Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 82 of 120
Found at i:23877444 original size:10 final size:9
Alignment explanation
Indices: 23877369--23877483 Score: 54
Period size: 9 Copynumber: 12.3 Consensus size: 9
23877359 TACATTTTGG
23877369 AATTATAAA
1 AATTATAAA
* *
23877378 AACATAAAAA
1 AA-TTATAAA
23877388 AATTATAAA
1 AATTATAAA
*
23877397 AATTCAT-TA
1 AATT-ATAAA
23877406 AATTAT-AA
1 AATTATAAA
** *
23877414 TTTTAAAAA
1 AATTATAAA
23877423 AATTATAAA
1 AATTATAAA
*
23877432 AATTATTAGA
1 AATTA-TAAA
23877442 AATTAATTAAA
1 AATT-A-TAAA
* *
23877453 AATCATACCA
1 AATTATA-AA
**
23877463 TTTTATAAA
1 AATTATAAA
*
23877472 ATTTATAAA
1 AATTATAAA
23877481 AAT
1 AAT
23877484 AATCTATAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 12
0.70 0.20 0.11
Matches are distributed among these distances:
8 6 0.08
9 42 0.54
10 22 0.28
11 8 0.10
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:23881334 original size:73 final size:72
Alignment explanation
Indices: 23881252--23881387 Score: 191
Period size: 73 Copynumber: 1.9 Consensus size: 72
23881242 AATATCTAAT
* * * * * *
23881252 CAAATTAATATATAGATACTATTTTGTCTTAATTTGTCAAATTAAACTAAAAATGTTACCAAATA
1 CAAATTAATATATAGATACTAATTTATATTAATTTATCAAATCAAACTAAAAAT-CTACCAAATA
23881317 TTTTTTAC
65 TTTTTTAC
* *
23881325 CAAATTAATATTTAGATACTAATTTATATTAGTTTATCAAATCAAACTAAAAATCTACCAAAT
1 CAAATTAATATATAGATACTAATTTATATTAATTTATCAAATCAAACTAAAAATCTACCAAAT
23881388 TTAATGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
72 8 0.15
73 47 0.85
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (72 bp):
CAAATTAATATATAGATACTAATTTATATTAATTTATCAAATCAAACTAAAAATCTACCAAATAT
TTTTTAC
Found at i:23882295 original size:17 final size:16
Alignment explanation
Indices: 23882275--23882312 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
23882265 CAATAAATAA
23882275 AAAATTA-ATAAACTTAT
1 AAAATTATA-AAAC-TAT
23882292 AAAATTATAAAACTAT
1 AAAATTATAAAACTAT
23882308 AAAAT
1 AAAAT
23882313 AAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAACTAT
Found at i:23882308 original size:16 final size:17
Alignment explanation
Indices: 23882275--23882312 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
23882265 CAATAAATAA
23882275 AAAATTAATAAACTTAT
1 AAAATTAATAAACTTAT
23882292 AAAATT-ATAAAAC-TAT
1 AAAATTAAT-AAACTTAT
23882308 AAAAT
1 AAAAT
23882313 AAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAATAAACTTAT
Found at i:23882779 original size:2 final size:2
Alignment explanation
Indices: 23882774--23882800 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23882764 AGTTTTTTTA
23882774 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
23882801 AAATTTTGGA
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:23888424 original size:11 final size:11
Alignment explanation
Indices: 23888410--23888479 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
23888400 TTTAAATGGG
23888410 TTTTAAATTTA
1 TTTTAAATTTA
23888421 TTTTAAATTTA
1 TTTTAAATTTA
** * *
23888432 AATTCATTTTAA
1 TTTTAAATTT-A
*
23888444 ATTTAAATTTA
1 TTTTAAATTTA
23888455 CTTATTTAAATTTA
1 --T-TTTAAATTTA
*
23888469 CTTTAAATTTA
1 TTTTAAATTTA
23888480 AGTTTAATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
11 28 0.61
12 8 0.17
14 10 0.22
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:23888431 original size:6 final size:6
Alignment explanation
Indices: 23888411--23888486 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
23888401 TTAAATGGGT
* * * *
23888411 TTTAAA TTT-AT TTTAAA TTTAAA -TTCAT TTTAAA TTTAAA TTTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
23888459 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
23888487 TCAAATTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
5 11 0.20
6 38 0.70
8 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:23888431 original size:17 final size:17
Alignment explanation
Indices: 23888411--23888485 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
23888401 TTAAATGGGT
23888411 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
23888428 TTTAAATTCATTTTAAA
1 TTTAAATTTATTTTAAA
*
23888445 TTTAAATTTA-CTT--A
1 TTTAAATTTATTTTAAA
*
23888459 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
23888476 TTTAAGTTTA
1 TTTAAATTTA
23888486 ATCAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 2 0.04
17 35 0.70
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23888463 original size:14 final size:14
Alignment explanation
Indices: 23888444--23888471 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23888434 TTCATTTTAA
23888444 ATTTAAATTTACTT
1 ATTTAAATTTACTT
23888458 ATTTAAATTTACTT
1 ATTTAAATTTACTT
23888472 TAAATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:23888465 original size:31 final size:31
Alignment explanation
Indices: 23888427--23888485 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23888417 TTTATTTTAA
*
23888427 ATTTAAATTCATTTTAAATTTAAATTTACTT
1 ATTTAAATTCACTTTAAATTTAAATTTACTT
* *
23888458 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTCACTTTAAATTTAAATTTA
23888486 ATCAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTAAATTCACTTTAAATTTAAATTTACTT
Found at i:23890349 original size:29 final size:30
Alignment explanation
Indices: 23890289--23890402 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 30
23890279 TTTTATAGGT
* *
23890289 CCCTGAACTATCCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAAATTACCATTTTAC
23890319 CCCTAAACTTTCC-AAAATT-CCATTTTAAC
1 CCCTAAACTTTCCAAAAATTACCATTTT-AC
23890348 CCC--AA-TTTCACCAAAAATTACCATTTTAC
1 CCCTAAACTTT--CCAAAAATTACCATTTTAC
*
23890377 CCCCAAACTTTCC-AAAATT-CCATTTT
1 CCCTAAACTTTCCAAAAATTACCATTTT
23890403 TGACCTCGAT
Statistics
Matches: 74, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
26 3 0.04
27 2 0.03
28 16 0.22
29 28 0.38
30 20 0.27
31 2 0.03
32 3 0.04
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACCATTTTAC
Found at i:23890364 original size:58 final size:59
Alignment explanation
Indices: 23890300--23890439 Score: 219
Period size: 58 Copynumber: 2.4 Consensus size: 59
23890290 CCTGAACTAT
*
23890300 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
23890358 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
23890417 CCAAAAATTATCATTTTTCCCCC
1 CCAAAAATTACCATTTTACCCCC
23890440 GTGAGTCCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
58 40 0.53
59 35 0.47
ACGTcount: A:0.34, C:0.31, G:0.01, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:23890403 original size:29 final size:30
Alignment explanation
Indices: 23890294--23890402 Score: 131
Period size: 30 Copynumber: 3.8 Consensus size: 30
23890284 TAGGTCCCTG
* *
23890294 AACTATCCAAAAATTACCATTTTACCCCTA
1 AACTTTCCAAAAATTACCATTTTACCCCCA
*
23890324 AACTTTCC-AAAATT-CCATTTTAACCCC-
1 AACTTTCCAAAAATTACCATTTTACCCCCA
23890351 AA-TTTCACCAAAAATTACCATTTTACCCCCA
1 AACTTT--CCAAAAATTACCATTTTACCCCCA
23890382 AACTTTCC-AAAATT-CCATTTT
1 AACTTTCCAAAAATTACCATTTT
23890403 TGACCTCGAT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
26 3 0.04
27 2 0.03
28 20 0.29
29 18 0.26
30 21 0.30
31 2 0.03
32 3 0.04
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (30 bp):
AACTTTCCAAAAATTACCATTTTACCCCCA
Found at i:23890459 original size:59 final size:58
Alignment explanation
Indices: 23890300--23890461 Score: 184
Period size: 58 Copynumber: 2.8 Consensus size: 58
23890290 CCTGAACTAT
* *
23890300 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAAC-GTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * *
23890358 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAAC-GTCCAAAATTCCATTTTTAACCCCAATTTCA
* * **
23890417 CCAAAAATTATCATTTTTCCCCCGTGA-GTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCC-AAACGTCCAAAATT-CCATTTT
23890462 ACCTTCGGGT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
58 49 0.53
59 42 0.46
60 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCAAACGTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:23897010 original size:17 final size:17
Alignment explanation
Indices: 23896975--23897019 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
23896965 TTAAGATGAT
* *
23896975 TATATAAAAAAATTTAA
1 TATATAAAATAATTAAA
*
23896992 TATATAAAATCATTAAA
1 TATATAAAATAATTAAA
23897009 TAT-TAAAATAA
1 TATATAAAATAA
23897020 AACAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TATATAAAATAATTAAA
Found at i:23902487 original size:20 final size:20
Alignment explanation
Indices: 23902462--23902517 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
23902452 CTACCCTAGG
* *
23902462 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
23902482 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* *
23902502 AGTTCTACCAATACAA
1 ACTTCTACCGATACAA
23902518 GTATGCTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.29
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:23907377 original size:23 final size:23
Alignment explanation
Indices: 23907351--23907423 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
23907341 CTTAGCGCGG
* *
23907351 TCTCCGATTAGCACTGTGTGTGC
1 TCTCCGATTAGCACTATGTGTAC
* * *
23907374 TCTCCGATTAGTACTTTGTATAC
1 TCTCCGATTAGCACTATGTGTAC
* * *
23907397 TCTTCGTTTAGCACTATGTGTTC
1 TCTCCGATTAGCACTATGTGTAC
23907420 TCTC
1 TCTC
23907424 TGTTACCCAG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (23 bp):
TCTCCGATTAGCACTATGTGTAC
Found at i:23909421 original size:21 final size:21
Alignment explanation
Indices: 23909358--23909421 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
23909348 AGAGTTTTTA
23909358 GTATCGGTAGAAG-CATGACATT
1 GTATCGGTAGAAGTC-TG-CATT
*
23909380 -T-TCAGTAGAAGTCT-CACTT
1 GTATCGGTAGAAGTCTGCA-TT
23909399 GTATCGGTAGAAGTCTGCATT
1 GTATCGGTAGAAGTCTGCATT
23909420 GT
1 GT
23909422 TCCTGAACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 11 0.31
21 18 0.51
22 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTGCATT
Found at i:23916728 original size:9 final size:9
Alignment explanation
Indices: 23916710--23916777 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
23916700 GTCAATAGAT
23916710 AATT-TAAA
1 AATTATAAA
23916718 AATTATAAA
1 AATTATAAA
23916727 AA-TA-AAA
1 AATTATAAA
*
23916734 AATTATAAT
1 AATTATAAA
*
23916743 TATTATAAA
1 AATTATAAA
23916752 AAGTTCATGAAA
1 AA-TT-AT-AAA
* *
23916764 AATCAAAAA
1 AATTATAAA
23916773 AATTA
1 AATTA
23916778 GCATGAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.11
8 8 0.17
9 23 0.49
10 3 0.06
11 3 0.06
12 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:23916916 original size:31 final size:31
Alignment explanation
Indices: 23916843--23916917 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
23916833 TTCATTGAAA
*
23916843 AATATC-AATTCAATTCTTTTTCAAAACATT
1 AATATCAAATTTAATTCTTTTTCAAAACATT
* *
23916873 AATGGTCAAATTTAATTCTTTTT-AAAAGATT
1 AAT-ATCAAATTTAATTCTTTTTCAAAACATT
23916904 GAATATCAAATTTA
1 -AATATCAAATTTA
23916918 GCTAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 3 0.08
31 18 0.47
32 17 0.45
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (31 bp):
AATATCAAATTTAATTCTTTTTCAAAACATT
Found at i:23925977 original size:40 final size:40
Alignment explanation
Indices: 23925932--23926200 Score: 132
Period size: 40 Copynumber: 6.7 Consensus size: 40
23925922 ACTTAGATCG
* *
23925932 AAAACGTCGCAAAAAGTAAAGCAATAGCGGCGTTTTTTC-A
1 AAAACGTCGCAAAAAGTAAAGCAATAGCGGCG-CTTTCCAA
* * *
23925972 CAAACGTCGCAAAAGGTAAAGTAATAGCGGCGCTTTCCAA
1 AAAACGTCGCAAAAAGTAAAGCAATAGCGGCGCTTTCCAA
* * * *** * **
23926012 AAAACGCCGCAAAATGTAAAGCAGTAGTTAC-ATTTATGAGA
1 AAAACGTCGCAAAAAGTAAAGCAATAGCGGCGCTTT-CCA-A
* * * ** * *
23926053 AAAACGCCACAAGAAGTAAAGCAATAGCAACGCTTTACTA
1 AAAACGTCGCAAAAAGTAAAGCAATAGCGGCGCTTTCCAA
* * * ****
23926093 TAAACGCCGCAAAAAGCAAAGAGCAATAGCGGCG-TTTATGGT
1 AAAACGTCGCAAAAAG-TAA-AGCAATAGCGGCGCTTT-CCAA
* * **
23926135 AAAACGTCGC-AAAAGTTAAAGCAATAGCAGCACTTTCTTA
1 AAAACGTCGCAAAAAG-TAAAGCAATAGCGGCGCTTTCCAA
* * *
23926175 TAAACGTCGTAAAAGGTAAAGCAATA
1 AAAACGTCGCAAAAAGTAAAGCAATA
23926201 ATGGTGTTTA
Statistics
Matches: 171, Mismatches: 49, Indels: 18
0.72 0.21 0.08
Matches are distributed among these distances:
39 7 0.04
40 97 0.57
41 45 0.26
42 22 0.13
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAACGTCGCAAAAAGTAAAGCAATAGCGGCGCTTTCCAA
Found at i:23926308 original size:19 final size:19
Alignment explanation
Indices: 23926274--23926314 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
23926264 TACCTTTTAA
23926274 TTTTAATATAACATAAATAT
1 TTTTAATATAACATAAA-AT
23926294 TTTTAATATAA-ATAAAAT
1 TTTTAATATAACATAAAAT
23926312 TTT
1 TTT
23926315 AACAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTAATATAACATAAAAT
Found at i:23929442 original size:24 final size:24
Alignment explanation
Indices: 23929413--23929494 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
23929403 AATTTAATAT
*
23929413 TCTTTTATGATTTTGTTATATTCA
1 TCTTTTATGATTTTGTTATATTAA
* * *
23929437 TCTTTTATTAATTTATGTCAT-TGAA
1 TCTTTTA-TGATTT-TGTTATATTAA
* *
23929462 TTCTTTTATGGTTTTGTTATATTTA
1 -TCTTTTATGATTTTGTTATATTAA
23929487 TCTTTTAT
1 TCTTTTAT
23929495 TAATTTATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
24 20 0.44
25 13 0.29
26 12 0.27
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (24 bp):
TCTTTTATGATTTTGTTATATTAA
Found at i:23929468 original size:26 final size:25
Alignment explanation
Indices: 23929436--23929510 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
23929426 TGTTATATTC
23929436 ATCTTTTATTAATTTATGTCATTGA
1 ATCTTTTATTAATTTATGTCATTGA
** * **
23929461 ATTCTTTTA-TGGTTT-TGTTATATTT
1 A-TCTTTTATTAATTTATGTCAT-TGA
23929486 ATCTTTTATTAATTTATGTCATTGA
1 ATCTTTTATTAATTTATGTCATTGA
23929511 CTTCATAGGT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
24 12 0.33
25 12 0.33
26 12 0.33
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (25 bp):
ATCTTTTATTAATTTATGTCATTGA
Found at i:23929477 original size:50 final size:50
Alignment explanation
Indices: 23929411--23929510 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
23929401 TTAATTTAAT
23929411 ATTCTTTTATGATTTTGTTATATTCATCTTTTATTAATTTATGTCATTGA
1 ATTCTTTTATGATTTTGTTATATTCATCTTTTATTAATTTATGTCATTGA
* *
23929461 ATTCTTTTATGGTTTTGTTATATTTATCTTTTATTAATTTATGTCATTGA
1 ATTCTTTTATGATTTTGTTATATTCATCTTTTATTAATTTATGTCATTGA
23929511 CTTCATAGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (50 bp):
ATTCTTTTATGATTTTGTTATATTCATCTTTTATTAATTTATGTCATTGA
Found at i:23936739 original size:70 final size:75
Alignment explanation
Indices: 23936656--23936836 Score: 228
Period size: 78 Copynumber: 2.4 Consensus size: 75
23936646 GTATATATTG
23936656 CATATGTGTTATTATTAGTTTCGAATCTTA-A-A-TATAT-A-TATATTGATAAATTACTTAAAT
1 CATATGTGTTATTATTAGTTTCGAATCTTACATATTATATAAGTATATTGATAAATTACTTAAAT
23936716 AAATTGCATT
66 AAATTGCATT
* * * * * *
23936726 CATATGTGCTATTAGTAGTTTCGAATCTTACATTTCATTATTTAAGTGTTTTGATCAATTACTTA
1 CATATGTGTTATTATTAGTTTCGAATCTTACA--T-ATTATATAAGTATATTGATAAATTACTTA
*
23936791 AATAAATTGTATT
63 AATAAATTGCATT
*
23936804 CATATGTGTTATTATTAGTTTCGAATTTTACAT
1 CATATGTGTTATTATTAGTTTCGAATCTTACAT
23936837 GTCAAATCTT
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
70 28 0.30
71 1 0.01
75 1 0.01
76 5 0.05
77 1 0.01
78 57 0.61
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (75 bp):
CATATGTGTTATTATTAGTTTCGAATCTTACATATTATATAAGTATATTGATAAATTACTTAAAT
AAATTGCATT
Found at i:23936863 original size:78 final size:78
Alignment explanation
Indices: 23936704--23936864 Score: 200
Period size: 78 Copynumber: 2.1 Consensus size: 78
23936694 TATATTGATA
* *
23936704 AATTACTTAAATAAATTGCATTCATATGTGCTATTAGTAGTTTCGAATCTTACATTTCATTATTT
1 AATTACTTAAATAAATTGCATTCATATGTGCTATTAGTAGTTTCGAATCTTACATGTCATAATTT
* ** *
23936769 AAGTGTTTTGATC
66 AAGTATTTAAAAC
* * * *
23936782 AATTACTTAAATAAATTGTATTCATATGTGTTATTATTAGTTTCGAATTTTACATGTCA-AATCT
1 AATTACTTAAATAAATTGCATTCATATGTGCTATTAGTAGTTTCGAATCTTACATGTCATAAT-T
23936846 TACA-TATTTAAAAC
65 TA-AGTATTTAAAAC
23936860 AATTA
1 AATTA
23936865 AATAAACGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
77 2 0.03
78 68 0.96
79 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (78 bp):
AATTACTTAAATAAATTGCATTCATATGTGCTATTAGTAGTTTCGAATCTTACATGTCATAATTT
AAGTATTTAAAAC
Found at i:23939403 original size:129 final size:128
Alignment explanation
Indices: 23939222--23939477 Score: 397
Period size: 129 Copynumber: 2.0 Consensus size: 128
23939212 TTGGTGCATC
* * *
23939222 TTGTGTTAGTGTCACCTTAAGTGTTATTATTCTTTTCCCATTGTCTTTTGATGCAAGTTTAGATT
1 TTGTGTTAGTGTCACCTTAAGTGTCACTAATCTTTTCCCATTGTCTTTTGATGCAAGTTTAGATT
* * *
23939287 TGAGGACGAATCATTTTGAAGAGGAAAATTGATATGAACCATCAGAATTCAACGAATGATTCAT
66 TGAGGACGAAT-ATTTTGAAGAGAAAAACTGATATGAACCATCAAAATTCAACGAATGATTCAT
*
23939351 TTGTGTTAGTGTCACCTTAAGTGTCACTAATC-TTTCCCTATTTTCTTTTGATGCAAGTTTAGAT
1 TTGTGTTAGTGTCACCTTAAGTGTCACTAATCTTTTCCC-ATTGTCTTTTGATGCAAGTTTAGAT
* * *
23939415 TTGAGGACGAATATTTTTAAGAGAAAAACTGATATGAACCATCAAAATTTAATGAATGATTCA
65 TTGAGGACGAATATTTTGAAGAGAAAAACTGATATGAACCATCAAAATTCAACGAATGATTCA
23939478 CCATGGTCCA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
128 51 0.44
129 65 0.56
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (128 bp):
TTGTGTTAGTGTCACCTTAAGTGTCACTAATCTTTTCCCATTGTCTTTTGATGCAAGTTTAGATT
TGAGGACGAATATTTTGAAGAGAAAAACTGATATGAACCATCAAAATTCAACGAATGATTCAT
Found at i:23942591 original size:26 final size:25
Alignment explanation
Indices: 23942553--23942604 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
23942543 TCTATGGCCT
* *
23942553 CCTTCTCCTCTTCCCATT-TCTGCTC
1 CCTTCTCATCTTCAC-TTCTCTGCTC
23942578 CCTTCCTCATCTTCACTTCTCTGCTC
1 CCTT-CTCATCTTCACTTCTCTGCTC
23942604 C
1 C
23942605 TATGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.06, C:0.48, G:0.04, T:0.42
Consensus pattern (25 bp):
CCTTCTCATCTTCACTTCTCTGCTC
Found at i:23945418 original size:15 final size:15
Alignment explanation
Indices: 23945370--23945420 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
23945360 ACAAAATGAT
*
23945370 AACATAAGTGACTAA
1 AACATAAGTAACTAA
* ** *
23945385 AACATAA-CATTTCA
1 AACATAAGTAACTAA
23945399 AACATAAGTAACTAA
1 AACATAAGTAACTAA
23945414 AACATAA
1 AACATAA
23945421 TTTGAGGCAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.22
Consensus pattern (15 bp):
AACATAAGTAACTAA
Found at i:23951050 original size:28 final size:28
Alignment explanation
Indices: 23951019--23951108 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
23951009 AATTAGGTCC
23951019 AAAAAAGTTTAAGTACCAAATTA-GAAA
1 AAAAAAGTTTAAGTACCAAATTAGGAAA
*
23951046 AAAAAAGTCAAGTTCAAGTACCAAATTAGGTAA
1 AAAAAAGT----TT-AAGTACCAAATTAGGAAA
*
23951079 AAAAAAGTTT-AGATATCAAATTAGGAAA
1 AAAAAAGTTTAAG-TACCAAATTAGGAAA
23951107 AA
1 AA
23951109 GTGTCAAGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 10 0.19
28 15 0.28
29 2 0.04
31 2 0.04
32 13 0.25
33 11 0.21
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.22
Consensus pattern (28 bp):
AAAAAAGTTTAAGTACCAAATTAGGAAA
Found at i:23951065 original size:32 final size:33
Alignment explanation
Indices: 23951023--23951086 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
23951013 AGGTCCAAAA
*
23951023 AAGTTTAAGTACCAAATTA-GAAAAAAAAAGTC
1 AAGTTCAAGTACCAAATTAGGAAAAAAAAAGTC
*
23951055 AAGTTCAAGTACCAAATTAGGTAAAAAAAAGT
1 AAGTTCAAGTACCAAATTAGGAAAAAAAAAGT
23951087 TTAGATATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.22
Consensus pattern (33 bp):
AAGTTCAAGTACCAAATTAGGAAAAAAAAAGTC
Found at i:23951071 original size:60 final size:59
Alignment explanation
Indices: 23950958--23951130 Score: 224
Period size: 59 Copynumber: 2.9 Consensus size: 59
23950948 AAATTGAATC
* * *
23950958 TAAAAAAAAGCTTACGTATCAAATTAGGAAAAAATGTCAAG-TCAGGTATCAAATTAGG
1 TAAAAAAAAGTTTAAGTATCAAATTAGGAAAAAATGTCAAGTTCAAGTATCAAATTAGG
** * * * *
23951016 TCCAAAAAAGTTTAAGTACCAAATTAGAAAAAAAAAGTCAAGTTCAAGTACCAAATTAGG
1 TAAAAAAAAGTTTAAGTATCAAATTAG-GAAAAAATGTCAAGTTCAAGTATCAAATTAGG
*
23951076 TAAAAAAAAGTTT-AGATATCAAATTAGGAAAAAGTGTCAAGTTCAAGTATCAAAT
1 TAAAAAAAAGTTTAAG-TATCAAATTAGGAAAAAATGTCAAGTTCAAGTATCAAAT
23951131 GTTATATTAA
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
58 22 0.23
59 38 0.40
60 36 0.38
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.24
Consensus pattern (59 bp):
TAAAAAAAAGTTTAAGTATCAAATTAGGAAAAAATGTCAAGTTCAAGTATCAAATTAGG
Found at i:23951686 original size:24 final size:26
Alignment explanation
Indices: 23951659--23951718 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
23951649 GTCATAATAT
23951659 TTTTATAAAT-ATTTT-AATTATTTA
1 TTTTATAAATCATTTTAAATTATTTA
23951683 TTTTAT-AATCATTTTAAATTATTTA
1 TTTTATAAATCATTTTAAATTATTTA
*
23951708 TTATAATAAAT
1 TT-TTATAAAT
23951719 TACTATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 11 0.35
25 11 0.35
26 3 0.10
27 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTATAAATCATTTTAAATTATTTA
Found at i:23952221 original size:21 final size:21
Alignment explanation
Indices: 23952197--23952243 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23952187 TAGCATAATT
*
23952197 TAAATATAAAGTTTAGAAATC
1 TAAATATAAAATTTAGAAATC
* *
23952218 TAAACATAAAATTTATAAATC
1 TAAATATAAAATTTAGAAATC
*
23952239 CAAAT
1 TAAAT
23952244 TATATAATCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAATATAAAATTTAGAAATC
Found at i:23952252 original size:14 final size:13
Alignment explanation
Indices: 23952230--23952262 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
23952220 AACATAAAAT
23952230 TTATAAATCCAAA
1 TTATAAATCCAAA
23952243 TTATATAATCCAAA
1 TTATA-AATCCAAA
23952257 -TATAAA
1 TTATAAA
23952263 ACTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 9 0.47
14 8 0.42
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (13 bp):
TTATAAATCCAAA
Found at i:23953179 original size:31 final size:31
Alignment explanation
Indices: 23953144--23953213 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
23953134 ATACATAAAT
*
23953144 TTTGATTT-AGTGT-AATTATACACAAAAAAAC
1 TTTGATTTCAGT-TAAAATATACAC-AAAAAAC
* *
23953175 TTTGATTTCAGTTAAAATATATACATAAAAC
1 TTTGATTTCAGTTAAAATATACACAAAAAAC
23953206 TTTGATTT
1 TTTGATTT
23953214 TGATTTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTGATTTCAGTTAAAATATACACAAAAAAC
Found at i:23953916 original size:21 final size:21
Alignment explanation
Indices: 23953881--23953934 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
23953871 ATAAAATTTA
*
23953881 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATTTAAA-TATAATT
*
23953903 TTTAAATATTTAAATATAATT
1 ATTAAATATTTAAATATAATT
23953924 ATTAAATATTT
1 ATTAAATATTT
23953935 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAAATATTTAAATATAATT
Found at i:23955505 original size:4 final size:4
Alignment explanation
Indices: 23955496--23955533 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
23955486 GTAGGATTAA
23955496 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
23955534 AAAGCATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:23955715 original size:14 final size:15
Alignment explanation
Indices: 23955696--23955730 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23955686 ATTTGAAACG
23955696 ACAATTAA-CCAAAA
1 ACAATTAACCCAAAA
*
23955710 ACAATTAACCCAGAA
1 ACAATTAACCCAAAA
23955725 ACAATT
1 ACAATT
23955731 TATAGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (15 bp):
ACAATTAACCCAAAA
Found at i:23956676 original size:29 final size:27
Alignment explanation
Indices: 23956628--23956686 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
23956618 AAGACTAAAG
* *
23956628 AAAAAGAAAGGAAATTATTTAATATTA
1 AAAAAGAAAGGAAATAATTTAAAATTA
*
23956655 AAAAAGAAGAAGGAGATAATTTAAAATTA
1 AAAAAG-A-AAGGAAATAATTTAAAATTA
23956684 AAA
1 AAA
23956687 TTACACTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 6 0.22
28 1 0.04
29 20 0.74
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.24
Consensus pattern (27 bp):
AAAAAGAAAGGAAATAATTTAAAATTA
Found at i:23956776 original size:33 final size:33
Alignment explanation
Indices: 23956727--23956791 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
23956717 TCTTGTTGAT
* *
23956727 TTTTTAATTTTAAATATTTTATATTTAATATTAC
1 TTTTTAATTCTAAATATTTCATATTT-ATATTAC
*
23956761 TTTTT-ATTCTAAATATTTCGTATTTATATTA
1 TTTTTAATTCTAAATATTTCATATTTATATTA
23956792 AAAACCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 17 0.61
34 5 0.18
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (33 bp):
TTTTTAATTCTAAATATTTCATATTTATATTAC
Found at i:23959274 original size:15 final size:17
Alignment explanation
Indices: 23959244--23959275 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23959234 AAAAAAATCT
23959244 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
23959261 TTTTAT-CA-TTATATA
1 TTTTATGCATTTATATA
23959276 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:23959419 original size:27 final size:28
Alignment explanation
Indices: 23959373--23959429 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
23959363 GAATGAATGG
*
23959373 AATAATTAGTTCTAATTATTA-AATATA
1 AATAATTAGTTCTAACTATTATAATATA
* *
23959400 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAACTATTATAATATA
23959428 AA
1 AA
23959430 AATAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAACTATTATAATATA
Found at i:23959433 original size:30 final size:27
Alignment explanation
Indices: 23959373--23959437 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
23959363 GAATGAATGG
* *
23959373 AATAATTAGTTCTAATTATTAAATATA
1 AATAATTAGTTCTAACTATTAAATAAA
*
23959400 AATAATTAGTTCTAGCTATTATACTATAAA
1 AATAATTAGTTCTAACTATTA-A--ATAAA
23959430 AATAATTA
1 AATAATTA
23959438 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 19 0.59
28 1 0.03
30 12 0.38
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (27 bp):
AATAATTAGTTCTAACTATTAAATAAA
Found at i:23960853 original size:22 final size:23
Alignment explanation
Indices: 23960827--23960874 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
23960817 AGGAAGGAAT
* *
23960827 AAAAGTTTTTGGG-AAAAAAGTA
1 AAAAGATTTGGGGTAAAAAAGTA
*
23960849 AAAAGATTTGGGGTAAAAATGTA
1 AAAAGATTTGGGGTAAAAAAGTA
23960872 AAA
1 AAA
23960875 TATTATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGATTTGGGGTAAAAAAGTA
Found at i:23964571 original size:18 final size:19
Alignment explanation
Indices: 23964548--23964584 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23964538 ATTTTTTTAA
23964548 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
23964566 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
23964585 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:23964585 original size:18 final size:19
Alignment explanation
Indices: 23964548--23964598 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
23964538 ATTTTTTTAA
*
23964548 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
23964566 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
23964584 TAAAAATTATTTTGA
1 TATAAA-TATTTTGA
23964599 GTTATTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:23970395 original size:31 final size:31
Alignment explanation
Indices: 23970357--23970420 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23970347 TTGGTCACCA
* *
23970357 AAATTTATAAGGTGAAAAAGATAAATTCATG
1 AAATTTATAAGGTAAAAAAGATAAAATCATG
*
23970388 AAATTTATAAGGTAAAAAAGCTAAAATCATG
1 AAATTTATAAGGTAAAAAAGATAAAATCATG
23970419 AA
1 AA
23970421 CTTTTTATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (31 bp):
AAATTTATAAGGTAAAAAAGATAAAATCATG
Found at i:23978299 original size:2 final size:2
Alignment explanation
Indices: 23978292--23978332 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
23978282 ATTATGTAAT
23978292 TA 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 TA T
23978333 TTGCATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23979525 original size:25 final size:26
Alignment explanation
Indices: 23979497--23979545 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
23979487 TTAAATATTG
23979497 TTTTTAGTTTC-CACTCAAACTCTGT
1 TTTTTAGTTTCACACTCAAACTCTGT
*
23979522 TTTTTAGTTTCACACTTAAACTCT
1 TTTTTAGTTTCACACTCAAACTCT
23979546 TATTAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.49
Consensus pattern (26 bp):
TTTTTAGTTTCACACTCAAACTCTGT
Found at i:23981171 original size:29 final size:29
Alignment explanation
Indices: 23981137--23981257 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 29
23981127 TCAAAAATGC
23981137 AATTTTTGGATGCCCGGGGGTAAAATGGT
1 AATTTTTGGATGCCCGGGGGTAAAATGGT
* ** *
23981166 AATTTTGGGATGATCGAGGGTAAAACT-GT
1 AATTTTTGGATGCCCGGGGGTAAAA-TGGT
** **
23981195 AATTTTTGGACACCCGGGGCAAAAATGGT
1 AATTTTTGGATGCCCGGGGGTAAAATGGT
** **
23981224 AATTTTTAAATGTTC--GGGTAAAATGGT
1 AATTTTTGGATGCCCGGGGGTAAAATGGT
23981251 AATTTTT
1 AATTTTT
23981258 TAGACATTCA
Statistics
Matches: 70, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
27 17 0.24
28 1 0.01
29 51 0.73
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (29 bp):
AATTTTTGGATGCCCGGGGGTAAAATGGT
Found at i:23981366 original size:30 final size:28
Alignment explanation
Indices: 23981154--23981485 Score: 138
Period size: 29 Copynumber: 11.3 Consensus size: 28
23981144 GGATGCCCGG
* * **
23981154 GGGTAAAATGGTAATTTTGGGATGATCGA
1 GGGTAAAATGGTAATTTTTGGA-AATTTA
* ****
23981183 GGGTAAAACT-GTAATTTTTGGACACCCG
1 GGGTAAAA-TGGTAATTTTTGGAAATTTA
* *
23981211 GGGCAAAAATGGTAATTTTT--AAATGTTC
1 GGG-TAAAATGGTAATTTTTGGAAAT-TTA
* * *
23981239 GGGTAAAATGGTAATTTTTTAGACATTCA
1 GGGTAAAATGGTAA-TTTTTGGAAATTTA
* *
23981268 GGGGCAAAATGGTAATTTTTGAAAAGTTTA
1 -GGGTAAAATGGTAATTTTTGGAAA-TTTA
* * **
23981298 GGGTCAAAAAT-GTAATTTTTAGATATTCGGG
1 GGGT--AAAATGGTAATTTTTGGAAATT--TA
23981329 GGGTAAAATGGTAATTTTTGGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
23981358 GGGTTAAAAATGG-AATTTTTTGGAAA-TTA
1 GGG-T-AAAATGGTAA-TTTTTGGAAATTTA
* *
23981387 GAAGGTAAAATGGTAATTTTCGGAAAGTTCGA
1 G--GGTAAAATGGTAATTTTTGGAAA-TT-TA
*** * * *
23981419 TATTAAAAATAG-AATTTTTGGAAGTTCGA
1 GGGT-AAAATGGTAATTTTTGGAAATT-TA
* *
23981448 GGGTAAAATGGTAATTTTTGAAGAATTTG
1 GGGTAAAATGGTAATTTTTGGA-AATTTA
23981477 GGGTCAAAA
1 GGGT-AAAA
23981486 ATAAAATTTT
Statistics
Matches: 229, Mismatches: 46, Indels: 55
0.69 0.14 0.17
Matches are distributed among these distances:
27 12 0.05
28 20 0.09
29 92 0.40
30 67 0.29
31 37 0.16
32 1 0.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGAAATTTA
Found at i:23981378 original size:31 final size:31
Alignment explanation
Indices: 23981273--23981617 Score: 153
Period size: 29 Copynumber: 11.6 Consensus size: 31
23981263 ATTCAGGGGC
* *
23981273 AAAATGGTAATTTTTGAAAAGTTTAGGGTCA
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
* * ** *
23981304 AAAAT-GTAATTTTTAGATA-TTCGGGGGGT-
1 AAAATGGTAATTTTTGGAAAGTT-TAGGGTTA
23981333 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
23981364 AAAATGG-AATTTTTTGGAAA--TTAGAAGG-T-
1 AAAATGGTAA-TTTTTGGAAAGTTTAG--GGTTA
* * **
23981393 AAAATGGTAATTTTCGGAAAG-TTCGATATTA
1 AAAATGGTAATTTTTGGAAAGTTTAG-GGTTA
* *
23981424 AAAATAG-AATTTTTGG-AAGTTCGAGGG-T-
1 AAAATGGTAATTTTTGGAAAGTT-TAGGGTTA
* * *
23981452 AAAATGGTAATTTTT-GAAGAATTTGGGGTCA
1 AAAATGGTAATTTTTGGAA-AGTTTAGGGTTA
** **
23981483 AAAAT-AAAATTTTT--AAAAATTATGGG-TA
1 AAAATGGTAATTTTTGGAAAGTTTA-GGGTTA
* * **
23981511 AAAAT-GTAATTTTT-GAAAGTTCAGAGACA
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
* * **
23981540 AAAAT-GTAATTTTTGTAAAGTTTGGGGGCA
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
* * * *
23981570 AAAAT-GTAATTATTAGAAAG-TTAGGGGTC
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
*
23981599 AAAAT-GTAATTTTTAGAAA
1 AAAATGGTAATTTTTGGAAA
23981618 ATTTGGGGGT
Statistics
Matches: 241, Mismatches: 51, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
28 26 0.11
29 92 0.38
30 85 0.35
31 38 0.16
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (31 bp):
AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
Found at i:23981572 original size:30 final size:29
Alignment explanation
Indices: 23981268--23981632 Score: 154
Period size: 30 Copynumber: 12.3 Consensus size: 29
23981258 TAGACATTCA
*
23981268 GGGGC-AAAATGGTAATTTTTGAAAAGTTTA
1 GGGGCAAAAAT-GTAATTTTTG-AAAGTTTG
* * *
23981298 GGGTCAAAAATGTAATTTTTAGATA-TTCG
1 GGGGCAAAAATGTAATTTTT-GAAAGTTTG
** *
23981327 GGGGGTAAAATGGTAATTTTTGGAAAGTTTA
1 GGGGCAAAAAT-GTAATTTTT-GAAAGTTTG
** * *
23981358 GGGTTAAAAATGGAATTTTTTGGAAA-TTAG
1 GGGGCAAAAATGTAA-TTTTT-GAAAGTTTG
** * * *
23981388 AAGG-TAAAATGGTAATTTTCGGAAAGTTCG
1 GGGGCAAAAAT-GTAATTTT-TGAAAGTTTG
***** * *
23981418 ATATTAAAAATAG-AATTTTTGGAAGTTCG
1 GGGGCAAAAAT-GTAATTTTTGAAAGTTTG
* * *
23981447 AGGG-TAAAATGGTAATTTTTGAAGAATTTG
1 GGGGCAAAAAT-GTAATTTTTGAA-AGTTTG
* ** * *
23981477 GGGTCAAAAATAAAATTTTTAAAAATTAT-
1 GGGGCAAAAATGTAATTTTTGAAAGTT-TG
* **
23981506 -GGGTAAAAATGTAATTTTTGAAAGTTCA
1 GGGGCAAAAATGTAATTTTTGAAAGTTTG
* *
23981534 GAGACAAAAATGTAATTTTTGTAAAGTTTG
1 GGGGCAAAAATGTAATTTTTG-AAAGTTTG
* *
23981564 GGGGCAAAAATGTAATTATTAGAAAGTTAG
1 GGGGCAAAAATGTAATT-TTTGAAAGTTTG
* *
23981594 GGGTC-AAAATGTAATTTTTAGAAAATTTG
1 GGGGCAAAAATGTAATTTTT-GAAAGTTTG
23981623 GGGGTCAAAA
1 GGGG-CAAAA
23981633 TATAATTCCT
Statistics
Matches: 249, Mismatches: 66, Indels: 39
0.70 0.19 0.11
Matches are distributed among these distances:
28 28 0.11
29 83 0.33
30 95 0.38
31 43 0.17
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTTTTGAAAGTTTG
Found at i:23981633 original size:30 final size:28
Alignment explanation
Indices: 23981216--23981639 Score: 148
Period size: 30 Copynumber: 14.4 Consensus size: 28
23981206 ACCCGGGGCA
*
23981216 AAAATGGTAATTTTT--AAATGTTCGGGT-
1 AAAAT-GTAATTTTTGAAAAT-TTGGGGTC
* * *
23981243 AAAATGGTAATTTTTTAGACATTCAGGGG-C
1 AAAAT-GTAATTTTTGA-AAATT-TGGGGTC
*
23981273 AAAATGGTAATTTTTGAAAAGTTTAGGGTC
1 AAAAT-GTAATTTTTGAAAA-TTTGGGGTC
* *
23981303 AAAAATGTAATTTTT-AGATATTCGGGGGGT-
1 -AAAATGTAATTTTTGA-AAATT--TGGGGTC
* * *
23981333 AAAATGGTAATTTTTGGAAAGTTTAGGGTTA
1 AAAAT-GTAATTTTT-GAAAATTT-GGGGTC
* * * *
23981364 AAAATGGAATTTTTTGGAAATTAGAAGGT-
1 AAAATGTAA-TTTTTGAAAATTTG-GGGTC
* * * *** *
23981393 AAAATGGTAATTTTCGGAAAGTTCGATATTA
1 AAAAT-GTAATTTT-TGAAAATTTG-GGGTC
* * *
23981424 AAAATAG-AATTTTTGGAAGTTCGAGGGT-
1 AAAAT-GTAATTTTTGAAAATTTG-GGGTC
23981452 AAAATGGTAATTTTTGAAGAATTTGGGGTC
1 AAAAT-GTAATTTTTGAA-AATTTGGGGTC
** * *
23981482 AAAAATAAAATTTTTAAAAATTAT-GGGTA
1 -AAAATGTAATTTTTGAAAATT-TGGGGTC
* ** * *
23981511 AAAATGTAATTTTTGAAAGTTCAGAGAC
1 AAAATGTAATTTTTGAAAATTTGGGGTC
* *
23981539 AAAAATGTAATTTTTGTAAAGTTTGGGGGC
1 -AAAATGTAATTTTTG-AAAATTTGGGGTC
* * *
23981569 AAAAATGTAATTATTAGAAAGTTAGGGGTC
1 -AAAATGTAATT-TTTGAAAATTTGGGGTC
23981599 AAAATGTAATTTTTAGAAAATTTGGGGGTC
1 AAAATGTAATTTTT-GAAAATTT-GGGGTC
*
23981629 AAAATATAATT
1 AAAATGTAATT
23981640 CCTAGATAGC
Statistics
Matches: 304, Mismatches: 61, Indels: 61
0.71 0.14 0.14
Matches are distributed among these distances:
27 15 0.05
28 27 0.09
29 87 0.29
30 138 0.45
31 36 0.12
32 1 0.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTTGAAAATTTGGGGTC
Found at i:23981633 original size:59 final size:60
Alignment explanation
Indices: 23981268--23981639 Score: 188
Period size: 59 Copynumber: 6.3 Consensus size: 60
23981258 TAGACATTCA
* * * *
23981268 GGGG-CAAAATGGTAATTTTTGAAAAGTTTA-GGGTCAAAAATGTAATTTTTAG-ATATTCGG
1 GGGGTCAAAAT-GTAATTTTAG-AAAGTTCAGGGGTCAAAAATGTAATTTTTAGAAAATT-TG
* * * * * * *
23981328 GGGGT-AAAATGGTAATTTTTGGAAAGTTTA-GGGTTAAAAATGGAATTTTTTGGAAATTAG
1 GGGGTCAAAAT-GTAA-TTTTAGAAAGTTCAGGGGTCAAAAATGTAATTTTTAGAAAATTTG
** * *** * * * *
23981388 AAGGT-AAAATGGTAATTTTCGGAAAGTTC-GATATTAAAAATAG-AATTTTT-GGAAGTTCG
1 GGGGTCAAAAT-GTAATTTT-AGAAAGTTCAGGGGTCAAAAAT-GTAATTTTTAGAAAATTTG
* * * * **
23981447 AGGGT-AAAATGGTAATTTTTGAAGAATT-TGGGGTCAAAAATAAAATTTTTA-AAAATTAT-
1 GGGGTCAAAAT-GTAATTTTAGAA-AGTTCAGGGGTCAAAAATGTAATTTTTAGAAAATT-TG
* * * * *
23981506 -GGGTAAAAATGTAATTTTTGAAAGTTCA-GAGACAAAAATGTAATTTTT-GTAAAGTTTG
1 GGGGTCAAAATGTAATTTTAGAAAGTTCAGGGGTCAAAAATGTAATTTTTAG-AAAATTTG
23981564 GGGG-CAAAAATGTAATTATTAGAAAGTT-AGGGGTC-AAAATGTAATTTTTAGAAAATTTG
1 GGGGTC-AAAATGTAATT-TTAGAAAGTTCAGGGGTCAAAAATGTAATTTTTAGAAAATTTG
*
23981623 GGGGTCAAAATATAATT
1 GGGGTCAAAATGTAATT
23981640 CCTAGATAGC
Statistics
Matches: 252, Mismatches: 38, Indels: 45
0.75 0.11 0.13
Matches are distributed among these distances:
57 20 0.08
58 24 0.10
59 106 0.42
60 92 0.37
61 10 0.04
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (60 bp):
GGGGTCAAAATGTAATTTTAGAAAGTTCAGGGGTCAAAAATGTAATTTTTAGAAAATTTG
Found at i:23982758 original size:3 final size:3
Alignment explanation
Indices: 23982750--23982824 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
23982740 CTTTTATTTC
* *
23982750 ATT ATT ATT ATT ATT AATGT ATTT ATT ATT ATT A-G ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT -AT-T A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
23982797 AAT ATT ATT AAT ATT AAT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
23982825 ATGATATTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
2 1 0.02
3 48 0.86
4 5 0.09
5 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:23982831 original size:15 final size:15
Alignment explanation
Indices: 23982755--23982840 Score: 54
Period size: 15 Copynumber: 5.9 Consensus size: 15
23982745 ATTTCATTAT
*
23982755 TATTATTATTAAT-G
1 TATTATTATTAATAA
*
23982769 TATTTATTATT-ATTA
1 TA-TTATTATTAATAA
* * *
23982784 GATTAATATTATTAA
1 TATTATTATTAATAA
* *
23982799 TATTATTAATATTAA
1 TATTATTATTAATAA
* *
23982814 TATTAATATTAATGA
1 TATTATTATTAATAA
23982829 TA-T-TTATTAATA
1 TATTATTATTAATA
23982841 CGTTTTGAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
13 7 0.13
14 12 0.22
15 36 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTATTATTAATAA
Found at i:23994684 original size:29 final size:29
Alignment explanation
Indices: 23994649--23994744 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
23994639 TTCTTGAAAA
23994649 TAATTTTTAGACATTCGGGGGTAAAATAG
1 TAATTTTTAGACATTCGGGGGTAAAATAG
* *
23994678 TAATTTTT-GAAAAGTT-TGGGGTCAAAA-ATG
1 TAATTTTTAG-ACA-TTCGGGGGT-AAAATA-G
* ** *
23994708 TAATTTTTAGACATCCGAAGGTAAAATGG
1 TAATTTTTAGACATTCGGGGGTAAAATAG
23994737 TAATTTTT
1 TAATTTTT
23994745 GGAAAGTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
28 1 0.02
29 30 0.58
30 20 0.38
31 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (29 bp):
TAATTTTTAGACATTCGGGGGTAAAATAG
Found at i:23994741 original size:59 final size:57
Alignment explanation
Indices: 23994649--23995009 Score: 290
Period size: 59 Copynumber: 6.2 Consensus size: 57
23994639 TTCTTGAAAA
** *
23994649 TAATTTTTAGACATTCGGGGGTAAAATAGTAATTTTTGAAAAGTTTGGGGTCAAAAATG
1 TAATTTTTAGA-ATTCGAAGGTAAAAT-GTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *
23994708 TAATTTTTAGACATCCGAAGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATG
1 TAATTTTTAGA-ATTCGAAGGTAAAAT-GTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * *
23994767 GAATTTTTCG-ATTCGAAGGTAAAATTGTAATTTTTGGAAAGTTTGAGGTCAAAAATAG
1 TAATTTTTAGAATTCGAAGGTAAAA-TGTAATTTTTGGAAAGTTTGGGGTCAAAAAT-G
** * * *
23994825 -AATTTTTTTTAAGTTTGAGGGTAAAATAGTAAATTTTAT-TAAA-TTTGGGGTCAAAAATG
1 TAA-TTTTTAGAA-TTCGAAGGTAAAAT-GT-AATTTT-TGGAAAGTTTGGGGTCAAAAATG
* * * *
23994884 GAA-TTTTGGAAATT-TAAGGGTAAAAATGTAATTTTT-AAAAGTTTGGGGGT-AAAAATG
1 TAATTTTTAG-AATTCGAA-GGT-AAAATGTAATTTTTGGAAAGTTT-GGGGTCAAAAATG
* * ** *
23994941 TAATTTTTATAAAGTTAGGGGGCAAAAATGTAATTTTTGGAAAGTTTGAGGGTC-AAAATG
1 TAATTTTTA-GAA-TTCGAAGG-TAAAATGTAATTTTTGGAAAGTTTG-GGGTCAAAAATG
23995001 TAATTTTTA
1 TAATTTTTA
23995010 AAAAAATTAG
Statistics
Matches: 250, Mismatches: 30, Indels: 43
0.77 0.09 0.13
Matches are distributed among these distances:
56 4 0.02
57 62 0.25
58 29 0.12
59 90 0.36
60 55 0.22
61 9 0.04
62 1 0.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (57 bp):
TAATTTTTAGAATTCGAAGGTAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
Found at i:23994830 original size:29 final size:30
Alignment explanation
Indices: 23994671--23995008 Score: 210
Period size: 30 Copynumber: 11.5 Consensus size: 30
23994661 ATTCGGGGGT
* *
23994671 AAAATAGTAATTTTTGAAAAGTTTGGGGTCA
1 AAAAT-GTAATTTTTGGAAAGTTTGAGGTCA
* * **
23994702 AAAATGTAATTTTTAGACA-TCCGAAGGT--
1 AAAATGTAATTTTTGGAAAGTTTG-AGGTCA
23994730 AAAATGGTAATTTTTGGAAAGTTT-AGGGTCA
1 AAAAT-GTAATTTTTGGAAAGTTTGA-GGTCA
* * *
23994761 AAAATGGAATTTTTCG--A-TTCGAAGGT-A
1 AAAATGTAATTTTTGGAAAGTTTG-AGGTCA
*
23994788 AAATTGTAATTTTTGGAAAGTTTGAGGTCA
1 AAAATGTAATTTTTGGAAAGTTTGAGGTCA
***
23994818 AAAATAG-AATTTTTTTTAAGTTTGAGGGT--
1 AAAAT-GTAATTTTTGGAAAGTTTGA-GGTCA
* *
23994847 AAAATAGTAAATTTTAT-TAAA-TTTGGGGTCA
1 AAAAT-GT-AATTTT-TGGAAAGTTTGAGGTCA
* *
23994878 AAAATGGAA-TTTTGGAAA-TTTAAGGGT-A
1 AAAATGTAATTTTTGGAAAGTTTGA-GGTCA
* *
23994906 AAAATGTAATTTTT-AAAAGTTTGGGGGT-A
1 AAAATGTAATTTTTGGAAAGTTT-GAGGTCA
** * * *
23994935 AAAATGTAATTTTTATAAAGTTAGGGGGCA
1 AAAATGTAATTTTTGGAAAGTTTGAGGTCA
23994965 AAAATGTAATTTTTGGAAAGTTTGAGGGTC-
1 AAAATGTAATTTTTGGAAAGTTTGA-GGTCA
23994995 AAAATGTAATTTTT
1 AAAATGTAATTTTT
23995009 AAAAAAATTA
Statistics
Matches: 241, Mismatches: 39, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
27 17 0.07
28 31 0.13
29 67 0.28
30 94 0.39
31 31 0.13
32 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTGAGGTCA
Found at i:23994956 original size:117 final size:118
Alignment explanation
Indices: 23994667--23995008 Score: 339
Period size: 117 Copynumber: 2.9 Consensus size: 118
23994657 AGACATTCGG
* * *
23994667 GGGT-AAAATAGTAATTTTTGAAAAGTTTGGGGTCAAAAATGTAATTTTTAGACA-TCCGAAGGT
1 GGGTAAAAAT-GTAATTTTTGAAAAGTTTGGGGTCAAAAATGTAATTTTTATAAAGTTCGAAGGT
*
23994730 AAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGAATTTTTCGATTCGAA
65 AAAATAGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGAATTTTTCGATTCGAA
* * * * * * *
23994784 -GGTAAAATTGTAATTTTTGGAAAGTTTGAGGTCAAAAATAG-AATTTTTTTTAAGTTTGAGGGT
1 GGGTAAAAATGTAATTTTTGAAAAGTTTGGGGTCAAAAAT-GTAATTTTTATAAAGTTCGAAGGT
* * * *
23994847 AAAATAGTAAATTTTAT-TAAA-TTTGGGGTCAAAAATGGAA-TTTTGGAAATT-TAA
65 AAAATAGT-AATTTT-TGGAAAGTTTAGGGTCAAAAATGGAATTTTTCG--ATTCGAA
* ** *
23994901 GGGTAAAAATGTAATTTTT-AAAAGTTTGGGGGT-AAAAATGTAATTTTTATAAAGTTAGGGGGC
1 GGGTAAAAATGTAATTTTTGAAAAGTTT-GGGGTCAAAAATGTAATTTTTATAAAGTTCGAAGGT
*
23994964 AAAA-ATGTAATTTTTGGAAAGTTTGAGGGTC-AAAATGTAATTTTT
65 AAAATA-GTAATTTTTGGAAAGTTT-AGGGTCAAAAATGGAATTTTT
23995009 AAAAAAATTA
Statistics
Matches: 184, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
115 1 0.01
116 55 0.30
117 85 0.46
118 42 0.23
119 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (118 bp):
GGGTAAAAATGTAATTTTTGAAAAGTTTGGGGTCAAAAATGTAATTTTTATAAAGTTCGAAGGTA
AAATAGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGAATTTTTCGATTCGAA
Found at i:23995029 original size:30 final size:29
Alignment explanation
Indices: 23994901--23995039 Score: 136
Period size: 30 Copynumber: 4.7 Consensus size: 29
23994891 GGAAATTTAA
* *
23994901 GGGTAAAAATGTAATTTTT-AAAAGTTTGG
1 GGGTCAAAATGTAATTTTTAAAAAG-TTAG
* *
23994930 GGGTAAAAATGTAATTTTTATAAAGTTAG
1 GGGTCAAAATGTAATTTTTAAAAAGTTAG
* ** *
23994959 GGGGCAAAAATGTAATTTTTGGAAAGTTTG
1 GGGTC-AAAATGTAATTTTTAAAAAGTTAG
*
23994989 AGGGTCAAAATGTAATTTTTAAAAAAATTAG
1 -GGGTCAAAATGTAATTTTT-AAAAAGTTAG
* *
23995020 GGGTCAAAATATGATTTTTA
1 GGGTCAAAATGTAATTTTTA
23995040 GACAGCTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 26 0.28
30 56 0.61
31 10 0.11
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTTAAAAAGTTAG
Found at i:23996162 original size:3 final size:3
Alignment explanation
Indices: 23996154--23996234 Score: 74
Period size: 3 Copynumber: 26.3 Consensus size: 3
23996144 TTTTTATTTC
* *
23996154 ATT ATT ATT ATT ATT AATGT ATTT ATT ATT ATT ATT ATT A-G ATT AAT
1 ATT ATT ATT ATT ATT -AT-T A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
23996201 ATT ATT AAT ATT ATT ATA ATT AAT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
23996235 ATGATATTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
2 1 0.02
3 54 0.87
4 5 0.08
5 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:23996241 original size:15 final size:15
Alignment explanation
Indices: 23996195--23996250 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
23996185 TTATTATTAG
*
23996195 ATTAATATTATTAAT
1 ATTAATATTAATAAT
*
23996210 ATTATTA-TAATTAAT
1 ATTAATATTAA-TAAT
*
23996225 ATTAATATTAATGAT
1 ATTAATATTAATAAT
23996240 ATT--TATTAATA
1 ATTAATATTAATA
23996251 CGTTTTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 7 0.21
14 2 0.06
15 22 0.65
16 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTAATATTAATAAT
Found at i:23996938 original size:11 final size:10
Alignment explanation
Indices: 23996902--23996994 Score: 68
Period size: 11 Copynumber: 8.9 Consensus size: 10
23996892 TGGATTTTTT
23996902 AATTTAAATA
1 AATTTAAATA
23996912 AATTTAAACTTA
1 AATTTAAA--TA
23996924 AATTTATAATA
1 AATTTA-AATA
23996935 AATTTAAAT-
1 AATTTAAATA
*
23996944 --TTCAAATA
1 AATTTAAATA
23996952 AATTTAAACCTA
1 AATTTAAA--TA
*
23996964 AA-ATAAATTTA
1 AATTTAAA--TA
23996975 AATTTAAAATA
1 AATTT-AAATA
23996986 AATTTAAAT
1 AATTTAAAT
23996995 TTTGTTGGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
7 6 0.09
10 20 0.30
11 23 0.34
12 13 0.19
13 5 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTAAATA
Found at i:23996941 original size:17 final size:17
Alignment explanation
Indices: 23996916--23996996 Score: 117
Period size: 17 Copynumber: 4.8 Consensus size: 17
23996906 TAAATAAATT
* *
23996916 TAAACTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
23996933 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTAAAA
**
23996950 TAAATTTAAACCTAAAA
1 TAAATTTAAATTTAAAA
23996967 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
23996984 TAAATTTAAATTT
1 TAAATTTAAATTT
23996997 TGTTGGGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 56 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:23996942 original size:6 final size:6
Alignment explanation
Indices: 23996902--23996996 Score: 71
Period size: 6 Copynumber: 16.8 Consensus size: 6
23996892 TGGATTTTTT
*
23996902 AATTTA AA--TA AATTTA AACTTA AATTTA TAA--TA AATTTA AATTTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A
** * *
23996948 AA--TA AATTTA AACCTA AA-ATA AATTTA AATTTA AA-ATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
23996992 AATTT
1 AATTT
23996997 TGTTGGGCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.13
5 11 0.15
6 46 0.65
7 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:24004442 original size:140 final size:140
Alignment explanation
Indices: 24004190--24004498 Score: 600
Period size: 140 Copynumber: 2.2 Consensus size: 140
24004180 CGTTAGTAAC
* *
24004190 TGTTTTGTCATATTTTCAAAGTTGAGTGATTGTGTGTTAAGTGTAACTGGTCAGTTGGACGTTTT
1 TGTTTTGTTACATTTTCAAAGTTGAGTGATTGTGTGTTAAGTGTAACTGGTCAGTTGGACGTTTT
24004255 CCGCACTCCATCGACACCGTCAACTGCAATGTCACTGTTCCGTGACGTCTGTGACGGAAAACGTG
66 CCGCACTCCATCGACACCGTCAACTGCAATGTCACTGTTCCGTGACGTCTGTGACGGAAAACGTG
24004320 AAAAAATGAT
131 AAAAAATGAT
24004330 TGTTTTGTTACATTTTCAAAGTTGAGTGATTGTGTGTTAAGTGTAACTGGTCAGTTGGACGTTTT
1 TGTTTTGTTACATTTTCAAAGTTGAGTGATTGTGTGTTAAGTGTAACTGGTCAGTTGGACGTTTT
24004395 CCGCACTCCATCGACACCGTCAACTGCAATGTCACTGTTCCGTGACGTCTGTGACGGAAAACGTG
66 CCGCACTCCATCGACACCGTCAACTGCAATGTCACTGTTCCGTGACGTCTGTGACGGAAAACGTG
24004460 AAAAAATGAT
131 AAAAAATGAT
24004470 TGTTTTGTTACATTTTCAAAGTTGAGTGA
1 TGTTTTGTTACATTTTCAAAGTTGAGTGA
24004499 CTGAAATGTA
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 167 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (140 bp):
TGTTTTGTTACATTTTCAAAGTTGAGTGATTGTGTGTTAAGTGTAACTGGTCAGTTGGACGTTTT
CCGCACTCCATCGACACCGTCAACTGCAATGTCACTGTTCCGTGACGTCTGTGACGGAAAACGTG
AAAAAATGAT
Found at i:24010166 original size:14 final size:14
Alignment explanation
Indices: 24010147--24010173 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24010137 ACGGCTTAAG
24010147 AAAAAAAAATGGAA
1 AAAAAAAAATGGAA
24010161 AAAAAAAAATGGA
1 AAAAAAAAATGGA
24010174 CACAGATTCA
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:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATGGAA
Found at i:24017580 original size:29 final size:30
Alignment explanation
Indices: 24017548--24017606 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
24017538 TATGAATTAA
24017548 TGTGCAATTAT-ATACATG-AACTTTGATTT
1 TGTGCAATT-TCATACATGAAACTTTGATTT
* *
24017577 TGTGTAATTTCATACATGAAATTTTGATTT
1 TGTGCAATTTCATACATGAAACTTTGATTT
24017607 GATTCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.58
30 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTTCATACATGAAACTTTGATTT
Found at i:24018961 original size:37 final size:34
Alignment explanation
Indices: 24018905--24019005 Score: 123
Period size: 33 Copynumber: 2.9 Consensus size: 34
24018895 CTATTTGAAC
*
24018905 AAAATGTAACCCTCAATATTTTAACAAAATTAATTTTT
1 AAAAT-TAACCCTCAATATTTTAACAAAATT-A--TAT
** *
24018943 TGAATTAACCCTCAATATTTTAATAAAA-TATAT
1 AAAATTAACCCTCAATATTTTAACAAAATTATAT
24018976 AAAATTAACCCTCAATATTTTAACAAAATT
1 AAAATTAACCCTCAATATTTTAACAAAATT
24019006 TTTTAGGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 27 0.49
34 1 0.02
35 1 0.02
36 1 0.02
37 22 0.40
38 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (34 bp):
AAAATTAACCCTCAATATTTTAACAAAATTATAT
Found at i:24019525 original size:8 final size:8
Alignment explanation
Indices: 24019512--24019537 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24019502 TGAATGGGGA
24019512 AAGAGATG
1 AAGAGATG
24019520 AAGAGATG
1 AAGAGATG
24019528 AAGAGATG
1 AAGAGATG
24019536 AA
1 AA
24019538 TATTGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (8 bp):
AAGAGATG
Found at i:24019981 original size:25 final size:25
Alignment explanation
Indices: 24019953--24020009 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
24019943 CCTTTTATAA
*
24019953 TAAATTAT-ATATATTTTGAAGTTCT
1 TAAATTATAAAAT-TTTTGAAGTTCT
*
24019978 TAAAATTATAAAATTTTTGAATTTCT
1 T-AAATTATAAAATTTTTGAAGTTCT
*
24020004 TGAATT
1 TAAATT
24020010 TGAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 19 0.70
27 3 0.11
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (25 bp):
TAAATTATAAAATTTTTGAAGTTCT
Found at i:24025238 original size:24 final size:24
Alignment explanation
Indices: 24025206--24025275 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
24025196 AGTTATTCTG
*
24025206 ATTCTGGGCTCGTAAGAGCTAGCC
1 ATTCTGGGCTCGTAAGAGCTAACC
24025230 ATTCTGGGCTCGTAAGAGCTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
* *
24025254 -TATCTGGGCTAGTATGAGCTAA
1 AT-TCTGGGCTCGTAAGAGCTAA
24025276 TTTTGTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (24 bp):
ATTCTGGGCTCGTAAGAGCTAACC
Found at i:24025911 original size:21 final size:21
Alignment explanation
Indices: 24025887--24025932 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
24025877 CTCATAGAAC
* *
24025887 TATCGGTTATTTGTGAACTTG
1 TATCGATTATTTATGAACTTG
*
24025908 TATCGATTGTTTATGAACTTG
1 TATCGATTATTTATGAACTTG
24025929 TATC
1 TATC
24025933 AGTAGAAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.48
Consensus pattern (21 bp):
TATCGATTATTTATGAACTTG
Found at i:24036508 original size:24 final size:24
Alignment explanation
Indices: 24036481--24036537 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
24036471 TTAAACTCTG
*
24036481 TCTGGGCTTGTAAGAGCTACTCAT
1 TCTGGGCTTGTAAGAGCTAATCAT
*
24036505 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTTGTAAGAGCTAATCAT
24036529 TCTGGGCTT
1 TCTGGGCTT
24036538 ATGTTGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (24 bp):
TCTGGGCTTGTAAGAGCTAATCAT
Found at i:24037983 original size:41 final size:41
Alignment explanation
Indices: 24037893--24038744 Score: 712
Period size: 41 Copynumber: 21.2 Consensus size: 41
24037883 AAACATGATA
* * * *
24037893 GGGCAGATTGAAGCCAT--CAAATTTCTTACCCCGATCATA
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
*
24037932 GGGCAGATTGAAGACATCGCCAATCTCTTACCTCGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * ** *** *
24037973 GGGAAAATTGAATCCA--AAAAATCTCTTACCCCAATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* *
24038012 GGGCAGATTGAAGACATCGCCAATCTCTTACCCTGATCATA
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* **
24038053 GGGTAGATTGAAGACATCGCCAATCTCTTACGTCGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* *
24038094 GGGCAAATTGAAGGCATCGCCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * * *
24038135 GGGCAGACTGAAGCCAT--CAAATCTCTTACCCCAATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
*
24038174 GGACAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
** * * *
24038215 GAACAGATTAAAGACATCGCCAATCTATTACCCTGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* *
24038256 GGGCAGATTAAAGACATCGCCAATCTCTTACCCCGATTATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * * *
24038297 TGGCAGATTGAAGCCAT--CAAATCTCTTACCCCGATCATA
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * ** **
24038336 AGGCAGATTGAAGATATTACCAATCTCTTATGCCGATCATGG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCAT-G
* * *
24038378 GGGCATATTGAAGACATCGCCAATCTCTTACCCAGATCATA
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * *
24038419 GGGCAGATTGAAAGTCATTCG---ATCTTTTACCTCGATCATG
1 GGGCAGATTG-AAGACA-TCGCCAATCTCTTACCCCGATCATG
* * * *
24038459 AGGCAGATCGTAGCCAT--CCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * *
24038498 AGGCAGATTAAAAACCAT--CCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGA-CATCGCCAATCTCTTACCCCGATCATG
* *** * *
24038538 GGACAGATCCTAGCCAT--CCAATCTCTTACCCTGATCATG
1 GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
* * * *
24038577 GGGCAGATT-AA-AAATCATCCGATCTCTTACCCCGATTATG
1 GGGCAGATTGAAGACATC-GCCAATCTCTTACCCCGATCATG
* ** * * * * *
24038617 AGATAGATTAAAAACCAT--CCGATCTCTTACCCCGATTATC
1 GGGCAGATTGAAGA-CATCGCCAATCTCTTACCCCGATCATG
* * *
24038657 GAGCAGATTAAAAACCATCTG---ATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGA-CATC-GCCAATCTCTTACCCCGATCATG
* * * *
24038697 GGACAGATTAAAAACCAT--CCGATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGA-CATCGCCAATCTCTTACCCCGATCATG
*
24038737 AGGCAGAT
1 GGGCAGAT
24038745 CGCAACCATA
Statistics
Matches: 663, Mismatches: 123, Indels: 53
0.79 0.15 0.06
Matches are distributed among these distances:
37 2 0.00
38 2 0.00
39 174 0.26
40 173 0.26
41 269 0.41
42 38 0.06
43 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (41 bp):
GGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATG
Found at i:24038158 original size:121 final size:121
Alignment explanation
Indices: 24037893--24038744 Score: 722
Period size: 121 Copynumber: 7.1 Consensus size: 121
24037883 AAACATGATA
* * *
24037893 GGGCAGATTGAAGCCAT-CAAATTTCTTACCCCGATCATAGGGCAGATTGAAGACATCGCCAATC
1 GGGCAGATTGAAGACATCCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACATCGCCAATC
* * ** ** *
24037957 TCTTACCTCGATCATGGGGAAAATTGAATCCA-AAAAATCTCTTACCCCAATCATG
66 TCTTACCTCGATCATGGGGCAGATTGAAGACATACCAATCTCTTACCCCGATCATG
* *
24038012 GGGCAGATTGAAGACATCGCCAATCTCTTACCCTGATCATAGGGTAGATTGAAGACATCGCCAAT
1 GGGCAGATTGAAGACATC-CCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACATCGCCAAT
* * * *
24038077 CTCTTACGTCGATCATGGGGCAAATTGAAGGCATCGCCAATCTCTTACCCCGATCATG
65 CTCTTACCTCGATCATGGGGCAGATTGAAGACAT-ACCAATCTCTTACCCCGATCATG
* * * *
24038135 GGGCAGACTGAAGCCAT-CAAATCTCTTACCCCAATCAT-GGGACAGATTGAAGACATCGCCAAT
1 GGGCAGATTGAAGACATCCCAATCTCTTACCCCGATCATAGGG-CAGATTGAAGACATCGCCAAT
* ** * * * *
24038198 CTCTTACCCCGATCATGGAACAGATTAAAGACATCGCCAATCTATTACCCTGATCATG
65 CTCTTACCTCGATCATGGGGCAGATTGAAGACAT-ACCAATCTCTTACCCCGATCATG
* * * *
24038256 GGGCAGATTAAAGACATCGCCAATCTCTTACCCCGATTAT-GTGGCAGATTGAAGCCAT--CAAA
1 GGGCAGATTGAAGACATC-CCAATCTCTTACCCCGATCATAG-GGCAGATTGAAGACATCGCCAA
* ** * **
24038318 TCTCTTACCCCGATCATAAGGCAGATTGAAGATATTACCAATCTCTTATGCCGATCATGG
64 TCTCTTACCTCGATCATGGGGCAGATTGAAGACA-TACCAATCTCTTACCCCGATCAT-G
* * *
24038378 GGGCATATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAAGTCATTCG---
1 GGGCAGATTGAAGACATC-CCAATCTCTTACCCCGATCATAGGGCAGATTG-AAGACA-TCGCCA
* * * * *
24038440 ATCTTTTACCTCGATCATGAGGCAGATCGTAGCCAT-CCAATCTCTTACCCCGATCATG
63 ATCTCTTACCTCGATCATGGGGCAGATTGAAGACATACCAATCTCTTACCCCGATCATG
* * * *** *
24038498 AGGCAGATTAAAAACCAT-CCAATCTCTTACCCCGATCAT-GGGACAGATCCTAGCCAT--CCAA
1 GGGCAGATTGAAGA-CATCCCAATCTCTTACCCCGATCATAGGG-CAGATTGAAGACATCGCCAA
* * * *
24038559 TCTCTTACC-CTGATCATGGGGCAGATTAAAAATCAT-CCGATCTCTTACCCCGATTATG
64 TCTCTTACCTC-GATCATGGGGCAGATTGAAGA-CATACCAATCTCTTACCCCGATCATG
* ** * * * * * * * *
24038617 AGATAGATTAAAAACCAT-CCGATCTCTTACCCCGATTATCGAGCAGATTAAAAACCATCTG---
1 GGGCAGATTGAAGA-CATCCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-CATC-GCCA
* * * * *
24038678 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCAT-CCGATCTCTTACCCCGATCATG
63 ATCTCTTACCTCGATCATGGGGCAGATTGAAGA-CATACCAATCTCTTACCCCGATCATG
*
24038737 AGGCAGAT
1 GGGCAGAT
24038745 CGCAACCATA
Statistics
Matches: 611, Mismatches: 94, Indels: 55
0.80 0.12 0.07
Matches are distributed among these distances:
117 2 0.00
118 31 0.05
119 105 0.17
120 79 0.13
121 243 0.40
122 48 0.08
123 100 0.16
124 3 0.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (121 bp):
GGGCAGATTGAAGACATCCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACATCGCCAATC
TCTTACCTCGATCATGGGGCAGATTGAAGACATACCAATCTCTTACCCCGATCATG
Found at i:24038191 original size:162 final size:161
Alignment explanation
Indices: 24037890--24038612 Score: 763
Period size: 162 Copynumber: 4.5 Consensus size: 161
24037880 TAGAAACATG
* * * *
24037890 ATAGGGCAGATTGAAGCCAT--CAAATTTCTTACCCCGATCATAGGGCAGATTGAAGACATCGCC
1 ATAGGGCAGATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAGACATCGCC
* * * * **
24037953 AATCTCTTACCTCGATCATGGGGAAAATTGAATCCAAAAAATCTCTTACCCCAATCATGGGGCAG
66 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCAAATCTCTTACCCCAATCAT-GGGCAG
*
24038018 ATTGAAGACATCGCCAATCTCTTACCCTGATC
130 ATTGAAGACATCGCCAATCTCTTACCCCGATC
* * * * *
24038050 ATAGGGTAGATTGAAGACATCGCCAATCTCTTACGTC-GATCATGGGGCAAATTGAAGGCATCGC
1 ATAGGGCAGATTGAAGACATCGCCAATCTCTTAC-CCAGATCATAGGGCAGATTGAAGACATCGC
*
24038114 CAATCTCTTACCCCGATCATGGGGCAGACTGAAGCCATCAAATCTCTTACCCCAATCATGGGACA
65 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCAAATCTCTTACCCCAATCATGGG-CA
24038179 GATTGAAGACATCGCCAATCTCTTACCCCGATC
129 GATTGAAGACATCGCCAATCTCTTACCCCGATC
* * * * * *
24038212 AT-GGAACAGATTAAAGACATCGCCAATCTATTACCCTGATCATGGGGCAGATTAAAGACATCGC
1 ATAGG-GCAGATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAGACATCGC
* * * *
24038276 CAATCTCTTACCCCGATTATGTGGCAGATTGAAGCCATCAAATCTCTTACCCCGATCATAAGGCA
65 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCAAATCTCTTACCCCAATCAT-GGGCA
* ** **
24038341 GATTGAAGATATTACCAATCTCTTATGCCGATC
129 GATTGAAGACATCGCCAATCTCTTACCCCGATC
* * *
24038374 ATGGGGGCATATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAAGTCATTC
1 AT-AGGGCAGATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTG-AAGACA-TC
* * * * * * *
24038439 G---ATCTTTTACCTCGATCATGAGGCAGATCGTAGCCATCCAATCTCTTACCCCGATCATGAGG
63 GCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCAAATCTCTTACCCCAATCATG-GG
* *
24038501 CAGATTAAAAACCAT--CCAATCTCTTACCCCGATC
127 CAGATTGAAGA-CATCGCCAATCTCTTACCCCGATC
*** * * * * *
24038535 AT-GGGACAGATCCTAGCCAT--CCAATCTCTTACCCTGATCATGGGGCAGATT-AA-AAATCAT
1 ATAGGG-CAGATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAGACATC-G
*
24038595 CCGATCTCTTACCCCGAT
64 CCAATCTCTTACCCCGAT
24038613 TATGAGATAG
Statistics
Matches: 478, Mismatches: 67, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
154 2 0.00
155 1 0.00
156 2 0.00
158 42 0.09
159 3 0.01
160 27 0.06
161 25 0.05
162 319 0.67
163 47 0.10
164 7 0.01
165 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (161 bp):
ATAGGGCAGATTGAAGACATCGCCAATCTCTTACCCAGATCATAGGGCAGATTGAAGACATCGCC
AATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCAAATCTCTTACCCCAATCATGGGCAGA
TTGAAGACATCGCCAATCTCTTACCCCGATC
Found at i:24038669 original size:80 final size:79
Alignment explanation
Indices: 24038116--24038780 Score: 463
Period size: 80 Copynumber: 8.3 Consensus size: 79
24038106 GGCATCGCCA
* * * * * * *
24038116 ATCTCTTACCCCGATCATGGGGCAGACT-GAAGCCATCAAATCTCTTACCCCAATCATGGGACAG
1 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCAATCTCTTACCCCGATCATGAG-CAG
* * *
24038180 ATTGAAGA-CATCGCCA
65 ATTAAAAACCAT--CCG
* * * * *
24038196 ATCTCTTACCCCGATCATGGAACAGATTAAAGA-CATCGCCAATCTATTACCCTGATCATGGGGC
1 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCAT--CCAATCTCTTACCCCGATCAT-GAGC
* *
24038260 AGATTAAAGA-CATCGCCA
63 AGATTAAAAACCAT--CCG
* * * * *
24038278 ATCTCTTACCCCGATTATGTGG-CAGATT-GAAGCCATCAAATCTCTTACCCCGATCATAAGGCA
1 ATCTCTTACCCCGATCATG-GGACAGATTAAAAACCATCCAATCTCTTACCCCGATCATGA-GCA
* * * *
24038341 GATTGAAGA-TATTACCA
64 GATTAAAAACCA-T-CCG
** * * * * * *
24038358 ATCTCTTATGCCGATCATGGGGGCATATTGAAGA-CATCGCCAATCTCTTACCCAGATCATAGGG
1 ATCTCTTACCCCGATCAT-GGGACAGATTAAAAACCAT--CCAATCTCTTACCCCGATCAT-GAG
* ** *
24038422 CAGATTGAAAGTCATTCG
62 CAGATTAAAAACCATCCG
* * *** *
24038440 ATCTTTTACCTCGATCATGAGG-CAGA-TCGTAGCCATCCAATCTCTTACCCCGATCATGAGGCA
1 ATCTCTTACCCCGATCATG-GGACAGATTAAAAACCATCCAATCTCTTACCCCGATCATGA-GCA
*
24038503 GATTAAAAACCATCCA
64 GATTAAAAACCATCCG
*** * * *
24038519 ATCTCTTACCCCGATCATGGGACAGA-TCCTAGCCATCCAATCTCTTACCCTGATCATGGGGCAG
1 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCAATCTCTTACCCCGATCAT-GAGCAG
*
24038583 ATTAAAAATCATCCG
65 ATTAAAAACCATCCG
* * * * *
24038598 ATCTCTTACCCCGATTATGAGATAGATTAAAAACCATCCGATCTCTTACCCCGATTATCGAGCAG
1 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCAATCTCTTACCCCGATCAT-GAGCAG
*
24038663 ATTAAAAACCATCTG
65 ATTAAAAACCATCCG
*
24038678 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCGATCTCTTACCCCGATCATGAGGCAG
1 ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCAATCTCTTACCCCGATCATGA-GCAG
*** ***
24038743 A-TCGCAACCATATA
65 ATTAAAAACCATCCG
*
24038757 ATCTTTTACCCCGATCATGGGACA
1 ATCTCTTACCCCGATCATGGGACA
24038781 AATTGAAACC
Statistics
Matches: 475, Mismatches: 88, Indels: 45
0.78 0.14 0.07
Matches are distributed among these distances:
78 3 0.01
79 157 0.33
80 181 0.38
81 19 0.04
82 80 0.17
83 34 0.07
84 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (79 bp):
ATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCAATCTCTTACCCCGATCATGAGCAGA
TTAAAAACCATCCG
Found at i:24045864 original size:18 final size:18
Alignment explanation
Indices: 24045838--24045883 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
24045828 TTTCAAAAAA
*
24045838 TATACTAAATTTAA-ATTT
1 TATATTAAATTTAATA-TT
*
24045856 TATATTAAAATTAATATT
1 TATATTAAATTTAATATT
24045874 TATATTAAAT
1 TATATTAAAT
24045884 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATTAAATTTAATATT
Found at i:24045889 original size:18 final size:18
Alignment explanation
Indices: 24045849--24045886 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24045839 ATACTAAATT
24045849 TAAAT-TTTATATTAAAA
1 TAAATATTTATATTAAAA
*
24045866 TTAATATTTATATT-AAA
1 TAAATATTTATATTAAAA
24045883 TAAA
1 TAAA
24045887 ATAAAAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATATTTATATTAAAA
Found at i:24047686 original size:24 final size:24
Alignment explanation
Indices: 24047648--24047704 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
24047638 ATATAGTGGT
*
24047648 TAACCATTCTGGGCTCGTAAGAAC
1 TAACCATTCTAGGCTCGTAAGAAC
* *
24047672 TAATCATTCTAGGCTCGTAAGAGC
1 TAACCATTCTAGGCTCGTAAGAAC
24047696 TAACCATTC
1 TAACCATTC
24047705 CGGACTCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (24 bp):
TAACCATTCTAGGCTCGTAAGAAC
Found at i:24047712 original size:24 final size:23
Alignment explanation
Indices: 24047648--24047722 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 23
24047638 ATATAGTGGT
* *
24047648 TAACCATTCTGGGCTCGTAAGAAC
1 TAACCATTC-AGGCTCGTAAGAGC
*
24047672 TAATCATTCTAGGCTCGTAAGAGC
1 TAACCATTC-AGGCTCGTAAGAGC
* *
24047696 TAACCATTCCGGACTCGTGAGAGC
1 TAACCATTCAGG-CTCGTAAGAGC
24047720 TAA
1 TAA
24047723 TCTGATCTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (23 bp):
TAACCATTCAGGCTCGTAAGAGC
Found at i:24049242 original size:14 final size:16
Alignment explanation
Indices: 24049222--24049261 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
24049212 TAATTCTTTA
24049222 AAAATTATAAAAT-AT
1 AAAATTATAAAATGAT
24049237 -AAATTATTAAAATGAT
1 AAAATTA-TAAAATGAT
24049253 AAAATTATA
1 AAAATTATA
24049262 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 4 0.18
17 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAATTATAAAATGAT
Found at i:24049456 original size:6 final size:6
Alignment explanation
Indices: 24049447--24049480 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
24049437 TTTATTTTAT
*
24049447 TTAATA TTAATA TTAATA TTAATA TTAATT TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
24049481 ATTTATTTTT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAATA
Found at i:24049626 original size:50 final size:52
Alignment explanation
Indices: 24049524--24049626 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 52
24049514 ATATTTTTTT
* * *
24049524 ATTTATTTAAAATTAGGATCAAATTGAAATTATATGTAAATATAGAAAGTTA
1 ATTTATTTAAAATTAGGATCAAATTGAAATAATATATAAAAATAGAAAGTTA
* * * * *
24049576 ATTT-TTT-AAATTATGATTAAATTGATATAATATATAAAAATTGAATGTTA
1 ATTTATTTAAAATTAGGATCAAATTGAAATAATATATAAAAATAGAAAGTTA
24049626 A
1 A
24049627 ATTTGTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 36 0.84
51 3 0.07
52 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.42
Consensus pattern (52 bp):
ATTTATTTAAAATTAGGATCAAATTGAAATAATATATAAAAATAGAAAGTTA
Found at i:24059078 original size:23 final size:23
Alignment explanation
Indices: 24059027--24059079 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
24059017 TTAGTAAGGT
* *
24059027 AGCAAAAACAGTAAACTCACAAC
1 AGCAAAAACAGTAAACTAAAAAC
*
24059050 AGCAAAAACAGTAGA-TAAAAAC
1 AGCAAAAACAGTAAACTAAAAAC
24059072 AGACAAAA
1 AG-CAAAA
24059080 CAATGAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.62, C:0.19, G:0.11, T:0.08
Consensus pattern (23 bp):
AGCAAAAACAGTAAACTAAAAAC
Found at i:24059266 original size:17 final size:17
Alignment explanation
Indices: 24059244--24059283 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24059234 TTGGACAAAT
*
24059244 AATAAATAAATAAAT-AA
1 AATAAAGAAA-AAATAAA
24059261 AATAAAGAAAAAATAAA
1 AATAAAGAAAAAATAAA
24059278 AATAAA
1 AATAAA
24059284 AATAATTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AATAAAGAAAAAATAAA
Found at i:24062048 original size:22 final size:23
Alignment explanation
Indices: 24062005--24062065 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
24061995 CGATTTGAGG
*
24062005 AAAA-ATAAAAG-AAACAGAATT
1 AAAAGATAAAAGAAAATAGAATT
24062026 -AAAGATAAAAGAAAATAGAATT
1 AAAAGATAAAAGAAAATAGAATT
*
24062048 AAAAGA-AATAGAAAATAG
1 AAAAGATAAAAGAAAATAG
24062066 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 7 0.20
22 20 0.57
23 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (23 bp):
AAAAGATAAAAGAAAATAGAATT
Found at i:24062056 original size:15 final size:16
Alignment explanation
Indices: 24062031--24062060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24062021 GAATTAAAGA
24062031 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
24062047 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
24062061 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:24066170 original size:32 final size:32
Alignment explanation
Indices: 24066127--24066193 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
24066117 TTAGTGGTGT
*
24066127 CAAAAATAGTGATTTTGGGATCACAATTCTGA
1 CAAAAACAGTGATTTTGGGATCACAATTCTGA
24066159 CAAAAACAGTGATTTTGGGATCACAATTCTGA
1 CAAAAACAGTGATTTTGGGATCACAATTCTGA
24066191 CAA
1 CAA
24066194 GTCGAGTCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (32 bp):
CAAAAACAGTGATTTTGGGATCACAATTCTGA
Found at i:24077665 original size:6 final size:6
Alignment explanation
Indices: 24077656--24077683 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24077646 ATCTTGGCCT
24077656 TGGCAC TGGCAC TGGCAC TGGCAC TGGC
1 TGGCAC TGGCAC TGGCAC TGGCAC TGGC
24077684 TATGCCAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (6 bp):
TGGCAC
Found at i:24078529 original size:9 final size:9
Alignment explanation
Indices: 24078484--24078581 Score: 73
Period size: 9 Copynumber: 11.0 Consensus size: 9
24078474 ATTTGATTTT
24078484 ATTT-TAAA
1 ATTTATAAA
24078492 ATTTA-AAA
1 ATTTATAAA
*
24078500 ATATAT-AA
1 ATTTATAAA
24078508 ATTTAAAATAAA
1 ATTT---ATAAA
24078520 ATTTATAAA
1 ATTTATAAA
24078529 ATTTATAAA
1 ATTTATAAA
*
24078538 A--TAAAAA
1 ATTTATAAA
*
24078545 ATTCATTAAA
1 ATTTA-TAAA
24078555 ATTTATAAA
1 ATTTATAAA
24078564 ATATTA-AAA
1 AT-TTATAAA
*
24078573 ATATATAAA
1 ATTTATAAA
24078582 TAAAATAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
7 6 0.08
8 18 0.25
9 30 0.42
10 10 0.14
11 2 0.03
12 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTTATAAA
Found at i:24078542 original size:28 final size:27
Alignment explanation
Indices: 24078488--24078566 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 27
24078478 GATTTTATTT
* *
24078488 TAAAATTTA-AAAATATATAAATTTAAAA
1 TAAAATTTATAAAATTTATAAA-AT-AAA
24078516 TAAAATTTATAAAATTTATAAAAT-AA
1 TAAAATTTATAAAATTTATAAAATAAA
*
24078542 -AAAATTCATTAAAATTTATAAAATA
1 TAAAATTTA-TAAAATTTATAAAATA
24078567 TTAAAAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.16
26 17 0.38
28 10 0.22
29 11 0.24
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATTTATAAAATTTATAAAATAAA
Found at i:24078544 original size:29 final size:28
Alignment explanation
Indices: 24078488--24078544 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
24078478 GATTTTATTT
* *
24078488 TAAAATTTAAAAATATATAAATTTAAAA
1 TAAAATTTAAAAATATATAAAATAAAAA
*
24078516 TAAAATTTATAAAATTTATAAAATAAAAA
1 TAAAATTTA-AAAATATATAAAATAAAAA
24078545 ATTCATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAATTTAAAAATATATAAAATAAAAA
Found at i:24078851 original size:33 final size:32
Alignment explanation
Indices: 24078813--24078885 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 32
24078803 AAAAATTATA
*
24078813 TTGTTGTTTTGATGCTTTTTTTTACTGTTTTGG
1 TTGTTGTTTTGATGCTGTTTTTTACTGTTTT-G
24078846 TTGTTGTTTTGATGCTGTTTTTTACTGTTTTG
1 TTGTTGTTTTGATGCTGTTTTTTACTGTTTTG
*
24078878 ATGTTGTT
1 TTGTTGTT
24078886 ATTTTTGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 8 0.21
33 30 0.79
ACGTcount: A:0.07, C:0.05, G:0.22, T:0.66
Consensus pattern (32 bp):
TTGTTGTTTTGATGCTGTTTTTTACTGTTTTG
Found at i:24078874 original size:21 final size:22
Alignment explanation
Indices: 24078850--24078890 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24078840 TTTTGGTTGT
24078850 TGTTTTGATGCTGTT-TTTTAC
1 TGTTTTGATGCTGTTATTTTAC
*
24078871 TGTTTTGATGTTGTTATTTT
1 TGTTTTGATGCTGTTATTTT
24078891 TGTTGCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.20, T:0.66
Consensus pattern (22 bp):
TGTTTTGATGCTGTTATTTTAC
Found at i:24078915 original size:13 final size:12
Alignment explanation
Indices: 24078879--24078915 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
24078869 ACTGTTTTGA
*
24078879 TGTTGTTATTTT
1 TGTTGCTATTTT
24078891 TGTTGCTATTTT
1 TGTTGCTATTTT
24078903 TGTTGCTATTTT
1 TGTTGCTATTTT
24078915 T
1 T
24078916 ATTATTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (12 bp):
TGTTGCTATTTT
Found at i:24080591 original size:60 final size:60
Alignment explanation
Indices: 24080518--24080667 Score: 237
Period size: 60 Copynumber: 2.5 Consensus size: 60
24080508 CTGGTCTTGT
*
24080518 AAATGTGTAAATGTTGAGGCTAACTTTGTGGATTATTTTAGAATCAAGACCAAATTAACA
1 AAATGTGTAAATGTTGAGGCTAAATTTGTGGATTATTTTAGAATCAAGACCAAATTAACA
* *
24080578 AAATGTGTAAATGTTGAGGCTAAATTTGTGGATTATTTTAGAATTAGGACCAAATTAACA
1 AAATGTGTAAATGTTGAGGCTAAATTTGTGGATTATTTTAGAATCAAGACCAAATTAACA
* **
24080638 AAATATGTAAACATTGAGGGCTAAATTTGT
1 AAATGTGTAAATGTTGA-GGCTAAATTTGT
24080668 TATTGTACCA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 71 0.86
61 12 0.14
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (60 bp):
AAATGTGTAAATGTTGAGGCTAAATTTGTGGATTATTTTAGAATCAAGACCAAATTAACA
Found at i:24086258 original size:30 final size:29
Alignment explanation
Indices: 24086222--24086537 Score: 241
Period size: 30 Copynumber: 10.8 Consensus size: 29
24086212 TCTCGAGGGC
*
24086222 AAAATGGTAATTTTTGAAAGTTTCGGGTTA
1 AAAAT-GTAATTTTTGGAAGTTTCGGGTTA
* * *
24086252 AAAATGGAATTTTTGGATG-TTCGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCGGGTTA
* ** *
24086280 AAAATATAATTTTTAAAAGTTTTGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTCG-GGTTA
* * * *
24086310 AAATTAG-AAGTTTTGGAAGTTTGGGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTCGGGTTA
*
24086339 AAAATGTAATTTTTGGAAGTTTCGAGGTCA
1 AAAATGTAATTTTTGGAAGTTTCG-GGTTA
* * * *
24086369 AAATTGGAATTTTTGGAATTTTAAGGG-TA
1 AAAATGTAATTTTTGGAAGTTT-CGGGTTA
*
24086398 AAAATGTAAATTTTGGAAGTTTCGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTCG-GGTTA
* * *
24086428 AAAATGGAATTTTTGAAAG-TTCGAGGGT-
1 AAAATGTAATTTTTGGAAGTTTCG-GGTTA
*
24086456 AAAATGTAATTTTTGGAAGTTTTAGGGTT-
1 AAAATGTAATTTTTGGAAG-TTTCGGGTTA
* * * *
24086485 AAAATATAATTTTGGAGAAGTTT-GAGGGTC
1 AAAATGTAATTTTTG-GAAGTTTCG-GGTTA
*
24086515 AAAATATAATTTTTGGACAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
24086538 AAGGACCTCC
Statistics
Matches: 227, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
28 42 0.19
29 90 0.40
30 94 0.41
31 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTCGGGTTA
Found at i:24086350 original size:59 final size:59
Alignment explanation
Indices: 24086222--24086537 Score: 347
Period size: 59 Copynumber: 5.4 Consensus size: 59
24086212 TCTCGAGGGC
* * *
24086222 AAAATGGTAATTTTTGAAAGTTTCG-GGTTAAAAATGGAATTTTTGGATGTTCG-GGGTA
1 AAAAT-GTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
* ** * * * * *
24086280 AAAATATAATTTTTAAAAGTTTTGAGGTTAAAATTAGAAGTTTTGGAAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
* * * *
24086339 AAAATGTAATTTTTGGAAGTTTCGAGGTCAAAATTGGAATTTTTGGAATTTTAAGGGTA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
* * *
24086398 AAAATGTAAATTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGAAAGTTCGAGGGT-
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
* * *
24086456 AAAATGTAATTTTTGGAAGTTT-TAGGGTTAAAATAT--AATTTTGGAGAAGTTTGAGGGTC
1 AAAATGTAATTTTTGGAAGTTTCGA-GGTTAAAA-ATGGAATTTTTG-GAAGTTTGAGGGTA
*
24086515 AAAATATAATTTTTGGACAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
24086538 AAGGACCTCC
Statistics
Matches: 220, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
57 24 0.11
58 68 0.31
59 123 0.56
60 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
Found at i:24094146 original size:16 final size:16
Alignment explanation
Indices: 24094125--24094156 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24094115 CCATCTCCCC
24094125 TGATATGACCATATCA
1 TGATATGACCATATCA
24094141 TGATATGACCATATCA
1 TGATATGACCATATCA
24094157 GAGAAACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
TGATATGACCATATCA
Found at i:24097742 original size:96 final size:96
Alignment explanation
Indices: 24097555--24097746 Score: 228
Period size: 96 Copynumber: 2.0 Consensus size: 96
24097545 GATTTTGGAA
* ** * * **
24097555 AAGGATATTCGATTATCTCGATTTGAAGAAAGGTTGCATCTAGTAAGTTAAGGCGCAATTTTTTA
1 AAGGATATTCAATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGAAATTTTCGA
* *
24097620 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 GAATCGAAGATAAAGAAACATAGCCTCGATT
* *
24097651 AAGGGTATTCAATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGTAAATTTTCG
1 AAGGATATTCAATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCG-AAATTTTCG
*
24097716 A-AACTCGAA-ATAGAAG-AATATAGCCTCGATT
65 AGAA-TCGAAGATA-AAGAAACATAGCCTCGATT
24097747 TTAAAGTTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
96 67 0.83
97 14 0.17
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (96 bp):
AAGGATATTCAATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGAAATTTTCGA
GAATCGAAGATAAAGAAACATAGCCTCGATT
Found at i:24098356 original size:59 final size:59
Alignment explanation
Indices: 24098014--24098392 Score: 376
Period size: 59 Copynumber: 6.5 Consensus size: 59
24098004 TCTCGAGGAT
* *
24098014 AAAATGGTAATTTTTGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGACA-TTC-GAGGGCA
1 AAAAT-GTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGA-AGTTCAG-GGGTA
* ** * * *
24098074 AAATTGTAA-TTTTAAAAGTTTCAGAGTCAAAAATGGAATTTTTGAAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTA
* * * * ** * * *
24098132 AAAATATAATTTTTAGATGTTTCGGGGTTTAAAATGGAATTTTTGAAAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTA
* * * * *
24098191 AAAATGTAAATTTTGGAAGTTTTAGGGT-TAAAATAGAATTTTTGGAAGTTTC-GAGGT-
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAG-TTCAGGGGTA
* * * * *
24098248 AAAATGTAACTTTTGTAAGTTTTAAGGTCAGAAATGGAATTTTTGGAAGTTCAGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTA
* * * *
24098307 AAAATGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGAAGTTTAGGGGTC
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTA
*
24098366 AAAATATAATTTTTGGATAGTTT-AGGG
1 AAAATGTAATTTTTGGA-AGTTTCAGGG
24098393 ACCTTCAAGG
Statistics
Matches: 266, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
57 29 0.11
58 90 0.34
59 138 0.52
60 9 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTA
Found at i:24098388 original size:30 final size:29
Alignment explanation
Indices: 24098014--24098392 Score: 254
Period size: 29 Copynumber: 12.9 Consensus size: 29
24098004 TCTCGAGGAT
*
24098014 AAAATGGTAATTTTTGAAAGTTTCA-GGGTCA
1 AAAAT-GTAATTTTTGGAAGTTT-AGGGGT-A
* * *
24098045 AAAATGGAATTTTTGGACA--TTCGAGGGCA
1 AAAATGTAATTTTTGGA-AGTTTAG-GGGTA
* ** *
24098074 AAATTGTAA-TTTTAAAAGTTTCA-GAGTCA
1 AAAATGTAATTTTTGGAAGTTT-AGGGGT-A
* * **
24098103 AAAATGGAATTTTTGAAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
* * * * *
24098132 AAAATATAATTTTTAGATGTTTCGGGGTTT
1 AAAATGTAATTTTTGGAAGTTTAGGGG-TA
* * *
24098162 AAAATGGAATTTTTGAAAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
* *
24098191 AAAATGTAAATTTTGGAAGTTTTA-GGGTT
1 AAAATGTAATTTTTGGAAG-TTTAGGGGTA
* *
24098220 AAAATAG-AATTTTTGGAAGTTTCGAGGT-
1 AAAAT-GTAATTTTTGGAAGTTTAGGGGTA
* * *
24098248 AAAATGTAACTTTTGTAAGTTTTA-AGGTCA
1 AAAATGTAATTTTTGGAAG-TTTAGGGGT-A
* * *
24098278 GAAATGGAATTTTTGGAAGTTCAGGGGTA
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
*
24098307 AAAATGTAATTTTTGGAAGTTTCGGGGTCA
1 AAAATGTAATTTTTGGAAGTTTAGGGGT-A
* * *
24098337 AAAATGGAATTTTTAGAAGTTTAGGGGTC
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
*
24098366 AAAATATAATTTTTGGATAGTTTAGGG
1 AAAATGTAATTTTTGGA-AGTTTAGGG
24098393 ACCTTCAAGG
Statistics
Matches: 268, Mismatches: 60, Indels: 41
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.01
28 29 0.11
29 126 0.47
30 105 0.39
31 6 0.02
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTAGGGGTA
Found at i:24099289 original size:25 final size:25
Alignment explanation
Indices: 24099244--24099294 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
24099234 TTCTTGTCCC
** *
24099244 TTTTCTTTTGTTCTCTGTTTGTGTT
1 TTTTCTTTTACTCTCTGTTTGCGTT
24099269 TTTTCTTTTACTCTCCT-TTTGCGTT
1 TTTTCTTTTACTCT-CTGTTTGCGTT
24099294 T
1 T
24099295 CCGTTGCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.02, C:0.18, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTACTCTCTGTTTGCGTT
Found at i:24099447 original size:22 final size:19
Alignment explanation
Indices: 24099414--24099468 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 19
24099404 TTTTTTTTAA
24099414 TTATTAATATTACCAAAAATAT
1 TTATT-ATATTA--AAAAATAT
24099436 TTATTATCATTAAAAAATAT
1 TTATTAT-ATTAAAAAATAT
*
24099456 TGATTATTATTAA
1 TTATTA-TATTAA
24099469 TACTATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 18 0.60
21 3 0.10
22 9 0.30
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
TTATTATATTAAAAAATAT
Found at i:24099453 original size:20 final size:20
Alignment explanation
Indices: 24099428--24099468 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24099418 TAATATTACC
*
24099428 AAAAATATTTATTATCATTA
1 AAAAATATTGATTATCATTA
*
24099448 AAAAATATTGATTATTATTA
1 AAAAATATTGATTATCATTA
24099468 A
1 A
24099469 TACTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAAATATTGATTATCATTA
Found at i:24100010 original size:25 final size:25
Alignment explanation
Indices: 24099976--24100030 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
24099966 TTGCAGTGGC
* *
24099976 GGTGATGGCAGAGCAGGTTGAAGCT
1 GGTGGTGGCAGAGCAGGTTGAAGCG
24100001 GGTGGTGGCAGAGCAGGTTGAAGCG
1 GGTGGTGGCAGAGCAGGTTGAAGCG
24100026 GGTGG
1 GGTGG
24100031 GCAACAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.20, C:0.11, G:0.51, T:0.18
Consensus pattern (25 bp):
GGTGGTGGCAGAGCAGGTTGAAGCG
Found at i:24105274 original size:14 final size:15
Alignment explanation
Indices: 24105238--24105275 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
24105228 TTGGATTCAG
*
24105238 AAAATTATTTAATTA
1 AAAATTAATTAATTA
24105253 AAAATTAATTAATT-
1 AAAATTAATTAATTA
*
24105267 TAAATTAAT
1 AAAATTAAT
24105276 ATACCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTAATTAATTA
Found at i:24105655 original size:18 final size:20
Alignment explanation
Indices: 24105629--24105673 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24105619 GCCCGAAAAT
*
24105629 AGTAAAAATT-TA-TTTTTA
1 AGTATAAATTCTAGTTTTTA
24105647 AGTATAAATTCTAGTTTTTA
1 AGTATAAATTCTAGTTTTTA
*
24105667 AGAATAA
1 AGTATAA
24105674 CAATTCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 2 0.09
20 12 0.52
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (20 bp):
AGTATAAATTCTAGTTTTTA
Found at i:24106024 original size:30 final size:29
Alignment explanation
Indices: 24105990--24106059 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 29
24105980 AATCTCAAAA
*
24105990 TTATATATGAATTTTGGTTTAAGTGTAATG
1 TTATATATGAATTTTGGTTT-AGTATAATG
* * *
24106020 TTATATATTAATTTTGGTTTCGTATAATT
1 TTATATATGAATTTTGGTTTAGTATAATG
24106049 TTATATATGAA
1 TTATATATGAA
24106060 ATGTTGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.53
Consensus pattern (29 bp):
TTATATATGAATTTTGGTTTAGTATAATG
Found at i:24106260 original size:29 final size:29
Alignment explanation
Indices: 24106228--24106295 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
24106218 AAATTAAATT
24106228 TTCATGTAT-ATAATTGCTAC-AAATCAAAG
1 TTCATGTATCA-AATTGC-ACTAAATCAAAG
24106257 TTCATGTATCAAATTGCACATTAAATCAAAG
1 TTCATGTATCAAATTGCAC--TAAATCAAAG
*
24106288 TTTATGTA
1 TTCATGTA
24106296 CAATTTTGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 15 0.44
30 1 0.03
31 16 0.47
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (29 bp):
TTCATGTATCAAATTGCACTAAATCAAAG
Found at i:24110094 original size:18 final size:19
Alignment explanation
Indices: 24110073--24110115 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
24110063 TAATTTTTTG
24110073 AAATATATAAAA-T-TAAAA
1 AAATATA-AAAAGTCTAAAA
24110091 AAATATAAAAAGTCTAAAA
1 AAATATAAAAAGTCTAAAA
24110110 ATAATA
1 A-AATA
24110116 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 6 0.27
20 4 0.18
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATATAAAAAGTCTAAAA
Found at i:24119434 original size:18 final size:18
Alignment explanation
Indices: 24119383--24119434 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
24119373 TATATGTCAA
*
24119383 ATAAATAATTTAAAATTT
1 ATAAAAAATTTAAAATTT
*
24119401 ATAAAAAAATTCAAAA-TT
1 AT-AAAAAATTTAAAATTT
24119419 ATAAAAAATTATAAAA
1 ATAAAAAATT-TAAAA
24119435 AAAGTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAAAATTTAAAATTT
Found at i:24119435 original size:19 final size:18
Alignment explanation
Indices: 24119383--24119435 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
24119373 TATATGTCAA
* *
24119383 ATAAATAATTTAAAATTT
1 ATAAAAAATTTAAAAATT
* *
24119401 ATAAAAAAATTCAAAATT
1 ATAAAAAATTTAAAAATT
24119419 ATAAAAAATTATAAAAA
1 ATAAAAAATT-TAAAAA
24119436 AAGTATAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAAATTTAAAAATT
Found at i:24119437 original size:11 final size:11
Alignment explanation
Indices: 24119413--24119446 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24119403 AAAAAAATTC
24119413 AAAATTAT-AA
1 AAAATTATAAA
24119423 AAAATTATAAA
1 AAAATTATAAA
*
24119434 AAAAGTATAAA
1 AAAATTATAAA
24119445 AA
1 AA
24119447 TTTTAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
AAAATTATAAA
Done.