Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold167
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: 4199719
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 197959 characters in sequence are not A, C, G, or T
File 3 of 22
Found at i:315247 original size:100 final size:99
Alignment explanation
Indices: 315074--315387 Score: 346
Period size: 100 Copynumber: 3.1 Consensus size: 99
315064 AAGTGTTGTT
* * * * * * * *
315074 ATTATTGATTATTCTTTATCAATTTTTGATAATTGAGAGCGGT-GATCGTAATTGTTGACTATTA
1 ATTATTGACTATTCTTAACCAATCTTTGA-AATAGAGAGAGGTGGCT-GTAATTGTTGACTATTC
* * * *
315138 TTCACCAACCTTTGATAATAGAGAGAGGTGATCATA
64 TTTACCAACCTTTGACAATAGAGAGAAGTGACCATA
*
315174 ATTATTGACTATTCTTCACCAATCTTTGACAATAGAGAGAGGTGGCTGTAATTGTTGACTATTCT
1 ATTATTGACTATTCTTAACCAATCTTTGA-AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCT
315239 TTACCAACCTTTGACAATAGAGAGAAGTGACCATA
65 TTACCAACCTTTGACAATAGAGAGAAGTGACCATA
* ** * *
315274 ATTGTTGACTCTAAGCAACTTAAGC-ATGGCTAT-AAATAGAGAGAGGTGGCTGTAATTGTTGAC
1 ATTATTGA--CT-A--TTCTTAACCAAT--CTTTGAAATAGAGAGAGGTGGCTGTAATTGTTGAC
315337 TATTCTTTACCAACCTTTGACAATAGAGAGAAGTGACCATA
59 TATTCTTTACCAACCTTTGACAATAGAGAGAAGTGACCATA
*
315378 ATTGTTGACT
1 ATTATTGACT
315388 CTAAGCAACT
Statistics
Matches: 187, Mismatches: 19, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
100 91 0.49
101 2 0.01
102 4 0.02
103 1 0.01
104 80 0.43
105 6 0.03
106 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (99 bp):
ATTATTGACTATTCTTAACCAATCTTTGAAATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTT
TACCAACCTTTGACAATAGAGAGAAGTGACCATA
Found at i:315342 original size:104 final size:104
Alignment explanation
Indices: 315204--315416 Score: 426
Period size: 104 Copynumber: 2.0 Consensus size: 104
315194 AATCTTTGAC
315204 AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTTTACCAACCTTTGACAATAGAGAGAAGTGA
1 AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTTTACCAACCTTTGACAATAGAGAGAAGTGA
315269 CCATAATTGTTGACTCTAAGCAACTTAAGCATGGCTATA
66 CCATAATTGTTGACTCTAAGCAACTTAAGCATGGCTATA
315308 AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTTTACCAACCTTTGACAATAGAGAGAAGTGA
1 AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTTTACCAACCTTTGACAATAGAGAGAAGTGA
315373 CCATAATTGTTGACTCTAAGCAACTTAAGCATGGCTATA
66 CCATAATTGTTGACTCTAAGCAACTTAAGCATGGCTATA
315412 AATAG
1 AATAG
315417 CCATTCAAGT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (104 bp):
AATAGAGAGAGGTGGCTGTAATTGTTGACTATTCTTTACCAACCTTTGACAATAGAGAGAAGTGA
CCATAATTGTTGACTCTAAGCAACTTAAGCATGGCTATA
Found at i:319863 original size:50 final size:50
Alignment explanation
Indices: 319739--319895 Score: 233
Period size: 50 Copynumber: 3.1 Consensus size: 50
319729 GTTGCTATTA
* *
319739 TTGACTGTTCTTCACCAACTTTTGACAATCGAGAGAGGTGGTCCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGT-CGTAATTG
* *
319790 TTGACTATTCTTCACCAATCTTTGACAATCGAGAGAGGTGGTCGTAATTT
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
* * **
319840 TTGACTATTCTTCATCAACCTTTGACAATAGAGAGAGGTGACCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
319890 TTGACT
1 TTGACT
319896 CTAAGTAACT
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 57 0.59
51 39 0.41
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (50 bp):
TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
Found at i:321493 original size:14 final size:15
Alignment explanation
Indices: 321470--321542 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
321460 AATCAAATTA
*
321470 TTATTATAA-TTATT
1 TTATTTTAATTTATT
321484 TTATTTTAATTTATT
1 TTATTTTAATTTATT
* ** *
321499 TTATTTTTATAAAATAA
1 TTATTTTAAT-TTAT-T
321516 TTATTTTATAATTTATT
1 TTA-TTT-TAATTTATT
321533 TTATTTTAAT
1 TTATTTTAAT
321543 AAATTAGACA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
14 8 0.18
15 18 0.40
16 5 0.11
17 6 0.13
18 5 0.11
19 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTAATTTATT
Found at i:321503 original size:32 final size:33
Alignment explanation
Indices: 321467--321546 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 33
321457 CTAAATCAAA
* *
321467 TTATTATTAT-AATTATT-TTATTTTAATTTATT
1 TTATTATTATAAATAATTATT-TTATAATTTATT
*
321499 TTATTTTTATAAAATAATTATTTTATAATTTATT
1 TTATTATTAT-AAATAATTATTTTATAATTTATT
321533 TTATT-TTAATAAAT
1 TTATTATT-ATAAAT
321547 TAGACATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 9 0.22
33 6 0.15
34 24 0.59
35 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (33 bp):
TTATTATTATAAATAATTATTTTATAATTTATT
Found at i:321533 original size:34 final size:35
Alignment explanation
Indices: 321475--321545 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
321465 AATTATTATT
*
321475 ATAATTATTTTATTTTAATTTATTTTATTTTTATAAA
1 ATAATTATTTTA--TTAATTTATTTTATTTTAATAAA
321512 ATAATTATTTTA-TAATTTATTTTATTTTAATAAA
1 ATAATTATTTTATTAATTTATTTTATTTTAATAAA
321546 TTAGACATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 21 0.64
37 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (35 bp):
ATAATTATTTTATTAATTTATTTTATTTTAATAAA
Found at i:321562 original size:34 final size:34
Alignment explanation
Indices: 321490--321562 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
321480 TATTTTATTT
* * *
321490 TAATTTATTTTATTTTTATAAAATAATTATTTTA
1 TAATTTATTTTATTTTAATAAAATAATCATTTCA
* *
321524 TAATTTATTTTATTTTAATAAATTAGA-CATTTCG
1 TAATTTATTTTATTTTAATAAAATA-ATCATTTCA
321558 TAATT
1 TAATT
321563 ACAAACAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (34 bp):
TAATTTATTTTATTTTAATAAAATAATCATTTCA
Found at i:323760 original size:17 final size:17
Alignment explanation
Indices: 323740--323789 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
323730 AAATTATGTT
323740 TATATAATAATTTATAA
1 TATATAATAATTTATAA
323757 TATATAATATATTTAATAA
1 TATATAATA-ATTT-ATAA
323776 TATA-AATAATTTAT
1 TATATAATAATTTAT
323790 GTTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 8 0.26
19 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATAATAATTTATAA
Found at i:324852 original size:2 final size:2
Alignment explanation
Indices: 324845--324879 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
324835 TCAACAGTGC
*
324845 AT AT AT AT AT AT AT AT AT AT AT AT AA AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
324880 TTCTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 29 0.97
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:325012 original size:19 final size:20
Alignment explanation
Indices: 324978--325020 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
324968 TAGATAGTTT
324978 ATTTAATTAATTTTATATTAA
1 ATTTAATT-ATTTTATATTAA
*
324999 ATTTAATT-TTTTATTTTAA
1 ATTTAATTATTTTATATTAA
325018 ATT
1 ATT
325021 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
21 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTAATTATTTTATATTAA
Found at i:325431 original size:7 final size:6
Alignment explanation
Indices: 325404--325429 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
325394 TTTAAAATAA
325404 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
325430 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:325564 original size:10 final size:10
Alignment explanation
Indices: 325533--325581 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
325523 TTTTTATAAT
325533 ATTTTATTTC
1 ATTTTATTTC
325543 ATTGAATTATTTC
1 ATT---TTATTTC
*
325556 ATTTTATTTTA
1 ATTTTA-TTTC
325567 ATTTTATTTC
1 ATTTTATTTC
325577 ATTTT
1 ATTTT
325582 CACCTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 14 0.42
11 9 0.27
13 10 0.30
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:329873 original size:29 final size:29
Alignment explanation
Indices: 329841--329907 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
329831 TAAGTGAATC
* *
329841 TTAATAAATAAAATTATTTATATTTA-TTT
1 TTAATAAATAAAAAT-TTTATATTTACTTA
**
329870 TTAATATTTTAAAAATTTTATATTTACTTA
1 TTAATA-AATAAAAATTTTATATTTACTTA
329900 TTAATAAA
1 TTAATAAA
329908 ATTACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAATAAATAAAAATTTTATATTTACTTA
Found at i:336428 original size:16 final size:16
Alignment explanation
Indices: 336395--336429 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
336385 TACTCCGATT
* *
336395 CTTTTTTTTTTAAGTA
1 CTTTTTTTTTAAAATA
336411 CTTTTTTTTTAAAATA
1 CTTTTTTTTTAAAATA
336427 CTT
1 CTT
336430 CTGTTTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
CTTTTTTTTTAAAATA
Found at i:336578 original size:18 final size:19
Alignment explanation
Indices: 336527--336585 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
336517 ATCTGATACC
*
336527 CATTCTCAAGTTCGAGTAA
1 CATTCTCGAGTTCGAGTAA
*
336546 CATTCTCGAGTTCGAATAA
1 CATTCTCGAGTTCGAGTAA
*
336565 CATTCTC-TGTTCGAGTAA
1 CATTCTCGAGTTCGAGTAA
336583 CAT
1 CAT
336586 AGTGCATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 12 0.33
19 24 0.67
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (19 bp):
CATTCTCGAGTTCGAGTAA
Found at i:337376 original size:24 final size:24
Alignment explanation
Indices: 337340--337387 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
337330 GGCGATATAT
*
337340 TAATCACTCTCTGTTAATACAAAC
1 TAATCACTATCTGTTAATACAAAC
337364 TAATCACTATCTGTTAATACAAAC
1 TAATCACTATCTGTTAATACAAAC
337388 ACCAAGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATCACTATCTGTTAATACAAAC
Found at i:340363 original size:15 final size:14
Alignment explanation
Indices: 340335--340361 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
340325 TATTTTGATG
340335 AAAAATAATTTTTA
1 AAAAATAATTTTTA
340349 AAAAATAATTTTT
1 AAAAATAATTTTT
340362 TATTTTTAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:340560 original size:2 final size:2
Alignment explanation
Indices: 340553--340587 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
340543 GATTAATTTC
340553 AT AT AT AT 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 AT AT AT AT A
340588 AAATAGGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:341138 original size:3 final size:3
Alignment explanation
Indices: 341130--341159 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
341120 AGCTTTCTTG
341130 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
341160 ATGGCTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:342673 original size:17 final size:17
Alignment explanation
Indices: 342653--342697 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
342643 CTTGTTTAAC
*
342653 TTAAATAAATATTTTAT
1 TTAAATAAATAATTTAT
342670 TTAATATAAA-AATTTAT
1 TTAA-ATAAATAATTTAT
342687 TTAAAATAAAT
1 TT-AAATAAAT
342698 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATAAATAATTTAT
Found at i:342700 original size:27 final size:29
Alignment explanation
Indices: 342675--342756 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
342665 TTTATTTAAT
342675 ATAAAAATTTATTTAAA-ATAAATTAAAA
1 ATAAAAATTTATTTAAATATAAATTAAAA
*
342703 ATAAAATTTTATTTAAATAT-AA-TAAAA
1 ATAAAAATTTATTTAAATATAAATTAAAA
* *
342730 ATATAAATTCTACTTAAATTATAAATT
1 ATAAAAATT-TATTTAAA-TATAAATT
342757 TTTTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
27 12 0.27
28 25 0.56
29 5 0.11
30 2 0.04
31 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAAAAATTTATTTAAATATAAATTAAAA
Found at i:343227 original size:6 final size:6
Alignment explanation
Indices: 343212--343245 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
343202 GTGCTTCATA
*
343212 ATTAAG ATTAAT ATTAAT ATTAAT ATTAAT ATTA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA
343246 TTTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:343274 original size:16 final size:16
Alignment explanation
Indices: 343245--343277 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
343235 TATTAATATT
343245 ATTTATATTTATTTAA
1 ATTTATATTTATTTAA
343261 ATTTA-ATTTAATTTAA
1 ATTTATATTT-ATTTAA
343277 A
1 A
343278 ATATAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATATTTATTTAA
Found at i:343299 original size:25 final size:23
Alignment explanation
Indices: 343258--343303 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
343248 TATATTTATT
343258 TAAATTTAATTTAATTTAAAATA
1 TAAATTTAATTTAATTTAAAATA
*
343281 TAAATTTTAAATTTTATTTAAAA
1 TAAA-TTT-AATTTAATTTAAAA
343304 ATATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 3 0.15
25 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATTTAATTTAATTTAAAATA
Found at i:343523 original size:6 final size:6
Alignment explanation
Indices: 343507--343545 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
343497 ATAAAATTAC
*
343507 ATAATAT ATAAAT ATAAAT ATAAAT ATAAA- ATTAAT ATA
1 ATAA-AT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATA
343546 TATTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 21 0.72
7 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:343546 original size:25 final size:25
Alignment explanation
Indices: 343518--343566 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
343508 TAATATATAA
343518 ATATA-AATATAAATATAAAATTAAT
1 ATATATAATATAAATA-AAAATTAAT
* *
343543 ATATATTATATAATTAAAAATTAA
1 ATATATAATATAAATAAAAATTAA
343567 GGTAAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATATAATATAAATAAAAATTAAT
Found at i:343552 original size:18 final size:18
Alignment explanation
Indices: 343491--343559 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
343481 TATTTATTTT
*
343491 TATATGATAAAATTACATA
1 TATATTATAAAATTA-ATA
*
343510 -ATA-TATAAATATAAATA
1 TATATTATAAA-ATTAATA
*
343527 TA-AATATAAAATTAATA
1 TATATTATAAAATTAATA
*
343544 TATATTATATAATTAA
1 TATATTATAAAATTAA
343560 AAATTAAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 17 0.41
18 24 0.59
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (18 bp):
TATATTATAAAATTAATA
Found at i:343656 original size:13 final size:15
Alignment explanation
Indices: 343640--343671 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
343630 ATATTTTTTA
343640 TTTAAACTT-AT-TT
1 TTTAAACTTGATATT
343653 TTTAAACTTGATATT
1 TTTAAACTTGATATT
343668 TTTA
1 TTTA
343672 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAAACTTGATATT
Found at i:344728 original size:23 final size:24
Alignment explanation
Indices: 344689--344734 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
344679 ATTAGAATAG
344689 AATATAACATAAAAAATA-ATTAC
1 AATATAACATAAAAAATATATTAC
*
344712 AATATAA-ATACACAAATATATTA
1 AATATAACATA-AAAAATATATTA
344735 AAATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (24 bp):
AATATAACATAAAAAATATATTAC
Found at i:345588 original size:43 final size:41
Alignment explanation
Indices: 345541--345673 Score: 95
Period size: 47 Copynumber: 3.0 Consensus size: 41
345531 AAATTAAAAT
345541 TTTTATATAAATTTTAATATTTTAATAGTTTATATTATATAAA
1 TTTTATATAAATTTTAATATTTTAA-A-TTTATATTATATAAA
* * * * * *
345584 TTTTAAAAAAATTATATTATATTATTTTAAATTTAAATTTAAATTAT
1 TTTTATATAAA-T-T-TTA-A-TATTTTAAATTTATA-TTATATAAA
* *
345631 TTTTATATTATATTTTAATTTTTTAAAATTTTATATTATATAA
1 TTTTATA-TAAATTTTAATATTTT-AAA-TTTATATTATATAA
345674 TTATATCGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
43 14 0.21
44 11 0.16
45 9 0.13
46 9 0.13
47 15 0.22
48 10 0.15
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (41 bp):
TTTTATATAAATTTTAATATTTTAAATTTATATTATATAAA
Found at i:345606 original size:30 final size:31
Alignment explanation
Indices: 345570--345643 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
345560 TTTTAATAGT
345570 TTATATTATATAAATTTTAAA-AAAATTA-TA
1 TTATATTATATAAA-TTTAAATAAAATTATTA
* * *
345600 TTATATTATTTTAAATTTAAATTTAAATTATTT
1 TTATATTA-TATAAATTTAAA-TAAAATTATTA
345633 TTATATTATAT
1 TTATATTATAT
345644 TTTAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 14 0.39
31 5 0.14
32 8 0.22
33 9 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTATATTATATAAATTTAAATAAAATTATTA
Found at i:345645 original size:22 final size:22
Alignment explanation
Indices: 345592--345660 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
345582 AATTTTAAAA
*
345592 AAATTATA-TTATATTA-TTTT
1 AAATTATATTTAAATTATTTTT
*
345612 AAATTTAAATTTAAATTATTTTT
1 AAA-TTATATTTAAATTATTTTT
* * *
345635 ATATTATATTTTAATT-TTTTA
1 AAATTATATTTAAATTATTTTT
345656 AAATT
1 AAATT
345661 TTATATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.08
21 12 0.31
22 18 0.46
23 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTATATTTAAATTATTTTT
Found at i:346172 original size:22 final size:22
Alignment explanation
Indices: 346132--346175 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
346122 AATCTCTTAC
346132 CAAATGTAAATAAAAAAAAATT
1 CAAATGTAAATAAAAAAAAATT
346154 CAAAT-TAAATGAAATAAAAAAT
1 CAAATGTAAAT-AAA-AAAAAAT
346176 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
CAAATGTAAATAAAAAAAAATT
Found at i:349276 original size:21 final size:22
Alignment explanation
Indices: 349249--349294 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
349239 ATTAATTAAA
*
349249 AAAAATTATTATATTTATTT-TT
1 AAAATTTATT-TATTTATTTATT
349271 AAAATTTATTTATTTATTTATT
1 AAAATTTATTTATTTATTTATT
349293 AA
1 AA
349295 TAAAGTGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAAATTTATTTATTTATTTATT
Found at i:349778 original size:2 final size:2
Alignment explanation
Indices: 349771--349795 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
349761 GGACAACTTC
349771 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
349796 CACACAAATT
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:351092 original size:21 final size:21
Alignment explanation
Indices: 351067--351108 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
351057 TTAAAGTAAA
*
351067 TAAAAATTTTAT-TTTTAATT
1 TAAAAAATTTATATTTTAATT
351087 TAAAAAATTTATATTTTAATT
1 TAAAAAATTTATATTTTAATT
351108 T
1 T
351109 TAATCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAAAATTTATATTTTAATT
Found at i:351702 original size:17 final size:17
Alignment explanation
Indices: 351682--351714 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
351672 AATATTTTAA
351682 TAAA-TTTAATGTAATTT
1 TAAATTTTAAT-TAATTT
351699 TAAATTTTAATTAATT
1 TAAATTTTAATTAATT
351715 AATTATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAAATTTTAATTAATTT
Found at i:354055 original size:12 final size:12
Alignment explanation
Indices: 354035--354068 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
354025 TATATACATT
*
354035 TATAAATATAAA
1 TATATATATAAA
*
354047 TATATATATACA
1 TATATATATAAA
354059 TATATATATA
1 TATATATATA
354069 TGTGCAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATATATAAA
Found at i:356339 original size:12 final size:11
Alignment explanation
Indices: 356319--356348 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
356309 AATAGCCCAT
356319 AAAAAAAATAA
1 AAAAAAAATAA
356330 AAATAAAAATAA
1 AAA-AAAAATAA
356342 AAAAAAA
1 AAAAAAA
356349 CTTTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:359681 original size:11 final size:11
Alignment explanation
Indices: 359665--359714 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
359655 ATCTTTTATG
359665 AAAAATATTAA
1 AAAAATATTAA
*
359676 ATAAAT-TTAA
1 AAAAATATTAA
*
359686 AATAAA-AATAA
1 AA-AAATATTAA
359697 AAATAATATTAA
1 AAA-AATATTAA
359709 AAAAAT
1 AAAAAT
359715 CGAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 6 0.19
11 18 0.58
12 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATATTAA
Found at i:359700 original size:23 final size:25
Alignment explanation
Indices: 359665--359711 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
359655 ATCTTTTATG
* *
359665 AAAAATATTAAATAA-ATTTAAAAT
1 AAAAATATAAAATAATATTAAAAAT
359689 AAAAATA-AAAATAATATTAAAAA
1 AAAAATATAAAATAATATTAAAAA
359712 AATCGAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAATATAAAATAATATTAAAAAT
Found at i:360988 original size:2 final size:2
Alignment explanation
Indices: 360981--361005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
360971 TGCATGCACG
360981 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
361006 AAGAACGAAG
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:361766 original size:21 final size:19
Alignment explanation
Indices: 361741--361787 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
361731 TATTATTATT
361741 AATTAAAAATAATAAAATAA
1 AATTAAAAATAA-AAAATAA
*
361761 ATATTAAAAATAAAAAATTA
1 A-ATTAAAAATAAAAAATAA
361781 AATTAAA
1 AATTAAA
361788 TGAACAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAAAAATAAAAAATAA
Found at i:362868 original size:30 final size:30
Alignment explanation
Indices: 362832--362897 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
362822 ACAGTTAAAT
*
362832 AATAAATTTTTATTTTTTAATTTATATTTA
1 AATAAATTTTTAATTTTTAATTTATATTTA
362862 AATAAATTTTTAATTTTTAATTTATATTTA
1 AATAAATTTTTAATTTTTAATTTATATTTA
362892 AATAAA
1 AATAAA
362898 ATATAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
AATAAATTTTTAATTTTTAATTTATATTTA
Found at i:362921 original size:17 final size:17
Alignment explanation
Indices: 362901--362945 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
362891 AAATAAAATA
362901 TAAATTAAAATTTTATT
1 TAAATTAAAATTTTATT
*
362918 TAAAATAATAA-TTTATT
1 TAAATTAA-AATTTTATT
*
362935 TAAATAAAAAT
1 TAAATTAAAAT
362946 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAAAATTTTATT
Found at i:362951 original size:28 final size:28
Alignment explanation
Indices: 362919--363007 Score: 98
Period size: 27 Copynumber: 3.3 Consensus size: 28
362909 AATTTTATTT
362919 AAAATAATAATTTATTTAAATAAAAATA
1 AAAATAATAATTTATTTAAATAAAAATA
*
362947 AAAATAA-AAATTATTTAAATAAACTAA-A
1 AAAATAATAATTTATTTAAATAAA--AATA
* *
362975 AATATAAAAATTTA-TT-AATAAAAAT-
1 AAAATAATAATTTATTTAAATAAAAATA
363000 AAAATAAT
1 AAAATAAT
363008 TCAAAGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
25 8 0.15
27 21 0.40
28 16 0.31
29 7 0.13
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATAATAATTTATTTAAATAAAAATA
Found at i:366852 original size:36 final size:37
Alignment explanation
Indices: 366800--366869 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
366790 GTTACCAAAA
*
366800 ATAAAAAAAATTAAAACTACAATATAATAGTGTTTAT
1 ATAAAAAAAATAAAAACTACAATATAATAGTGTTTAT
**
366837 ATAAAAAAAA-AAAAACTATGATATAATAGTGTT
1 ATAAAAAAAATAAAAACTACAATATAATAGTGTT
366870 AGATCACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 20 0.67
37 10 0.33
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (37 bp):
ATAAAAAAAATAAAAACTACAATATAATAGTGTTTAT
Found at i:367267 original size:21 final size:19
Alignment explanation
Indices: 367242--367288 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
367232 TTTTATTATT
367242 AATTAAAAATAATAAAATAA
1 AATTAAAAATAA-AAAATAA
*
367262 ATATTAAAAATAAAAAATTA
1 A-ATTAAAAATAAAAAATAA
367282 AATTAAA
1 AATTAAA
367289 TGAACAGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAAAAATAAAAAATAA
Found at i:368376 original size:30 final size:30
Alignment explanation
Indices: 368340--368405 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
368330 ACAGTTAAAT
368340 AATAAATTTTT-ATTCTTTAACTTATATTTA
1 AATAAATTTTTAATT-TTTAACTTATATTTA
*
368370 AATAAATTTTTAATTTTTAATTTATATTTA
1 AATAAATTTTTAATTTTTAACTTATATTTA
368400 AATAAA
1 AATAAA
368406 ATATAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
AATAAATTTTTAATTTTTAACTTATATTTA
Found at i:368429 original size:17 final size:17
Alignment explanation
Indices: 368409--368453 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
368399 AAATAAAATA
368409 TAAATTAAAATTTTATT
1 TAAATTAAAATTTTATT
*
368426 TAAAATAATAA-TTTATT
1 TAAATTAA-AATTTTATT
*
368443 TAAATAAAAAT
1 TAAATTAAAAT
368454 AAAAATAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAAAATTTTATT
Found at i:368495 original size:28 final size:28
Alignment explanation
Indices: 368427--368495 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
368417 AATTTTATTT
* *
368427 AAAATAATAATTTATTTAAATAAAAATA
1 AAAATAAAAAATTATTTAAATAAAAATA
**
368455 AAAATAAGCAATTATTTAAAT-AAAATA
1 AAAATAAAAAATTATTTAAATAAAAATA
368482 AAAATATAAAAATT
1 AAAATA-AAAAATT
368496 TATTGATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 12 0.34
28 23 0.66
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAATAAAAAATTATTTAAATAAAAATA
Found at i:368507 original size:28 final size:26
Alignment explanation
Indices: 368446--368510 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
368436 ATTTATTTAA
** *
368446 ATAAAAATAAAAATAAGCAATTATTT
1 ATAAAAATAAAAATAAAAAATTATTG
*
368472 AAATAAAATAAAAATATAAAAATTTATTG
1 ATA-AAAATAAAAATA-AAAAA-TTATTG
368501 ATAAAAATAA
1 ATAAAAATAA
368511 TTCAAAGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 12 0.39
28 10 0.32
29 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
ATAAAAATAAAAATAAAAAATTATTG
Found at i:369935 original size:23 final size:21
Alignment explanation
Indices: 369908--369956 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
369898 GCAATTTATA
* *
369908 TTTATGTTATGTTTGTATATTT
1 TTTATGTCATGTTT-TAAATTT
369930 TGTTATGTCATGTTTTAAATTT
1 T-TTATGTCATGTTTTAAATTT
369952 TTTAT
1 TTTAT
369957 ATTTATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTATGTCATGTTTTAAATTT
Found at i:375221 original size:26 final size:26
Alignment explanation
Indices: 375192--375253 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
375182 AGAATATTTG
* *
375192 ATTAAAATATGTATATATAATACATA
1 ATTAAAATATATATATATAATAAATA
* * *
375218 ATTAAAATTTATATTTATATTAAATA
1 ATTAAAATATATATATATAATAAATA
375244 A-TAAAATATA
1 ATTAAAATATA
375254 ATAAAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTAAAATATATATATATAATAAATA
Found at i:375297 original size:38 final size:37
Alignment explanation
Indices: 375221--375336 Score: 134
Period size: 36 Copynumber: 3.2 Consensus size: 37
375211 ATACATAATT
* *
375221 AAAATTTATATTTATATTAAATAAT-AAAATATAATA
1 AAAATTTATATTTATATGAAATAATAAAAATATATTA
*
375257 AAAATTTATTTTTAT-TGAATAATAATTAAAAAT-TATT-
1 AAAATTTATATTTATATG-A-AATAA-TAAAAATATATTA
375294 AAAA-TTATATTTATATGAAATAATAAAATATATATTA
1 AAAATTTATATTTATATGAAATAATAAAA-ATATATTA
375331 AAAATT
1 AAAATT
375337 ATTAAAATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
34 5 0.07
35 8 0.12
36 29 0.43
37 15 0.22
38 5 0.07
39 5 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAATTTATATTTATATGAAATAATAAAAATATATTA
Found at i:375350 original size:11 final size:11
Alignment explanation
Indices: 375317--375350 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
375307 TATGAAATAA
375317 TAAAATATATAT
1 TAAAATAT-TAT
375329 TAAAA-ATTAT
1 TAAAATATTAT
375339 TAAAATATTAT
1 TAAAATATTAT
375350 T
1 T
375351 TATGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 8 0.38
12 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:375379 original size:46 final size:47
Alignment explanation
Indices: 375277--375379 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 47
375267 TTTATTGAAT
375277 AATAATTAAAAATTATTAAAATTATATTTATATGAAATAATAAAATA
1 AATAATTAAAAATTATTAAAATTATATTTATATGAAATAATAAAATA
* * * *
375324 TAT-ATTAAAAATTATTAAAA-TATTATTTATGTTAAA-AATTAAATA
1 AATAATTAAAAATTATTAAAATTA-TATTTATATGAAATAATAAAATA
*
375369 AATAAATAAAA
1 AATAATTAAAA
375380 TAAAGAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
45 12 0.25
46 34 0.71
47 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (47 bp):
AATAATTAAAAATTATTAAAATTATATTTATATGAAATAATAAAATA
Found at i:375571 original size:17 final size:17
Alignment explanation
Indices: 375549--375581 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
375539 ATTTCTACAA
375549 AATAAAAAATATGTATC
1 AATAAAAAATATGTATC
375566 AATAAAAAATATGTAT
1 AATAAAAAATATGTAT
375582 GAATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (17 bp):
AATAAAAAATATGTATC
Found at i:380407 original size:2 final size:2
Alignment explanation
Indices: 380400--380438 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
380390 TTGAACTTAC
*
380400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
380439 ATCAAAGTGC
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:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:384663 original size:2 final size:2
Alignment explanation
Indices: 384656--384696 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
384646 CGATGGGGGA
384656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
384697 CTTTTGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:387024 original size:2 final size:2
Alignment explanation
Indices: 387017--387046 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
387007 TTTGGTTCAA
387017 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
387047 TTACCGTATA
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:390154 original size:2 final size:2
Alignment explanation
Indices: 390147--390192 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
390137 AAAACTTCAA
* * *
390147 AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT AT A- AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
390188 AT AT A
1 AT AT A
390193 CACTATACTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:391583 original size:2 final size:2
Alignment explanation
Indices: 391572--391616 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
391562 ACTTCAAAAA
*
391572 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
391614 AT A
1 AT A
391617 CACACATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:394119 original size:21 final size:20
Alignment explanation
Indices: 394070--394120 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
394060 TGATTAAGAT
*
394070 AATAT-TTAAAAAATATATA
1 AATATATTAAAAAATATAAA
*
394089 ATTA-AGTTAAAAAATTATAAA
1 AATATA-TTAAAAAA-TATAAA
394110 AATATATTAAA
1 AATATATTAAA
394121 TGCGAGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 3 0.12
20 8 0.32
21 13 0.52
22 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATATATTAAAAAATATAAA
Found at i:399878 original size:2 final size:2
Alignment explanation
Indices: 399871--399907 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
399861 ATATTATCAC
*
399871 AT AT AT AT AT AT AT AC 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 AT AT AT AT AT A
399908 ATGTATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:400431 original size:20 final size:22
Alignment explanation
Indices: 400406--400450 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
400396 AATTTTAATA
400406 ATTTTGTTATTTT-A-AAAAAT
1 ATTTTGTTATTTTAATAAAAAT
400426 ATTTTGTTATTTTAATAAAAAT
1 ATTTTGTTATTTTAATAAAAAT
400448 ATT
1 ATT
400451 CAAAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTTTGTTATTTTAATAAAAAT
Found at i:400484 original size:28 final size:30
Alignment explanation
Indices: 400421--400484 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
400411 GTTATTTTAA
* *
400421 AAAATATTTTGTTATTTTAATAAAAATATTC
1 AAAATATTTTGTTATTTT-ACAAAAATAATC
400452 AAAATATTTTGTTA-TTT-CAAAAATAATC
1 AAAATATTTTGTTATTTTACAAAAATAATC
*
400480 TAAAT
1 AAAAT
400485 TTATTAGGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 13 0.43
30 3 0.10
31 14 0.47
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (30 bp):
AAAATATTTTGTTATTTTACAAAAATAATC
Found at i:401918 original size:14 final size:14
Alignment explanation
Indices: 401899--401932 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
401889 GACAATTTAA
*
401899 ATATATGTTTATGT
1 ATATATGTGTATGT
*
401913 ATATATGTGTGTGT
1 ATATATGTGTATGT
401927 ATATAT
1 ATATAT
401933 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (14 bp):
ATATATGTGTATGT
Found at i:402478 original size:3 final size:3
Alignment explanation
Indices: 402470--402494 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
402460 TGATTCTATG
402470 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
402495 AATGAAACTA
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:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:404919 original size:2 final size:2
Alignment explanation
Indices: 404912--404957 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
404902 ACAATTTCTT
404912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
404954 TA TA
1 TA TA
404958 GAAAAAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:405813 original size:10 final size:10
Alignment explanation
Indices: 405772--405810 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
405762 ATTAAATTAG
405772 TTTTTATATA
1 TTTTTATATA
405782 TTTTTATATA
1 TTTTTATATA
*
405792 TTTTATGATTTA
1 TTTT-T-ATATA
405804 TTTTTAT
1 TTTTTAT
405811 TTAATCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTATATA
Found at i:406130 original size:2 final size:2
Alignment explanation
Indices: 406125--406157 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
406115 TGTGTGTATG
*
406125 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
406158 TTAATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:406891 original size:15 final size:16
Alignment explanation
Indices: 406857--406907 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
406847 TTAACTAGAC
*
406857 TAAACTCATATTTAAT
1 TAAACACATATTTAAT
*
406873 TAAACACATGTTT-AT
1 TAAACACATATTTAAT
* *
406888 TAAAGAGATAATTTAAT
1 TAAACACAT-ATTTAAT
406905 TAA
1 TAA
406908 TTTTCGTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.32
16 14 0.50
17 5 0.18
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAACACATATTTAAT
Found at i:406950 original size:2 final size:2
Alignment explanation
Indices: 406943--406968 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
406933 AGATATTTGC
406943 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
406969 CAATTAATTA
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:408169 original size:2 final size:2
Alignment explanation
Indices: 408162--408200 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
408152 TGACTGTAAG
408162 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
408201 TCTCCATGAG
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:408301 original size:30 final size:29
Alignment explanation
Indices: 408267--408371 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 29
408257 ATGTAAAAGG
408267 TATTTATTTTTTAAATTTTTATGAAAAATA
1 TATTTATTTTTTAAATTTTTAT-AAAAATA
* *
408297 TATTTATTTTTTTAATATTTA-AAAAATA
1 TATTTATTTTTTAAATTTTTATAAAAATA
* *
408325 TTCATTCATTTTTTAAAGTTTTATCAAAAATA
1 -T-ATTTATTTTTTAAATTTTTAT-AAAAATA
**
408357 TATTTACCTTTTAAA
1 TATTTATTTTTTAAA
408372 CTATTATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
28 7 0.11
29 1 0.02
30 46 0.74
31 1 0.02
32 7 0.11
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
TATTTATTTTTTAAATTTTTATAAAAATA
Found at i:412804 original size:98 final size:96
Alignment explanation
Indices: 412674--412849 Score: 230
Period size: 96 Copynumber: 1.8 Consensus size: 96
412664 TAACACTTTT
* **
412674 TTAATTAATAAAAAAAGAGAATTTCAGCAAAAAAATAAAAAAGAAAGGAA-AGGGGTAGGAAATT
1 TTAATTAAAAAAAAAAGAGAATTTCAG--AAAAAATAAAAAAGAAA-GAATAAAGGTAGGAAATT
*
412738 GGATTAAGAAGCAAGGAATAATATATTTTCTAAA
63 AGATTAAGAAGCAAGGAATAATATATTTTCTAAA
** * *
412772 TTAA-TAAAAAAATAAAGAGAATTTTGGAAAAAATAAAAAATAAAGAATAAAGGTAGGAAGTTAG
1 TTAATTAAAAAAA-AAAGAGAATTTCAGAAAAAATAAAAAAGAAAGAATAAAGGTAGGAAATTAG
412836 ATTAAGAAGCAAGG
65 ATTAAGAAGCAAGG
412850 TGTTAATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
95 3 0.04
96 42 0.62
97 7 0.10
98 16 0.24
ACGTcount: A:0.57, C:0.03, G:0.19, T:0.22
Consensus pattern (96 bp):
TTAATTAAAAAAAAAAGAGAATTTCAGAAAAAATAAAAAAGAAAGAATAAAGGTAGGAAATTAGA
TTAAGAAGCAAGGAATAATATATTTTCTAAA
Found at i:413193 original size:89 final size:88
Alignment explanation
Indices: 413042--413222 Score: 321
Period size: 89 Copynumber: 2.1 Consensus size: 88
413032 TTCTTCGTAC
*
413042 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATTTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATT-A
413107 ACAAAGTTTTAAATT-ATTTATTAT
65 A-AAAGTTTTAAATTGATTTATTAT
413131 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
413196 AAAGTTTTAAATTGATTTATTAT
66 AAAGTTTTAAATTGATTTATTAT
413219 -TAAA
1 ATAAA
413223 TTATATATTT
Statistics
Matches: 90, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
87 17 0.19
88 11 0.12
89 62 0.69
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (88 bp):
ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
AAAGTTTTAAATTGATTTATTAT
Found at i:413460 original size:173 final size:172
Alignment explanation
Indices: 413144--413465 Score: 401
Period size: 174 Copynumber: 1.8 Consensus size: 172
413134 AAATTTTGAG
* * * *
413144 TTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAAAAAGTTTTAAATT
1 TTTAATTAATACCTAATCAATGGATCTAATAATTCAATATTATTTGTACTAAAAAGATTTAAATG
* * * * ** * * *
413209 GATTTATTATTAAATTATATATTTGATAACTATGATTTTAATTTACATGATATATATTAAAGATT
66 GATTTATTATCAAATTATATATTTAAGAACTAGGATTTTAATTTACAAAATATAAATTAAAAATC
413274 ATATTAATTATTATTTTCATTTTTTAATGGATAAAATTTCAAA
131 ATATT-ATTATTATTTTCATTTTTTAATGGATAAAATTTCAAA
* * * * * *
413317 TTTAATTAATACCTAATCGATGGATTTAATAATTCAGTATCTATTTGTGCTAAACAGATTTAAGT
1 TTTAATTAATACCTAATCAATGGATCTAATAATTCAATAT-TATTTGTACTAAAAAGATTTAAAT
* * *
413382 GGATTTATTATCAAATTATATATTTAAGAATTACGGCTTTTAGTTTTACAAAATATAAATTAAAA
65 GGATTTATTATCAAATTATATATTTAAGAACTA-GGATTTTA-ATTTACAAAATATAAATTAAAA
413447 ATCATATTTATTATTATTT
128 ATCATA-TTATTATTATTT
413466 AATTAATATT
Statistics
Matches: 123, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
173 36 0.29
174 47 0.38
175 6 0.05
176 32 0.26
177 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (172 bp):
TTTAATTAATACCTAATCAATGGATCTAATAATTCAATATTATTTGTACTAAAAAGATTTAAATG
GATTTATTATCAAATTATATATTTAAGAACTAGGATTTTAATTTACAAAATATAAATTAAAAATC
ATATTATTATTATTTTCATTTTTTAATGGATAAAATTTCAAA
Found at i:415661 original size:8 final size:8
Alignment explanation
Indices: 415648--415672 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
415638 AGCAATATGG
415648 TTGAAAAC
1 TTGAAAAC
415656 TTGAAAAC
1 TTGAAAAC
415664 TTGAAAAC
1 TTGAAAAC
415672 T
1 T
415673 GCAGTGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (8 bp):
TTGAAAAC
Found at i:416062 original size:16 final size:17
Alignment explanation
Indices: 416033--416073 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
416023 AAAATTATAT
416033 TAAAATTAATTATTTTA
1 TAAAATTAATTATTTTA
416050 TAAAATT-ATTATTTTA
1 TAAAATTAATTATTTTA
416066 T-AAATTAA
1 TAAAATTAA
416074 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATTAATTATTTTA
Found at i:423968 original size:12 final size:12
Alignment explanation
Indices: 423926--423968 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
423916 ATATTATTAT
*
423926 ATAATTAAAATGA
1 ATAATTAAAA-AA
423939 ATAATTAAAAAA
1 ATAATTAAAAAA
*
423951 ACTAATTACAAAA
1 A-TAATTAAAAAA
423964 ATAAT
1 ATAAT
423969 AAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (12 bp):
ATAATTAAAAAA
Found at i:424028 original size:28 final size:28
Alignment explanation
Indices: 423980--424039 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
423970 AATATTTTAT
** * *
423980 TTTATTTTTAAATTATTTATTTGATTAA
1 TTTATTTTTAAATTAAATATTTAATAAA
424008 TTTATTTTT-AATATAAATATTTAATAAA
1 TTTATTTTTAAAT-TAAATATTTAATAAA
424036 TTTA
1 TTTA
424040 ATTATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTATTTTTAAATTAAATATTTAATAAA
Found at i:424118 original size:23 final size:23
Alignment explanation
Indices: 424073--424118 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
424063 TAATTTTAAC
*
424073 ATATATTTTATTATTTTACATAA
1 ATATATTTTAATATTTTACATAA
424096 ATATAATTTTAATATTTTA-ATAA
1 ATAT-ATTTTAATATTTTACATAA
424119 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATTTTAATATTTTACATAA
Found at i:426311 original size:3 final size:3
Alignment explanation
Indices: 426303--426330 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
426293 TGATTCTATG
426303 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
426331 AATGAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:429950 original size:2 final size:2
Alignment explanation
Indices: 429945--430013 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
429935 TGTGTGTATG
* * *
429945 TA TA TA TA TA TA TA TA TA TG TA TA TA TG TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
429987 TA TA TA TG TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
430014 GTAATTTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:432010 original size:2 final size:2
Alignment explanation
Indices: 432003--432041 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
431993 TGACTGTAAG
432003 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
432042 TCTCCATGAG
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:432141 original size:26 final size:26
Alignment explanation
Indices: 432111--432198 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 26
432101 TAAAAGGTAT
432111 TTATTTTTTAAATTTTTATGAAAAATATA
1 TTATTTTTTAAATTTTTAT--AAAA-ATA
* *
432140 TTTATTTTTTTAATATTTA-AAAAATA
1 -TTATTTTTTAAATTTTTATAAAAATA
*
432166 TTCATTTTTTAAAGTTTTATCAAAAATA
1 TT-ATTTTTTAAATTTTTAT-AAAAATA
432194 -TATTT
1 TTATTT
432199 ATCTTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.04
26 20 0.40
27 5 0.10
28 7 0.14
30 16 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TTATTTTTTAAATTTTTATAAAAATA
Found at i:432142 original size:30 final size:28
Alignment explanation
Indices: 432108--432208 Score: 116
Period size: 30 Copynumber: 3.5 Consensus size: 28
432098 ATGTAAAAGG
432108 TATTTATTTTTTAAATTTTTATGAAAAATA
1 TATTTATTTTTTAAA-TTTTAT-AAAAATA
* *
432138 TATTTATTTTTTTAATATT-TAAAAA-A
1 TATTTATTTTTTAAATTTTATAAAAATA
*
432164 TATTCATTTTTTAAAGTTTTATCAAAAATA
1 TATTTATTTTTTAAA-TTTTAT-AAAAATA
*
432194 TATTTATCTTTTAAA
1 TATTTATTTTTTAAA
432209 CTATTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 14 0.23
27 8 0.13
28 2 0.03
29 8 0.13
30 28 0.47
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (28 bp):
TATTTATTTTTTAAATTTTATAAAAATA
Found at i:437048 original size:89 final size:89
Alignment explanation
Indices: 436897--437078 Score: 323
Period size: 89 Copynumber: 2.1 Consensus size: 89
436887 TTCTTCGTAC
*
436897 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATTTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
436962 ACAAAGTTTTAAATT-ATTTATTAT
66 A-AAAGTTTTAAATTGATTTATTAT
*
436986 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
437051 AAAAGTTTTAAATTGATTTATTAT
66 AAAAGTTTTAAATTGATTTATTAT
437075 -TAAA
1 ATAAA
437079 TTATATATTT
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
88 17 0.19
89 73 0.81
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (89 bp):
ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
AAAAGTTTTAAATTGATTTATTAT
Found at i:438041 original size:19 final size:18
Alignment explanation
Indices: 438015--438056 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
438005 AATTATTCGT
*
438015 TTAAATTTAAAATTTTAA
1 TTAAATTTAAAAATTTAA
438033 TTAATATTTAAAAATTTAA
1 TTAA-ATTTAAAAATTTAA
*
438052 ATAAA
1 TTAAA
438057 AATATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAATTTAAAAATTTAA
Found at i:439439 original size:12 final size:12
Alignment explanation
Indices: 439422--439448 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
439412 CACCTCTTGC
439422 TGACAATATAAT
1 TGACAATATAAT
439434 TGACAATATAAT
1 TGACAATATAAT
439446 TGA
1 TGA
439449 ATAAATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (12 bp):
TGACAATATAAT
Found at i:439498 original size:8 final size:8
Alignment explanation
Indices: 439485--439509 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
439475 AGCAATATGG
439485 TTGAAAAC
1 TTGAAAAC
439493 TTGAAAAC
1 TTGAAAAC
439501 TTGAAAAC
1 TTGAAAAC
439509 T
1 T
439510 GCAGTGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (8 bp):
TTGAAAAC
Found at i:439848 original size:22 final size:22
Alignment explanation
Indices: 439823--439874 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
439813 TACTTTCAAA
439823 ATTAAAATAATAT-AAAATGATT
1 ATTAAAATAATATAAAAATGA-T
** * *
439845 ATTATGATAATTTAAAAATTAT
1 ATTAAAATAATATAAAAATGAT
439867 ATTAAAAT
1 ATTAAAAT
439875 TAATTATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTAAAATAATATAAAAATGAT
Found at i:439898 original size:16 final size:17
Alignment explanation
Indices: 439869--439909 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
439859 AAAATTATAT
439869 TAAAATTAATTATTTTA
1 TAAAATTAATTATTTTA
439886 TAAAATT-ATTATTTTA
1 TAAAATTAATTATTTTA
439902 T-AAATTAA
1 TAAAATTAA
439910 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATTAATTATTTTA
Found at i:443070 original size:18 final size:18
Alignment explanation
Indices: 443045--443087 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
443035 TATAATTGTA
*
443045 AAAT-TATATTTGTACAT
1 AAATATATATATGTACAT
*
443062 AAATATATATATGTATAT
1 AAATATATATATGTACAT
*
443080 ATATATAT
1 AAATATAT
443088 GTAATGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
AAATATATATATGTACAT
Found at i:443081 original size:14 final size:14
Alignment explanation
Indices: 443064--443090 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
443054 TTGTACATAA
443064 ATATATATATGTAT
1 ATATATATATGTAT
443078 ATATATATATGTA
1 ATATATATATGTA
443091 ATGAAAGTAT
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:447843 original size:12 final size:12
Alignment explanation
Indices: 447801--447843 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
447791 ATATTATTAT
*
447801 ATAATTAAAATGA
1 ATAATTAAAA-AA
447814 ATAATTAAAAAA
1 ATAATTAAAAAA
*
447826 ACTAATTACAAAA
1 A-TAATTAAAAAA
447839 ATAAT
1 ATAAT
447844 AAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (12 bp):
ATAATTAAAAAA
Found at i:447903 original size:28 final size:28
Alignment explanation
Indices: 447855--447914 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
447845 AATATTTTAT
** * *
447855 TTTATTTTTAAATTATTTATTTGATTAA
1 TTTATTTTTAAATTAAATATTTAATAAA
447883 TTTATTTTT-AATATAAATATTTAATAAA
1 TTTATTTTTAAAT-TAAATATTTAATAAA
447911 TTTA
1 TTTA
447915 ATTATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTATTTTTAAATTAAATATTTAATAAA
Found at i:447993 original size:23 final size:23
Alignment explanation
Indices: 447948--447993 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
447938 TAATTTTAAC
*
447948 ATATATTTTATTATTTTACATAA
1 ATATATTTTAATATTTTACATAA
447971 ATATAATTTTAATATTTTA-ATAA
1 ATAT-ATTTTAATATTTTACATAA
447994 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATTTTAATATTTTACATAA
Found at i:450198 original size:3 final size:3
Alignment explanation
Indices: 450190--450217 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
450180 TGATTCTATG
450190 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
450218 AAATGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:453856 original size:20 final size:20
Alignment explanation
Indices: 453831--453869 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
453821 TTATCATGTG
453831 TGTATGTATATATATATATA
1 TGTATGTATATATATATATA
* *
453851 TGTATGTATGTATGTATAT
1 TGTATGTATATATATATAT
453870 GTAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
TGTATGTATATATATATATA
Found at i:455874 original size:2 final size:2
Alignment explanation
Indices: 455867--455907 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
455857 TGACTGTAAG
*
455867 TA TA TA TA TA TA TA TA TA TA TA TA TA TC 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 TA T
455908 TCTCCATGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:456008 original size:30 final size:29
Alignment explanation
Indices: 455974--456075 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 29
455964 ATGTAAAAGG
455974 TATTTATTTTTTAAATTTTTATGAAAAATA
1 TATTTATTTTTTAAATTTTTAT-AAAAATA
* *
456004 TATTTATTTTTTTAA-TATT-T-AAAA-A
1 TATTTATTTTTTAAATTTTTATAAAAATA
*
456029 TATTCATTTTTTAAAGTTATTTATCAAAAATA
1 TATTTATTTTTTAAA-TT-TTTAT-AAAAATA
*
456061 TATTTATCTTTTAAA
1 TATTTATTTTTTAAA
456076 CTATTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 14 0.24
26 4 0.07
27 1 0.02
28 3 0.05
29 4 0.07
30 14 0.24
31 4 0.07
32 14 0.24
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
TATTTATTTTTTAAATTTTTATAAAAATA
Found at i:456582 original size:25 final size:27
Alignment explanation
Indices: 456535--456587 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
456525 TATTTTAAAC
* * *
456535 TTTTTAAAATAATGACAATTAATTTAT
1 TTTTTAAAAAAATAACAATTAATATAT
456562 TTTTTAAAAAAATAAC-A-TAATATAT
1 TTTTTAAAAAAATAACAATTAATATAT
456587 T
1 T
456588 AATATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 1 0.04
27 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (27 bp):
TTTTTAAAAAAATAACAATTAATATAT
Found at i:460899 original size:90 final size:88
Alignment explanation
Indices: 460746--460927 Score: 305
Period size: 90 Copynumber: 2.1 Consensus size: 88
460736 TTCTTCGTAC
*
460746 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATTTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATT-A
460811 ACAAAGTTTTTAAATT-ATTTATTAT
65 A-AAAG-TTTTAAATTGATTTATTAT
*
460836 ATAAAATTTTGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
1 ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
460901 AAAGTTTTAAATTGATTTATTAT
66 AAAGTTTTAAATTGATTTATTAT
460924 -TAAA
1 ATAAA
460928 TTATATATTT
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
87 13 0.15
88 13 0.15
89 2 0.02
90 61 0.69
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (88 bp):
ATAAAATTTCGAGTTTAATTAATACCTAATCAATGTATCTAATAATTCAATATTATTTGTATTAA
AAAGTTTTAAATTGATTTATTAT
Found at i:461887 original size:19 final size:18
Alignment explanation
Indices: 461861--461902 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
461851 AATTATTCGT
*
461861 TTAAATTTAAAATTTTAA
1 TTAAATTTAAAAATTTAA
461879 TTAATATTTAAAAATTTAA
1 TTAA-ATTTAAAAATTTAA
*
461898 ATAAA
1 TTAAA
461903 AATATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAATTTAAAAATTTAA
Found at i:463352 original size:8 final size:8
Alignment explanation
Indices: 463339--463363 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
463329 AGCAATATGG
463339 TTGAAAAC
1 TTGAAAAC
463347 TTGAAAAC
1 TTGAAAAC
463355 TTGAAAAC
1 TTGAAAAC
463363 T
1 T
463364 GCAGTGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (8 bp):
TTGAAAAC
Found at i:463736 original size:15 final size:15
Alignment explanation
Indices: 463716--463764 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
463706 TAACTTAAAA
*
463716 AATTATATTAAAATT
1 AATTATTTTAAAATT
463731 AATTATTTTATAAAATT
1 AATTA-TTT-TAAAATT
463748 -ATTATTTTATAAATT
1 AATTATTTTA-AAATT
463763 AA
1 AA
463765 ATAATTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 13 0.45
16 7 0.24
17 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTATTTTAAAATT
Found at i:463753 original size:16 final size:17
Alignment explanation
Indices: 463724--463764 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
463714 AAAATTATAT
463724 TAAAATTAATTATTTTA
1 TAAAATTAATTATTTTA
463741 TAAAATT-ATTATTTTA
1 TAAAATTAATTATTTTA
463757 T-AAATTAA
1 TAAAATTAA
463765 ATAATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATTAATTATTTTA
Found at i:466930 original size:18 final size:18
Alignment explanation
Indices: 466904--466947 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
466894 TATAATTTTA
* *
466904 AAATTTATATTTGTACAT
1 AAATATATATATGTACAT
*
466922 AAATATATATATGTATAT
1 AAATATATATATGTACAT
*
466940 ATATATAT
1 AAATATAT
466948 GTAATGAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (18 bp):
AAATATATATATGTACAT
Found at i:466941 original size:14 final size:14
Alignment explanation
Indices: 466924--466950 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
466914 TTGTACATAA
466924 ATATATATATGTAT
1 ATATATATATGTAT
466938 ATATATATATGTA
1 ATATATATATGTA
466951 ATGAAAGTAT
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:471741 original size:20 final size:21
Alignment explanation
Indices: 471716--471772 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
471706 AATAATTTAT
471716 TTTATTTTATTTTTAAATT-A
1 TTTATTTTATTTTTAAATTGA
* *
471736 TTTATTCTTAATTTTAATTTGA
1 TTTATT-TTATTTTTAAATTGA
*
471758 -TTAATTTATTTTTAA
1 TTTATTTTATTTTTAA
471773 TATAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.48
21 15 0.48
22 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTTTTAAATTGA
Found at i:471888 original size:17 final size:17
Alignment explanation
Indices: 471850--471888 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
471840 TTTTACATAA
471850 ATATAATTTTTATATTT
1 ATATAATTTTTATATTT
*
471867 TTATAATTTTT-TATTAT
1 ATATAATTTTTATATT-T
471884 ATATA
1 ATATA
471889 TTTACATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATAATTTTTATATTT
Found at i:472473 original size:16 final size:16
Alignment explanation
Indices: 472452--472486 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
472442 ACTACATTAA
472452 ATATATATTAACAGTG
1 ATATATATTAACAGTG
* *
472468 ATATATATTGACATTG
1 ATATATATTAACAGTG
472484 ATA
1 ATA
472487 CTACATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
ATATATATTAACAGTG
Found at i:473733 original size:22 final size:23
Alignment explanation
Indices: 473707--473749 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
473697 TTTTATTTTA
*
473707 AAATAAATT-GATTAAAAAAATT
1 AAATAAATTAAATTAAAAAAATT
*
473729 AAATAATTTAAATTAAAAAAA
1 AAATAAATTAAATTAAAAAAA
473750 AAACTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAAATTAAATTAAAAAAATT
Found at i:476022 original size:21 final size:20
Alignment explanation
Indices: 475998--476071 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
475988 TATATCATTT
475998 TTTAATTTTTATTTAAATATA
1 TTTAATTTTTATTTAAA-ATA
476019 TTT-ATTTTTAATTT-AAA-A
1 TTTAATTTTT-ATTTAAAATA
*
476037 -TTAA-TTTTATTTAAAATT
1 TTTAATTTTTATTTAAAATA
*
476055 TTATAATATTT-TTTAAA
1 TT-TAATTTTTATTTAAA
476072 TACATTTACG
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
16 4 0.09
17 9 0.20
18 2 0.05
19 2 0.05
20 17 0.39
21 10 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATTTTTATTTAAAATA
Found at i:476040 original size:27 final size:27
Alignment explanation
Indices: 475996--476049 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
475986 AATATATCAT
** *
475996 TTTTTAATTTTTATTTAAATATATTTA
1 TTTTTAATTTAAAATTAAATATATTTA
* *
476023 TTTTTAATTTAAAATTAATTTTATTTA
1 TTTTTAATTTAAAATTAAATATATTTA
476050 AAATTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTAATTTAAAATTAAATATATTTA
Found at i:477023 original size:20 final size:19
Alignment explanation
Indices: 476987--477035 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 19
476977 ATAAAATAAT
476987 ATTTTATATTTATTTTAATTA
1 ATTTT-TATTTATTTT-ATTA
477008 ATTTTTA-TTATATTTATTA
1 ATTTTTATTTAT-TTTATTA
477027 ATTTATTAT
1 ATTT-TTAT
477036 AAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTATTTATTTTATTA
Found at i:477485 original size:25 final size:24
Alignment explanation
Indices: 477457--477506 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
477447 ACATTATCAT
* *
477457 TTTATTTAATATATTATTTTTTATA
1 TTTATTAAATATATT-TTATTTATA
477482 TTTATTAAATATATTTTATTTATA
1 TTTATTAAATATATTTTATTTATA
477506 T
1 T
477507 CATATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTAAATATATTTTATTTATA
Done.