48431962 TTCTAACCCT
48431972 TAACCCTAAACCAC
1 TAACCCTAAACCAC
*
48431986 TAACCCCT-AACTAC
1 TAA-CCCTAAACCAC
48432000 TAACCCTAAACC
1 TAACCCTAAACC
48432012 TTATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.17
Consensus pattern (14 bp):
TAACCCTAAACCAC
Found at i:48432003 original size:35 final size:35
Alignment explanation
Indices: 48431935--48432011 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
48431925 TTTCGAATCT
* * * * *
48431935 CTAAACCCTAAATCACTAACTCTTAATTTCTAACC
1 CTAAACCCTAAACCACTAACCCCTAACTACTAACC
*
48431970 CTTAACCCTAAACCACTAACCCCTAACTACTAACC
1 CTAAACCCTAAACCACTAACCCCTAACTACTAACC
48432005 CTAAACC
1 CTAAACC
48432012 TTATTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (35 bp):
CTAAACCCTAAACCACTAACCCCTAACTACTAACC
Found at i:48432072 original size:20 final size:20
Alignment explanation
Indices: 48432049--48432100 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
48432039 AATTAATCAA
*
48432049 AACCCTAAACCCTAAATCCT
1 AACCCTAAACCCTAAACCCT
*
48432069 AACCC-AAATCCCTAACCCCT
1 AACCCTAAA-CCCTAAACCCT
48432089 AACCCTTAAACC
1 AACCC-TAAACC
48432101 TTATTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 19 0.70
21 2 0.07
22 3 0.11
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTAAACCCTAAACCCT
Found at i:48432094 original size:88 final size:88
Alignment explanation
Indices: 48431990--48432151 Score: 229
Period size: 88 Copynumber: 1.8 Consensus size: 88
48431980 AACCACTAAC
* * *
48431990 CCCTAACTACTAACCC-TAAACCTTATTTAATATACAAATTAAAA-ATATTAATTAATCAAAACC
1 CCCTAACCACTAACCCTTAAACCTTATTTAATA-A-AAATTAAAACACACTAATTAATCAAAACC
48432053 CTAAACCCTAAATCCTAACCCAAAT
64 CTAAACCCTAAATCCTAACCCAAAT
* * *
48432078 CCCTAACCCCTAACCCTTAAACCTTATTTCATAAAAATTAAAACACACTAATTAATCTAAACCCT
1 CCCTAACCACTAACCCTTAAACCTTATTTAATAAAAATTAAAACACACTAATTAATCAAAACCCT
*
48432143 AAATCCTAA
66 AAACCCTAA
48432152 CCTGACACCG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 9 0.14
88 41 0.63
89 15 0.23
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (88 bp):
CCCTAACCACTAACCCTTAAACCTTATTTAATAAAAATTAAAACACACTAATTAATCAAAACCCT
AAACCCTAAATCCTAACCCAAAT
Found at i:48432937 original size:112 final size:113
Alignment explanation
Indices: 48432632--48433207 Score: 547
Period size: 114 Copynumber: 5.1 Consensus size: 113
48432622 TAGAAAACGA
* * * * *
48432632 CGTCGTTGGGCTTAGGTTTTTTGCGACGC-TTCAACAAAAACACCGCTAAAGCCCTA-AGCATTA
1 CGTCGTTGGGCTTTGGTTTTTTGTGGCGCTTTC-TCAAAAACGCCGCTAAAGCCC-AGAGCATTA
* * * * * * **
48432695 GCGGTGCATT--CTTAAAACGCCGCTAAAGTCCACGAATTG-TCAGAAAATGG
64 GCGGCGC-TTACCTAAAAACGCCACTAAA-TCCCCGAA-AGCTCAAAAAACAG
* * * * * * * * *
48432745 TGTAGTTTGGCTTAGTTTTTGTTGCGGCGCTTTCTCAAAAATGCCGCTAAAGGCCAGAACATTAG
1 CGTCGTTGGGCTTTGGTTTT-TTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAGAGCATTAG
* * *
48432810 CGGCGCTTACTTAAAAACACCACTAAATCCCTGAAAGCTCAAAAAACAG
65 CGGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACAG
* ** * *
48432859 CGTCGTTGGGCTTTGGTTTTTTGTGGCGCTTTCTCAATAGTGCTGCTAAAG-CCTGAGCATTAGC
1 CGTCGTTGGGCTTTGGTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAGAGCATTAGC
* * *
48432923 GGCGCTTACCTAAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGG
66 GGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACAG
* * * * *
48432971 CGTCGTTAGGCTTAGGTATTTTT-TCGGCACTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 CGTCGTTGGGCTTTGGT-TTTTTGT-GGCGCTTTCTCAAAAACGCCGCTAAAGCCCAGAGCATTA
* ** * *
48433035 GCGGCGTTTACGAAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAACAG
64 GCGGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACAG
* * * * *
48433085 CATCGTTGGGCTTTAGTTTTTTTGTGGAGCTTTCTCGAAAACGCCGCAAAAGCCCAGAGCATTAG
1 CGTCGTTGGGCTTT-GGTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAGAGCATTAG
* *
48433150 CGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAAGCTCAAAAAAC-G
65 CGGCGCTTACCTAAAAACGCCACTAAATCCCCG-AAAGCTCAAAAAACAG
48433199 ACGTCGTTG
1 -CGTCGTTG
48433208 TGTTTAGGTA
Statistics
Matches: 380, Mismatches: 70, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
112 69 0.18
113 73 0.19
114 199 0.52
115 39 0.10
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (113 bp):
CGTCGTTGGGCTTTGGTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAGAGCATTAGC
GGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACAG
Found at i:48433040 original size:226 final size:228
Alignment explanation
Indices: 48432634--48433222 Score: 653
Period size: 226 Copynumber: 2.6 Consensus size: 228
48432624 GAAAACGACG
* * * * *
48432634 TCGTTGGGC-TTAGGTTTTTTG-CGACGC-TTCAACAAAAACACCGCTAAAGCCCTAAGCATTAG
1 TCGTTGGGCTTTAGGTTTTTTGTGGA-GCTTTC-TCGAAAACGCCGCTAAAGCCCTGAGCATTAG
* * * * * *
48432696 CGGTGCATT-CTTAAAACGCCGCTAAAGTCCACGAATTG-TCAGAAAATGGTGTAGTTTGGCTTA
64 CGGCGC-TTCCTAAAAACGCCGCTAAA-TCCCCGAA-TGCTCAGAAAACGGCGTCG-TTGGCTTA
* * * * **
48432759 -GT-TTTTGTTGCGGCGCTTTCTCAAAAATGCCGCTAAAGGCCAGAACATTAGCGGCGCTTACTT
125 GGTATTTTGTTGCGGCACTTTCCCAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACGA
* *
48432822 AAAAACACCACTAAATCCCTGAAAGCTCAAAAAACAGCG
190 AAAAACACCACTAAATCCCCGAAAGCTCAAAAAACAGCA
* ** *
48432861 TCGTTGGGCTTT-GGTTTTTTGTGGCGCTTTCTC-AATAGTGCTGCTAAAG-CCTGAGCATTAGC
1 TCGTTGGGCTTTAGGTTTTTTGTGGAGCTTTCTCGAA-AACGCCGCTAAAGCCCTGAGCATTAGC
*
48432923 GGCGCTTACCTAAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
65 GGCGCTT-CCTAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTT-GGCTTAGGT
* * *
48432988 ATTTT-TT-CGGCACTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGTTTACGAAAA
128 ATTTTGTTGCGGCACTTTCCCAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACGAAAA
** *
48433051 AATGCCACTAAATCCCCGAAAGCTCAGAAAACAGCA
193 AACACCACTAAATCCCCGAAAGCTCAAAAAACAGCA
* * *
48433087 TCGTTGGGCTTTAGTTTTTTTGTGGAGCTTTCTCGAAAACGCCGCAAAAGCCCAGAGCATTAGCG
1 TCGTTGGGCTTTAGGTTTTTTGTGGAGCTTTCTCGAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* * * *
48433152 GCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAAGCTCAAAAAACGACGTCGTTGTGTTTAGGT
66 GCGC-TTCCTAAAAACGCCGCTAAATCCCCG-AATGCTCAGAAAACGGCGTCGTTG-GCTTAGGT
48433217 ATTTTG
128 ATTTTG
48433223 CGGTGCTTTA
Statistics
Matches: 304, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
225 6 0.02
226 134 0.44
227 77 0.25
228 53 0.17
229 34 0.11
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (228 bp):
TCGTTGGGCTTTAGGTTTTTTGTGGAGCTTTCTCGAAAACGCCGCTAAAGCCCTGAGCATTAGCG
GCGCTTCCTAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGCTTAGGTATT
TTGTTGCGGCACTTTCCCAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACGAAAAAAC
ACCACTAAATCCCCGAAAGCTCAAAAAACAGCA
Found at i:48435859 original size:27 final size:26
Alignment explanation
Indices: 48435829--48436030 Score: 242
Period size: 27 Copynumber: 7.5 Consensus size: 26
48435819 GCAGACCTTT
48435829 CGTAGGGTAAAATGACCGAATTATCCC
1 CGTAGGGTAAAATGACCGAATTA-CCC
48435856 CGTAGGGTAAAATGACCGAATTACCC
1 CGTAGGGTAAAATGACCGAATTACCC
* * *
48435882 CTATAAGGTAAAATGATCGAATTACCC
1 C-GTAGGGTAAAATGACCGAATTACCC
* *
48435909 CTGTAGGGTAAAATGACTGAATTACCGT
1 C-GTAGGGTAAAATGACCGAATTACC-C
* *
48435937 CGTAAGGTAAAATGACTGAATTACCC
1 CGTAGGGTAAAATGACCGAATTACCC
* *
48435963 TCATAGGGTAAAATGACCAAATTAGCCC
1 -CGTAGGGTAAAATGACCGAATTA-CCC
*
48435991 CGTAGGGTAAAATGACCAAATTACCC
1 CGTAGGGTAAAATGACCGAATTACCC
*
48436017 CTGTGGGGTAAAAT
1 C-GTAGGGTAAAAT
48436031 AATGACTGTT
Statistics
Matches: 154, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.05
27 142 0.92
28 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
CGTAGGGTAAAATGACCGAATTACCC
Found at i:48436259 original size:26 final size:26
Alignment explanation
Indices: 48436184--48436262 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
48436174 TGGAGGAAAT
* * *
48436184 ATACTATTACTAGCAGCTTTTCTACG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
48436210 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
48436236 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
48436262 A
1 A
48436263 CATTGGTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:48436416 original size:28 final size:28
Alignment explanation
Indices: 48436376--48436450 Score: 116
Period size: 27 Copynumber: 2.7 Consensus size: 28
48436366 TACCAATATC
*
48436376 GTATTGGGTTAAGGCCCACATTATTACT
1 GTATTGGGCTAAGGCCCACATTATTACT
* *
48436404 GTATTGGGCTAAGG-CCACATTGTTATT
1 GTATTGGGCTAAGGCCCACATTATTACT
48436431 GTATTGGGCTAAGGCCCACA
1 GTATTGGGCTAAGGCCCACA
48436451 CTGTACTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (28 bp):
GTATTGGGCTAAGGCCCACATTATTACT
Found at i:48444040 original size:252 final size:251
Alignment explanation
Indices: 48443590--48444089 Score: 802
Period size: 252 Copynumber: 2.0 Consensus size: 251
48443580 TTGATAGGTG
* * *
48443590 TATGTGAACTTAAGCTTGATGTTTTAGGTAGATATATGTTAGGCTATACTGAGTGGTTTGGTATG
1 TATGTAAACTTAAGCTTGATGTTTTAGGTAGATATATGTTAGGCTAAACTGAGTGATTTGGTATG
* *
48443655 CTTGAAATTTTGATTTGAAAGGTGTATTGATGATATGTTTTGATGATATAAATTGTGGTACCAAT
66 CTTGAAATCTTGATTTGAAAGGTGCATTGATGATATGTTTTGATGATATAAATTGTGGTACCAAT
*
48443720 AAAGGTACATTGGTGACACACCTAAGATGATTGTTTCAGCATGTTTTGAGTATGTTTGATCGTAT
131 AAAGGTACATTGGTGACACACCTAAGATGATTGTTTCAGCATGTTCTGAGTATGTTTGATCGTAT
* *
48443785 TTTGAATAGGTTAAATGTTTGGTTTTTGAGTTGCTTAATGCCCAAGAAAGTAGATA
196 TTTGAATAGGTTAAATATTTGGTTTTTGAGTTGCATAATGCCCAAGAAAGTAGATA
*
48443841 TATGTAAACTTAAGCTTGATGTTTTAGGTAGATATATGTTAGGCTAAATTGAGTGATTTGGTATG
1 TATGTAAACTTAAGCTTGATGTTTTAGGTAGATATATGTTAGGCTAAACTGAGTGATTTGGTATG
* * *
48443906 CTTGAAATCTTGATTTGAATGTTGCATTGGTGATATGTTTTTGATGATATAAATTGTGGTACCAA
66 CTTGAAATCTTGATTTGAAAGGTGCATTGATGATATG-TTTTGATGATATAAATTGTGGTACCAA
* * ** ** *
48443971 TAAGGGTACATTGGTTAGGCACCTAAGATGATTGTTTTGGCATGTTCTGAGTATGTTTGGTCGTA
130 TAAAGGTACATTGGTGACACACCTAAGATGATTGTTTCAGCATGTTCTGAGTATGTTTGATCGTA
* *
48444036 TTTTGAATAGGTTAAATATTTGGTTTTTGAGTTTCATAATGCCCAAGCAAGTAG
195 TTTTGAATAGGTTAAATATTTGGTTTTTGAGTTGCATAATGCCCAAGAAAGTAG
48444090 GAATTTGTAG
Statistics
Matches: 227, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
251 93 0.41
252 134 0.59
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.41
Consensus pattern (251 bp):
TATGTAAACTTAAGCTTGATGTTTTAGGTAGATATATGTTAGGCTAAACTGAGTGATTTGGTATG
CTTGAAATCTTGATTTGAAAGGTGCATTGATGATATGTTTTGATGATATAAATTGTGGTACCAAT
AAAGGTACATTGGTGACACACCTAAGATGATTGTTTCAGCATGTTCTGAGTATGTTTGATCGTAT
TTTGAATAGGTTAAATATTTGGTTTTTGAGTTGCATAATGCCCAAGAAAGTAGATA
Found at i:48450173 original size:16 final size:17
Alignment explanation
Indices: 48450152--48450185 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48450142 AATAATAGGG
*
48450152 GTAAAAGT-TTAATTTT
1 GTAAAAGTGTGAATTTT
48450168 GTAAAAGTGTGAATTTT
1 GTAAAAGTGTGAATTTT
48450185 G
1 G
48450186 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
GTAAAAGTGTGAATTTT
Found at i:48450356 original size:24 final size:23
Alignment explanation
Indices: 48450312--48450357 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
48450302 TCATATGTTT
*
48450312 AATTAATGTTTTAATGTTATTTG
1 AATTAATGTTTTAATGCTATTTG
48450335 AATTAAATGTTATT-ATGCTATTT
1 AATT-AATGTT-TTAATGCTATTT
48450358 ATCATATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 14 0.70
25 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (23 bp):
AATTAATGTTTTAATGCTATTTG
Found at i:48450631 original size:6 final size:6
Alignment explanation
Indices: 48450620--48450644 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48450610 GCATCTATGT
48450620 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
48450645 TGGTTTCGAC
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:48458692 original size:21 final size:21
Alignment explanation
Indices: 48458668--48458716 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
48458658 GTTATGGCTA
*
48458668 CATCTGATTCTTG-TGTGGATG
1 CATCTGACT-TTGTTGTGGATG
*
48458689 CATCTGACTTTGTTGTGGTTG
1 CATCTGACTTTGTTGTGGATG
48458710 CATCTGA
1 CATCTGA
48458717 GGGTGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (21 bp):
CATCTGACTTTGTTGTGGATG
Found at i:48471162 original size:162 final size:160
Alignment explanation
Indices: 48470907--48471219 Score: 473
Period size: 162 Copynumber: 1.9 Consensus size: 160
48470897 ATTACCACAA
* * * * *
48470907 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
* * * *
48470972 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACTAGCACAAAT
*
48471037 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
129 GCCTGCGGGACTTAGCCCGGATATATCAACTC
* * *
48471069 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
48471134 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGC
*
48471199 CTTCGGGACTTAGCCCGGATA
131 CTGCGGGACTTAGCCCGGATA
48471220 AAATTCAAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
160 31 0.23
161 4 0.03
162 101 0.74
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (160 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGC
CTGCGGGACTTAGCCCGGATATATCAACTC
Found at i:48471223 original size:40 final size:40
Alignment explanation
Indices: 48470907--48471219 Score: 457
Period size: 40 Copynumber: 7.8 Consensus size: 40
48470897 ATTACCACAA
* * ** *
48470907 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
48470947 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
48470987 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
48471029 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
48471069 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
48471109 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
48471149 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
48471189 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
48471220 AAATTCAAAT
Statistics
Matches: 253, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.00
40 211 0.83
41 4 0.02
42 37 0.15
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:48473060 original size:19 final size:18
Alignment explanation
Indices: 48473008--48473060 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
48472998 AGGATACAAG
48473008 CTTT-TTTTTTCATTA-C
1 CTTTCTTTTTTCATTATC
* *
48473024 CTTTCTTTTTTCTTTTATT
1 CTTTCTTTTTTC-ATTATC
48473043 CTTTCTTTTATTCATTAT
1 CTTTCTTTT-TTCATTAT
48473061 AACTCCAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 3 0.10
19 13 0.43
20 3 0.10
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTCTTTTTTCATTATC
Found at i:48476152 original size:18 final size:18
Alignment explanation
Indices: 48476131--48476168 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48476121 GAAAAGAAGA
*
48476131 AAAGAAATGATAGAAAAG
1 AAAGAAATAATAGAAAAG
*
48476149 AAAGAAATAATAGATAAG
1 AAAGAAATAATAGAAAAG
48476167 AA
1 AA
48476169 TGGTGATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AAAGAAATAATAGAAAAG
Found at i:48483928 original size:3 final size:3
Alignment explanation
Indices: 48483915--48483971 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
48483905 TTTACCCTTA
*
48483915 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48483963 TAT TAT TAT
1 TAT TAT TAT
48483972 CTCTTAACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48484063 original size:20 final size:20
Alignment explanation
Indices: 48484021--48484062 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
48484011 GTTAACAATT
*
48484021 AAATAATTTTTTAAATATAA
1 AAATAATTTTTAAAATATAA
*
48484041 AAATTATTTTTAAAAT-TAA
1 AAATAATTTTTAAAATATAA
48484060 AAA
1 AAA
48484063 AGTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAATTTTTAAAATATAA
Found at i:48484982 original size:30 final size:30
Alignment explanation
Indices: 48484948--48485012 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
48484938 ACTTATTTTA
*
48484948 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTCGTTATTATTTTAAAGGCAT
*
48484978 TTGTTAATTTCGTTATTATTTTAGAGGCAT
1 TTGTTAATTTCGTTATTATTTTAAAGGCAT
48485008 TTGTT
1 TTGTT
48485013 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTCGTTATTATTTTAAAGGCAT
Found at i:48485148 original size:11 final size:11
Alignment explanation
Indices: 48485132--48485162 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48485122 TATATATATT
48485132 TAAAAATTATA
1 TAAAAATTATA
*
48485143 TAAAAATAATA
1 TAAAAATTATA
48485154 TAAAAATTA
1 TAAAAATTA
48485163 ATACAGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:48485426 original size:13 final size:13
Alignment explanation
Indices: 48485392--48485424 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
48485382 TTTAACAAAC
48485392 AATTCAAATAGAAA
1 AATT-AAATAGAAA
48485406 AATTAAAT-GAAA
1 AATTAAATAGAAA
48485418 AATTAAA
1 AATTAAA
48485425 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (13 bp):
AATTAAATAGAAA
Found at i:48493348 original size:13 final size:13
Alignment explanation
Indices: 48493330--48493354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48493320 ATCAATAAGG
48493330 CCTGAAATAGCTT
1 CCTGAAATAGCTT
48493343 CCTGAAATAGCT
1 CCTGAAATAGCT
48493355 CCATTGGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (13 bp):
CCTGAAATAGCTT
Found at i:48499541 original size:29 final size:27
Alignment explanation
Indices: 48499504--48499557 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
48499494 TTATTCGATA
*
48499504 TTCAATCACTTATATCATAAATTATATCT
1 TTCAATCAC--ATATCATAAAATATATCT
*
48499533 TTCATTCACATATCATAAAATATAT
1 TTCAATCACATATCATAAAATATAT
48499558 TAGAACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
29 8 0.35
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.43
Consensus pattern (27 bp):
TTCAATCACATATCATAAAATATATCT
Found at i:48507824 original size:14 final size:14
Alignment explanation
Indices: 48507799--48507834 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48507789 TTTCTCCTCG
48507799 TTCTTTTCCTTTTCT
1 TTCTTTT-CTTTTCT
48507814 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
48507828 TT-TTTTC
1 TTCTTTTC
48507835 ATGAATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.24
14 9 0.43
15 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTTTCT
Found at i:48510468 original size:21 final size:20
Alignment explanation
Indices: 48510435--48510477 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
48510425 TAGAAATCGG
48510435 TAGAATTGTTATTCTAAAAAA
1 TAGAATTGTTATT-TAAAAAA
*
48510456 TAGAATT-TATATTTAGAAAA
1 TAGAATTGT-TATTTAAAAAA
48510476 TA
1 TA
48510478 AAATCTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (20 bp):
TAGAATTGTTATTTAAAAAA
Found at i:48512685 original size:50 final size:50
Alignment explanation
Indices: 48512630--48512731 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
48512620 AACATACCTC
*
48512630 ATATGCAAATTTAACTACTATTTTACCTTTCATCCTCCAACCACAAATCA
1 ATATGCAAATTCAACTACTATTTTACCTTTCATCCTCCAACCACAAATCA
* *
48512680 ATATGCATATTCAACTACTATTTTACCTTTCATCCTTCAACCACAAATCA
1 ATATGCAAATTCAACTACTATTTTACCTTTCATCCTCCAACCACAAATCA
48512730 AT
1 AT
48512732 CTACACATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (50 bp):
ATATGCAAATTCAACTACTATTTTACCTTTCATCCTCCAACCACAAATCA
Found at i:48525151 original size:26 final size:26
Alignment explanation
Indices: 48525122--48525173 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
48525112 TTCTGAAATG
48525122 GATACATGCTATGATATTGTGAAACT
1 GATACATGCTATGATATTGTGAAACT
* * *
48525148 GATATATGTTATGATATTTTGAAACT
1 GATACATGCTATGATATTGTGAAACT
48525174 ACTGTAGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (26 bp):
GATACATGCTATGATATTGTGAAACT
Found at i:48537653 original size:16 final size:17
Alignment explanation
Indices: 48537632--48537666 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48537622 ATTTTAAACA
*
48537632 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
48537648 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
48537665 AA
1 AA
48537667 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:48539953 original size:39 final size:40
Alignment explanation
Indices: 48539878--48539969 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 40
48539868 CGCGCTTGTA
* * * *
48539878 CCTGTTTGCACTTTGGTGCCTCTGCTTGGACTTCGGTGCC
1 CCTGATTGCACATTGGTGCCTCTGCTTGCACCTCGGTGCC
48539918 CCTGATTGCACATT-GTGCCTCTG-TCTGCACCTCGGTGCC
1 CCTGATTGCACATTGGTGCCTCTGCT-TGCACCTCGGTGCC
* *
48539957 TCT-ATTACACATT
1 CCTGATTGCACATT
48539970 TTTTATGCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 10 0.22
39 23 0.51
40 12 0.27
ACGTcount: A:0.11, C:0.32, G:0.22, T:0.36
Consensus pattern (40 bp):
CCTGATTGCACATTGGTGCCTCTGCTTGCACCTCGGTGCC
Found at i:48544016 original size:20 final size:20
Alignment explanation
Indices: 48543982--48544023 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48543972 AACTATTTAA
** *
48543982 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48544002 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48544022 AT
1 AT
48544024 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48547065 original size:15 final size:16
Alignment explanation
Indices: 48547045--48547080 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
48547035 GTTAATTAAA
*
48547045 TTTTAAATATA-ATAT
1 TTTTAAACATATATAT
48547060 TTTTAAACATATATAT
1 TTTTAAACATATATAT
48547076 TTTTA
1 TTTTA
48547081 TAAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAAACATATATAT
Found at i:48547171 original size:11 final size:11
Alignment explanation
Indices: 48547151--48547197 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
48547141 TTATTAATGG
48547151 TTTTATTGGAAT
1 TTTTA-TGGAAT
48547163 TTTTATGGAAT
1 TTTTATGGAAT
48547174 TTTT-T--AAT
1 TTTTATGGAAT
48547182 TTTTATGGAAT
1 TTTTATGGAAT
48547193 TTTTA
1 TTTTA
48547198 CTTTTACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 1 0.03
11 18 0.56
12 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (11 bp):
TTTTATGGAAT
Found at i:48547184 original size:19 final size:19
Alignment explanation
Indices: 48547160--48547196 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
48547150 GTTTTATTGG
48547160 AATTTTTATGGAATTTTTT
1 AATTTTTATGGAATTTTTT
48547179 AATTTTTATGGAATTTTT
1 AATTTTTATGGAATTTTT
48547197 ACTTTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (19 bp):
AATTTTTATGGAATTTTTT
Found at i:48547689 original size:3 final size:3
Alignment explanation
Indices: 48547681--48547705 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48547671 CCAATGCCAC
48547681 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
48547706 TTTAGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48547893 original size:23 final size:23
Alignment explanation
Indices: 48547867--48547911 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48547857 CTCCTTTGCA
* *
48547867 TTATGAATATTTAGTTAATAAAT
1 TTATCAATATTTAATTAATAAAT
48547890 TTATCAATATTTAATTAATAAA
1 TTATCAATATTTAATTAATAAA
48547912 AAATAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TTATCAATATTTAATTAATAAAT
Found at i:48552504 original size:21 final size:21
Alignment explanation
Indices: 48552479--48552519 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48552469 GGTAACTGGT
48552479 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
* *
48552500 AAAAGGTGTGGATACTTTTT
1 AAAAGGTATCGATACTTTTT
48552520 TATAATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:48561528 original size:13 final size:13
Alignment explanation
Indices: 48561510--48561569 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
48561500 TTCTTCAATG
48561510 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
48561523 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* *
48561536 CTATGGAAAAGTGA
1 CTTTTGAAAAGT-A
*
48561550 -TTTTGAGAAA-TG
1 CTTTTGA-AAAGTA
48561562 CTTTTGAA
1 CTTTTGAA
48561570 TAGTTTAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 1 0.03
13 33 0.89
14 3 0.08
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:48563715 original size:57 final size:57
Alignment explanation
Indices: 48563654--48563918 Score: 225
Period size: 57 Copynumber: 4.6 Consensus size: 57
48563644 CTTTCTTTAC
* *
48563654 AGAGGTTTACCACAAAGGTTTTCCTTTTAGAGGTTCACCACAAAGGATCTAATTTGC
1 AGAGGTTTACCACAAAGGTTTTCCTTTTAGAGGTTCACCACAAAGGATCTCATTTGT
* * ** ** * *
48563711 AGAGGTTTGCCACAAAGGCTTTTCATTCCAGAGGTTTGCCACAAAGGATTTCCTTT-T
1 AGAGGTTTACCACAAAGG-TTTTCCTTTTAGAGGTTCACCACAAAGGATCTCATTTGT
* * * * *
48563768 AGAGGTTCACCACAAAGGCTCTT-CTTTTCAGAGGTTTACCACAAAGGCTCTC-TTTAT
1 AGAGGTTTACCACAAAGG-TTTTCCTTTT-AGAGGTTCACCACAAAGGATCTCATTTGT
* * * * * *
48563825 AAAGGTCTGCCACAAAGGCTTTCCTTTCAGAGGTTCACCATAAA-GACTCTCATTTGT
1 AGAGGTTTACCACAAAGGTTTTCCTTTTAGAGGTTCACCACAAAGGA-TCTCATTTGT
* **
48563882 AGAGGATTT-CCACAAAAGCTTTTATTTTTAGAGGTTC
1 AGAGG-TTTACCAC-AAAGGTTTTCCTTTTAGAGGTTC
48563919 GTCATAAAGG
Statistics
Matches: 163, Mismatches: 37, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
55 1 0.01
56 25 0.15
57 88 0.54
58 49 0.30
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (57 bp):
AGAGGTTTACCACAAAGGTTTTCCTTTTAGAGGTTCACCACAAAGGATCTCATTTGT
Found at i:48563723 original size:29 final size:28
Alignment explanation
Indices: 48563625--48563869 Score: 190
Period size: 28 Copynumber: 8.7 Consensus size: 28
48563615 ACTTCCTTTA
* *
48563625 TCAGAGG-TTGCCACAAAGGCTTT-CTT
1 TCAGAGGTTTACCACAAAGGATTTCCTT
*
48563651 TACAGAGGTTTACCACAAAGGTTTTCCTT
1 T-CAGAGGTTTACCACAAAGGATTTCCTT
* * * **
48563680 TTAGAGGTTCACCACAAAGGATCTAATT
1 TCAGAGGTTTACCACAAAGGATTTCCTT
* * *
48563708 TGCAGAGGTTTGCCACAAAGGCTTTTCATT
1 T-CAGAGGTTTACCACAAAGG-ATTTCCTT
* *
48563738 CCAGAGGTTTGCCACAAAGGATTTCCTT
1 TCAGAGGTTTACCACAAAGGATTTCCTT
* * * *
48563766 TTAGAGGTTCACCACAAAGGCTCTTCTTT
1 TCAGAGGTTTACCACAAAGGAT-TTCCTT
* *
48563795 TCAGAGGTTTACCACAAAGGCTCT-CTT
1 TCAGAGGTTTACCACAAAGGATTTCCTT
* * * * *
48563822 TATAAAGGTCTGCCACAAAGGCTTTCCTT
1 T-CAGAGGTTTACCACAAAGGATTTCCTT
* *
48563851 TCAGAGGTTCACCATAAAG
1 TCAGAGGTTTACCACAAAG
48563870 ACTCTCATTT
Statistics
Matches: 173, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 9 0.05
28 90 0.52
29 68 0.39
30 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (28 bp):
TCAGAGGTTTACCACAAAGGATTTCCTT
Found at i:48563755 original size:86 final size:85
Alignment explanation
Indices: 48563626--48563957 Score: 337
Period size: 86 Copynumber: 3.9 Consensus size: 85
48563616 CTTCCTTTAT
* * * *
48563626 CAGAGG-TTGCCACAAAGGCTTTCTTTACAGAGGTTTACCACAAAGGTTTTCCTTTTAGAGGTTC
1 CAGAGGTTTGCCACAAAGGCTTTCATTACAGAGGTTTGCCACAAAGGCTTTCCTTTCAGAGGTTC
48563690 ACCACAAAGGATCTAATTTG
66 ACCACAAAGGATCTAATTTG
* * *
48563710 CAGAGGTTTGCCACAAAGGCTTTTCATTCCAGAGGTTTGCCACAAAGGATTTCCTTTTAGAGGTT
1 CAGAGGTTTGCCACAAAGGC-TTTCATTACAGAGGTTTGCCACAAAGGCTTTCCTTTCAGAGGTT
* ** *
48563775 CACCACAAAGGCTCTTCTTTT
65 CACCACAAAGGATCTAATTTG
* * * * * *
48563796 CAGAGGTTTACCACAAAGGCTCTCTTTATAAAGGTCTGCCACAAAGGCTTTCCTTTCAGAGGTTC
1 CAGAGGTTTGCCACAAAGGCTTTCATTACAGAGGTTTGCCACAAAGGCTTTCCTTTCAGAGGTTC
* *
48563861 ACCATAAA-GACTCTCATTTG
66 ACCACAAAGGA-TCTAATTTG
* * * ** * * *
48563881 TAGAGGATTT-CCACAAAAGCTTTTATTTTTAGAGGTTCGTCATAAAGGCTTTCCTTTACAGAGG
1 CAGAGG-TTTGCCACAAAGGCTTTCA-TTACAGAGGTTTGCCACAAAGGCTTTCCTTT-CAGAGG
**
48563945 TTGGCCACAAAGG
63 TTCACCACAAAGG
48563958 CTTTTTATAA
Statistics
Matches: 205, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
84 7 0.03
85 79 0.39
86 104 0.51
87 14 0.07
88 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (85 bp):
CAGAGGTTTGCCACAAAGGCTTTCATTACAGAGGTTTGCCACAAAGGCTTTCCTTTCAGAGGTTC
ACCACAAAGGATCTAATTTG
Found at i:48569577 original size:22 final size:21
Alignment explanation
Indices: 48569547--48569590 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
48569537 TGTAGCATAA
*
48569547 AATAGTAAAATTAAGTAAAATT
1 AATACTAAAATTAA-TAAAATT
* *
48569569 AATACTAAATTTCATAAAATT
1 AATACTAAAATTAATAAAATT
48569590 A
1 A
48569591 CACACTTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AATACTAAAATTAATAAAATT
Found at i:48571198 original size:29 final size:28
Alignment explanation
Indices: 48571157--48571217 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
48571147 GGTGTTACAC
*
48571157 TTTTATTTTCAAAGGTTCACCACAAAGG
1 TTTTATTTGCAAAGGTTCACCACAAAGG
** *
48571185 TTTTCATTTGCAAAGGTTTTCCATAAAGG
1 TTTT-ATTTGCAAAGGTTCACCACAAAGG
48571214 TTTT
1 TTTT
48571218 TCTTTTCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTTATTTGCAAAGGTTCACCACAAAGG
Found at i:48575403 original size:39 final size:40
Alignment explanation
Indices: 48575300--48575484 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
48575290 TTGAATGATG
* * *
48575300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
48575339 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48575380 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48575419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48575458 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48575485 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:48575438 original size:79 final size:81
Alignment explanation
Indices: 48575300--48575484 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
48575290 TTGAATGATG
* *
48575300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48575364 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
48575379 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48575441 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
48575459 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48575485 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:48575506 original size:79 final size:79
Alignment explanation
Indices: 48575355--48575517 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 79
48575345 ACTAAGATCT
* **
48575355 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
48575420 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
48575434 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
48575497 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
48575513 GAAGG
1 GAAGG
48575518 TACGTGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:48583473 original size:79 final size:81
Alignment explanation
Indices: 48583337--48583521 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
48583327 TTGAATGATG
*
48583337 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48583401 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
48583416 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48583478 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
48583496 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48583522 AACGAGTAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:48583528 original size:40 final size:39
Alignment explanation
Indices: 48583338--48583521 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
48583328 TGAATGATGT
* * * *
48583338 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
48583378 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
48583418 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48583456 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48583497 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48583522 AACGAGTAGT
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48583543 original size:79 final size:79
Alignment explanation
Indices: 48583390--48583554 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
48583380 GGACTAAGAT
* **
48583390 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
48583455 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
48583469 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
48583532 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48583548 CCGAAGG
1 CCGAAGG
48583555 TACGGGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48591933 original size:52 final size:51
Alignment explanation
Indices: 48591850--48591949 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 51
48591840 TATTAATCTA
* *
48591850 AACAGCATAATAATTAACTGTTTAAAATTAAATAATTTGATAATATTTTATT
1 AACAGCATAATAATTAACGGTTTAAAATTAAATAA-TTAATAATATTTTATT
*
48591902 AACATCATAATAATTAACGGTTTAAAATTAAATAATTAATAATATTTT
1 AACAGCATAATAATTAACGGTTTAAAATTAAATAATTAATAATATTTT
48591950 CTTACCATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 12 0.27
52 33 0.73
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (51 bp):
AACAGCATAATAATTAACGGTTTAAAATTAAATAATTAATAATATTTTATT
Found at i:48598621 original size:27 final size:26
Alignment explanation
Indices: 48598591--48598643 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
48598581 TTTTTGAATT
*
48598591 ATTTGTATATTAAATGATTATATATAA
1 ATTTGTATATTAAATAATT-TATATAA
* * *
48598618 ATTTTTATTTTATATAATTTATATAA
1 ATTTGTATATTAAATAATTTATATAA
48598644 TAAAATTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
ATTTGTATATTAAATAATTTATATAA
Found at i:48598789 original size:24 final size:22
Alignment explanation
Indices: 48598734--48598791 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
48598724 TTTTTAAAAT
*
48598734 TTATATACTTTAAATTATAT--
1 TTATATATTTTAAATTATATAA
*
48598754 TTATTTATTTTAATATTATATAA
1 TTATATATTTTAA-ATTATATAA
48598777 TTAATATATTTTAAA
1 TT-ATATATTTTAAA
48598792 AATATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.35
21 7 0.23
23 3 0.10
24 10 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATTTTAAATTATATAA
Found at i:48603117 original size:20 final size:21
Alignment explanation
Indices: 48603092--48603142 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
48603082 TATCGATCCA
*
48603092 GTATCGATACT-TTT-CTTAAG
1 GTATCGATA-TATTTCCTAAAG
48603112 GTATCGATATATTTCCTAAAG
1 GTATCGATATATTTCCTAAAG
48603133 GTATCGATAT
1 GTATCGATAT
48603143 TCCTGCACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.43
21 15 0.54
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (21 bp):
GTATCGATATATTTCCTAAAG
Found at i:48605645 original size:24 final size:24
Alignment explanation
Indices: 48605618--48605668 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
48605608 GAGCCGACAG
*
48605618 TGGTCCAACAACGATGGCCGATGA
1 TGGTCCAACAACGATGGCCAATGA
* * *
48605642 TGGTCCAACGACGGTGGTCAATGA
1 TGGTCCAACAACGATGGCCAATGA
48605666 TGG
1 TGG
48605669 CCCCAATGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.20
Consensus pattern (24 bp):
TGGTCCAACAACGATGGCCAATGA
Found at i:48607544 original size:249 final size:249
Alignment explanation
Indices: 48607090--48607565 Score: 684
Period size: 249 Copynumber: 1.9 Consensus size: 249
48607080 TCTTATGTTG
* * * * *
48607090 GTATACCAAAGGATTGTGAGTGCTCACTTCTCAGTTTTTATGATTTTGGGCGTTGAGGCCCTAGA
1 GTATACCAAAGGATTGTAAGTACTAACCTCTCAGTTTTTATGATTTTGGGCATTGAGGCCCTAGA
* * * *
48607155 ACATGTGGAGAGATAAGGGAATGTCGAGCTATACTCTATTTATCGGGACATGTTACTATACAAGA
66 ACATGTGGAGAGATAAGGGAATGTCAAGCTATACTCTATTCACCAGGACATGTTACTATACAAGA
* * *
48607220 GTGTGTATTGCTTTGCGCTGCACTTATGGGACATGTTATAAGGACTCTTCAAGTCACTCTGAGGC
131 GAGTGTATTACTTTGCGCTGCACTTATGGAACATGTTATAAGGACTCTTCAAGTCACTCTGAGGC
* *
48607285 GTTATAAGGAGATCTGCATATCCAACGAGACTTAAGTTATATTATTATCTATTT
196 ATTATAAGGAGATCTACATATCCAACGAGACTTAAGTTATATTATTATCTATTT
* * *
48607339 GTATACCAAAGGATTGTAAGTACTAACCTCTCAGTTTTTGTGATTTTGGGCATTGATGCTCT-GC
1 GTATACCAAAGGATTGTAAGTACTAACCTCTCAGTTTTTATGATTTTGGGCATTGAGGCCCTAG-
* * * * *
48607403 GACATGTGGAGAGATAAGGGAATGTCAAGCTTTGCTCTATTCACCAGGACATGTTTCTATACATG
65 AACATGTGGAGAGATAAGGGAATGTCAAGCTATACTCTATTCACCAGGACATGTTACTATACAAG
* ** *
48607468 AGAGTGTATTACTTTGTGCTGCACTTATGGAACATGTTATAAGGACTCTTTGAGTCACTTTGAGG
130 AGAGTGTATTACTTTGCGCTGCACTTATGGAACATGTTATAAGGACTCTTCAAGTCACTCTGAGG
* *
48607533 CATTGTAAGGAGATTTACATATCCAACGAGACT
195 CATTATAAGGAGATCTACATATCCAACGAGACT
48607566 GATAAAATAA
Statistics
Matches: 198, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
248 1 0.01
249 197 0.99
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (249 bp):
GTATACCAAAGGATTGTAAGTACTAACCTCTCAGTTTTTATGATTTTGGGCATTGAGGCCCTAGA
ACATGTGGAGAGATAAGGGAATGTCAAGCTATACTCTATTCACCAGGACATGTTACTATACAAGA
GAGTGTATTACTTTGCGCTGCACTTATGGAACATGTTATAAGGACTCTTCAAGTCACTCTGAGGC
ATTATAAGGAGATCTACATATCCAACGAGACTTAAGTTATATTATTATCTATTT
Found at i:48608095 original size:43 final size:43
Alignment explanation
Indices: 48607985--48608127 Score: 189
Period size: 43 Copynumber: 3.3 Consensus size: 43
48607975 TTATGTGAAA
* * * *
48607985 AAACGCCGCTAAAGATCATAACCTGTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTTATCAC
*
48608028 -AATGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTTATCAC
* ** *
48608070 AAACGCTGCTAAAGATCTTGACCTTTAGTAGCGTTTTTATCAC
1 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTTATCAC
*
48608113 AAACGCCACTAAAGA
1 AAACGCCGCTAAAGA
48608128 ACAAACCTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 37 0.43
43 50 0.57
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTTATCAC
Found at i:48613980 original size:8 final size:7
Alignment explanation
Indices: 48613962--48614152 Score: 74
Period size: 7 Copynumber: 26.9 Consensus size: 7
48613952 ACAAATTAAT
48613962 CTAAACC
1 CTAAACC
48613969 CTAAACCC
1 CTAAA-CC
48613977 CT-AACC
1 CTAAACC
* * *
48613983 TTAATCTT
1 CTAAAC-C
48613991 CTAAACC
1 CTAAACC
48613998 CTAAACC
1 CTAAACC
*
48614005 CTAAAAC
1 CTAAACC
*
48614012 ATAAACC
1 CTAAACC
48614019 CTAAACC
1 CTAAACC
48614026 C-ATAACC
1 CTA-AACC
48614033 C-ATAACC
1 CTA-AACC
*
48614040 CTTAACCC
1 C-TAAACC
48614048 CT-AACC
1 CTAAACC
48614054 CTTAAACAC
1 C-TAAAC-C
48614063 C--AACC
1 CTAAACC
48614068 CTTAAACC
1 C-TAAACC
* *
48614076 ATAAAGC
1 CTAAACC
* *
48614083 ATAATCC
1 CTAAACC
* *
48614090 ATAATCC
1 CTAAACC
*
48614097 TTAAACC
1 CTAAACC
*
48614104 TTAAA--
1 CTAAACC
*
48614109 ATAGTAACTC
1 CTA--AAC-C
*
48614119 CTAAATC
1 CTAAACC
*
48614126 TTAAACC
1 CTAAACC
48614133 CTAAACC
1 CTAAACC
48614140 CTAAACC
1 CTAAACC
48614147 CTAAAC
1 CTAAAC
48614153 TATAATGATA
Statistics
Matches: 143, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.03
6 11 0.08
7 102 0.71
8 21 0.15
9 3 0.02
10 2 0.01
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:48614249 original size:21 final size:22
Alignment explanation
Indices: 48614220--48614262 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48614210 TAGCGGCGCT
*
48614220 TCTTCAAAAA-CGCCGCTAAAG
1 TCTTCAAAAAGAGCCGCTAAAG
*
48614241 TCTTGAAAAAGAGCCGCTAAAG
1 TCTTCAAAAAGAGCCGCTAAAG
48614263 CCCAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (22 bp):
TCTTCAAAAAGAGCCGCTAAAG
Found at i:48614370 original size:40 final size:40
Alignment explanation
Indices: 48614282--48614381 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
48614272 CTCTAAAAAT
*
48614282 GCCGCTAATGCTC-ATTTTTAGCGGCATTTTCCAAAAAGT
1 GCCGCTAATGCTCGATTTTTAGCGGCATTTTCCAAAAAGC
** * * * ***
48614321 GGGGTTAATGCTCGATCTTTAGCGGCGTTTTTTGAAAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGCATTTTCCAAAAAGC
*
48614361 GCCGCTAATGCTTGATTTTTA
1 GCCGCTAATGCTCGATTTTTA
48614382 CCTGTATTTT
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
39 10 0.22
40 36 0.78
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
GCCGCTAATGCTCGATTTTTAGCGGCATTTTCCAAAAAGC
Found at i:48619749 original size:18 final size:18
Alignment explanation
Indices: 48619728--48619774 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
48619718 CCGCAATAAG
48619728 AAAATGTTTTG-AAATTGA
1 AAAATGTTTTGTAAA-TGA
*
48619746 AAAATGATTTGTAAATGA
1 AAAATGTTTTGTAAATGA
*
48619764 ATAATGTTTTG
1 AAAATGTTTTG
48619775 GAAACGAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
AAAATGTTTTGTAAATGA
Found at i:48620777 original size:20 final size:20
Alignment explanation
Indices: 48620752--48620855 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
48620742 GTACTTCGAA
48620752 GCCTCTGATTGCACAATTGT
1 GCCTCTGATTGCACAATTGT
* *
48620772 GCCTCTGTTTGGAC--TTCGGT
1 GCCTCTGATTGCACAATT--GT
* *
48620792 GCCTCTAATTGCAAAATTGT
1 GCCTCTGATTGCACAATTGT
* *
48620812 GCCTCCG-TTGCAC-TTTGAT
1 GCCTCTGATTGCACAATTG-T
* * * *
48620831 GCCTCTAATTTCATAATCGT
1 GCCTCTGATTGCACAATTGT
48620851 GCCTC
1 GCCTC
48620856 AATTTGCACT
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
18 5 0.08
19 11 0.18
20 41 0.67
21 2 0.03
22 2 0.03
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (20 bp):
GCCTCTGATTGCACAATTGT
Found at i:48620796 original size:40 final size:40
Alignment explanation
Indices: 48620738--48620876 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
48620728 GCTTGTATAG
* * * * *
48620738 GTTTGTACTTCGAAGCCTCTGATTGCACAATTGTGCCTCT
1 GTTTGCACTTCGATGCCTCTAATTGCAAAATTGTGCCTCA
* * *
48620778 GTTTGGACTTCGGTGCCTCTAATTGCAAAATTGTGCCTCC
1 GTTTGCACTTCGATGCCTCTAATTGCAAAATTGTGCCTCA
* * * *
48620818 G-TTGCACTTTGATGCCTCTAATTTCATAATCGTGCCTCA
1 GTTTGCACTTCGATGCCTCTAATTGCAAAATTGTGCCTCA
* *
48620857 ATTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGATGCCTCT
48620877 GATAGAACTA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 31 0.38
40 51 0.62
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.37
Consensus pattern (40 bp):
GTTTGCACTTCGATGCCTCTAATTGCAAAATTGTGCCTCA
Found at i:48625881 original size:10 final size:10
Alignment explanation
Indices: 48625859--48625905 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
48625849 AAATCTGTCG
*
48625859 AAAA-TAATC
1 AAAATTAATA
48625868 AAAATTAATA
1 AAAATTAATA
48625878 AAAATTAATTA
1 AAAATTAA-TA
*
48625889 TAAAATTAATT
1 -AAAATTAATA
48625900 AAAATT
1 AAAATT
48625906 CAACATGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 18 0.55
11 3 0.09
12 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATA
Found at i:48625895 original size:12 final size:11
Alignment explanation
Indices: 48625868--48625903 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
48625858 GAAAATAATC
48625868 AAAATTAA-TA
1 AAAATTAATTA
48625878 AAAATTAATTA
1 AAAATTAATTA
48625889 TAAAATTAATTA
1 -AAAATTAATTA
48625901 AAA
1 AAA
48625904 TTCAACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 5 0.21
12 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:48629182 original size:50 final size:50
Alignment explanation
Indices: 48629087--48629220 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
48629077 CCTGCCCATG
* * *
48629087 CCATGTCCCAAACATGGTCTTAC-GGGGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACA
*
48629136 TCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACA
*
48629186 CCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTT
48629221 TACCCAAATG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 21 0.27
50 57 0.73
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACA
Found at i:48636816 original size:50 final size:50
Alignment explanation
Indices: 48636706--48636891 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
48636696 GGTAAAAAGA
* * * * * **
48636706 TCCCATGTAAGACCATGTCGGGGACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
** * *
48636756 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
* * * ** *
48636806 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
* *
48636854 ATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48636892 TGATATTATC
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 3 0.03
49 36 0.33
50 71 0.65
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
Found at i:48643644 original size:50 final size:50
Alignment explanation
Indices: 48643531--48643710 Score: 148
Period size: 50 Copynumber: 3.6 Consensus size: 50
48643521 GGGTAAAGCG
* * * *
48643531 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGATATGAGAT
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAATATGAGAT
** *
48643581 ATCCCCCGTAAGACCATGTTTAGGACATGGCATGGGCACCAATATGAGA-
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAATATGAGAT
* * * * * * ** * * * *
48643630 ACTCCCATGAAAGACCATATCTGGGATATGGTATTGGCA-GTACAGGAAAC
1 A-TCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAATATGAGAT
* *
48643680 ATCCCATGTAAGACCATGTTTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTAGGACATGGC
48643711 TTTGGCATGT
Statistics
Matches: 102, Mismatches: 26, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
49 31 0.30
50 71 0.70
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAATATGAGAT
Found at i:48645440 original size:7 final size:7
Alignment explanation
Indices: 48645428--48645454 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48645418 TCATTTAAAT
48645428 TTCAAAG
1 TTCAAAG
48645435 TTCAAAG
1 TTCAAAG
48645442 TTCAAAG
1 TTCAAAG
48645449 TTCAAA
1 TTCAAA
48645455 CCTTGTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (7 bp):
TTCAAAG
Found at i:48646543 original size:28 final size:25
Alignment explanation
Indices: 48646495--48646557 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 25
48646485 ACACGTGACA
48646495 AAAAATGATAAACTTAAAAAATCAAT
1 AAAAAT-ATAAACTTAAAAAATCAAT
*
48646521 AAAAATATAAACATTACTAAAAATCTAT
1 AAAAATATAAAC-TTA--AAAAATCAAT
48646549 AAAAATATA
1 AAAAATATA
48646558 TATAGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 6 0.18
26 9 0.27
28 18 0.55
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAATATAAACTTAAAAAATCAAT
Found at i:48646599 original size:9 final size:9
Alignment explanation
Indices: 48646581--48646623 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
48646571 TTAATTTAGA
*
48646581 TAAAACTAT
1 TAAAATTAT
48646590 TAAAATTATT
1 TAAAATTA-T
48646600 TAAAATATAT
1 TAAAAT-TAT
*
48646610 CAAAATTAT
1 TAAAATTAT
48646619 TAAAA
1 TAAAA
48646624 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 14 0.48
10 13 0.45
11 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
TAAAATTAT
Found at i:48646614 original size:20 final size:20
Alignment explanation
Indices: 48646591--48646628 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48646581 TAAAACTATT
*
48646591 AAAATTATTTAAAATATATC
1 AAAATTATTAAAAATATATC
48646611 AAAATTATTAAAAATATA
1 AAAATTATTAAAAATATA
48646629 AAAAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTATTAAAAATATATC
Found at i:48647029 original size:26 final size:26
Alignment explanation
Indices: 48646993--48647044 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
48646983 ATCAACTTAA
* *
48646993 AAAATCAATAAAAAATATAAAAATAT
1 AAAATCAATAAAAAAAAGAAAAATAT
*
48647019 AAAATCTATAAAAAAAAGAAAAATAT
1 AAAATCAATAAAAAAAAGAAAAATAT
48647045 TTAAATTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAATCAATAAAAAAAAGAAAAATAT
Found at i:48647080 original size:21 final size:21
Alignment explanation
Indices: 48647056--48647095 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48647046 TAAATTAGAT
48647056 AAAATTATAAAAAAATATATC
1 AAAATTATAAAAAAATATATC
* *
48647077 AAAATTATTATAAAATATA
1 AAAATTATAAAAAAATATA
48647096 AAAATTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTATAAAAAAATATATC
Found at i:48647091 original size:11 final size:10
Alignment explanation
Indices: 48647047--48647101 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
48647037 AAAAATATTT
*
48647047 AAATTAGATA
1 AAATTATATA
*
48647057 AAATTATAAA
1 AAATTATATA
*
48647067 AAAATATATCA
1 AAATTATAT-A
48647078 AAATTATTATA
1 AAATTA-TATA
48647089 AAA-TATA-A
1 AAATTATATA
48647097 AAATT
1 AAATT
48647102 TCATAAAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 17 0.46
11 10 0.27
12 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAATTATATA
Found at i:48647462 original size:8 final size:9
Alignment explanation
Indices: 48647435--48647547 Score: 59
Period size: 10 Copynumber: 11.8 Consensus size: 9
48647425 GATCAACTAA
48647435 AAAAATTAAT
1 AAAAATT-AT
48647445 AAAAATTAT
1 AAAAATTAT
48647454 AAAAA-TAT
1 AAAAATTAT
*
48647462 AAAAGTCTAT
1 AAAAAT-TAT
**
48647472 AGAAAAACAT
1 A-AAAATTAT
*
48647482 AAAAAAGTAT
1 -AAAAATTAT
** * *
48647492 TTAATTTAA
1 AAAAATTAT
48647501 ATAAAATTAT
1 A-AAAATTAT
48647511 AAAAATTATT
1 AAAAATTA-T
48647521 ATAAAA-TAT
1 A-AAAATTAT
48647530 AAAAAATTCAT
1 -AAAAATT-AT
48647541 AAAAATT
1 AAAAATT
48647548 TTCCTTATAA
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 7 0.09
9 23 0.29
10 38 0.49
11 10 0.13
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48647654 original size:454 final size:446
Alignment explanation
Indices: 48645981--48647983 Score: 1770
Period size: 447 Copynumber: 4.4 Consensus size: 446
48645971 ATTTTAATGG
* * * * * * *
48645981 TTTTT-TTTTTCAATTAATTTCGTCACATTTCACAACATG-CATACCTTGGTTGTGTGACACATG
1 TTTTTCTTTTTCAATTAACTCCGCCACGTGTCACAACGTGCCACACCTTGG-T-TGTGACACATG
* * * * *
48646044 ACAAAAAAAAT-ATCAACTTAAAAAATCAATAAAAA-TATAAAAATTATTAAAAATCTATAATAT
64 GC-GAAAAAATGATCAACTAAAAAAATCAATAAAAATTATAAAAA-TA-T-AAAATCTATAAAAA
* * * *
48646107 ATATAGAGAAAAGTATTTAATTTAGATAAAGT-TTTAAAAATTATTATAAAATATAAAAAATT-A
125 AAATA-A-AAAAGTATTTAATTTAAATAAAATATATAAAAATTATTATAAAATATAAAAAATTCA
** *
48646170 TAAATGTTTTCCTTATAAATGTATTTTATTACATTTTTATAAAATTTAAAGTTATTATCTCCGCC
188 TAAAAATTTTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTAAAGTTATTA--TCC-CC
*
48646235 ATGTGGTTGTGAA-TT-GGGG--GCT--TT------G--GTGAATGAACTTTTCTATTAATATTT
250 -TGT-GTTGTGAATTTGGGGGTTGCTAGTTAAAGAAGAAGTGAATGAGCTTTTCTATTAATATTT
* * * * * * * * * **
48646286 TTCAAAATATTGTATATTATTCTCTTTCGTAAAAGGCTAGTCATTTAGTATATTTAGGTACCTGA
313 TTCAAAATATTTTATATTATTTTCTTTCATGAAATGTTGGTCATTTAGCATATTTAAGTATTTGA
* * ** * * *
48646351 ACTATCAAAATACATAAAAAAAAAATT-TTTAACCATTAACTTTAACAGTCAATTGTTAAATTTA
378 ACTGTCAAAAT--GTATTAAAAAAATTGGTT----ATTAACTTTAACGGTCAATTATTAAATTTA
*** *
48646415 GGGGCCCCTAATTT
437 -CAACCCC-GA--T
* * * *
48646429 TTTTTCTTTTTCAATTAACTCTGCCACGTGTCACAACGTGCCACACCTTGGTTGTAACACGTGAC
1 TTTTTCTTTTTCAATTAACTCCGCCACGTGTCACAACGTGCCACACCTTGGTTGTGACACATGGC
* * *
48646494 -AAAAAATGATAAACTTAAAAAATCAATAAAAA-TATAAACATTACTAAAAATCTATAAAAATAT
66 GAAAAAATGATCAACTAAAAAAATCAATAAAAATTATAAA-AATA-T-AAAATCTATAAAAA-A-
* * *
48646557 ATATAGAAAATTATTTAATTTAGATAAAACTATTAAAATTATTTAAAATATATCAAAATTATTAA
126 A-ATAAAAAAGTATTTAA-TT---T--AA--A-TAAAA-TATATAAAA-AT-T----ATTA-T-A
* ** * * *
48646622 AAATATAAAAAATTCAT-AAATTCTTTAATTGTAAATATATTTTATTACATTTTTATAAAATTTA
172 AAATATAAAAAATTCATAAAAAT-TTTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTA
* * * *
48646686 AAGTTATCATCTCCGTGATGTTGTTAATTTGGGTGGGGGTTGCTAGTTAAAGAAAAAGTGAATGA
236 AAGTTATTATC-CCCTG-TGTTGTGAA-TT---TGGGGGTTGCTAGTTAAAGAAGAAGTGAATGA
* * * *
48646751 GCTTTTCTATTAATATTTTTTAAAATATTTTATATTATTCTCTTTCATGAAATGTTAGTTATTTA
295 GCTTTTCTATTAATATTTTTCAAAATATTTTATATTATTTTCTTTCATGAAATGTTGGTCATTTA
* *
48646816 GCATATTT-AGATACTTT-AACTGTCAAAATGTATTAAAAAAACTTTTGATCATTAACTTTAACG
360 GCATATTTAAG-TA-TTTGAACTGTCAAAATGTATTAAAAAAA---TTGGTTATTAACTTTAACG
* *
48646879 GTCAATCATTAAATTTACCAGCCCTCGAT
420 GTCAATTATTAAATTTA-CAACCC-CGAT
* * * * *
48646908 TTTTTCTTTTTCAATTAA-TCCCGTCACGTGTCACAACGTGCCAAACCTTGATTGTGAGACATGA
1 TTTTTCTTTTTCAATTAACT-CCGCCACGTGTCACAACGTGCCACACCTTGGTTGTGACACATGG
* * * *
48646972 CGAAAAATATAATCAACTTAAAAAATCAATAAAAAATATAAAAATATAAAATCTATAAAAAAAAG
65 CGAAAAA-ATGATCAACTAAAAAAATCAATAAAAATTATAAAAATATAAAATCTATAAAAAAAAT
* * *
48647037 AAAAATATTTAAATTAGATAAAATTATAAA-AAAATATATCAAAATTATTATAAAATATAAAAAT
129 AAAAA-A-GT--ATT---T--AATT-TAAATAAAATATATAAAAATTATTATAAAATATAAAAAA
* ** * *
48647101 TTCATAAAAGTTTTCCTTATAAATGTACTTTACCA-AATTGT-T--AA---AAA---ATTATCCC
184 TTCATAAAAATTTTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTAAAGTTATTATCCC
* * *
48647156 C----TTGTGAATTTGGGGGTTGCTAGTTAAGGACGATGTGAATGAGCTTTTCTATTAATATTTT
249 CTGTGTTGTGAATTTGGGGGTTGCTAGTTAAAGAAGAAGTGAATGAGCTTTTCTATTAATATTTT
*
48647217 TCAAAATATTTTATATTATTTTCTTTCATGAAAGGTTGGTCATTTAGCATATTTAAGTATTTGAA
314 TCAAAATATTTTATATTATTTTCTTTCATGAAATGTTGGTCATTTAGCATATTTAAGTATTTGAA
* * *
48647282 CGGTCAAAATGTATATAAAAAAATTGGTTATTAACTTTTACGGTCAATTGTTAAATTTATCAACC
379 CTGTCAAAATGTAT-TAAAAAAATTGGTTATTAACTTTAACGGTCAATTATTAAATTTA-CAACC
48647347 CCGAT
442 CCGAT
* * *
48647352 TTTTTCTTTTTCAATTAACTTCGCCATGTGTCACAACGTGCCACACCTTGGTTGTGATACATGGC
1 TTTTTCTTTTTCAATTAACTCCGCCACGTGTCACAACGTGCCACACCTTGGTTGTGACACATGGC
* *
48647417 GAAAAAATGATCAACTAAAAAAATTAATAAAAATTATAAAAATATAAAAGTCTATAGAAAAACAT
66 GAAAAAATGATCAACTAAAAAAATCAATAAAAATTATAAAAATATAAAA-TCTATA-AAAAAAAT
48647482 AAAAAAGTATTTAATTTAAATAAAAT-TATAAAAATTATTATAAAATATAAAAAATTCATAAAAA
129 AAAAAAGTATTTAATTTAAATAAAATATATAAAAATTATTATAAAATATAAAAAATTCATAAAAA
48647546 TTTTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTAAAGTTATTATCCCCACAATGTGG
194 TTTTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTAAAGTTATTAT-CCC-C--TGT-G
48647611 TTGTGAATTTGGGGGTTGCTAGTTAAAGAAGAAGTGAATGAGCTTTTCTATTAATATTTTTCAAA
254 TTGTGAATTTGGGGGTTGCTAGTTAAAGAAGAAGTGAATGAGCTTTTCTATTAATATTTTTCAAA
* * * * *
48647676 ATA-TTT-TA-TA-TTT-TTTCGTGAAATGCTGGTCATGTAGCATATTTAAGTACTTGAATTGTC
319 ATATTTTATATTATTTTCTTTCATGAAATGTTGGTCATTTAGCATATTTAAGTATTTGAACTGTC
* * * * * *
48647736 AAAATGCATTAAAAATCACTT-GATAGTTAACTTTAACCGTCAATTTTTAAATTTACTAGCCCCC
384 AAAATGTATTAAAAA--AATTGGTTA-TTAACTTTAACGGTCAATTATTAAATTTAC-A-ACCCC
*
48647800 AAT
444 GAT
* *
48647803 TTGTTCTTTTTTC-ATTAACTCCGCCACATGTCACAACGTGCCACACCTTGGTTGTGACACATGG
1 TTTTTC-TTTTTCAATTAACTCCGCCACGTGTCACAACGTGCCACACCTTGGTTGTGACACATGG
48647867 CGAAAAAAATGATCAACTTAAAAAAATCAATAAAAATTATAAAAATATAAAAATCTATAACAGAA
65 CG-AAAAAATGATCAAC-TAAAAAAATCAATAAAAATTATAAAAATAT-AAAATCTATAA-A-AA
* *
48647932 AAATAGAAAAGTATTTAATTTAAAT-AAATTTATAAAAATTATT-TAAAATATA
125 AAATAAAAAAGTATTTAATTTAAATAAAATATATAAAAATTATTATAAAATATA
48647984 TCTAAATTAT
Statistics
Matches: 1301, Mismatches: 147, Indels: 209
0.79 0.09 0.13
Matches are distributed among these distances:
435 62 0.05
436 13 0.01
437 1 0.00
438 1 0.00
439 2 0.00
441 3 0.00
442 3 0.00
443 40 0.03
444 73 0.06
445 53 0.04
446 13 0.01
447 159 0.12
448 45 0.03
449 82 0.06
450 47 0.04
451 68 0.05
452 24 0.02
453 52 0.04
454 108 0.08
456 3 0.00
457 9 0.01
458 1 0.00
459 7 0.01
460 5 0.00
461 1 0.00
463 2 0.00
465 14 0.01
466 9 0.01
467 54 0.04
468 52 0.04
469 4 0.00
470 1 0.00
471 4 0.00
473 4 0.00
474 2 0.00
475 9 0.01
476 9 0.01
477 2 0.00
478 5 0.00
479 71 0.05
480 11 0.01
481 69 0.05
482 10 0.01
483 86 0.07
484 5 0.00
485 3 0.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (446 bp):
TTTTTCTTTTTCAATTAACTCCGCCACGTGTCACAACGTGCCACACCTTGGTTGTGACACATGGC
GAAAAAATGATCAACTAAAAAAATCAATAAAAATTATAAAAATATAAAATCTATAAAAAAAATAA
AAAAGTATTTAATTTAAATAAAATATATAAAAATTATTATAAAATATAAAAAATTCATAAAAATT
TTCCTTATAAATGTACTTTATTACATTTTTATAAAATTTAAAGTTATTATCCCCTGTGTTGTGAA
TTTGGGGGTTGCTAGTTAAAGAAGAAGTGAATGAGCTTTTCTATTAATATTTTTCAAAATATTTT
ATATTATTTTCTTTCATGAAATGTTGGTCATTTAGCATATTTAAGTATTTGAACTGTCAAAATGT
ATTAAAAAAATTGGTTATTAACTTTAACGGTCAATTATTAAATTTACAACCCCGAT
Found at i:48647980 original size:20 final size:20
Alignment explanation
Indices: 48647955--48648010 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
48647945 TTTAATTTAA
*
48647955 ATAAATTTATAAAAATTATT
1 ATAAAATTATAAAAATTATT
**
48647975 -TAAAATATATCTAAATTATT
1 ATAAAAT-TATAAAAATTATT
48647995 ATAAAA-TATAAAAATT
1 ATAAAATTATAAAAATT
48648011 TCATAAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 13 0.45
20 11 0.38
21 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAATTATAAAAATTATT
Found at i:48648221 original size:20 final size:18
Alignment explanation
Indices: 48648187--48648245 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
48648177 AAATTTTTAG
*
48648187 AAAAAA-TAAATAAAATA
1 AAAAAATTATATAAAATA
48648204 AAAAAATATATTATAAAAT-
1 AAAAAAT-TA-TATAAAATA
*
48648223 AGAAAATTATAGTAAAATA
1 AAAAAATTATA-TAAAATA
48648242 AAAA
1 AAAA
48648246 TTATAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 11 0.32
20 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATTATATAAAATA
Found at i:48648247 original size:17 final size:18
Alignment explanation
Indices: 48648217--48648250 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
48648207 AAATATATTA
48648217 TAAAATAGAAAATTATAG
1 TAAAATAGAAAATTATAG
48648235 TAAAATA-AAAATTATA
1 TAAAATAGAAAATTATA
48648251 AAAAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TAAAATAGAAAATTATAG
Found at i:48648256 original size:17 final size:17
Alignment explanation
Indices: 48648196--48648257 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
48648186 GAAAAAATAA
*
48648196 ATAAAATAA-AAAAATAT
1 ATAAAAAAATAAAAAT-T
* *
48648213 ATTATAAAATAGAAAATT
1 ATAAAAAAATA-AAAATT
**
48648231 ATAGTAAAATAAAAATT
1 ATAAAAAAATAAAAATT
48648248 ATAAAAAAAT
1 ATAAAAAAAT
48648258 CATAAAATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
17 20 0.56
18 11 0.31
19 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAAAATAAAAATT
Found at i:48651423 original size:13 final size:13
Alignment explanation
Indices: 48651405--48651461 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
48651395 CTCAAATTTT
48651405 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
48651418 TCAAAAGCACTTT
1 TCAAAAGCACTTC
*
48651431 TCTACAA-CAC-TC
1 TC-AAAAGCACTTC
*
48651443 TCAAAAGCACTTT
1 TCAAAAGCACTTC
48651456 TCAAAA
1 TCAAAA
48651462 ATAATGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 3 0.08
12 6 0.17
13 24 0.67
14 3 0.08
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:48651709 original size:10 final size:9
Alignment explanation
Indices: 48651691--48651789 Score: 54
Period size: 10 Copynumber: 10.0 Consensus size: 9
48651681 GAACACTTAC
48651691 AAAATTTTA
1 AAAATTTTA
48651700 AAAGATTTTA
1 AAA-ATTTTA
48651710 AAAACTTTTGA
1 AAAA-TTTT-A
*
48651721 AATATTTTTA
1 AA-AATTTTA
48651731 ATAAATTTTA
1 A-AAATTTTA
* *
48651741 AATATTTTTCT
1 AA-AATTTT-A
* *
48651752 ACATTTTTA
1 AAAATTTTA
*
48651761 ATATATTTTA
1 A-AAATTTTA
48651771 TAAAATTTTA
1 -AAAATTTTA
*
48651781 ATAATTTTA
1 AAAATTTTA
48651790 TATCTATATA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
9 14 0.20
10 45 0.64
11 10 0.14
12 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (9 bp):
AAAATTTTA
Found at i:48651782 original size:20 final size:19
Alignment explanation
Indices: 48651691--48651791 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
48651681 GAACACTTAC
*
48651691 AAAATTTTAAAAGATTTTA-
1 AAAATTTT-AAATATTTTAT
48651710 AAAACTTTTGAAATATTTT-T
1 AAAA-TTTT-AAATATTTTAT
*
48651730 AATAAATTTTAAATATTTTTCT
1 -A-AAATTTTAAATA-TTTTAT
* *
48651752 ACATTTTTAATATATTTTAT
1 AAAATTTTAA-ATATTTTAT
48651772 AAAATTTT-AATAATTTTAT
1 AAAATTTTAAAT-ATTTTAT
48651791 A
1 A
48651792 TCTATATATG
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.03
19 13 0.19
20 35 0.52
21 13 0.19
22 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (19 bp):
AAAATTTTAAATATTTTAT
Found at i:48651788 original size:30 final size:30
Alignment explanation
Indices: 48651695--48651788 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
48651685 ACTTACAAAA
*
48651695 TTTTAA-AAGATTTTAAAAACTTTTGAA-ATAT
1 TTTTAATAA-ATTTTAAAAA-TTTT-AATACAT
* **
48651726 TTTTAATAAATTTTAAATATTTTTCTACAT
1 TTTTAATAAATTTTAAAAATTTTAATACAT
*
48651756 TTTTAATATATTTTATAAAATTTTAATA-AT
1 TTTTAATAAATTTTA-AAAATTTTAATACAT
48651786 TTT
1 TTT
48651789 ATATCTATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
30 26 0.50
31 24 0.46
32 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTAATAAATTTTAAAAATTTTAATACAT
Found at i:48652959 original size:20 final size:20
Alignment explanation
Indices: 48652921--48652960 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48652911 TGAATTTTGA
*
48652921 GACTAAATTTTGGGAAGTTT
1 GACTAAATTTTAGGAAGTTT
48652941 GACTAAAATTTTAGG-AGTTT
1 GACT-AAATTTTAGGAAGTTT
48652961 AATAAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (20 bp):
GACTAAATTTTAGGAAGTTT
Found at i:48654285 original size:12 final size:12
Alignment explanation
Indices: 48654258--48654354 Score: 76
Period size: 12 Copynumber: 8.4 Consensus size: 12
48654248 ATCTGTAAGC
* *
48654258 AATAACAATAAG
1 AATAACAACAAT
*
48654270 AATAAGAACAAT
1 AATAACAACAAT
48654282 AAT---AACAAT
1 AATAACAACAAT
*
48654291 AATAACAATAAT
1 AATAACAACAAT
* *
48654303 AACAACAA-AAC
1 AATAACAACAAT
* *
48654314 AATAACAAGAAG
1 AATAACAACAAT
* *
48654326 AACAAGAACAAT
1 AATAACAACAAT
48654338 AATAACAACAAT
1 AATAACAACAAT
48654350 AATAA
1 AATAA
48654355 GAATAAGAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
9 9 0.13
11 9 0.13
12 49 0.73
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.14
Consensus pattern (12 bp):
AATAACAACAAT
Found at i:48654288 original size:9 final size:9
Alignment explanation
Indices: 48654264--48654369 Score: 79
Period size: 9 Copynumber: 11.6 Consensus size: 9
48654254 AAGCAATAAC
*
48654264 AATAAGAAT
1 AATAACAAT
*
48654273 AAGAACAAT
1 AATAACAAT
48654282 AATAACAAT
1 AATAACAAT
48654291 AATAACAAT
1 AATAACAAT
*
48654300 AATAACAAC
1 AATAACAAT
48654309 AA-AACAAT
1 AATAACAAT
* * *
48654317 AACAAGAAGAAC
1 ---AATAACAAT
*
48654329 AAGAACAAT
1 AATAACAAT
*
48654338 AATAACAAC
1 AATAACAAT
* *
48654347 AATAATAAG
1 AATAACAAT
*
48654356 AATAAGAAT
1 AATAACAAT
48654365 AATAA
1 AATAA
48654370 TTATAATATA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
8 5 0.06
9 67 0.86
11 2 0.03
12 4 0.05
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (9 bp):
AATAACAAT
Found at i:48654294 original size:3 final size:3
Alignment explanation
Indices: 48654258--48654377 Score: 53
Period size: 3 Copynumber: 40.3 Consensus size: 3
48654248 ATCTGTAAGC
* * * * * * *
48654258 AAT AAC AAT AAG AAT AAG AAC AAT AAT AAC AAT AAT AAC AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * *
48654306 AAC AA- AAC AAT AAC AAG AAG AAC AAG AAC AAT AAT AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
48654353 AAG AAT AAG AAT AAT AAT TAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
48654378 TATTATTATT
Statistics
Matches: 89, Mismatches: 27, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (3 bp):
AAT
Found at i:48667283 original size:19 final size:18
Alignment explanation
Indices: 48667251--48667286 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
48667241 TTGGGATTTT
*
48667251 ATAAATAAAGGAATAAAA
1 ATAAATAAAAGAATAAAA
48667269 ATAACATAAAAGAATAAA
1 ATAA-ATAAAAGAATAAA
48667287 CTTTGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (18 bp):
ATAAATAAAAGAATAAAA
Found at i:48670251 original size:33 final size:33
Alignment explanation
Indices: 48670163--48670269 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 33
48670153 GTACACCATC
* *
48670163 CATAGAGATAGTCTGTTGGGACAATAAACACAA
1 CATAGAGATAGTCCGTTGGGACAGTAAACACAA
* * *
48670196 CA-A-AAATAGTTCGTTGGAACAGTAAACACAGA
1 CATAGAGATAGTCCGTTGGGACAGTAAACACA-A
* *
48670228 -ATAGAGATAGGCCGTTGGGACAGTAGACACAA
1 CATAGAGATAGTCCGTTGGGACAGTAAACACAA
*
48670260 CACAGAGATA
1 CATAGAGATA
48670270 ATGTAACACC
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
31 23 0.39
32 4 0.07
33 32 0.54
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (33 bp):
CATAGAGATAGTCCGTTGGGACAGTAAACACAA
Found at i:48681164 original size:15 final size:16
Alignment explanation
Indices: 48681132--48681164 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48681122 TTTTAATAAT
48681132 GGAATTGTAATATTTA
1 GGAATTGTAATATTTA
48681148 GGAATTGTAAT-TTTA
1 GGAATTGTAATATTTA
48681163 GG
1 GG
48681165 CAAATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
GGAATTGTAATATTTA
Found at i:48685839 original size:26 final size:27
Alignment explanation
Indices: 48685810--48685884 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
48685800 TGCAACTTAC
*
48685810 CTGGCAAACCCCA-TTCGCCACACAGA
1 CTGGCAAACCCCAGCTCGCCACACAGA
** *
48685836 CTGGTGAACCCCAGCTCGCCAGACAGA
1 CTGGCAAACCCCAGCTCGCCACACAGA
*
48685863 CTAGTG-AACCCCCAGCTCGCCA
1 CT-G-GCAAACCCCAGCTCGCCA
48685885 ACACGTTAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.28
27 13 0.32
28 15 0.38
29 1 0.03
ACGTcount: A:0.27, C:0.41, G:0.20, T:0.12
Consensus pattern (27 bp):
CTGGCAAACCCCAGCTCGCCACACAGA
Found at i:48685884 original size:28 final size:27
Alignment explanation
Indices: 48685816--48685884 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
48685806 TTACCTGGCA
* *
48685816 AACCCCA-TTCGCCACACAGACTGGTG
1 AACCCCAGCTCGCCACACAGACTAGTG
*
48685842 AACCCCAGCTCGCCAGACAGACTAGTG
1 AACCCCAGCTCGCCACACAGACTAGTG
48685869 AACCCCCAGCTCGCCA
1 AA-CCCCAGCTCGCCA
48685885 ACACGTTAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 7 0.18
27 18 0.47
28 13 0.34
ACGTcount: A:0.28, C:0.42, G:0.19, T:0.12
Consensus pattern (27 bp):
AACCCCAGCTCGCCACACAGACTAGTG
Found at i:48695993 original size:20 final size:20
Alignment explanation
Indices: 48695940--48696049 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
48695930 AGCATGATTA
*
48695940 TGCTATCA-GAGGCACCGTAG
1 TGCTATCAGGA-GCACCGAAG
* ** *
48695960 TGCTAACAAAAGCA-CAAATG
1 TGCTATCAGGAGCACCGAA-G
* *
48695980 TGCTATCAGGAGCATCGTAG
1 TGCTATCAGGAGCACCGAAG
* *
48696000 TGTTATCAGAAGCACCGTAA-
1 TGCTATCAGGAGCACCG-AAG
*
48696020 TACTATCAGGAGCA-CGAATG
1 TGCTATCAGGAGCACCGAA-G
48696040 TGCTATCAGG
1 TGCTATCAGG
48696050 GGTACGAATG
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 57 0.85
21 4 0.06
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (20 bp):
TGCTATCAGGAGCACCGAAG
Found at i:48696056 original size:20 final size:20
Alignment explanation
Indices: 48695970--48696060 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
48695960 TGCTAACAAA
*
48695970 AGCACAAATGTGCTATCAGG
1 AGCACGAATGTGCTATCAGG
* * *
48695990 AGCATCGTA-GTGTTATCAGA
1 AGCA-CGAATGTGCTATCAGG
*
48696010 AGCACCGTAA--TACTATCAGG
1 AGCA-CG-AATGTGCTATCAGG
48696030 AGCACGAATGTGCTATCAGG
1 AGCACGAATGTGCTATCAGG
* *
48696050 GGTACGAATGT
1 AGCACGAATGT
48696061 ATTATCAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 48 0.87
21 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (20 bp):
AGCACGAATGTGCTATCAGG
Found at i:48696066 original size:20 final size:20
Alignment explanation
Indices: 48696020--48696067 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
48696010 AGCACCGTAA
48696020 TACTATCAGGAGCACGAATG
1 TACTATCAGGAGCACGAATG
* * *
48696040 TGCTATCAGGGGTACGAATG
1 TACTATCAGGAGCACGAATG
*
48696060 TATTATCA
1 TACTATCA
48696068 AAAGCACTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (20 bp):
TACTATCAGGAGCACGAATG
Found at i:48696066 original size:60 final size:60
Alignment explanation
Indices: 48695943--48696074 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 60
48695933 ATGATTATGC
* * * * *
48695943 TATCAGAGGCACCGTAGTGCTAACAAAAGCACAAATGTGCTATCAGGAGCATCGTAGTGT
1 TATCAGAAGCACCGTAATACTAACAAAAGCACAAATGTGCTATCAGGAGCATCGAAGTAT
* ** * * *
48696003 TATCAGAAGCACCGTAATACTATCAGGAGCACGAATGTGCTATCAGGGGTA-CGAATGTAT
1 TATCAGAAGCACCGTAATACTAACAAAAGCACAAATGTGCTATCAGGAGCATCGAA-GTAT
*
48696063 TATCAAAAGCAC
1 TATCAGAAGCAC
48696075 TTTTTCAAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 3 0.05
60 56 0.95
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (60 bp):
TATCAGAAGCACCGTAATACTAACAAAAGCACAAATGTGCTATCAGGAGCATCGAAGTAT
Found at i:48701059 original size:68 final size:68
Alignment explanation
Indices: 48700946--48701086 Score: 246
Period size: 68 Copynumber: 2.1 Consensus size: 68
48700936 TAATTTATGT
*
48700946 ATGATTTTGTAGCTACCTAATTATGATTTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
48701011 GAA
66 GAA
* * *
48701014 ATGATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
48701079 GAA
66 GAA
48701082 ATGAT
1 ATGAT
48701087 ACATCATATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (68 bp):
ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
GAA
Found at i:48702735 original size:56 final size:57
Alignment explanation
Indices: 48702651--48702791 Score: 157
Period size: 56 Copynumber: 2.5 Consensus size: 57
48702641 TATTTTTTTA
* * *
48702651 TATTATTATA-TAT-TATGATTTTAGTAAATTA-ATATAAGAATAATTATATTAAGAAT
1 TATTATTAAATTATATATTATTTTATTAAATTATATATAAGAATAATTAT-TTAA-AAT
* * *
48702707 T-TTATTAAATTATATATT-TTTTATTAAATTATATTTAATAATAATTATTTTAAAT
1 TATTATTAAATTATATATTATTTTATTAAATTATATATAAGAATAATTATTTAAAAT
*
48702762 TATTATTAAATTATTTATTATTTATATTAA
1 TATTATTAAATTATATATTATTT-TATTAA
48702792 TAATCTTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
55 11 0.15
56 35 0.49
57 20 0.28
58 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (57 bp):
TATTATTAAATTATATATTATTTTATTAAATTATATATAAGAATAATTATTTAAAAT
Found at i:48702754 original size:24 final size:24
Alignment explanation
Indices: 48702727--48702804 Score: 58
Period size: 26 Copynumber: 3.3 Consensus size: 24
48702717 TATATATTTT
48702727 TTATTAAATTATATTTAATAATAA
1 TTATTAAATTATATTTAATAATAA
* *
48702751 TTATTTTAAATTAT-TATTAA-ATTAT
1 TTA--TTAAATTATAT-TTAATAATAA
* *
48702776 TTATT-ATTTATA-TTAATAAT-C
1 TTATTAAATTATATTTAATAATAA
48702797 TTATTAAA
1 TTATTAAA
48702805 ATTTAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 9 0.21
22 8 0.19
23 2 0.05
24 3 0.07
25 7 0.17
26 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAAATTATATTTAATAATAA
Found at i:48702776 original size:11 final size:11
Alignment explanation
Indices: 48702749--48702781 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
48702739 ATTTAATAAT
48702749 AATTATT-TTA
1 AATTATTATTA
48702759 AATTATTATTA
1 AATTATTATTA
48702770 AATTATTTATTA
1 AATTA-TTATTA
48702782 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:48702955 original size:44 final size:45
Alignment explanation
Indices: 48702905--48702994 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
48702895 CCTCTATTCT
48702905 ATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACA-ATAGAATTACTATTACGCCTCTATTCCATTAC
* *
48702949 ATTCAACCAAACAATTGAATTGCTATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCCATTAC
48702994 A
1 A
48702995 GCAAACCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.30
Consensus pattern (45 bp):
ATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCCATTAC
Found at i:48708417 original size:51 final size:51
Alignment explanation
Indices: 48708300--48708417 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 51
48708290 GTCTTTAAAG
* * * * * *
48708300 TTTACACATTTTATCAATTTAATCTTTATTTAACAAATTTAACCTACAATA
1 TTTACACATTATATCAATTTAATCCTAATTTAACAAATCTAACATACAAAA
* * * ** * *
48708351 TTTATATATTCTATCAATTTGGTCCTAATTTAACAAATCTATCATAGAAAA
1 TTTACACATTATATCAATTTAATCCTAATTTAACAAATCTAACATACAAAA
48708402 TTTACACATTATATCA
1 TTTACACATTATATCA
48708418 GCATTCACAC
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (51 bp):
TTTACACATTATATCAATTTAATCCTAATTTAACAAATCTAACATACAAAA
Found at i:48709303 original size:3 final size:3
Alignment explanation
Indices: 48709295--48709319 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48709285 ATGTTTTTAT
48709295 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
48709320 AAGTCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.