Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 5 of 18
Found at i:2450364 original size:54 final size:54
Alignment explanation
Indices: 2450300--2450408 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
2450290 CTCTGATCTC
*
2450300 TTTAATTTTGAAATTATTATGTTTTTATCATCTTCAAGCTTTAAAAGTTTTCGA
1 TTTAATTTTGAAATTATTATGTTTTCATCATCTTCAAGCTTTAAAAGTTTTCGA
2450354 TTTAATTTTGAAATTATTATGTTTTCATCATCTTCAAGCTTTAAAAGTTTTCGA
1 TTTAATTTTGAAATTATTATGTTTTCATCATCTTCAAGCTTTAAAAGTTTTCGA
2450408 T
1 T
2450409 GATTGGGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (54 bp):
TTTAATTTTGAAATTATTATGTTTTCATCATCTTCAAGCTTTAAAAGTTTTCGA
Found at i:2461548 original size:36 final size:38
Alignment explanation
Indices: 2461481--2461554 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 38
2461471 AAATATGAAA
*
2461481 TAAAAATTAATTATAAAATATATATTTTATATA-AATT
1 TAAAAATTAATTATAAAATATATATTGTATATATAATT
2461518 TAAAAA-TAATATATATAAA-A-ATATTGTATATATAATT
1 TAAAAATTAAT-TATA-AAATATATATTGTATATATAATT
2461555 AGTTTGATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 15 0.45
37 15 0.45
38 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (38 bp):
TAAAAATTAATTATAAAATATATATTGTATATATAATT
Found at i:2468254 original size:234 final size:234
Alignment explanation
Indices: 2467844--2468307 Score: 775
Period size: 234 Copynumber: 2.0 Consensus size: 234
2467834 TACTTGAAAG
*
2467844 AGTTGCTCTTTCTAAGGACACTGCATCTGTTTCATCACTTTCTTCATTGGGATGGGCAGCATTGG
1 AGTTGCTCTTTCTAAGGACACTGCATCTGTTTCATCACTTTCTTCATTGGGATGAGCAGCATTGG
* * *
2467909 TAGTTTTCACAAGGTCATTGCCTGTAACCATCGCATTATATTGGGCTTGGGGAACTTCAGAAGGC
66 TAGCTTTCACAAGGTCATTGCCTGTAACCATCGCATTACATTGGGCTTGGCGAACTTCAGAAGGC
* *
2467974 TCTGCTACAAAATCGGTGGCCAGCAGTCTAACAGGACTTCGGTGGTGTCGAGAATCTGATATAAG
131 TCTGCTACAAAATCAGTGACCAGCAGTCTAACAGGACTTCGGTGGTGTCGAGAATCTGATATAAG
*
2468039 GGCATGATCTTTCGGTTGATCACTGGGACTACCAAAAAC
196 GGCATAATCTTTCGGTTGATCACTGGGACTACCAAAAAC
* * *
2468078 AGTTGCTCTTTCTAAGGTCACTGCATCTGTTTCATCACTTTCTTCATTGGGCTGAGTAGCATTGG
1 AGTTGCTCTTTCTAAGGACACTGCATCTGTTTCATCACTTTCTTCATTGGGATGAGCAGCATTGG
* **
2468143 TAGCTTTCACAAGTTCATTGCCTGTAACCATTTCATTACATTGGGCTTGGCGAACTTCAGAAGGC
66 TAGCTTTCACAAGGTCATTGCCTGTAACCATCGCATTACATTGGGCTTGGCGAACTTCAGAAGGC
* * *
2468208 TCTGCTACAAAATCAGTGATCGGCAGTCTAACAGGACTTTGGTGGTGTCGAGAATCTGATATAAG
131 TCTGCTACAAAATCAGTGACCAGCAGTCTAACAGGACTTCGGTGGTGTCGAGAATCTGATATAAG
*
2468273 GGCATAATCTTTTGGTTGATCACTGGGACTACCAA
196 GGCATAATCTTTCGGTTGATCACTGGGACTACCAA
2468308 CCTTAAAATG
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
234 213 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (234 bp):
AGTTGCTCTTTCTAAGGACACTGCATCTGTTTCATCACTTTCTTCATTGGGATGAGCAGCATTGG
TAGCTTTCACAAGGTCATTGCCTGTAACCATCGCATTACATTGGGCTTGGCGAACTTCAGAAGGC
TCTGCTACAAAATCAGTGACCAGCAGTCTAACAGGACTTCGGTGGTGTCGAGAATCTGATATAAG
GGCATAATCTTTCGGTTGATCACTGGGACTACCAAAAAC
Found at i:2470914 original size:2 final size:2
Alignment explanation
Indices: 2470907--2470936 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2470897 CTGCCACATG
2470907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2470937 GTTTCATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2482689 original size:16 final size:17
Alignment explanation
Indices: 2482668--2482699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2482658 AATACTAAAT
2482668 AAAAATA-AAATATTTA
1 AAAAATATAAATATTTA
2482684 AAAAATATAAATATTT
1 AAAAATATAAATATTT
2482700 GAGTACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATATAAATATTTA
Found at i:2487567 original size:347 final size:335
Alignment explanation
Indices: 2486914--2487999 Score: 961
Period size: 347 Copynumber: 3.2 Consensus size: 335
2486904 ATCTCAAACA
* * **
2486914 TAATCAATAAATTTATTAGTTATAATTTTGTTAATGTTAACACAAAATAAAAAGT-AATATTATT
1 TAATTAAT-AATTTATAAGTTATAATTTTG-TAACATTAACACAAAATAAAAAGTAAATA-TATT
** * ** *
2486978 TATATTTAAAGTGTATATATGCTAAAAGT-TT-TAATATATATAATAGTAATTATATTTCTTATA
63 TATATTTAAAGTACATACACACTAAAAATATTATAATATATATAATAGTAATTATATTTCTTATA
* * *
2487041 AATGAA-TTCAATGTATATAAAGTATATATATTTTAAAAGACAATATAAGTCAATTAATAATCAT
128 AATGAACTT-AATATATATAAAGTATATATA--TTAAAAGACATTATAAGT-AATTAATAATAAT
* * * * ** *
2487105 AGTTTCATTAATTAACTTAATTAAATATAT-AGGTTTATCCTTAACTACAAAAAATTTAAAAAAA
189 AGTTTCATGAATTAATTTAATTAAATATATGA-GTTTATCCTTAATTATATGAAATTAAAAAAAA
* *
2487169 TAACTAAGTTTCCAAACTATTCTAATCTCACAACTTC-CTTTTAGATTTATATATTATAAGTTTA
253 TAACTAA-TTT-CAAACTATTCTAATCTTACAACTTCTCTTTAAG-TTTATATATTATAAGTTTA
2487233 TATAAACAAAGGTATATATATT
315 TATAAA-AAAGGTATATATATT
* * ** ** *
2487255 GTAATTAATAATATTATGATTTATTGTTTTTGTAATGTTAACATAAAATAGAAAA-TAAATATAT
1 -TAATTAATAAT-TTATAAGTTA-TAATTTTGTAACATTAACACAAAATA-AAAAGTAAATATAT
** *
2487319 TTATATTTAAAGTACATACACAC-ACACATGTACTCATATACATATATATAATAGTAATTACATT
62 TTATATTTAAAGTACATACACACTA-A-AAATA-T--TATA-ATATATATAATAGTAATTATATT
* * *
2487383 CCTTATAAATGAACTTAATATATATAAAGTATACATATTAAAAGACATTACAAGATAATTAATAA
121 TCTTATAAATGAACTTAATATATATAAAGTATATATATTAAAAGACATTATAAG-TAATTAATAA
* * * *
2487448 TTATAGTTTTATGAATTAATTTAATTAATTATATGAGTTTATTCTTAATTATATGAAATTAAAAA
185 TAATAGTTTCATGAATTAATTTAATTAAATATATGAGTTTATCCTTAATTATATGAAATTAAAAA
* *
2487513 AAATAACTACATTTCAGAATTATTCTAATCTTACAACTTCTCTTTAAGTTTATATA-AATAAAG-
250 AAATAACTA-ATTTCA-AACTATTCTAATCTTACAACTTCTCTTTAAGTTTATATATTAT-AAGT
2487576 TTATAT---AAA--T-TATA-A-T
312 TTATATAAAAAAGGTATATATATT
* *
2487592 TAA-TAAT--TTTATAAGTTATAATTTTGTAACATTAATACAAAATAAAAAGTAAATATGTTTAT
1 TAATTAATAATTTATAAGTTATAATTTTGTAACATTAACACAAAATAAAAAGTAAATATATTTAT
* * * * *
2487654 ATTTAAAGTATATATATACTAAAAATATTTTAATATATATAATAGAAATTATATTTCTTATAAAT
66 ATTTAAAGTACATACACACTAAAAATATTATAATATATATAATAGTAATTATATTTCTTATAAAT
* * * *
2487719 TAAC--ACA-ATATATAAACTATATATATT-GAAGGCATTATAAGTTAATTAATAATAATAGTTT
131 GAACTTA-ATATATATAAAGTATATATATTAAAAGACATTATAAG-TAATTAATAATAATAGTTT
* * * **
2487780 CATGAATTAATTTAA-TAACTCTATG-GATTTGTCCTTAATT-TCATGAAATTAAAAAAAATAGT
194 CATGAATTAATTTAATTAAATATATGAG-TTTATCCTTAATTAT-ATGAAATTAAAAAAAATAAC
** * * * * * *
2487842 TAGGCTTCAAAACTATTCTAATATTAAAAGTTTTCTTTAAGTATATATGTTATAAGTTTATATAA
257 TA-ATTTC-AAACTATTCTAATCTTACAACTTCTCTTTAAGTTTATATATTATAAGTTTATATAA
*
2487907 ATAATGGTATATATATT
320 A-AAAGGTATATATATT
* ** ** **
2487924 ATAATTAATAATTTTACAAGCCATAATTTTTGTAATGTTAAAACACAAAATTGAAAGTAAATATA
1 -TAATTAATAA-TTTATAAGTTATAA-TTTTGTAACATT--AACACAAAATAAAAAGTAAATATA
*
2487989 TCTAT-TTTAAA
61 TTTATATTTAAA
2488000 AGTATAGATA
Statistics
Matches: 612, Mismatches: 88, Indels: 91
0.77 0.11 0.12
Matches are distributed among these distances:
321 2 0.00
322 77 0.13
323 52 0.08
324 19 0.03
325 1 0.00
326 33 0.05
327 5 0.01
329 2 0.00
330 11 0.02
331 50 0.08
332 10 0.02
333 4 0.01
334 4 0.01
335 4 0.01
336 3 0.00
337 12 0.02
338 11 0.02
339 10 0.02
340 25 0.04
341 4 0.01
342 58 0.09
343 17 0.03
345 1 0.00
346 10 0.02
347 121 0.20
348 11 0.02
349 53 0.09
350 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (335 bp):
TAATTAATAATTTATAAGTTATAATTTTGTAACATTAACACAAAATAAAAAGTAAATATATTTAT
ATTTAAAGTACATACACACTAAAAATATTATAATATATATAATAGTAATTATATTTCTTATAAAT
GAACTTAATATATATAAAGTATATATATTAAAAGACATTATAAGTAATTAATAATAATAGTTTCA
TGAATTAATTTAATTAAATATATGAGTTTATCCTTAATTATATGAAATTAAAAAAAATAACTAAT
TTCAAACTATTCTAATCTTACAACTTCTCTTTAAGTTTATATATTATAAGTTTATATAAAAAAGG
TATATATATT
Found at i:2487881 original size:322 final size:330
Alignment explanation
Indices: 2487225--2487889 Score: 744
Period size: 322 Copynumber: 2.0 Consensus size: 330
2487215 TTATATATTA
* * * * **
2487225 TAAGTTTATATAAACAAAGGTATATATATTGTAATTAATAATATTATGATTTATTGTTTTTGTAA
1 TAAGTTTATATAAACAAAGGTATATAAATTATAATTAATAATATTATAAGTTATTAATTTTGTAA
** * **
2487290 TGTTAACATAAAATAGAAAATAAATATATTTATATTTAAAGTACATACACACACACATGTACTCA
66 CATTAACACAAAATAGAAAATAAATATATTTATATTTAAAGTACATACACACACACAAATACT-A
* *
2487355 TATACATATATATAATAGTAATTACATTCCTTATAAATGAACTTAATATATATAAAGTATACATA
130 TATACATATATATAATAGAAATTACATTCCTTATAAATGAAC-TAATATATATAAACTATACATA
* * *
2487420 TTAAAAGACATTACAAGATAATTAATAATTATAGTTTTATGAATTAATTTAATTAATTATATGAG
194 TTAAAAGACATTACAAGATAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATATGAG
* * * * * *
2487485 TTTATTCTTAATTATATGAAATTAAAAAAAATAACTACATTTCAGAATTATTCTAATCTTACAAC
259 TTTATCCTTAATTATATGAAATTAAAAAAAATAACTACACTTCAAAACTATTCTAATATTAAAAC
2487550 TTCTCTT
324 TTCTCTT
* * *
2487557 TAAGTTTATATAAATAAAGTTATATAAATTATAATTAATAATTTTATAAGTTA-TAATTTTGTAA
1 TAAGTTTATATAAACAAAGGTATATAAATTATAATTAATAATATTATAAGTTATTAATTTTGTAA
* * * * *
2487621 CATTAATACAAAATA-AAAAGTAAATATGTTTATATTTAAAGTATATATATACTA-A-AAATA-T
66 CATTAACACAAAATAGAAAA-TAAATATATTTATATTTAAAGTACATACACAC-ACACAAATACT
* * * * *
2487682 -TTTA-ATATATATAATAGAAATTATATTTCTTATAAATTAAC-ACA-ATATATAAACTATATAT
129 ATATACATATATATAATAGAAATTACATTCCTTATAAATGAACTA-ATATATATAAACTATACAT
* * * * *
2487743 ATT-GAAGGCATTATAAGTTAATTAATAATAATAGTTTCATGAATTAATTTAA-TAACTCTATG-
193 ATTAAAAGACATTACAAGATAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATATGA
* ** **
2487805 GATTTGTCCTTAATT-TCATGAAATTAAAAAAAATAGTTAGGCTTCAAAACTATTCTAATATTAA
258 G-TTTATCCTTAATTAT-ATGAAATTAAAAAAAATAACTACACTTCAAAACTATTCTAATATTAA
* *
2487869 AAGTTTTCTT
321 AACTTCTCTT
*
2487879 TAAGTATATAT
1 TAAGTTTATAT
2487890 GTTATAAGTT
Statistics
Matches: 280, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
321 2 0.01
322 75 0.27
323 43 0.15
324 19 0.07
325 1 0.00
326 33 0.12
327 3 0.01
329 1 0.00
330 7 0.03
331 49 0.17
332 47 0.17
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (330 bp):
TAAGTTTATATAAACAAAGGTATATAAATTATAATTAATAATATTATAAGTTATTAATTTTGTAA
CATTAACACAAAATAGAAAATAAATATATTTATATTTAAAGTACATACACACACACAAATACTAT
ATACATATATATAATAGAAATTACATTCCTTATAAATGAACTAATATATATAAACTATACATATT
AAAAGACATTACAAGATAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATATGAGTT
TATCCTTAATTATATGAAATTAAAAAAAATAACTACACTTCAAAACTATTCTAATATTAAAACTT
CTCTT
Found at i:2488248 original size:21 final size:20
Alignment explanation
Indices: 2488211--2488249 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2488201 TTTTTAATTT
2488211 AATTATTAAAATAATAATAA
1 AATTATTAAAATAATAATAA
* *
2488231 AATTTTTATAAATGATAAT
1 AATTATTA-AAATAATAAT
2488250 CTAGTTAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AATTATTAAAATAATAATAA
Found at i:2488865 original size:24 final size:24
Alignment explanation
Indices: 2488837--2488885 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2488827 AATTTTTATA
* * *
2488837 TTAAATAGCTTCATTTTAGAATAT
1 TTAAATAACCTCATTTTAAAATAT
2488861 TTAAATAACCTCATTTTAAAATAT
1 TTAAATAACCTCATTTTAAAATAT
2488885 T
1 T
2488886 CAGTGTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (24 bp):
TTAAATAACCTCATTTTAAAATAT
Found at i:2489615 original size:18 final size:19
Alignment explanation
Indices: 2489592--2489628 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2489582 TCAGATGTGA
2489592 TTATTTAAATTAAA-GTAT
1 TTATTTAAATTAAATGTAT
2489610 TTATTTAAATTAAATGTAT
1 TTATTTAAATTAAATGTAT
2489629 ATTTAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTATTTAAATTAAATGTAT
Found at i:2489633 original size:17 final size:17
Alignment explanation
Indices: 2489591--2489639 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
2489581 TTCAGATGTG
2489591 ATTATTTAAATTAAAGT
1 ATTATTTAAATTAAAGT
2489608 ATTTATTTAAATTAAATGT
1 A-TTATTTAAATTAAA-GT
*
2489627 A-TATTTAGATTAA
1 ATTATTTAAATTAA
2489640 GACATAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.41
18 14 0.48
19 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTATTTAAATTAAAGT
Found at i:2489758 original size:24 final size:23
Alignment explanation
Indices: 2489716--2489760 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2489706 TAATATTTTC
**
2489716 AACAAACATATTTTTTAAAACTT
1 AACAAACATATTTACTAAAACTT
2489739 AACAAGACATATTTACTAAAAC
1 AACAA-ACATATTTACTAAAAC
2489761 AAATTAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AACAAACATATTTACTAAAACTT
Found at i:2495853 original size:15 final size:15
Alignment explanation
Indices: 2495833--2495866 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2495823 CCCTTTCGCA
* *
2495833 TTCCTCTTCCTTTCT
1 TTCCTCCTCCTCTCT
2495848 TTCCTCCTCCTCTCT
1 TTCCTCCTCCTCTCT
2495863 TTCC
1 TTCC
2495867 GTTCCTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCCTCCTCCTCTCT
Found at i:2517327 original size:62 final size:61
Alignment explanation
Indices: 2517259--2517444 Score: 273
Period size: 62 Copynumber: 3.0 Consensus size: 61
2517249 TTTATTAATT
* *
2517259 ATTGGTTTTACTTTATTAAACATGAATTAAATACATGAAAAGCATATTCCTTGAATGGAATG
1 ATTGGTTTTACATTATTAAACATGAATTAAATACATGAAAA-CATATTCCTTGAATGGAATC
* * *
2517321 GTTGGTTTTACATTATTAAACATGAACTAAATACATGAAAAACATATTCGTTGAATGGAATC
1 ATTGGTTTTACATTATTAAACATGAATTAAATACATG-AAAACATATTCCTTGAATGGAATC
* * *
2517383 ATCGGTTTTACATTACTAAACATGAATTAAATACGTGAATAACATATTCCTTGAATGGAATC
1 ATTGGTTTTACATTATTAAACATGAATTAAATACATGAA-AACATATTCCTTGAATGGAATC
2517445 TGGCCTTTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
61 2 0.02
62 105 0.95
63 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (61 bp):
ATTGGTTTTACATTATTAAACATGAATTAAATACATGAAAACATATTCCTTGAATGGAATC
Found at i:2539331 original size:26 final size:27
Alignment explanation
Indices: 2539287--2539348 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 27
2539277 TATTATATAA
* *
2539287 AATAATAAATAATATTTAATATTTTTATT
1 AATAA-AAATAATATTTAAT-TATTGATT
2539316 AATAAAAATAA-A-TTAATTATTGATT
1 AATAAAAATAATATTTAATTATTGATT
2539341 -ATAAAAAT
1 AATAAAAAT
2539349 TTATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 8 0.26
25 6 0.19
26 5 0.16
27 1 0.03
28 6 0.19
29 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAAAAATAATATTTAATTATTGATT
Found at i:2539413 original size:28 final size:30
Alignment explanation
Indices: 2539364--2539419 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
2539354 TTATTTAAAA
* *
2539364 TAAAAAATATAAATACATAATTAAATTTAG
1 TAAAAAATATAAATAAAAAATTAAATTTAG
2539394 TAAAAAATA-AAA-AAAAAATTAAATTT
1 TAAAAAATATAAATAAAAAATTAAATTT
2539420 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 3 0.12
30 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
TAAAAAATATAAATAAAAAATTAAATTTAG
Found at i:2557921 original size:15 final size:15
Alignment explanation
Indices: 2557901--2557934 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2557891 AAAAAAAAGA
2557901 AATTTTTTATAAATT
1 AATTTTTTATAAATT
*
2557916 AATTTTTTATTAATT
1 AATTTTTTATAAATT
2557931 AATT
1 AATT
2557935 AATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTATAAATT
Found at i:2561544 original size:15 final size:15
Alignment explanation
Indices: 2561524--2561554 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2561514 GATATTATTA
2561524 TTTTATTATAAATTT
1 TTTTATTATAAATTT
*
2561539 TTTTATTATTAATTT
1 TTTTATTATAAATTT
2561554 T
1 T
2561555 AAATTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATAAATTT
Found at i:2578738 original size:14 final size:15
Alignment explanation
Indices: 2578721--2578755 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2578711 TTTTTTATGA
*
2578721 ATTAATTTTAA-TTT
1 ATTAATTTAAATTTT
2578735 ATTAATTTAAATTTT
1 ATTAATTTAAATTTT
2578750 ATTAAT
1 ATTAAT
2578756 AATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATTTAAATTTT
Found at i:2579387 original size:20 final size:20
Alignment explanation
Indices: 2579364--2579402 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2579354 ATAAATTATT
2579364 TTTTATTAAATTTA-ATTAAA
1 TTTTA-TAAATTTATATTAAA
*
2579384 TTTTATAATTTTATATTAA
1 TTTTATAAATTTATATTAA
2579403 GTCAGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTATAAATTTATATTAAA
Found at i:2580175 original size:12 final size:13
Alignment explanation
Indices: 2580158--2580194 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
2580148 TTGAAATTAA
2580158 AAAATTTTT-ATT
1 AAAATTTTTAATT
2580170 AAAATTTTTAATT
1 AAAATTTTTAATT
*
2580183 -AAATTTATAATT
1 AAAATTTTTAATT
2580195 TAATAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATTTTTAATT
Found at i:2580382 original size:23 final size:23
Alignment explanation
Indices: 2580339--2580383 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2580329 ATCTTACTTT
* *
2580339 TTATATATTTTTAATATAATTAA
1 TTATATATTATTAATAAAATTAA
2580362 TTATATTATTATT-ATAAAATTA
1 TTATA-TATTATTAATAAAATTA
2580384 GTAGCCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATATTATTAATAAAATTAA
Found at i:2582592 original size:7 final size:7
Alignment explanation
Indices: 2582582--2582617 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
2582572 TTTTATCTTT
2582582 TAAATAA
1 TAAATAA
2582589 TAAATAA
1 TAAATAA
*
2582596 TAACTAA
1 TAAATAA
2582603 TAAA-AA
1 TAAATAA
2582609 TAAATAA
1 TAAATAA
2582616 TA
1 TA
2582618 TTTTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:2583515 original size:2 final size:2
Alignment explanation
Indices: 2583508--2583534 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2583498 ATGTGCAATA
2583508 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2583535 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2583539 original size:2 final size:2
Alignment explanation
Indices: 2583534--2583568 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2583524 ATATATATAT
*
2583534 AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2583569 AAGGCTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:2622652 original size:15 final size:13
Alignment explanation
Indices: 2622620--2622661 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2622610 ATTAATTTTA
*
2622620 AATTAAAATTAAT
1 AATTAAAATTATT
2622633 AA--AAAATTATTT
1 AATTAAAATTA-TT
2622645 AATTAAAATTATT
1 AATTAAAATTATT
2622658 AATT
1 AATT
2622662 TATAAAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 8 0.32
14 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTAAAATTATT
Found at i:2633364 original size:24 final size:24
Alignment explanation
Indices: 2633336--2633391 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
2633326 ATTTACAAAA
2633336 TGACAGAAAGCCACAGACATATTT
1 TGACAGAAAGCCACAGACATATTT
* *
2633360 TGACAGAAAGCCGCAGATATATTT
1 TGACAGAAAGCCACAGACATATTT
2633384 TGACAGAA
1 TGACAGAA
2633392 TTGTGGCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (24 bp):
TGACAGAAAGCCACAGACATATTT
Found at i:2642716 original size:2 final size:2
Alignment explanation
Indices: 2642711--2642736 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2642701 ATATATATAT
2642711 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2642737 TTAAAGTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2651699 original size:21 final size:22
Alignment explanation
Indices: 2651664--2651707 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2651654 CTCTTAAAGT
2651664 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
2651686 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
2651707 A
1 A
2651708 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:2669334 original size:18 final size:18
Alignment explanation
Indices: 2669313--2669349 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2669303 TCACCACCGC
*
2669313 CACCACCTTCTTTCTTCT
1 CACCACCTTCCTTCTTCT
*
2669331 CACCGCCTTCCTTCTTCT
1 CACCACCTTCCTTCTTCT
2669349 C
1 C
2669350 TCCGCCGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.49, G:0.03, T:0.41
Consensus pattern (18 bp):
CACCACCTTCCTTCTTCT
Found at i:2669354 original size:18 final size:19
Alignment explanation
Indices: 2669318--2669391 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 19
2669308 ACCGCCACCA
* *
2669318 CCTTCTTTCTTCTC-ACCG
1 CCTTCCTTCTTCTCTCCCG
2669336 CCTTCCTTCTTCTCTCCGCCG
1 CCTTCCTTCTTCTCT-C-CCG
2669357 CCTTCCTTCTTCTCTCCGCCG
1 CCTTCCTTCTTCTCT-C-CCG
2669378 CCTTCCTTCTTCTC
1 CCTTCCTTCTTCTC
2669392 GCCGCCGGCG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
18 13 0.25
21 38 0.75
ACGTcount: A:0.01, C:0.50, G:0.07, T:0.42
Consensus pattern (19 bp):
CCTTCCTTCTTCTCTCCCG
Found at i:2669367 original size:39 final size:42
Alignment explanation
Indices: 2669318--2669398 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
2669308 ACCGCCACCA
*
2669318 CCTTCTT-TCTTCTCACCGCCTTCCTTCTTCTCTCCGCCGCCTT
1 CCTTCTTCTC-TC-CACCGCCTTCCTTCTTCTCGCCGCCGCCTT
*
2669361 CCTTCTTCTCTCCGCCGCCTTCCTTCTTCTCGCCGCCG
1 CCTTCTTCTCTCCACCGCCTTCCTTCTTCTCGCCGCCG
2669399 GCGGCAGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 24 0.69
43 9 0.26
44 2 0.06
ACGTcount: A:0.01, C:0.51, G:0.10, T:0.38
Consensus pattern (42 bp):
CCTTCTTCTCTCCACCGCCTTCCTTCTTCTCGCCGCCGCCTT
Found at i:2669394 original size:18 final size:21
Alignment explanation
Indices: 2669333--2669398 Score: 123
Period size: 21 Copynumber: 3.1 Consensus size: 21
2669323 TTTCTTCTCA
2669333 CCGCCTTCCTTCTTCTCTCCG
1 CCGCCTTCCTTCTTCTCTCCG
2669354 CCGCCTTCCTTCTTCTCTCCG
1 CCGCCTTCCTTCTTCTCTCCG
*
2669375 CCGCCTTCCTTCTTCTCGCCG
1 CCGCCTTCCTTCTTCTCTCCG
2669396 CCG
1 CCG
2669399 GCGGCAGCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.00, C:0.53, G:0.12, T:0.35
Consensus pattern (21 bp):
CCGCCTTCCTTCTTCTCTCCG
Found at i:2669443 original size:21 final size:21
Alignment explanation
Indices: 2669419--2669466 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2669409 CTTTTCCTTT
*
2669419 GTCTTTGTTCTCACCTCCGGC
1 GTCTTTGTTCTCACCGCCGGC
* *
2669440 GTCTTTTTTCTCACCGCCGTC
1 GTCTTTGTTCTCACCGCCGGC
2669461 GTCTTT
1 GTCTTT
2669467 CTTAGGGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.35, G:0.17, T:0.44
Consensus pattern (21 bp):
GTCTTTGTTCTCACCGCCGGC
Found at i:2672588 original size:18 final size:16
Alignment explanation
Indices: 2672561--2672601 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
2672551 TTATGTAGTC
2672561 AAAT-ATTGAAATAAA
1 AAATAATTGAAATAAA
2672576 GATAATAATTGAAATAAA
1 -A-AATAATTGAAATAAA
2672594 AAATAATT
1 AAATAATT
2672602 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 4 0.17
18 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (16 bp):
AAATAATTGAAATAAA
Found at i:2673531 original size:3 final size:3
Alignment explanation
Indices: 2673523--2673563 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2673513 GATTTTATAT
2673523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2673564 CAATTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2677660 original size:2 final size:2
Alignment explanation
Indices: 2677655--2677684 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2677645 TCTCTCTCAA
*
2677655 AC AC AC AC AC AC AC AC GC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2677685 TCTCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2682256 original size:17 final size:18
Alignment explanation
Indices: 2682211--2682246 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
2682201 CTTAACAATA
2682211 ATAATAAA-AA-AA-TTT
1 ATAATAAATAATAATTTT
2682226 ATAATAAATAATAATTTT
1 ATAATAAATAATAATTTT
2682244 ATA
1 ATA
2682247 TAACATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 2 0.11
18 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATAAATAATAATTTT
Found at i:2682886 original size:19 final size:20
Alignment explanation
Indices: 2682853--2682891 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2682843 TTAAAATATA
2682853 TGAGAAAATAGAAT-ATAAT
1 TGAGAAAATAGAATAATAAT
2682872 TGAGAAAAATA-AATAATAAT
1 TGAG-AAAATAGAATAATAAT
2682892 AATAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (20 bp):
TGAGAAAATAGAATAATAAT
Found at i:2685305 original size:24 final size:24
Alignment explanation
Indices: 2685273--2685320 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2685263 AAGGAGATAG
2685273 AAAATTTTTGAAACTGATGGTGTT
1 AAAATTTTTGAAACTGATGGTGTT
2685297 AAAATTTTTGAAACTGATGGTGTT
1 AAAATTTTTGAAACTGATGGTGTT
2685321 TGTAGAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
AAAATTTTTGAAACTGATGGTGTT
Found at i:2718431 original size:3 final size:3
Alignment explanation
Indices: 2718423--2718453 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2718413 TAATTAATCA
2718423 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2718454 TCCATTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2726801 original size:18 final size:18
Alignment explanation
Indices: 2726776--2726817 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2726766 GTCTCTTTAC
2726776 ACAAATATAACTT-TTTGA
1 ACAAATATAA-TTATTTGA
*
2726794 ATAAATATAATTATTTGA
1 ACAAATATAATTATTTGA
2726812 ACAAAT
1 ACAAAT
2726818 TCATATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (18 bp):
ACAAATATAATTATTTGA
Found at i:2730219 original size:25 final size:25
Alignment explanation
Indices: 2730191--2730238 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2730181 GCGCTTCCCA
2730191 AGGGAGCACCGTCGAGTGCTCCCCC
1 AGGGAGCACCGTCGAGTGCTCCCCC
2730216 AGGGAGCACCGTCGAGTGCTCCC
1 AGGGAGCACCGTCGAGTGCTCCC
2730239 TTAGCTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.33, T:0.12
Consensus pattern (25 bp):
AGGGAGCACCGTCGAGTGCTCCCCC
Found at i:2731838 original size:18 final size:20
Alignment explanation
Indices: 2731812--2731849 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
2731802 ATCGGAAATT
2731812 CTAGCCAAAT-AT-AATTGA
1 CTAGCCAAATCATGAATTGA
*
2731830 CTAGGCAAATCATGAATTGA
1 CTAGCCAAATCATGAATTGA
2731850 ACATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
CTAGCCAAATCATGAATTGA
Found at i:2744779 original size:21 final size:19
Alignment explanation
Indices: 2744733--2744780 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
2744723 ATGTTCAACG
2744733 AAAATTT-TTTTAAAAATA
1 AAAATTTATTTTAAAAATA
2744751 AAATATTTATTTTAAAAATTA
1 AAA-ATTTATTTTAAAAA-TA
2744772 ATAAATTTA
1 A-AAATTTA
2744781 CATAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.12
19 4 0.15
20 9 0.35
21 8 0.31
22 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTTATTTTAAAAATA
Found at i:2746142 original size:22 final size:20
Alignment explanation
Indices: 2746101--2746149 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
2746091 GTCATAAGTT
*
2746101 TATATTTTCAATTCAAAAAA
1 TATATTTTCAATACAAAAAA
2746121 TATATCTTTCAAATACAAAAAA
1 TATAT-TTTC-AATACAAAAAA
*
2746143 AATATTT
1 TATATTT
2746150 ACTTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 6 0.24
22 14 0.56
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATTTTCAATACAAAAAA
Found at i:2747449 original size:19 final size:18
Alignment explanation
Indices: 2747427--2747478 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
2747417 TTATAGATAT
2747427 TAAATTTTATTATATTTGA
1 TAAATTTTATTATATTT-A
* * *
2747446 TAAATATCATGATATTTA
1 TAAATTTTATTATATTTA
*
2747464 TAATGTTTTATTATA
1 TAA-ATTTTATTATA
2747479 AATTTGAATA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (18 bp):
TAAATTTTATTATATTTA
Found at i:2747545 original size:18 final size:18
Alignment explanation
Indices: 2747522--2747558 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2747512 ATATTTCAAT
* *
2747522 TTAATTGTTTTAATTGTG
1 TTAATTGTATCAATTGTG
2747540 TTAATTGTATCAATTGTG
1 TTAATTGTATCAATTGTG
2747558 T
1 T
2747559 AAACATGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (18 bp):
TTAATTGTATCAATTGTG
Found at i:2754252 original size:2 final size:2
Alignment explanation
Indices: 2754245--2754274 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2754235 TTATATTGTA
*
2754245 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2754275 TTCTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:2754275 original size:12 final size:12
Alignment explanation
Indices: 2754245--2754278 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2754235 TTATATTGTA
*
2754245 CTCTCTCTCTCT
1 CTCTCTTTCTCT
2754257 CTCTCTTTCTCT
1 CTCTCTTTCTCT
2754269 CTCTCTTTCT
1 CTCTCTTTCT
2754279 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
CTCTCTTTCTCT
Found at i:2754283 original size:2 final size:2
Alignment explanation
Indices: 2754278--2754305 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2754268 TCTCTCTTTC
2754278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2754306 ATCTTTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2757411 original size:2 final size:2
Alignment explanation
Indices: 2757404--2757442 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2757394 GCAGTGGTCC
2757404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2757443 GATCCTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2757752 original size:2 final size:2
Alignment explanation
Indices: 2757745--2757769 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2757735 ATTACGATTG
2757745 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2757770 AACTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2762783 original size:25 final size:27
Alignment explanation
Indices: 2762754--2762831 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 27
2762744 ATAATTAATA
2762754 AAATATTTACTTATTCTCTCATGTCTAAT
1 AAATATTTACTTATTCTCTCATGTC--AT
2762783 AAATACTTTTACTTATTCTCTCATGTCTAAT
1 AAATA--TTTACTTATTCTCTCATGTC--AT
*
2762814 AAATACTTA-TT-TTCTCTC
1 AAATATTTACTTATTCTCTC
2762832 GCTTCCACAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 7 0.15
28 2 0.04
29 8 0.17
31 29 0.63
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (27 bp):
AAATATTTACTTATTCTCTCATGTCAT
Found at i:2762796 original size:31 final size:31
Alignment explanation
Indices: 2762759--2762821 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2762749 TAATAAAATA
2762759 TTTACTTATTCTCTCATGTCTAATAAATACT
1 TTTACTTATTCTCTCATGTCTAATAAATACT
2762790 TTTACTTATTCTCTCATGTCTAATAAATACT
1 TTTACTTATTCTCTCATGTCTAATAAATACT
2762821 T
1 T
2762822 ATTTTCTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTACTTATTCTCTCATGTCTAATAAATACT
Found at i:2764605 original size:7 final size:7
Alignment explanation
Indices: 2764595--2764629 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2764585 AAATTTATTT
*
2764595 AATAATT
1 AATAATA
2764602 AAT-ATA
1 AATAATA
2764608 AATAATA
1 AATAATA
2764615 AATAATA
1 AATAATA
2764622 AATAATA
1 AATAATA
2764629 A
1 A
2764630 CGTGACTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:2769139 original size:16 final size:16
Alignment explanation
Indices: 2769120--2769158 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2769110 CCCAATTGCT
2769120 CCAAACCCAAAATAAC
1 CCAAACCCAAAATAAC
*
2769136 CCAAACTCAAAATAAC
1 CCAAACCCAAAATAAC
2769152 CCGAAAC
1 CC-AAAC
2769159 TACCTGATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.54, C:0.36, G:0.03, T:0.08
Consensus pattern (16 bp):
CCAAACCCAAAATAAC
Found at i:2778917 original size:44 final size:44
Alignment explanation
Indices: 2778854--2778942 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
2778844 CAAGCCTCCA
2778854 AGAAAACATCTTTGAAACCATCTTCATCAATCCAATGACTAAAG
1 AGAAAACATCTTTGAAACCATCTTCATCAATCCAATGACTAAAG
2778898 AGAAAACATCTTTGAAACCATCTTCATCAATCCAATGACTAAAG
1 AGAAAACATCTTTGAAACCATCTTCATCAATCCAATGACTAAAG
2778942 A
1 A
2778943 ATCGAAATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (44 bp):
AGAAAACATCTTTGAAACCATCTTCATCAATCCAATGACTAAAG
Found at i:2785159 original size:23 final size:23
Alignment explanation
Indices: 2785132--2785206 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
2785122 GATACACATG
2785132 TACATACACAGATAGCATAGGAA
1 TACATACACAGATAGCATAGGAA
** * *
2785155 TACATATGCATTTGATA-CACATG--
1 TACATA--CA-CAGATAGCATAGGAA
2785178 TACATACACAGATAGCATAGGAA
1 TACATACACAGATAGCATAGGAA
2785201 TACATA
1 TACATA
2785207 TGCATTTGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 4 0.11
21 6 0.16
23 18 0.47
25 6 0.16
26 4 0.11
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (23 bp):
TACATACACAGATAGCATAGGAA
Found at i:2785189 original size:46 final size:46
Alignment explanation
Indices: 2785122--2785214 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
2785112 TAAGGTGGAA
2785122 GATACACATGTACATACACAGATAGCATAGGAATACATATGCATTT
1 GATACACATGTACATACACAGATAGCATAGGAATACATATGCATTT
2785168 GATACACATGTACATACACAGATAGCATAGGAATACATATGCATTT
1 GATACACATGTACATACACAGATAGCATAGGAATACATATGCATTT
2785214 G
1 G
2785215 GGAAGCCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (46 bp):
GATACACATGTACATACACAGATAGCATAGGAATACATATGCATTT
Found at i:2786307 original size:2 final size:2
Alignment explanation
Indices: 2786300--2786329 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2786290 TTCTTGTCTT
2786300 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2786330 ACAAAACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2810933 original size:16 final size:16
Alignment explanation
Indices: 2810912--2810949 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2810902 TTCCTCTCTG
2810912 TCACTTGTGGTGCATC
1 TCACTTGTGGTGCATC
2810928 TCACTTGTGGTGCATC
1 TCACTTGTGGTGCATC
*
2810944 TGACTT
1 TCACTT
2810950 CACTTGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (16 bp):
TCACTTGTGGTGCATC
Found at i:2812396 original size:14 final size:14
Alignment explanation
Indices: 2812379--2812405 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2812369 GACTCAAAGT
2812379 AAAAGTAATTTATC
1 AAAAGTAATTTATC
2812393 AAAAGTAATTTAT
1 AAAAGTAATTTAT
2812406 GTATTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAAGTAATTTATC
Found at i:2813984 original size:3 final size:3
Alignment explanation
Indices: 2813976--2814000 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2813966 GCTAAGGCAA
2813976 TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC T
2814001 TCCAATAATT
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:2815809 original size:30 final size:30
Alignment explanation
Indices: 2815760--2815816 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2815750 CTTACAATGC
* *
2815760 AATGTGATTATAAGCAATATAATTGTAAAT
1 AATGTAATTACAAGCAATATAATTGTAAAT
* *
2815790 AATGTAATTACAAGTAATATGATTGTA
1 AATGTAATTACAAGCAATATAATTGTA
2815817 GAGAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.37
Consensus pattern (30 bp):
AATGTAATTACAAGCAATATAATTGTAAAT
Found at i:2816100 original size:15 final size:14
Alignment explanation
Indices: 2816032--2816101 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
2816022 TTTTAATATC
*
2816032 ATATATTTTATTTT
1 ATATTTTTTATTTT
* *
2816046 -TATTTATTTAATAT
1 ATATTT-TTTATTTT
*
2816060 A-ATTTTTTATATT
1 ATATTTTTTATTTT
*
2816073 ATATATTTTATTTT
1 ATATTTTTTATTTT
2816087 AATATTTTTTATTTT
1 -ATATTTTTTATTTT
2816102 GATTATAACA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
13 10 0.23
14 20 0.47
15 13 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTTTTTATTTT
Found at i:2821704 original size:2 final size:2
Alignment explanation
Indices: 2821697--2821731 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2821687 AGGGGAGAAA
*
2821697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2821732 ATAAAAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2827438 original size:21 final size:21
Alignment explanation
Indices: 2827414--2827468 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2827404 TGTTGTAACG
*
2827414 CAGCTTCTCTCTTTTTCCATT
1 CAGCTTCTCTCTTTTGCCATT
2827435 CAGCTTCTCTCTTTTGCCATT
1 CAGCTTCTCTCTTTTGCCATT
*
2827456 CAGCTTCTTTCTT
1 CAGCTTCTCTCTT
2827469 ACTCCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.33, G:0.07, T:0.51
Consensus pattern (21 bp):
CAGCTTCTCTCTTTTGCCATT
Found at i:2828670 original size:15 final size:15
Alignment explanation
Indices: 2828647--2828681 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2828637 TCGGAATCTT
*
2828647 CTTCGTCTTCTTCTG
1 CTTCTTCTTCTTCTG
*
2828662 TTTCTTCTTCTTCTG
1 CTTCTTCTTCTTCTG
2828677 CTTCT
1 CTTCT
2828682 GGTTCGGTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.31, G:0.09, T:0.60
Consensus pattern (15 bp):
CTTCTTCTTCTTCTG
Found at i:2830450 original size:13 final size:13
Alignment explanation
Indices: 2830432--2830456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2830422 TATTGGGAAA
2830432 GGTTTTTATGTTG
1 GGTTTTTATGTTG
2830445 GGTTTTTATGTT
1 GGTTTTTATGTT
2830457 TTTTATGGGA
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:0.08, C:0.00, G:0.28, T:0.64
Consensus pattern (13 bp):
GGTTTTTATGTTG
Found at i:2837674 original size:4 final size:4
Alignment explanation
Indices: 2837665--2837689 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2837655 AATTACTTGG
2837665 AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA A
2837690 CATGTGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2840973 original size:2 final size:2
Alignment explanation
Indices: 2840966--2840993 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2840956 AATTCTCCTC
2840966 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2840994 ATAAACTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2866221 original size:26 final size:27
Alignment explanation
Indices: 2866168--2866225 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2866158 ATGGATAAAA
2866168 TTTTTGAAAAATTTCATTTATTATTAT
1 TTTTTGAAAAATTTCATTTATTATTAT
** *
2866195 TTTTTGAAATTTTTTATTTATTA-TAT
1 TTTTTGAAAAATTTCATTTATTATTAT
2866221 TTTTT
1 TTTTT
2866226 AATACTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTTTGAAAAATTTCATTTATTATTAT
Found at i:2866346 original size:19 final size:20
Alignment explanation
Indices: 2866322--2866380 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
2866312 CTAATTTAAG
*
2866322 TTTCTCTACACT-TCTTTTT
1 TTTCTCTACACTCTCTCTTT
*
2866341 TTTCTCT-CTCTCTCTCTTT
1 TTTCTCTACACTCTCTCTTT
*
2866360 TTTCTCTA-TCTCTTCTCTTT
1 TTTCTCTACACTC-TCTCTTT
2866380 T
1 T
2866381 ATTTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 3 0.09
19 24 0.69
20 8 0.23
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTCTACACTCTCTCTTT
Found at i:2866358 original size:21 final size:20
Alignment explanation
Indices: 2866334--2866385 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
2866324 TCTCTACACT
*
2866334 TCTTTTTTTTCTCTCTCTCTC
1 TCTTTTTTTTCTATCTCT-TC
*
2866355 TCTTTTTTCTCTATCTCTTC
1 TCTTTTTTTTCTATCTCTTC
2866375 TCTTTTATTTT
1 TCTTTT-TTTT
2866386 TTTATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTTTTTTCTATCTCTTC
Found at i:2866365 original size:17 final size:18
Alignment explanation
Indices: 2866339--2866372 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2866329 ACACTTCTTT
*
2866339 TTTTTCTCTCTCTCTCTC
1 TTTTTCTCTCTATCTCTC
2866357 TTTTT-TCTCTATCTCT
1 TTTTTCTCTCTATCTCT
2866373 TCTCTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTCTCTCTATCTCTC
Found at i:2866390 original size:8 final size:8
Alignment explanation
Indices: 2866377--2866407 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2866367 ATCTCTTCTC
2866377 TTTTATTT
1 TTTTATTT
2866385 TTTTATTT
1 TTTTATTT
2866393 TTATTATTT
1 TT-TTATTT
2866402 TTTTAT
1 TTTTAT
2866408 CTATAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:2866614 original size:14 final size:13
Alignment explanation
Indices: 2866594--2866641 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2866584 CGTATTTAAT
2866594 TATTTATATTTTA
1 TATTTATATTTTA
*
2866607 TGTATTATAGTTTTA
1 TAT-TTATA-TTTTA
2866622 TATTTAGTATTTTA
1 TATTTA-TATTTTA
*
2866636 AATTTA
1 TATTTA
2866642 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 18 0.62
15 9 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:2866641 original size:20 final size:22
Alignment explanation
Indices: 2866595--2866641 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
2866585 GTATTTAATT
*
2866595 ATTTATATTTTATGTATTATAG
1 ATTTATATTTTATGTATTATAA
* *
2866617 TTTTATA-TTTA-GTATTTTAA
1 ATTTATATTTTATGTATTATAA
2866637 ATTTA
1 ATTTA
2866642 AATAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (22 bp):
ATTTATATTTTATGTATTATAA
Found at i:2867684 original size:19 final size:20
Alignment explanation
Indices: 2867636--2867684 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
2867626 AATAAAAAAT
2867636 TTTTAAAA-TAAAATATTTA
1 TTTTAAAATTAAAATATTTA
2867655 TTTTAAAAATTAATAA-ATTTA
1 TTTT-AAAATTAA-AATATTTA
2867676 -TTTAAAATT
1 TTTTAAAATT
2867685 TTAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.37
20 7 0.26
21 8 0.30
22 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAAAATTAAAATATTTA
Found at i:2867689 original size:21 final size:21
Alignment explanation
Indices: 2867634--2867682 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2867624 CTAATAAAAA
*
2867634 ATTTTTAAAA-TAA-AATATTT
1 ATTTTAAAAATTAATAA-ATTT
2867654 ATTTTAAAAATTAATAAATTT
1 ATTTTAAAAATTAATAAATTT
2867675 A-TTTAAAA
1 ATTTTAAAA
2867683 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 16 0.62
21 8 0.31
22 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAAAAATTAATAAATTT
Found at i:2873392 original size:3 final size:3
Alignment explanation
Indices: 2873384--2873429 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
2873374 ACATGCATGT
* *
2873384 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2873430 AATCTATTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2878469 original size:3 final size:3
Alignment explanation
Indices: 2878455--2878487 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
2878445 ATTTGCAGTT
2878455 GAA GATA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GA
2878488 GGGAGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:2878834 original size:30 final size:29
Alignment explanation
Indices: 2878798--2878855 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
2878788 TAAATCTCGT
*
2878798 TATTTTTATTTTTAATCAAATAAGTCTTTA
1 TATTTTTATTTTGAATCAAATAAG-CTTTA
*
2878828 TATTTTTATTTTGAATTAAATAAGCTTT
1 TATTTTTATTTTGAATCAAATAAGCTTT
2878856 TACTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (29 bp):
TATTTTTATTTTGAATCAAATAAGCTTTA
Found at i:2879339 original size:30 final size:28
Alignment explanation
Indices: 2879303--2879364 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 28
2879293 TAAATCTCTC
*
2879303 TATTTTTATTTTTAATCAAATAAGTCTTT
1 TATTTTTATTTTGAATCAAATAAG-CTTT
2879332 ATATTTTTATTTTGAATCAAATAAGCTTT
1 -TATTTTTATTTTGAATCAAATAAGCTTT
2879361 TATT
1 TATT
2879365 ATTAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 4 0.13
29 4 0.13
30 23 0.74
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (28 bp):
TATTTTTATTTTGAATCAAATAAGCTTT
Found at i:2879495 original size:505 final size:494
Alignment explanation
Indices: 2878517--2879462 Score: 1386
Period size: 497 Copynumber: 1.9 Consensus size: 494
2878507 AGGCGATGTA
* *
2878517 AATTATCATCTTTATTTAATTTTATTTTAATTTGATTGAAACATGCAATGATTATATTCAGAATT
1 AATTATCATCTTTATTTAATTTTATTTTAATTTGATTGAAACATGCAACGATTATATTCAAAATT
*
2878582 AAATTTGTCAAATTTATCCTGTTTATTGAAAAATAAATTTGATGATTGTTTTAAGCTAATTAATG
66 AAATTGGTCAAATTTATCCTGTTTATTGAAAAATAAATTTGATGATTGTTTTAAGCTAATTAATG
* * *
2878647 ATTACTAGATTATCATAAAATTATGAATCTCCTAAACCCTAAGAGTGAAAATTGTTTTCTTCTTG
131 ATTACTAGATTATCATAAAATTATGAATCTCCTAAACCCTAAGAGTGAAAAATCTTTTCTTCTTA
* *
2878712 GGCATAATACTTTAAAAAATTCTTTAAACTATTCAATAAAATTCAAATAAATTGTAATTATTTTA
196 GGCATAACACTTTAAAAAAATCTTTAAACTATTCAATAAAATTCAAATAAATTGTAATTATTTTA
*
2878777 TTTCATTCAATTAAATCTCGTTATTTTTATTTTTAATCAAATAAGTCTTTATATTTTTATTTTGA
261 TTACATTCAATTAAATCTCGTTATTTTTATTTTTAATCAAATAAGTCTTTATATTTTTATTTTGA
* * * *
2878842 ATTAAATAAGCTTTTACTATTAATAGTTCAGTCGAAATGTCACTTGGCAATTTTTATGTCTTGTG
326 ATCAAATAAGCTTTTACTATTAATAATTCAGTCGAAATGTCACTTGGCAATTTTTATG-CTTATA
* * * * * * * *
2878907 ACGTTAACGTGGTTTGTCGATATGTTATAATTGATAATGATGTGATATGTTGATAAGTCATAATT
390 ACGATAAC-TGGTATATCGATATGTTATAAGTCATAATGATGTGACATGGTCAT-AGTCATAATT
*
2878972 AATGATGACATAATCATATGATATTTTCACCATCCGTCATAT
453 AATGATGACACAATCATATGATATTTTCACCATCCGTCATAT
* *
2879014 AATTATCATCTTTATTTAATTTTATTTTAATTTGATTGAATCATGTAACGATTATATTCAAAATT
1 AATTATCATCTTTATTTAATTTTATTTTAATTTGATTGAAACATGCAACGATTATATTCAAAATT
* *
2879079 AAATTGGTCAAATTTATCGTGTTTATTGAAAAATAAATTTGATGATTTTTTTAAGCTAATTAATG
66 AAATTGGTCAAATTTATCCTGTTTATTGAAAAATAAATTTGATGATTGTTTTAAGCTAATTAATG
*
2879144 ATTACTAGATTATCATAAAATTATGAATCTCCTAAATCCTAAGAGTGAAAAATCTTTAAAAAAAA
131 ATTACTAGATTATCATAAAATTATGAATCTCCTAAACCCTAAGAGTGAAAAATCTTT--------
2879209 ATCTTC-TAGGCATAACACTTTAAAAAAATCTTTAAGA-TATTCAATAAAATTCAAATAAATTGT
188 -TCTTCTTAGGCATAACACTTTAAAAAAATCTTTAA-ACTATTCAATAAAATTCAAATAAATTGT
*
2879272 CATTATTTTATTACATTCAATTAAATCTC-TCTATTTTTATTTTTAATCAAATAAGTCTTTATAT
251 AATTATTTTATTACATTCAATTAAATCTCGT-TATTTTTATTTTTAATCAAATAAGTCTTTATAT
* * *
2879336 TTTTATTTTGAATCAAATAAGCTTTTATTATTAATAATTCAGTTGAAATGTCACTTGTCAATTTT
315 TTTTATTTTGAATCAAATAAGCTTTTACTATTAATAATTCAGTCGAAATGTCACTTGGCAATTTT
*
2879401 TATG-TTATAATTGATAA-T-G-ATAT-GATATGTTAATAAGTCATAATTGATGATGACATGGTC
380 TATGCTTATAA-CGATAACTGGTATATCGATATGTT-ATAAGTCATAA-TGATG-TGACATGGTC
2879461 AT
441 AT
2879463 GTGATATTTT
Statistics
Matches: 403, Mismatches: 31, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
497 177 0.44
499 8 0.02
500 11 0.03
501 6 0.01
502 10 0.02
503 4 0.01
504 5 0.01
505 176 0.44
506 6 0.01
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (494 bp):
AATTATCATCTTTATTTAATTTTATTTTAATTTGATTGAAACATGCAACGATTATATTCAAAATT
AAATTGGTCAAATTTATCCTGTTTATTGAAAAATAAATTTGATGATTGTTTTAAGCTAATTAATG
ATTACTAGATTATCATAAAATTATGAATCTCCTAAACCCTAAGAGTGAAAAATCTTTTCTTCTTA
GGCATAACACTTTAAAAAAATCTTTAAACTATTCAATAAAATTCAAATAAATTGTAATTATTTTA
TTACATTCAATTAAATCTCGTTATTTTTATTTTTAATCAAATAAGTCTTTATATTTTTATTTTGA
ATCAAATAAGCTTTTACTATTAATAATTCAGTCGAAATGTCACTTGGCAATTTTTATGCTTATAA
CGATAACTGGTATATCGATATGTTATAAGTCATAATGATGTGACATGGTCATAGTCATAATTAAT
GATGACACAATCATATGATATTTTCACCATCCGTCATAT
Found at i:2880817 original size:2 final size:2
Alignment explanation
Indices: 2880812--2880837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2880802 CATTTAAAAA
2880812 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2880838 GTTGAGGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2890337 original size:59 final size:59
Alignment explanation
Indices: 2890245--2890363 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
2890235 TTTACTTAGT
*
2890245 TTGACATTTTACAAAAGTTCCACTGAAAAGTTCCATTGTTGTGTAATCTATGATGTGCC
1 TTGACATTTTACAAAAGTTCCACTGAAAAGTTCCATTGATGTGTAATCTATGATGTGCC
* *
2890304 TTGACCTTTTACAAATGTTCCACTGAAAAGTTCCATTGATGTGTAATCTATGATGTGCC
1 TTGACATTTTACAAAAGTTCCACTGAAAAGTTCCATTGATGTGTAATCTATGATGTGCC
2890363 T
1 T
2890364 GCAGTTGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (59 bp):
TTGACATTTTACAAAAGTTCCACTGAAAAGTTCCATTGATGTGTAATCTATGATGTGCC
Found at i:2903322 original size:30 final size:32
Alignment explanation
Indices: 2903278--2903340 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
2903268 GTTAAAATTT
* *
2903278 AAATATAATATGAATAT-TTT-TAAATTTTAA
1 AAATAAAATATGAATATGTTTATAAATTATAA
*
2903308 AAATAAAATTTGAATATGTTTATAAATTATAA
1 AAATAAAATATGAATATGTTTATAAATTATAA
2903340 A
1 A
2903341 TTTATATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 3 0.11
32 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (32 bp):
AAATAAAATATGAATATGTTTATAAATTATAA
Found at i:2906903 original size:19 final size:19
Alignment explanation
Indices: 2906876--2906914 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2906866 TTTTTTATTC
2906876 ATTTATTATAGTCAATTAA
1 ATTTATTATAGTCAATTAA
* *
2906895 ATTTTTTATATTCAATTAA
1 ATTTATTATAGTCAATTAA
2906914 A
1 A
2906915 ATTAATTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTATTATAGTCAATTAA
Found at i:2924373 original size:15 final size:15
Alignment explanation
Indices: 2924353--2924384 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2924343 TAATGTTATA
2924353 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
2924368 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
2924383 AT
1 AT
2924385 AATATAAGAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:2924386 original size:33 final size:33
Alignment explanation
Indices: 2924349--2924425 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
2924339 TTTGTAATGT
2924349 TATAAT-TAA-AATAAAAAATATTAAAATAAAATA
1 TATAATATAAGAAT-AAAAA-ATTAAAATAAAATA
* *
2924382 TATAATATAAGAATTAGAAATTAAAATAAAATA
1 TATAATATAAGAATAAAAAATTAAAATAAAATA
2924415 -A-AATATAAGAA
1 TATAATATAAGAA
2924426 ATTAAAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
31 10 0.25
32 1 0.03
33 20 0.50
34 6 0.15
35 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (33 bp):
TATAATATAAGAATAAAAAATTAAAATAAAATA
Found at i:2924423 original size:31 final size:33
Alignment explanation
Indices: 2924368--2924433 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2924358 AATAAAAAAT
2924368 ATTAAAATAAAATATATAATATAAG-AATTAGAA
1 ATTAAAATAAAATATATAATATAAGAAATTA-AA
2924401 ATTAAAATAAAATA-A-AATATAAGAAATTAAA
1 ATTAAAATAAAATATATAATATAAGAAATTAAA
2924432 AT
1 AT
2924434 GTATATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 12 0.38
32 6 0.19
33 14 0.44
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (33 bp):
ATTAAAATAAAATATATAATATAAGAAATTAAA
Found at i:2924456 original size:55 final size:53
Alignment explanation
Indices: 2924355--2924479 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 53
2924345 ATGTTATAAT
* ** *
2924355 TAAAATAAAAAATATTAAAATAAAATATATAATATAAGAATTAGAAATTAAAA
1 TAAAATAAAATATAAGAAAATAAAATATATAATATAAGAATAAGAAATTAAAA
* *
2924408 TAAAATAAAATATAAGAAATTAAAATGTATATAATATAGGTAA-AAGAAATTAAAA
1 TAAAATAAAATATAAGAAAATAAAA--TATATAATATAAG-AATAAGAAATTAAAA
*
2924463 TGAAATATATAATATAA
1 T-AAA-ATAAAATATAA
2924480 AATATTATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
53 21 0.35
55 24 0.40
56 5 0.08
57 10 0.17
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (53 bp):
TAAAATAAAATATAAGAAAATAAAATATATAATATAAGAATAAGAAATTAAAA
Found at i:2924484 original size:40 final size:40
Alignment explanation
Indices: 2924435--2924514 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
2924425 AATTAAAATG
* * *
2924435 TATATAATA-TAGGTAAAAGAAATTAAAATGAAATATATAA
1 TATAAAATATTAGATAAAAGAAATGAAAAT-AAATATATAA
* *
2924475 TATAAAATATTATATTAAAGAAATGAAAATAAATATATAA
1 TATAAAATATTAGATAAAAGAAATGAAAATAAATATATAA
2924515 AATCATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (40 bp):
TATAAAATATTAGATAAAAGAAATGAAAATAAATATATAA
Found at i:2924513 original size:35 final size:32
Alignment explanation
Indices: 2924460--2924545 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 32
2924450 AAAGAAATTA
* *
2924460 AAATGAAATATATAATATA-AAATATTATATTAAAG
1 AAATGAAA-ATA-AATATATAAA-ATCATAAT-AAG
2924495 AAATGAAAATAAATATATAAAATCATAATAAG
1 AAATGAAAATAAATATATAAAATCATAATAAG
*
2924527 AAATAAAAATAAAATATAT
1 AAATGAAAAT-AAATATAT
2924546 GACATTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.26
33 20 0.43
34 6 0.13
35 8 0.17
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (32 bp):
AAATGAAAATAAATATATAAAATCATAATAAG
Found at i:2924787 original size:15 final size:16
Alignment explanation
Indices: 2924758--2924803 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
2924748 ATATTTTTTT
* *
2924758 TCTATAATCATATTAC
1 TCTACAATCACATTAC
2924774 T-TACAATCACATTA-
1 TCTACAATCACATTAC
*
2924788 TCTATAATCACATTAC
1 TCTACAATCACATTAC
2924804 ATTGTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (16 bp):
TCTACAATCACATTAC
Found at i:2925268 original size:15 final size:15
Alignment explanation
Indices: 2925250--2925320 Score: 58
Period size: 15 Copynumber: 4.6 Consensus size: 15
2925240 TAATGTTACA
2925250 AAAATTATAATTTAT
1 AAAATTATAATTTAT
2925265 AAAATTATTAA-TTAT
1 AAAATTA-TAATTTAT
*
2925280 AATA-TAT-ATTTAT
1 AAAATTATAATTTAT
*
2925293 ATATATATATATATTTAT
1 A-AAAT-TATA-ATTTAT
2925311 AAAATATATA
1 AAAAT-TATA
2925321 CTTAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 1 0.02
13 6 0.13
14 5 0.11
15 14 0.30
16 6 0.13
17 8 0.17
18 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTATAATTTAT
Found at i:2927269 original size:21 final size:23
Alignment explanation
Indices: 2927243--2927300 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 23
2927233 CTGGATCAGG
2927243 TGCTCCCCTTGGGGAGCC-C-AA
1 TGCTCCCCTTGGGGAGCCTCAAA
* *
2927264 TGCT-CCTTTAGGGAGCCTCAAA
1 TGCTCCCCTTGGGGAGCCTCAAA
2927286 TGGGCTCCCCTTGGG
1 T--GCTCCCCTTGGG
2927301 AAGCACCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 11 0.39
21 5 0.18
22 3 0.11
24 3 0.11
25 6 0.21
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (23 bp):
TGCTCCCCTTGGGGAGCCTCAAA
Found at i:2928043 original size:26 final size:26
Alignment explanation
Indices: 2928014--2928069 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
2928004 CCCCATAATC
2928014 TTAATAAATTAATCGAAACTTTATCA
1 TTAATAAATTAATCGAAACTTTATCA
* * * *
2928040 TTAATAAATTATTTGAAATTTTATTA
1 TTAATAAATTAATCGAAACTTTATCA
2928066 TTAA
1 TTAA
2928070 ATCAAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (26 bp):
TTAATAAATTAATCGAAACTTTATCA
Found at i:2932243 original size:2 final size:2
Alignment explanation
Indices: 2932236--2932261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2932226 GTAGAAAGAA
2932236 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2932262 GAGTAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2933011 original size:2 final size:2
Alignment explanation
Indices: 2933006--2933044 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2932996 CAGCCTCTTA
*
2933006 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2933045 AAAGTAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2934133 original size:66 final size:67
Alignment explanation
Indices: 2934022--2934153 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 67
2934012 TTTCTTTAAA
* *
2934022 AAATACTGATACCTCATGAGTATTATACTATTTGGTCAAAGTACATCTCA-GTT-CTTGTATTAT
1 AAATACTGATACCTCATGAGTATTATACTATTTGGTCAAAATACATCACAGGTTGC-TGTATTAT
2934085 ACG
65 ACG
*
2934088 AAATACTGATACCTCATGAGTATTATATTATTTGGTCAAAATACATCACAGGTTGCTGTATTATA
1 AAATACTGATACCTCATGAGTATTATACTATTTGGTCAAAATACATCACAGGTTGCTGTATTATA
2934153 C
66 C
2934154 ATTTTTTTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
66 47 0.77
67 13 0.21
68 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (67 bp):
AAATACTGATACCTCATGAGTATTATACTATTTGGTCAAAATACATCACAGGTTGCTGTATTATA
CG
Found at i:2938605 original size:2 final size:2
Alignment explanation
Indices: 2938598--2938625 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2938588 TGCAGAGAAC
2938598 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2938626 CTTAATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2945307 original size:6 final size:5
Alignment explanation
Indices: 2945274--2945304 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
2945264 GAGGAAAGAA
2945274 ATTTT AATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
2945305 TATAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:2960087 original size:18 final size:18
Alignment explanation
Indices: 2960064--2960121 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 18
2960054 GTATTTAAAA
2960064 ATATTTAATTAAATTTTT
1 ATATTTAATTAAATTTTT
*
2960082 ATATTT--TTATATTTTT
1 ATATTTAATTAAATTTTT
* *
2960098 A-A-TTAAATAAATTCTT
1 ATATTTAATTAAATTTTT
*
2960114 ATAATTAA
1 ATATTTAA
2960122 AAATTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.06
15 1 0.03
16 18 0.56
17 1 0.03
18 10 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTAATTAAATTTTT
Found at i:2976305 original size:130 final size:130
Alignment explanation
Indices: 2976072--2976462 Score: 755
Period size: 130 Copynumber: 3.0 Consensus size: 130
2976062 TGCATAAAGG
*
2976072 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCCTCGGCTTAATAACGG
1 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
*
2976137 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAAGTTCTGCCTGCATGCGTAT
66 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCGTAT
2976202 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
1 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
2976267 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCGTAT
66 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCGTAT
2976332 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
1 AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
*
2976397 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCATAT
66 TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCGTAT
2976462 A
1 A
2976463 TTCATGCTCA
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 258 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (130 bp):
AAGAGTGACAAAATGCTTATTCTTCCCCCATCTGTCTGGAGATCGATTCATCGGCTTAATAACGG
TGTATAAGTTGCTTGTATGCATCCTTGTTCTTTGAATAGTAGTCAATTTCTGCCTGCATGCGTAT
Found at i:2986410 original size:15 final size:15
Alignment explanation
Indices: 2986390--2986432 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2986380 GTTCGTTTGG
2986390 CAAATTCTGCATTGA
1 CAAATTCTGCATTGA
* *
2986405 CAAATTATACATTGA
1 CAAATTCTGCATTGA
2986420 CAAATTCTGCATT
1 CAAATTCTGCATT
2986433 TACACCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (15 bp):
CAAATTCTGCATTGA
Found at i:2997577 original size:23 final size:25
Alignment explanation
Indices: 2997551--2997596 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
2997541 ATAAGAAATA
2997551 TAATTACTATA-T-TATATATACAC
1 TAATTACTATAGTGTATATATACAC
* *
2997574 TAATTCCTTTAGTGTATATATAC
1 TAATTACTATAGTGTATATATAC
2997597 TTTAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATTACTATAGTGTATATATACAC
Found at i:2998262 original size:361 final size:345
Alignment explanation
Indices: 2997391--2998387 Score: 1126
Period size: 361 Copynumber: 2.9 Consensus size: 345
2997381 AGTCTTTGAT
* * * * *
2997391 ATTAGAATAGTTTTGAAATCTAACTTA-TTTTTTTAATTTCATGTAATTAA-AACAAACCCATAT
1 ATTAGAATAGTTTGGACACCT-ACTTATTTTTTTTAATTTCATGTAATTAAGGACAAACACATAT
* * * * *
2997454 AATAAATTAAATTAATTCATTAAACTATGATTATTTATTAACTTGGAATGCTTGTTAATA-TATA
65 AATTAATTAAATTAATTCATAAAACTATGATTATTAATTAACTTGCAATTCTT-TTAATATTATA
* * *
2997518 CATTATATATATTGGGTTCATTTAT-AAGAAATATAATTACTA-TAT-TATATATACACTA--AT
129 CATTATATATATTGGGTTCATTTATAAAG-AATATAATTACTATTATATATATATAAAATACTTT
* * * *** *
2997578 T-CCTTTAGTGTATATAT-ACTTTAAATATAAATATATTTACTTTCTATTGCATATTAACATTAC
193 TACATTT-GTATATATATAACTTTAAATGTAAATATATTTACTTTCTATTTTGTGTTAACATTAC
* * *
2997641 AAAAATTATAACTTGTAAAATTATTAATTATAATAATACATCTTTGTTTATTTAAACTTATAATA
257 AAAAATTATAACTTATAAAATTATTAATTATAAT-ATATATCTTTGTTTATATAAACTTATAATA
* *
2997706 TACAAACCTTAAAAGAAATTGTGAG
321 TACAAACCTAAAAAGAAATTGTGAA
* * * * *
2997731 ATTAGAATAGTTTGTAGACCTACTTATTTTTCTTAATTTCATGTAACTAAGGACAAACACTTATA
1 ATTAGAATAGTTTGGACACCTACTTATTTTTTTTAATTTCATGTAATTAAGGACAAACACATATA
* * *
2997796 ATTAATTAAATTAATTCATAAAACTATGATTATTAATTATCTTGTAATGTCTTTTAATATATTTA
66 ATTAATTAAATTAATTCATAAAACTATGATTATTAATTAACTTGCAAT-TCTTTTAATAT-TATA
* * * * *
2997861 CTTTATATATATTGAGTTCATTTATAAAGGATAAAATTACTATTATACATATAGTAAAATACTTT
129 CATTATATATATTGGGTTCATTTATAAAGAATATAATTACTATTATATATATA-TAAAATACTTT
* * * * *
2997926 TAGCATGTGTGTTTATATATAAACATTTTAAATGTGAACATATTTGCTCTCTATTTTGTGTTAAC
193 TA-CAT-T-TGTATATATAT-AAC--TTTAAATGTAAATATATTTACTTTCTATTTTGTGTTAAC
2997991 ATTACAAAAATTATAACTTATAAAATTATTAATTATAATATATATCTTTGTTTATATAAACTTAT
252 ATTACAAAAATTATAACTTATAAAATTATTAATTATAATATATATCTTTGTTTATATAAACTTAT
* *
2998056 AATTTATAAACTTAATTATCTAAAAAGAAGTTGTGAA
317 AA--TAT--AC--AA--ACCTAAAAAGAAATTGTGAA
* *
2998093 ATTAGAATAGTTTGGACACTTAGC-TATTTTTTTTAATTTCATGTAATTAAGGA-AAACTCATAT
1 ATTAGAATAGTTTGGACACCTA-CTTATTTTTTTTAATTTCATGTAATTAAGGACAAACACATAT
* * *
2998156 AATTAATTAAATTAATTAATGAAATTATGATTATTAATTAACTTGCAATATCTTTTAATATCTAT
65 AATTAATTAAATTAATTCATAAAACTATGATTATTAATTAACTTGCAAT-TCTTTTAATAT-TAT
* * *
2998221 ACCTTATATATATTGGGTTCATTTATAAAGAATGTAATTACTATTATATATATACACGAAATACT
128 ACATTATATATATTGGGTTCATTTATAAAGAATATAATTACTATTATATATATATA--AAATACT
* *
2998286 TTTA-A-TTATATATATAT-ACTTTAAATGTAAATATATTTACTTTTTATTTTGTGTTAACATTA
191 TTTACATTTGTATATATATAACTTTAAATGTAAATATATTTACTTTCTATTTTGTGTTAACATTA
* *
2998348 -TAAAATTATAACTTATAAAATTATTAATTAGAATATATAT
256 CAAAAATTATAACTTATAAAATTATTAATTATAATATATAT
2998388 ATATATATAT
Statistics
Matches: 554, Mismatches: 73, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
339 5 0.01
340 38 0.07
341 60 0.11
342 3 0.01
343 37 0.07
344 6 0.01
345 5 0.01
346 5 0.01
348 2 0.00
350 2 0.00
351 10 0.02
352 39 0.07
353 40 0.07
354 26 0.05
355 70 0.13
356 3 0.01
357 9 0.02
358 3 0.01
360 4 0.01
361 113 0.20
362 73 0.13
363 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (345 bp):
ATTAGAATAGTTTGGACACCTACTTATTTTTTTTAATTTCATGTAATTAAGGACAAACACATATA
ATTAATTAAATTAATTCATAAAACTATGATTATTAATTAACTTGCAATTCTTTTAATATTATACA
TTATATATATTGGGTTCATTTATAAAGAATATAATTACTATTATATATATATAAAATACTTTTAC
ATTTGTATATATATAACTTTAAATGTAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAA
ATTATAACTTATAAAATTATTAATTATAATATATATCTTTGTTTATATAAACTTATAATATACAA
ACCTAAAAAGAAATTGTGAA
Found at i:2998321 original size:21 final size:20
Alignment explanation
Indices: 2998281--2998328 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
2998271 TATACACGAA
* *
2998281 ATACTTTTAATTATATATAT
1 ATACTTTAAATTAAATATAT
2998301 ATACTTTAAATGTAAATATAT
1 ATACTTTAAAT-TAAATATAT
*
2998322 TTACTTT
1 ATACTTT
2998329 TTATTTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (20 bp):
ATACTTTAAATTAAATATAT
Found at i:2998365 original size:15 final size:16
Alignment explanation
Indices: 2998340--2998371 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2998330 TATTTTGTGT
2998340 TAACATTATAAAATTA
1 TAACATTATAAAATTA
2998356 TAAC-TTATAAAATTA
1 TAACATTATAAAATTA
2998371 T
1 T
2998372 TAATTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TAACATTATAAAATTA
Found at i:2998898 original size:18 final size:18
Alignment explanation
Indices: 2998875--2998916 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
2998865 AAGGTTCGGA
*
2998875 TACCTTGAAATTAACGAG
1 TACCTTGAAATTAACAAG
2998893 TACCTTGAAATTAACAAG
1 TACCTTGAAATTAACAAG
2998911 TACCTT
1 TACCTT
2998917 ACCTATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (18 bp):
TACCTTGAAATTAACAAG
Found at i:3000672 original size:45 final size:45
Alignment explanation
Indices: 3000608--3000693 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
3000598 CTTGACAAGG
*
3000608 CTTTTTCTGTGAATCATCTTGCTTCCATGACTAATTAATTATTGC
1 CTTTTTCTGTAAATCATCTTGCTTCCATGACTAATTAATTATTGC
* *
3000653 CTTTTTCTTTAAATCATCTTGCTTCCATGGCTAATTAATTA
1 CTTTTTCTGTAAATCATCTTGCTTCCATGACTAATTAATTA
3000694 GGAAATTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (45 bp):
CTTTTTCTGTAAATCATCTTGCTTCCATGACTAATTAATTATTGC
Found at i:3001353 original size:43 final size:43
Alignment explanation
Indices: 3001283--3001367 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
3001273 GTTTCATGTG
3001283 AGATGTTCCACATTTGAGATACCGGACATCTTCTTTTTGTGTA
1 AGATGTTCCACATTTGAGATACCGGACATCTTCTTTTTGTGTA
* * *
3001326 AGATGTTCCACATTTGAGGTGCTGGACATCTTCTTTTTGTGT
1 AGATGTTCCACATTTGAGATACCGGACATCTTCTTTTTGTGT
3001368 GTAATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (43 bp):
AGATGTTCCACATTTGAGATACCGGACATCTTCTTTTTGTGTA
Found at i:3002332 original size:77 final size:80
Alignment explanation
Indices: 3002164--3002332 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 80
3002154 AATTAAATTT
* * * * *
3002164 TATTTAATCAGTTAAACAATTTAATTAAGTTATTAATAATATTAATTAATTTGAATATTTTTTAA
1 TATTTAATTAATTAAACAATTTAATTAAGTTACTAATAACACTAATTAATTT-AATATTTTTTAA
* * *
3002229 ATTAAATACTATTACT
65 ACTAAATACTACTACA
* * *
3002245 TATTTTATTAATTAAACTATTTAATTAAGTTACTAGT-ACACTAATTAATTT-A-ATTTTTTAAA
1 TATTTAATTAATTAAACAATTTAATTAAGTTACTAATAACACTAATTAATTTAATATTTTTTAAA
*
3002307 CTAACTAAC-ACTACA
66 CTAAAT-ACTACTACA
3002322 TATTTAATTAA
1 TATTTAATTAA
3002333 ATTTTATTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
77 28 0.38
78 3 0.04
80 12 0.16
81 31 0.42
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (80 bp):
TATTTAATTAATTAAACAATTTAATTAAGTTACTAATAACACTAATTAATTTAATATTTTTTAAA
CTAAATACTACTACA
Found at i:3002425 original size:18 final size:20
Alignment explanation
Indices: 3002402--3002439 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3002392 ATTTTTTAAA
3002402 TTAAAT-ATT-TTTACTTAT
1 TTAAATAATTGTTTACTTAT
3002420 TTAAATAATTGTTTACTTAT
1 TTAAATAATTGTTTACTTAT
3002440 ATATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTAAATAATTGTTTACTTAT
Found at i:3004221 original size:15 final size:15
Alignment explanation
Indices: 3004201--3004232 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3004191 AAATGTAGAA
3004201 AACTGTTTATCCATT
1 AACTGTTTATCCATT
*
3004216 AACTGTTTCTCCATT
1 AACTGTTTATCCATT
3004231 AA
1 AA
3004233 TACAAAGATC
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:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (15 bp):
AACTGTTTATCCATT
Found at i:3007560 original size:17 final size:17
Alignment explanation
Indices: 3007535--3007573 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3007525 GATGAAAGGA
3007535 ATATATATAAATAATAT
1 ATATATATAAATAATAT
* *
3007552 ATATTTATAATTAATAT
1 ATATATATAAATAATAT
*
3007569 TTATA
1 ATATA
3007574 AAACTATTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATAAATAATAT
Found at i:3008996 original size:345 final size:346
Alignment explanation
Indices: 3008364--3009055 Score: 1352
Period size: 345 Copynumber: 2.0 Consensus size: 346
3008354 TATTTATGCT
*
3008364 CCCACTGGTGATTAGTTGATGACAATTCCCATTAAGCAAGAATGCTTTTTTGTAAATTGGAATGA
1 CCCACTGGTGATTAGTTGATGACAATTCCCATTAAGCAAAAATGCTTTTTTGTAAATTGGAATGA
3008429 GACTTGCTTGCATACTTGTGAAGTTAAAGGCCTAGTTGACAACCATGTGGCACAAAAGACTTGGC
66 GACTTGCTTGCATACTTGTGAAGTTAAAGGCCTAGTTGACAACCATGTGGCACAAAAGACTTGGC
3008494 CACTATAATTATGGAAACTTGAGCAGATAAGTAATTCTGGTGGCGTAAATAATTTTCCAAAAAGG
131 CACTATAATTATGGAAACTTGAGCAGATAAGTAATTCTGGTGGCGTAAATAATTTTCCAAAAAGG
3008559 TTCTGGGCTGAAGGTACCTTAACTACAATTTATTTGTTTAATTTTATTCCTGCTCGTGTAAGGAA
196 TTCTGGGCTGAAGGTACCTTAACTACAATTTATTTGTTTAATTTTATTCCTGCTCGTGTAAGGAA
3008624 TATTTCACCTTCTGAGGTGTGGTGTGGTATGAGACCATCTGTTGAACATCTGCAAGTCTTTGAAA
261 TATTTCACCTTCTGAGGTGTGGTGTGGTATGAGACCATCTGTTGAACATCTGCAAGTCTTTGAAA
3008689 GTATATGTTATGGACTTATAC
326 GTATATGTTATGGACTTATAC
3008710 CCCACTGGTGATTAGTTGATGACAATTCCCATTAAGCAAAAATGCTTTTTTGTAAATTGGAATGA
1 CCCACTGGTGATTAGTTGATGACAATTCCCATTAAGCAAAAATGCTTTTTTGTAAATTGGAATGA
3008775 GACTTGCTTGCATACTTGTGAAG-TAAA-GCCTAGTTTGACAACCATGTGGCACAAAAGACTTGG
66 GACTTGCTTGCATACTTGTGAAGTTAAAGGCCTAG-TTGACAACCATGTGGCACAAAAGACTTGG
3008838 CCACTATAATTATGGAAACTTGAGCAGATAAGTAATTCTGGTGGCGTAAATAATTTTCCAAAAAG
130 CCACTATAATTATGGAAACTTGAGCAGATAAGTAATTCTGGTGGCGTAAATAATTTTCCAAAAAG
3008903 GTTCTGGGCTGAAGGTACCTTAACTACAATTTATTTGTTTAATTTTATTCCTGCTCGTGTAAGGA
195 GTTCTGGGCTGAAGGTACCTTAACTACAATTTATTTGTTTAATTTTATTCCTGCTCGTGTAAGGA
3008968 ATATTTCACCTTCTGAGGTGTGGTGTGGTATGAGACCATCTGTTGAACATCTGCAAGTCTTTGAA
260 ATATTTCACCTTCTGAGGTGTGGTGTGGTATGAGACCATCTGTTGAACATCTGCAAGTCTTTGAA
3009033 AGTATATGTTATGGACTTATAC
325 AGTATATGTTATGGACTTATAC
3009055 C
1 C
3009056 AGAAGAACAT
Statistics
Matches: 344, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
344 6 0.02
345 251 0.73
346 87 0.25
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (346 bp):
CCCACTGGTGATTAGTTGATGACAATTCCCATTAAGCAAAAATGCTTTTTTGTAAATTGGAATGA
GACTTGCTTGCATACTTGTGAAGTTAAAGGCCTAGTTGACAACCATGTGGCACAAAAGACTTGGC
CACTATAATTATGGAAACTTGAGCAGATAAGTAATTCTGGTGGCGTAAATAATTTTCCAAAAAGG
TTCTGGGCTGAAGGTACCTTAACTACAATTTATTTGTTTAATTTTATTCCTGCTCGTGTAAGGAA
TATTTCACCTTCTGAGGTGTGGTGTGGTATGAGACCATCTGTTGAACATCTGCAAGTCTTTGAAA
GTATATGTTATGGACTTATAC
Done.