Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015383.1 Kokia drynarioides strain JFW-HI SEQ_130430, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 970611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 920 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:304601 original size:27 final size:27
Alignment explanation
Indices: 304563--304625 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
304553 GTTATCATTT
304563 GGCAGTGAAATGTTAGAAACTAGGGGC
1 GGCAGTGAAATGTTAGAAACTAGGGGC
304590 GGCAGTGAAATGTTAGAAACTAGGGGC
1 GGCAGTGAAATGTTAGAAACTAGGGGC
*
304617 AGCAGTGAA
1 GGCAGTGAA
304626 GTTCAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.37, T:0.17
Consensus pattern (27 bp):
GGCAGTGAAATGTTAGAAACTAGGGGC
Found at i:307974 original size:29 final size:29
Alignment explanation
Indices: 307942--307997 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
307932 AGATACATCA
* * *
307942 ATTTATTTTTATATTGAATAAATATAATT
1 ATTTATTATTACAATGAATAAATATAATT
*
307971 ATTTATTATTACAATGTATAAATATAA
1 ATTTATTATTACAATGAATAAATATAA
307998 AATGATGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (29 bp):
ATTTATTATTACAATGAATAAATATAATT
Found at i:316517 original size:24 final size:24
Alignment explanation
Indices: 316489--316545 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
316479 CACTTTAAAA
*
316489 GAATTATATTAAATATA-TAAAATT
1 GAATT-TATTAAAAATATTAAAATT
*
316513 GAA-TTATTAAAAATATTTAAATT
1 GAATTTATTAAAAATATTAAAATT
316536 GAATTT-TTAA
1 GAATTTATTAA
316546 CATTTTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 10 0.34
23 14 0.48
24 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (24 bp):
GAATTTATTAAAAATATTAAAATT
Found at i:316520 original size:22 final size:23
Alignment explanation
Indices: 316495--316545 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
316485 AAAAGAATTA
*
316495 TATTAAATATA-TAAAATTGAAT
1 TATTAAAAATATTAAAATTGAAT
*
316517 TATTAAAAATATTTAAATTGAAT
1 TATTAAAAATATTAAAATTGAAT
*
316540 TTTTAA
1 TATTAA
316546 CATTTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
TATTAAAAATATTAAAATTGAAT
Found at i:317106 original size:30 final size:29
Alignment explanation
Indices: 317072--317151 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 29
317062 AATTAATGAA
*
317072 AATAAAATTATACTTTAATTTATTTAAATT
1 AATAAAATTATAATTTAATTT-TTTAAATT
* *
317102 AATAAAATTTTAATTTAATCTTTTAAATT
1 AATAAAATTATAATTTAATTTTTTAAATT
*
317131 TATAAAAATTATAATTTAATT
1 AAT-AAAATTATAATTTAATT
317152 CCGACTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 10 0.23
30 33 0.77
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (29 bp):
AATAAAATTATAATTTAATTTTTTAAATT
Found at i:318010 original size:160 final size:160
Alignment explanation
Indices: 317821--318140 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
317811 TATTTAACTG
*
317821 GTATTATTTTGGTTAAAACTAAAATTTCAAAATTCAAAAAATATAAGGTCTAAAATTGACTAAAT
1 GTATTATTTTGGTTAAAACTAAAATTTCAAAATTCAAAAAATATAAGGACTAAAATTGACTAAAT
317886 TAAAGTATAGAGACTAAATTCATAACTTCCATATTATAGGAACTAATAACGAAATTTAACATTTT
66 TAAAGTATAGAGACTAAATTCATAACTTCCATATTATAGGAACTAATAACGAAATTTAACATTTT
317951 TAATTTGATCGAAGTTTTATTTCTGGGATA
131 TAATTTGATCGAAGTTTTATTTCTGGGATA
317981 GTATTATTTTGGTTAAAACTAAAATTTCAAAATTCAAAAAATATAAGGACTAAAATTGACTAAAT
1 GTATTATTTTGGTTAAAACTAAAATTTCAAAATTCAAAAAATATAAGGACTAAAATTGACTAAAT
* *
318046 TAAAGTATAGAGACTAAATTCATAACTTCCATATTATAGGGACTAATAGCGAAATTTAACATTTT
66 TAAAGTATAGAGACTAAATTCATAACTTCCATATTATAGGAACTAATAACGAAATTTAACATTTT
*
318111 TAATTTGATCGAAGTTTTATTTTTGGGATA
131 TAATTTGATCGAAGTTTTATTTCTGGGATA
318141 TCTGCAAGAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (160 bp):
GTATTATTTTGGTTAAAACTAAAATTTCAAAATTCAAAAAATATAAGGACTAAAATTGACTAAAT
TAAAGTATAGAGACTAAATTCATAACTTCCATATTATAGGAACTAATAACGAAATTTAACATTTT
TAATTTGATCGAAGTTTTATTTCTGGGATA
Found at i:318469 original size:25 final size:24
Alignment explanation
Indices: 318423--318469 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
318413 TTTATTTTAA
*
318423 CAAAATTTATCAACATAATATATT
1 CAAAATTTATAAACATAATATATT
* *
318447 CAAAATATTATAAATATATTATA
1 CAAAAT-TTATAAACATAATATA
318470 ATCTATAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (24 bp):
CAAAATTTATAAACATAATATATT
Found at i:321588 original size:21 final size:21
Alignment explanation
Indices: 321564--321626 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
321554 TTATAACTTG
321564 ATAATAATGTTTTGTTATTTT
1 ATAATAATGTTTTGTTATTTT
* * *
321585 ATAATTTAT-TCTTGTTCTTTT
1 ATAA-TAATGTTTTGTTATTTT
321606 -TAAATAATGTTTTTGTTATTT
1 AT-AATAATG-TTTTGTTATTT
321627 AATACTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.12
21 16 0.50
22 12 0.38
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (21 bp):
ATAATAATGTTTTGTTATTTT
Found at i:323265 original size:4 final size:4
Alignment explanation
Indices: 323256--323320 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
323246 AAATAAACGG
* * * *
323256 GAAA GAAA GAAA GAAAA GAAA TAAA GAAA GGAA GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA
*
323306 G-AA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA
323321 TGTAATGTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 3 0.06
4 39 0.78
5 8 0.16
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:323301 original size:17 final size:15
Alignment explanation
Indices: 323260--323320 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 15
323250 AAACGGGAAA
323260 GAAAGAAAGAA-AA-
1 GAAAGAAAGAAGAAG
*
323273 GAAATAAAG-A-AAG
1 GAAAGAAAGAAGAAG
*
323286 G-AAG-AAGGAG-AG
1 GAAAGAAAGAAGAAG
323298 GAAAGAAAGAAGAAG
1 GAAAGAAAGAAGAAG
323313 GAAAGAAA
1 GAAAGAAA
323321 TGTAATGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.08
12 9 0.23
13 12 0.31
14 5 0.13
15 10 0.26
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (15 bp):
GAAAGAAAGAAGAAG
Found at i:326707 original size:5 final size:5
Alignment explanation
Indices: 326697--326728 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
326687 AAACTACACT
326697 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CT
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CT
326729 GCTCATGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
CTCTC
Found at i:327002 original size:11 final size:12
Alignment explanation
Indices: 326988--327028 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
326978 TGGTTTATTT
326988 TAATTATTT-AA
1 TAATTATTTCAA
326999 TAA-TATTTCAA
1 TAATTATTTCAA
327010 TAATTATTTTCATA
1 TAATTA-TTTCA-A
327024 TAATT
1 TAATT
327029 GGTATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 2 0.08
13 5 0.19
14 6 0.23
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (12 bp):
TAATTATTTCAA
Found at i:340699 original size:38 final size:38
Alignment explanation
Indices: 340657--340747 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
340647 TTTAACAAAA
340657 AAATGTTAAATAATATAAGTATAAGCTATTTATCACTC
1 AAATGTTAAATAATATAAGTATAAGCTATTTATCACTC
340695 AAATGTTAAATAATATAAGTATAAGCTATTTATCACTC
1 AAATGTTAAATAATATAAGTATAAGCTATTTATCACTC
*
340733 AAATGTTGAA-AATAT
1 AAATGTTAAATAATAT
340748 TAAATCAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 5 0.10
38 47 0.90
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (38 bp):
AAATGTTAAATAATATAAGTATAAGCTATTTATCACTC
Found at i:348747 original size:12 final size:12
Alignment explanation
Indices: 348697--348746 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
348687 GGGTTCAGTT
348697 TCCGGTTTGGTC
1 TCCGGTTTGGTC
*
348709 TCCGGCTTGGTC
1 TCCGGTTTGGTC
*
348721 TCCGGTTTGGCC
1 TCCGGTTTGGTC
**
348733 TCTTGTTTGGTC
1 TCCGGTTTGGTC
348745 TC
1 TC
348747 TGATTTAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.30, T:0.42
Consensus pattern (12 bp):
TCCGGTTTGGTC
Found at i:351999 original size:17 final size:18
Alignment explanation
Indices: 351977--352018 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
351967 GTTTAGAAAT
*
351977 TATTTTTATCAT-ACTAA
1 TATTTTTATAATAACTAA
351994 TATTTTTTATAATAACTAA
1 TA-TTTTTATAATAACTAA
352013 TATTTT
1 TATTTT
352019 AAAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTTATAATAACTAA
Found at i:352002 original size:18 final size:19
Alignment explanation
Indices: 351979--352018 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
351969 TTAGAAATTA
*
351979 TTTTTATCAT-ACTAATAT
1 TTTTTATAATAACTAATAT
351997 TTTTTATAATAACTAATAT
1 TTTTTATAATAACTAATAT
352016 TTT
1 TTT
352019 AAAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTATAATAACTAATAT
Found at i:354371 original size:43 final size:43
Alignment explanation
Indices: 354310--354397 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
354300 CTAAAGTGTA
354310 TTTGACTAGAGTCGTTGATCGAACATATTTAAAAAAATATGGT
1 TTTGACTAGAGTCGTTGATCGAACATATTTAAAAAAATATGGT
354353 TTTGACTAGAGTCGTTGATCGAACATATTTAAAAAAATATGGT
1 TTTGACTAGAGTCGTTGATCGAACATATTTAAAAAAATATGGT
354396 TT
1 TT
354398 ACCTATACGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (43 bp):
TTTGACTAGAGTCGTTGATCGAACATATTTAAAAAAATATGGT
Found at i:355262 original size:2 final size:2
Alignment explanation
Indices: 355255--355281 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
355245 AAATTAAAGT
355255 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 T
355282 TAATTTTTAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:361921 original size:3 final size:3
Alignment explanation
Indices: 361913--361954 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
361903 GCAGAAGACG
361913 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
361955 TTAAGAGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:363352 original size:5 final size:5
Alignment explanation
Indices: 363342--363375 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
363332 ATTTTTAATA
*
363342 TTTAT TTTAT TTAAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
363376 ATATTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:363360 original size:10 final size:10
Alignment explanation
Indices: 363340--363384 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
363330 ATATTTTTAA
363340 TATTT-ATTT
1 TATTTAATTT
363349 TATTTAATTT
1 TATTTAATTT
*
363359 TATTTTATTT
1 TATTTAATTT
363369 TATTTTAATATT
1 TA-TTTAAT-TT
363381 TATT
1 TATT
363385 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 5 0.16
10 15 0.48
11 7 0.23
12 4 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTAATTT
Found at i:363362 original size:15 final size:15
Alignment explanation
Indices: 363335--363375 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
363325 TTTTAATATT
363335 TTTAATATTTATTTTA
1 TTTAAT-TTTATTTTA
363351 TTTAATTTTATTTTA
1 TTTAATTTTATTTTA
*
363366 TTTTATTTTA
1 TTTAATTTTA
363376 ATATTTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTAATTTTATTTTA
Found at i:365413 original size:18 final size:19
Alignment explanation
Indices: 365373--365426 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
365363 CAAATAAAAA
*
365373 AAATTTATAAAAAAAATATT
1 AAATTT-TAATAAAAATATT
365393 AAATTTTAATAAAAATA-T
1 AAATTTTAATAAAAATATT
* *
365411 AAAATTTATTAAAAAT
1 AAATTTTAATAAAAAT
365427 TAGGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTTTAATAAAAATATT
Found at i:365422 original size:21 final size:21
Alignment explanation
Indices: 365372--365425 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
365362 ACAAATAAAA
365372 AAAATTTA-TAAAAAAAATAT
1 AAAATTTATTAAAAAAAATAT
* *
365392 TAAA-TT-TTAATAAAAATAT
1 AAAATTTATTAAAAAAAATAT
365411 AAAATTTATTAAAAA
1 AAAATTTATTAAAAA
365426 TTAGGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 16 0.59
20 5 0.19
21 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTTATTAAAAAAAATAT
Found at i:365491 original size:39 final size:39
Alignment explanation
Indices: 365364--365500 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 39
365354 ATAAAAATAC
* *
365364 AAATAAAAAAAATTTATAAAAAAAATAT-TAAATTTTAATAA
1 AAATATAAAAAA-TTATAAAAAAAAT-TGT-AATTTTTATAA
** * *
365405 AAATAT--AAAATT-TATTAAAAATTAGGATTTTTTATAA
1 AAATATAAAAAATTATAAAAAAAATT-GTAATTTTTATAA
*
365442 AAATTGTAAAAAATTATAAAAAAAATTGTAATTTTTATAA
1 AAA-TATAAAAAATTATAAAAAAAATTGTAATTTTTATAA
*
365482 AAATATAAAAAAATATAAA
1 AAATATAAAAAATTATAAA
365501 TTGAATTAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 20 0.26
38 4 0.05
39 18 0.23
40 20 0.26
41 14 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (39 bp):
AAATATAAAAAATTATAAAAAAAATTGTAATTTTTATAA
Found at i:365700 original size:20 final size:19
Alignment explanation
Indices: 365675--365739 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
365665 ATACGATAAT
365675 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTTTTACG-A
* *
365695 TTTTAT-ATTTCTTTA-TA
1 TTTTATAATTTTTTTACGA
* *
365712 TTTTCTAAATTTTCTTACGA
1 TTTTAT-AATTTTTTTACGA
365732 TTTTATAA
1 TTTTATAA
365740 AATTTTATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.17
19 17 0.49
20 12 0.34
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTTACGA
Found at i:365740 original size:20 final size:19
Alignment explanation
Indices: 365675--365739 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
365665 ATACGATAAT
*
365675 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTCTTACG-A
*
365695 TTTTAT-A-TTTCTTTA-TA
1 TTTTATAATTTTC-TTACGA
*
365712 TTTTCTAAATTTTCTTACGA
1 TTTTAT-AATTTTCTTACGA
365732 TTTTATAA
1 TTTTATAA
365740 AATTTTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
17 6 0.17
18 3 0.09
19 10 0.29
20 16 0.46
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTCTTACGA
Found at i:365845 original size:15 final size:16
Alignment explanation
Indices: 365825--365858 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
365815 TAAAATTAAA
365825 TATTTTTAT-TTTTAT
1 TATTTTTATATTTTAT
*
365840 TATTTTTATATTTTTT
1 TATTTTTATATTTTAT
365856 TAT
1 TAT
365859 CATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTTTATATTTTAT
Found at i:368482 original size:16 final size:17
Alignment explanation
Indices: 368460--368497 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
368450 TAAACCTGAT
* *
368460 TAAAATAATAATATAAA
1 TAAAATAAAAAAATAAA
368477 -AAAATAAAAAAATAAA
1 TAAAATAAAAAAATAAA
368493 TAAAA
1 TAAAA
368498 AGGTACCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAAAATAAA
Found at i:368484 original size:21 final size:20
Alignment explanation
Indices: 368460--368498 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
368450 TAAACCTGAT
*
368460 TAAAATAATAATATAAAAAAA
1 TAAAAAAATAA-ATAAAAAAA
368481 TAAAAAAATAAATAAAAA
1 TAAAAAAATAAATAAAAA
368499 GGTACCGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAAAATAAATAAAAAAA
Found at i:382708 original size:2 final size:2
Alignment explanation
Indices: 382701--382743 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
382691 NNNNNNNNNN
382701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
382743 A
1 A
382744 ATAAATGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:389465 original size:13 final size:14
Alignment explanation
Indices: 389436--389465 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
389426 TTTAGTACAT
389436 TGACATTTAACCTC
1 TGACATTTAACCTC
389450 TGACATTTAA-CTC
1 TGACATTTAACCTC
389463 TGA
1 TGA
389466 TTGCATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:393851 original size:18 final size:17
Alignment explanation
Indices: 393828--393870 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
393818 GAATAAGTTT
* *
393828 TTAATTAAATTTATTTAA
1 TTAATTAAAATT-TTAAA
393846 TTAATTGAAAATTTTAAA
1 TTAATT-AAAATTTTAAA
393864 TTAATTA
1 TTAATTA
393871 CACATTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATTAAAATTTTAAA
Found at i:407402 original size:87 final size:90
Alignment explanation
Indices: 407200--407406 Score: 253
Period size: 90 Copynumber: 2.3 Consensus size: 90
407190 TAAAAAGCCC
* ** *
407200 TCAAACTTTTTCAAAAAAACAATTAAGCCCCTCCTTTTTTTTTTACACTCAATTGAGCAGTTGAA
1 TCAAACTTTTTCAAAAAAGCAATTAAGCCCCTCCTTTTTTTTCCACACTCAATTGAGCACTTGAA
* *
407265 CTTTCAAAATGCATAAAAAAAATCC
66 CTTTAAAAATGCATAAAAAAAATCA
* * *
407290 TCAAACTTTTTCAAGAAAGCAATTAAGCCCGTGCC-TTTTTTTCCA-ACTCAATT-AGGTACTTG
1 TCAAACTTTTTCAAAAAAGCAATTAAGCCCCT-CCTTTTTTTTCCACACTCAATTGA-GCACTTG
*
407352 ACCTTTAAAAATGCAT-AAAAAAA-CA
64 AACTTTAAAAATGCATAAAAAAAATCA
**
407377 TCAATTTTTTTCAAAAAAGCAATTAAGCCC
1 TCAAACTTTTTCAAAAAAGCAATTAAGCCC
407407 TTGCTCTCAT
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
87 28 0.27
88 8 0.08
89 27 0.26
90 37 0.36
91 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (90 bp):
TCAAACTTTTTCAAAAAAGCAATTAAGCCCCTCCTTTTTTTTCCACACTCAATTGAGCACTTGAA
CTTTAAAAATGCATAAAAAAAATCA
Found at i:407774 original size:9 final size:9
Alignment explanation
Indices: 407760--407902 Score: 53
Period size: 9 Copynumber: 15.0 Consensus size: 9
407750 TTTTAGTACG
407760 ATAATTTTT
1 ATAATTTTT
407769 ATAATTTTT
1 ATAATTTTT
* *
407778 TTAAGAATTTT
1 AT-A-ATTTTT
*
407789 ATATTTGTTT
1 ATAATT-TTT
407799 AT-ATTTTGT
1 ATAATTTT-T
407808 ATAATTTTCT
1 ATAATTTT-T
*
407818 -TACGA-CTTT
1 ATA--ATTTTT
*
407827 ATAAAATTTT
1 AT-AATTTTT
407837 ATAATTTTT
1 ATAATTTTT
*
407846 -TATATTTCT
1 ATA-ATTTTT
407855 AT-ATATTTT
1 ATAAT-TTTT
407864 ATAATTTCTTT
1 ATAA-TT-TTT
*
407875 ATTATTTTT
1 ATAATTTTT
*
407884 ATAAAATTTT
1 AT-AATTTTT
*
407894 ACAATTTTT
1 ATAATTTTT
407903 TATTTTATTT
Statistics
Matches: 100, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
8 6 0.06
9 47 0.47
10 32 0.32
11 15 0.15
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:407846 original size:10 final size:10
Alignment explanation
Indices: 407833--407905 Score: 55
Period size: 10 Copynumber: 7.6 Consensus size: 10
407823 CTTTATAAAA
407833 TTTTATAATT
1 TTTTATAATT
407843 TTTTAT-A-T
1 TTTTATAATT
* *
407851 TTCTAT-ATA
1 TTTTATAATT
407860 TTTTATAATT
1 TTTTATAATT
*
407870 TCTTTATTA-T
1 T-TTTATAATT
**
407880 TTTTATAAAA
1 TTTTATAATT
*
407890 TTTTACAATT
1 TTTTATAATT
407900 TTTTAT
1 TTTTAT
407906 TTTATTTATT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 7 0.15
9 12 0.25
10 23 0.48
11 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:407849 original size:20 final size:20
Alignment explanation
Indices: 407824--407905 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
407814 TTCTTACGAC
407824 TTTATAAAATTTTATAATTT
1 TTTATAAAATTTTATAATTT
*
407844 TTTAT---ATTTCTAT-ATAT
1 TTTATAAAATTT-TATAATTT
** *
407861 TTTATAATTTCTTTATTA-TT
1 TTTATAAAAT-TTTATAATTT
*
407881 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTATAATTT
407901 TTTAT
1 TTTAT
407906 TTTATTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 12 0.25
18 3 0.06
19 5 0.10
20 25 0.52
21 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATAAAATTTTATAATTT
Found at i:407875 original size:48 final size:49
Alignment explanation
Indices: 407760--407876 Score: 118
Period size: 48 Copynumber: 2.4 Consensus size: 49
407750 TTTTAGTACG
*
407760 ATAATTTTTATAATTT-TTT-TAAGAATTTTATATTTGTTTATATTTTGT
1 ATAA-TTTTATAATTTCTTTATAAGAATTTTATATTTGTTTATATTTTAT
* * ***
407808 ATAATTTTCTTACGACTTTATAA-AATTTTATAATTT-TTTATATTTCTAT
1 ATAATTTTATAATTTCTTTATAAGAATTTTAT-ATTTGTTTATATTT-TAT
407857 AT-ATTTTATAATTTCTTTAT
1 ATAATTTTATAATTTCTTTAT
407877 TATTTTTATA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
47 6 0.11
48 37 0.69
49 11 0.20
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (49 bp):
ATAATTTTATAATTTCTTTATAAGAATTTTATATTTGTTTATATTTTAT
Found at i:407923 original size:29 final size:30
Alignment explanation
Indices: 407824--407922 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
407814 TTCTTACGAC
*
407824 TTTATAAAATTTTATAATTT-TTTA-TATT
1 TTTATAAAATTTTACAATTTCTTTATTATT
* * *
407852 TCTAT-ATATTTTATAATTTCTTTATTATT
1 TTTATAAAATTTTACAATTTCTTTATTATT
407881 TTTATAAAATTTTACAATTT-TTTATT-TT
1 TTTATAAAATTTTACAATTTCTTTATTATT
407909 ATTTATTAAAATTT
1 -TTTA-TAAAATTT
407923 AATAATATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.21
28 10 0.16
29 18 0.30
30 20 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTATAAAATTTTACAATTTCTTTATTATT
Found at i:408089 original size:23 final size:23
Alignment explanation
Indices: 408058--408103 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
408048 AATGAGTTTG
408058 AAAAAAAAA-AGAGAGGCTTAATTT
1 AAAAAAAAACA-AG-GGCTTAATTT
408082 AAAAAAAAACAAGGGCTTAATT
1 AAAAAAAAACAAGGGCTTAATT
408104 ATAGCATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 11 0.52
25 1 0.05
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAAAAAAACAAGGGCTTAATTT
Found at i:409076 original size:24 final size:23
Alignment explanation
Indices: 409038--409101 Score: 119
Period size: 23 Copynumber: 2.7 Consensus size: 23
409028 GCCTATGAGT
409038 ATTTTTTTTTCTTTTTGAGTAAG
1 ATTTTTTTTTCTTTTTGAGTAAG
409061 ATTTTTTTTTCTTTTTGAGTAAG
1 ATTTTTTTTTCTTTTTGAGTAAG
409084 ATTTTTTTTTTCTTTTTG
1 A-TTTTTTTTTCTTTTTG
409102 GTATTTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 24 0.60
24 16 0.40
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.70
Consensus pattern (23 bp):
ATTTTTTTTTCTTTTTGAGTAAG
Found at i:419606 original size:50 final size:50
Alignment explanation
Indices: 419494--419643 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 50
419484 GAACTAATGC
* *
419494 GTTACTAAATGCATGACT-TGATTTAATGATGCAAACTTTAACTAACATGGGA
1 GTTACTTAATGCATGA-TATGATTT-ATGATGCAAA-TTTAACTAACATGGAA
* * * * *
419546 TTTACATAATGCATGATAGGATTTATGATGCATATTTAACTAACATGTAA
1 GTTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAA
* *
419596 GTTACTTAATGCATG-TCATTATTTATGATGCAAACTTAACTAATCATG
1 GTTACTTAATGCATGAT-ATGATTTATGATGCAAATTTAACTAA-CATG
419644 AGAGTTAATG
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 49 0.60
51 14 0.17
52 18 0.22
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (50 bp):
GTTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAA
Found at i:419876 original size:17 final size:17
Alignment explanation
Indices: 419845--419877 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
419835 CAAACACTTA
419845 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
419862 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
419878 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:422763 original size:25 final size:25
Alignment explanation
Indices: 422699--422772 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
422689 TAAAAAATTT
* * * *
422699 AGCTCATACGAGCCCAAATAGAGTT
1 AGCTCTTACGAGCCTAGATAGAGTC
* *
422724 AGCTTTTACGTGCCTAGATAGAGTC
1 AGCTCTTACGAGCCTAGATAGAGTC
* *
422749 AGCTCTTATGAGCCTAGACAGAGT
1 AGCTCTTACGAGCCTAGATAGAGT
422773 TTAAACAGTA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCTCTTACGAGCCTAGATAGAGTC
Found at i:425012 original size:3 final size:3
Alignment explanation
Indices: 425006--425034 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
424996 TTGGTCGTGT
425006 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
425035 CAAAATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:461217 original size:18 final size:18
Alignment explanation
Indices: 461196--461250 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
461186 ATATATAAAG
461196 AATAAAAATATAATAAGT
1 AATAAAAATATAATAAGT
*
461214 AAT-AGAA-ATAATAAAG-
1 AATAAAAATATAAT-AAGT
*
461230 AATAAAAGTATAATAAGT
1 AATAAAAATATAATAAGT
461248 AAT
1 AAT
461251 GGTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 8 0.27
17 11 0.37
18 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.25
Consensus pattern (18 bp):
AATAAAAATATAATAAGT
Found at i:461226 original size:16 final size:17
Alignment explanation
Indices: 461200--461250 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
461190 ATAAAGAATA
*
461200 AAAATATAATAAGTAAT
1 AAAAGATAATAAGTAAT
*
461217 AGAA-ATAATAAAG-AAT
1 AAAAGATAAT-AAGTAAT
461233 AAAAGTATAATAAGTAAT
1 AAAAG-ATAATAAGTAAT
461251 GGTCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 11 0.39
17 9 0.32
18 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAAGATAATAAGTAAT
Found at i:461233 original size:34 final size:35
Alignment explanation
Indices: 461185--461250 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
461175 ATGTTATGGC
461185 AATATATAAAGAATAAAAATATAATAAGTAATAGA
1 AATATATAAAGAATAAAAATATAATAAGTAATAGA
*
461220 AATA-ATAAAGAATAAAAGTATAATAAGTAAT
1 AATATATAAAGAATAAAAATATAATAAGTAAT
461251 GGTCATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (35 bp):
AATATATAAAGAATAAAAATATAATAAGTAATAGA
Found at i:461476 original size:15 final size:15
Alignment explanation
Indices: 461430--461489 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
461420 GGTTGTTTTG
461430 GTGCAAGAAAAGTAAA
1 GTGCAAG-AAAGTAAA
**
461446 -TGCAA-AACTTTAAA
1 GTGCAAGAA-AGTAAA
*
461460 GTGCGAGAAAGTAAA
1 GTGCAAGAAAGTAAA
*
461475 GTGCAAGAATGTAAA
1 GTGCAAGAAAGTAAA
461490 TTGGTAAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
13 2 0.06
14 4 0.12
15 26 0.76
16 2 0.06
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.18
Consensus pattern (15 bp):
GTGCAAGAAAGTAAA
Found at i:462775 original size:20 final size:20
Alignment explanation
Indices: 462701--462768 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
462691 GGCACCGAAA
462701 TGCAAACAAGGGAACAAATG
1 TGCAAACAAGGGAACAAATG
*
462721 TGCAAACATGGGAATC-AATG
1 TGCAAACAAGGGAA-CAAATG
* *
462741 TGCAATCAAGGGCACAAATG
1 TGCAAACAAGGGAACAAATG
462761 TGCAAACA
1 TGCAAACA
462769 GAGGCACTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
TGCAAACAAGGGAACAAATG
Found at i:462784 original size:40 final size:39
Alignment explanation
Indices: 462664--462785 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 39
462654 CATAGATGCA
* * * *
462664 AATCAAGGGCACAGATGTAC-AACTAGGGGCACCGAAATGC
1 AATCAAGGGCACAAATGTGCAAAC-A-GGGCACTGAAGTGC
* * * *
462704 AAACAAGGGAACAAATGTGCAAACATGGG-AATCAATGTGC
1 AATCAAGGGCACAAATGTGCAAACA-GGGCACTGAA-GTGC
*
462744 AATCAAGGGCACAAATGTGCAAACAGAGGCACTGAGGTGC
1 AATCAAGGGCACAAATGTGCAAACAG-GGCACTGAAGTGC
462784 AA
1 AA
462786 ACAAAGGCGC
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
39 4 0.06
40 54 0.84
41 6 0.09
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (39 bp):
AATCAAGGGCACAAATGTGCAAACAGGGCACTGAAGTGC
Found at i:463468 original size:290 final size:289
Alignment explanation
Indices: 462930--463498 Score: 1066
Period size: 290 Copynumber: 2.0 Consensus size: 289
462920 CACATTTATA
*
462930 TATATATATATATATCAATTAACCAGAAATTAGTAATCTATAACACAAGTAAATTAAAAATTCTA
1 TATATATATATATATCAATTAACCAGAAATTAGTAATCTAGAACACAAGTAAATTAAAAATTCTA
462995 ATACAAAACACTATGAACTTACTTACGATCCACTTCTAGTTCAAATGCAAGGACTACTCATAAAT
66 ATACAAAACACTATGAACTTACTTACGATCCACTTCTAGTTCAAATGCAAGGACTACTCATAAAT
*
463060 TTTCCCTTTCCTTGGTTTTTGACTTATTGATGCGTTTCTTGATCTATATAATAATTAAATACAAT
131 TTTCCCTTTCCTTGGTTTTTGACTTATTGATGCGGTTCTTGATCTATATAATAATTAAATACAAT
* *
463125 CTATTAATCTCATATACTATTCACACTTAATTTAATGCATATGACACTTAATTTTCATTAATTAC
196 CTACTAATCTCATATACTATTCACACTTAATTTAATGCACATGACACTTAATTTTCATTAATTAC
463190 ACATTTTCCTTATACCTTTTCATCAAATT
261 ACATTTTCCTTATACCTTTTCATCAAATT
463219 TATATATATATATATCAATTAACCAGAAATTAGTAATCTAGAACACAAGTAAATTAAAAATTCTA
1 TATATATATATATATCAATTAACCAGAAATTAGTAATCTAGAACACAAGTAAATTAAAAATTCTA
* *
463284 ATACAAAACACTATGAACTTACTTACGATCCACTTTTGGTTCAAATGCAAGGACTACTCCATAAA
66 ATACAAAACACTATGAACTTACTTACGATCCACTTCTAGTTCAAATGCAAGGACTACT-CATAAA
463349 TTTTCCCTTTCCTTGGTTTTTGACTTATTGATGCGGTTCTTGATCTATATAATAATTAAATACAA
130 TTTTCCCTTTCCTTGGTTTTTGACTTATTGATGCGGTTCTTGATCTATATAATAATTAAATACAA
*
463414 TCTACTAGTCTCATATACTATTCACACTTAATTTAATGCACATGACACTTAATTTTCATTAATTA
195 TCTACTAATCTCATATACTATTCACACTTAATTTAATGCACATGACACTTAATTTTCATTAATTA
463479 CACATTTTCCTTATACCTTT
260 CACATTTTCCTTATACCTTT
463499 ACATTCATCA
Statistics
Matches: 272, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
289 120 0.44
290 152 0.56
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (289 bp):
TATATATATATATATCAATTAACCAGAAATTAGTAATCTAGAACACAAGTAAATTAAAAATTCTA
ATACAAAACACTATGAACTTACTTACGATCCACTTCTAGTTCAAATGCAAGGACTACTCATAAAT
TTTCCCTTTCCTTGGTTTTTGACTTATTGATGCGGTTCTTGATCTATATAATAATTAAATACAAT
CTACTAATCTCATATACTATTCACACTTAATTTAATGCACATGACACTTAATTTTCATTAATTAC
ACATTTTCCTTATACCTTTTCATCAAATT
Found at i:468229 original size:16 final size:17
Alignment explanation
Indices: 468201--468232 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
468191 TTAACCATAA
468201 AACATTCATTCATGCAT
1 AACATTCATTCATGCAT
468218 AACATT-ATTCATGCA
1 AACATTCATTCATGCA
468233 GGTCTGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (17 bp):
AACATTCATTCATGCAT
Found at i:470209 original size:3 final size:3
Alignment explanation
Indices: 470201--470234 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
470191 TATAACCTAG
470201 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
470235 CAAAGTAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:471392 original size:8 final size:8
Alignment explanation
Indices: 471368--471409 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
471358 AGTTTATATA
471368 TTTTAATT
1 TTTTAATT
*
471376 TGATT-ATT
1 T-TTTAATT
471384 TTTTAATT
1 TTTTAATT
471392 TTTTAATT
1 TTTTAATT
*
471400 TTTAAATT
1 TTTTAATT
471408 TT
1 TT
471410 AAAATTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 2 0.07
8 25 0.86
9 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTAATT
Found at i:474101 original size:18 final size:20
Alignment explanation
Indices: 474078--474120 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
474068 CGTTTTAAAG
474078 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTTAT
*
474096 TTTATAGTTATTAATTTTTT
1 TTTATAGTTATTAATTTTAT
474116 TTTAT
1 TTTAT
474121 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTATAGTTATTAATTTTAT
Found at i:476683 original size:87 final size:87
Alignment explanation
Indices: 476481--476757 Score: 358
Period size: 87 Copynumber: 3.2 Consensus size: 87
476471 AAACCTCCGA
* * * *
476481 CATCGGACCTTTCATCTCGA-TCGTCATAGGCCCAATTTAGTAACTCACGATGCTATAGAAAATC
1 CATCGAACCTTTAATCTCGACT-GTCATAGGCCCAATTTGGTAACTCACGATGCAATAGAAAATC
* * *
476545 CGCAAACAAATGCAAGATTTTCGT
65 CGC-AACAAATGCAGGATTTCCAT
* ** * *
476569 CATCGAACCTTTAATCTCGGCCATCATAGGCCCAATTTGGTAATTCACGATGCAATAGAAAATCT
1 CATCGAACCTTTAATCTCGACTGTCATAGGCCCAATTTGGTAACTCACGATGCAATAGAAAATCC
*
476634 ACAACAAATGCAGGATTTCCAT
66 GCAACAAATGCAGGATTTCCAT
* ** * * *
476656 CATCGGACCTTTAATCTCGACTGTCATAGGTTCAATTTGATAACTCATGATGCCATAGAAAATCC
1 CATCGAACCTTTAATCTCGACTGTCATAGGCCCAATTTGGTAACTCACGATGCAATAGAAAATCC
476721 GCAACAAATGCAGGATTTCCAT
66 GCAACAAATGCAGGATTTCCAT
476743 CATCGAACCTTTAAT
1 CATCGAACCTTTAAT
476758 TTGTAATAGG
Statistics
Matches: 162, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
87 106 0.65
88 56 0.35
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (87 bp):
CATCGAACCTTTAATCTCGACTGTCATAGGCCCAATTTGGTAACTCACGATGCAATAGAAAATCC
GCAACAAATGCAGGATTTCCAT
Found at i:476794 original size:175 final size:172
Alignment explanation
Indices: 476481--476841 Score: 362
Period size: 175 Copynumber: 2.1 Consensus size: 172
476471 AAACCTCCGA
* *
476481 CATCGGACCTTTCATCTCGATCGTCATAGGCCCAATTTAGTAACTCACGATGCTATAGAAAATCC
1 CATCGGACCTTTAATCTCGATCGTCATAGGCCCAATTTAGTAACTCACGATGCCATAGAAAATCC
* * *
476546 GCAAACAAATGCAAGATTTTCGTCATCGAACCTTTAATCTCGGCCATCATAGGCCCAATTTGGTA
66 GCAAACAAATGCAAGATTTCCATCATCGAACCTTTAATCTCGG-C-TAATAGGCCCAATTTGGTA
*
476611 ATTCACGATG-CAATAGAAAATCTACAACAAAT-GCAGGATT-TCCAT
129 ATTCACGATGACAA-A-AAAATCCACAA-AAATCGCAGGATTCT-CAT
** *
476656 CATCGGACCTTTAATCTCGA-CTGTCATAGGTTCAATTT-GATAACTCATGATGCCATAGAAAAT
1 CATCGGACCTTTAATCTCGATC-GTCATAGGCCCAATTTAG-TAACTCACGATGCCATAGAAAAT
* * ** *
476719 CCGC-AACAAATGCAGGATTTCCATCATCGAACCTTTAAT-T-TG-TAATAGGATTCATTTCTCA
64 CCGCAAACAAATGCAAGATTTCCATCATCGAACCTTTAATCTCGGCTAATAGG-CCCAATT-T--
** * * *
476780 TTTAATACTCACGATGACAAAAGAATCCACGAAAATCGCAGGATTCTCGT
125 GGTAAT--TCACGATGACAAAAAAATCCACAAAAATCGCAGGATTCTCAT
476830 CATCGGACCTTT
1 CATCGGACCTTT
476842 TTACATTTCA
Statistics
Matches: 156, Mismatches: 19, Indels: 23
0.79 0.10 0.12
Matches are distributed among these distances:
169 6 0.04
170 4 0.03
171 1 0.01
172 1 0.01
173 9 0.06
174 64 0.41
175 68 0.44
176 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (172 bp):
CATCGGACCTTTAATCTCGATCGTCATAGGCCCAATTTAGTAACTCACGATGCCATAGAAAATCC
GCAAACAAATGCAAGATTTCCATCATCGAACCTTTAATCTCGGCTAATAGGCCCAATTTGGTAAT
TCACGATGACAAAAAAATCCACAAAAATCGCAGGATTCTCAT
Found at i:501846 original size:6 final size:6
Alignment explanation
Indices: 501831--501867 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
501821 CTATTTGTAG
*
501831 CTTTTT CTTTTC CTTTTT CTTTTT -TTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
501868 CGCCTCGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:501858 original size:11 final size:11
Alignment explanation
Indices: 501832--501865 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
501822 TATTTGTAGC
*
501832 TTTTTCTTTTCC
1 TTTTTCTTTT-T
501844 TTTTTCTTTTT
1 TTTTTCTTTTT
501855 TTTTTCTTTTT
1 TTTTTCTTTTT
501866 CTCGCCTCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:501858 original size:17 final size:18
Alignment explanation
Indices: 501831--501867 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
501821 CTATTTGTAG
501831 CTTTTTCTTTTCCTTTTT
1 CTTTTTCTTTTCCTTTTT
*
501849 CTTTTT-TTTTTCTTTTT
1 CTTTTTCTTTTCCTTTTT
501866 CT
1 CT
501868 CGCCTCGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTTTCTTTTCCTTTTT
Found at i:505483 original size:29 final size:29
Alignment explanation
Indices: 505451--505760 Score: 161
Period size: 30 Copynumber: 10.5 Consensus size: 29
505441 ATTTTGAGCT
**
505451 TAAAATGTAATTTTAGAAAAGTTCGAGGG
1 TAAAATGTAATTTTAGAAAAGTTTTAGGG
* *
505480 TAAAATGT-ATTTTGGAAAA-TTTTGGGGG
1 TAAAATGTAATTTTAGAAAAGTTTT-AGGG
* ** * * *
505508 TTGAAACATAATTTTTGGAAAGTTTAAGGG
1 -TAAAATGTAATTTTAGAAAAGTTTTAGGG
* * * *
505538 TCAAAATATAATCTT-GAAAAAATTTAAGGG
1 T-AAAATGTAATTTTAG-AAAAGTTTTAGGG
* * *
505568 CCAAAATGTAATTTTTGGAAAG-TTTAGGGG
1 -TAAAATGTAATTTTAGAAAAGTTTTA-GGG
* *
505598 TTAAAATGTAATTTTTGGAAAG-TTTAGGG
1 -TAAAATGTAATTTTAGAAAAGTTTTAGGG
* *
505627 GATAAATGTAA-TTTATGGAAA-TTTTAGGGG
1 TA-AAATGTAATTTTA-GAAAAGTTTTA-GGG
* ** *
505657 TTAAAATGAAATTTTAGAAATTTTTTAGGT
1 -TAAAATGTAATTTTAGAAAAGTTTTAGGG
*
505687 TAAAATGTGATTTTAGAAAAG-TTTAGGGG
1 TAAAATGTAATTTTAGAAAAGTTTTA-GGG
* *
505716 TCAAAATGTGATTTTAGGAAA-TTTTAGGGG
1 T-AAAATGTAATTTTAGAAAAGTTTTA-GGG
*
505746 TCAAAATGTGATTTT
1 T-AAAATGTAATTTT
505761 TAGGTAAAAC
Statistics
Matches: 225, Mismatches: 37, Indels: 37
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.01
28 21 0.09
29 58 0.26
30 130 0.58
31 14 0.06
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
TAAAATGTAATTTTAGAAAAGTTTTAGGG
Found at i:505549 original size:30 final size:30
Alignment explanation
Indices: 505516--505761 Score: 196
Period size: 30 Copynumber: 8.3 Consensus size: 30
505506 GGTTGAAACA
*
505516 TAATTTTTGGAAAGTTTAAGGGTCAAAATA
1 TAATTTTTGGAAAGTTTAAGGGTCAAAATG
* * * *
505546 TAA-TCTTGAAAAAATTTAAGGGCCAAAATG
1 TAATTTTTG-GAAAGTTTAAGGGTCAAAATG
* *
505576 TAATTTTTGGAAAGTTTAGGGGTTAAAATG
1 TAATTTTTGGAAAGTTTAAGGGTCAAAATG
*
505606 TAATTTTTGGAAAGTTT-AGGG-GATAAATG
1 TAATTTTTGGAAAGTTTAAGGGTCA-AAATG
* * * *
505635 TAATTTATGGAAATTTTAGGGGTTAAAATG
1 TAATTTTTGGAAAGTTTAAGGGTCAAAATG
* * * * *
505665 -AAATTTTAGAAATTTTTTA-GGTTAAAATG
1 TAATTTTTGGAAA-GTTTAAGGGTCAAAATG
* * * *
505694 TGATTTTAGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTTGGAAAGTTTAAGGGTCAAAATG
* * * *
505724 TGATTTTAGGAAATTTTAGGGGTCAAAATG
1 TAATTTTTGGAAAGTTTAAGGGTCAAAATG
*
505754 TGATTTTT
1 TAATTTTT
505762 AGGTAAAACA
Statistics
Matches: 174, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 49 0.28
30 119 0.68
31 5 0.03
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATTTTTGGAAAGTTTAAGGGTCAAAATG
Found at i:505663 original size:59 final size:57
Alignment explanation
Indices: 505452--505760 Score: 198
Period size: 59 Copynumber: 5.2 Consensus size: 57
505442 TTTTGAGCTT
* * *
505452 AAAATGTAATTTTAGAAAAG-TTCGAGGG-TAAAATGT-A-TTTTGGAAAATTTTGGGGG
1 AAAATGTAATTTT-GGAAAGTTTAG-GGGTTAAAATGTAATTTTTGG-AAATTTTAGGGG
* ** * * * * * * *
505508 TTGAAACATAATTTTTGGAAAGTTTAAGGGTCAAAATATAA-TCTTGAAAAAATTTAAGGGCC
1 --AAAATGTAA-TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTG--GAAATTTTAGGG-G
*
505570 AAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGG
1 AAAATGTAA-TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAATTTTAGGGG
* * * **
505628 ATAAATGTAATTTATGGAAATTTTAGGGGTTAAAATG-AAATTTTAGAAATTTTTTAGGTT
1 A-AAATGTAATTT-TGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAA--TTTTAGGGG
* * * * *
505688 AAAATGTGATTTTAGAAAAGTTTAGGGGTCAAAATGTGATTTTAGGAAATTTTAGGGG
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAATTTTAGGGG
*
505746 TCAAAATGTGATTTT
1 --AAAATGTAATTTT
505761 TAGGTAAAAC
Statistics
Matches: 195, Mismatches: 40, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
58 36 0.18
59 80 0.41
60 66 0.34
61 13 0.07
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (57 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAATTTTAGGGG
Found at i:506438 original size:33 final size:33
Alignment explanation
Indices: 506365--506439 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 33
506355 AAGAAGTTTG
506365 TTTATTTGATGATTTTCGAATCTTTTCCTTGTTA
1 TTTATTT-ATGATTTTCGAATCTTTTCCTTGTTA
*
506399 GATTATTT-TGATTTTCGAATCTTTTCTTCTTGTT-
1 -TTTATTTATGATTTTCGAATCTTTTC--CTTGTTA
506433 TTTATTT
1 TTTATTT
506440 CAATTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 24 0.67
35 12 0.33
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (33 bp):
TTTATTTATGATTTTCGAATCTTTTCCTTGTTA
Found at i:507993 original size:50 final size:50
Alignment explanation
Indices: 507901--508581 Score: 570
Period size: 50 Copynumber: 13.8 Consensus size: 50
507891 TGGTATCAGA
* * * * * **
507901 TTCGTCGTCGCGGCCTCGATCC-TTCCCATCACATTTTTTAAGGTACCAAG
1 TTCGCCGTTGCGGCCTC-AACCTTTCCCATCACATCTTCTAAGGTACCGGG
** * *
507951 TTCATCGTTGCGGCCTCAACCTTTCCTATCACATCTTCTAAGGT-TCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
** * * * *
508000 TTCGCCAATGCGGCCTCAACCTTTCCCTTAATATCTTC-ATGGTACCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
508049 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * * *
508099 TTCACCGTTGCGGCCTCAACCTTTCCCTTTATATCTTC-ATGGTATCAGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * *
508148 TTCGCTGTTACGGCTTAAACCTTTCCCATCACATTTTCTAAGGTATCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * *
508198 TTCGCCGTTGCAGCCTCAACCTTTCCCATCACATTTTCTAAGGTATCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * * * ***
508248 TTCACCGTTGCAGCCTCAACCTTTCCCTTCATATTTTC-ATGGCATTAGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * ** **
508297 TTTGCCATTATGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTAGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * *
508347 TTCACTGTTGCAGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * *
508397 TTTGCCATTGCAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * * *
508446 TTCGTCGTTGCGACCTCAACCTTTCCCGTCACAT-TTC-ATGGAATCGGA
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
** * **
508494 TTCGCCGTTGCGGCCTCAATCC-TTCCCATCATGTCTTATAAGGTACCAAG
1 TTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACCGGG
* * * * * * *
508544 TTTGTCGTTACAGCCTCAACCTTTTCCTTCAAATCTTC
1 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTC
508582 ATGTTTCCTT
Statistics
Matches: 504, Mismatches: 118, Indels: 18
0.79 0.18 0.03
Matches are distributed among these distances:
48 41 0.08
49 187 0.37
50 276 0.55
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (50 bp):
TTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
Found at i:508150 original size:99 final size:99
Alignment explanation
Indices: 507956--508530 Score: 593
Period size: 99 Copynumber: 5.8 Consensus size: 99
507946 CCAAGTTCAT
* *
507956 CGTTGCGGCCTCAACCTTTCCTATCACATCTTCTAAGGT-TCGGGTTCGCCAATGCGGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
*
508020 CTTTCCCTTAATATCTTCATGGTACCGGGTTCGC
66 CTTTCCCTTCATATCTTCATGGTACCGGGTTCGC
* * *
508054 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
* * *
508119 CTTTCCCTTTATATCTTCATGGTATCAGGTTCGC
66 CTTTCCCTTCATATCTTCATGGTACCGGGTTCGC
* * * * * * *
508153 TGTTACGGCTTAAACCTTTCCCATCACATTTTCTAAGGTATCGGGTTCGCCGTTGCAGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
* * * * * *
508218 CTTTCCCATCACATTTTCTAAGGTATCGGGTTCAC
66 CTTTCCCTTCATATCTTC-ATGGTACCGGGTTCGC
* * * * * * ** * **
508253 CGTTGCAGCCTCAACCTTTCCCTTCATATTTTC-ATGGCATTAGGTTTGCCATTATGGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
* * * ** *
508317 CTTTCCCATCACATCTTCTAAGGTACTAGGTTCAC
66 CTTTCCCTTCATATCTTC-ATGGTACCGGGTTCGC
* * * * * * *
508352 TGTTGCAGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTTGCCATTGCAGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
*
508417 CTTTCCCTTCATATCTTCATGGTACCGGGTTCGT
66 CTTTCCCTTCATATCTTCATGGTACCGGGTTCGC
* * * * * *
508451 CGTTGCGACCTCAACCTTTCCCGTCACAT-TTC-ATGGAATCGGATTCGCCGTTGCGGCCTCAAT
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAA-
* *
508514 CC-TTCCCATCATGTCTT
65 CCTTTCCCTTCATATCTT
508531 ATAAGGTACC
Statistics
Matches: 394, Mismatches: 79, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
97 35 0.09
98 43 0.11
99 239 0.61
100 77 0.20
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (99 bp):
CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAAC
CTTTCCCTTCATATCTTCATGGTACCGGGTTCGC
Found at i:508248 original size:149 final size:148
Alignment explanation
Indices: 507923--508584 Score: 695
Period size: 149 Copynumber: 4.5 Consensus size: 148
507913 GCCTCGATCC
* * * * * *
507923 TTCCCATCACATTTTTTAAGGTACCAAGTTCATCGTTGCGGCCTCAACCTTT-CCTATCACATCT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCT-TCATATCT
* * * * * * * * *
507987 TCTAAGGT-TCGGGTTCGCCAATGCGGCCTCAACCTTTCCCTTAATATCTTCATGGTACCGGGTT
65 TC-ATGGTATCAGGTTCGCCATTACGGCCTCAACCTTTCCCATCACATCTTCAAGGTATCGGGTT
*
508051 CGCCGTTGCGGCCTCAACCT
129 CGCCGTTGCAGCCTCAACCT
* * *
508071 TTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTATATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTT
** * * *
508136 CATGGTATCAGGTTCGCTGTTACGGCTTAAACCTTTCCCATCACATTTTCTAAGGTATCGGGTTC
66 CATGGTATCAGGTTCGCCATTACGGCCTCAACCTTTCCCATCACATCTTC-AAGGTATCGGGTTC
508201 GCCGTTGCAGCCTCAACCT
130 GCCGTTGCAGCCTCAACCT
* * * *
508220 TTCCCATCACATTTTCTAAGGTATCGGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATTTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTT
* * * * *
508285 CATGGCATTAGGTTTGCCATTATGGCCTCAACCTTTCCCATCACATCTTCTAAGGTA-CTAGGTT
66 CATGGTATCAGGTTCGCCATTACGGCCTCAACCTTTCCCATCACATCTTC-AAGGTATC-GGGTT
* *
508349 CACTGTTGCAGCCTCAACCT
129 CGCCGTTGCAGCCTCAACCT
* ** *
508369 TTCCTATCACATCTTCTAAGGTACCGAGTTTGCCATTGCAGCCTCAACCTTTCCCTTCATATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTT
* * * * * * * * * *
508434 CATGGTACCGGGTTCGTCGTTGCGACCTCAACCTTTCCCGTCACAT-TTCATGGAATCGGATTCG
66 CATGGTATCAGGTTCGCCATTACGGCCTCAACCTTTCCCATCACATCTTCAAGGTATCGGGTTCG
*
508498 CCGTTGCGGCCTCAATCC-
131 CCGTTGCAGCCTCAA-CCT
** * * *** * * *
508516 TTCCCATCATGTCTTATAAGGTACCAAGTTTGTCGTTACAGCCTCAACCTTTTCCTTCAAATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTT
508581 CATG
66 CATG
508585 TTTCCTTGGT
Statistics
Matches: 433, Mismatches: 75, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
147 84 0.19
148 94 0.22
149 255 0.59
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (148 bp):
TTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTT
CATGGTATCAGGTTCGCCATTACGGCCTCAACCTTTCCCATCACATCTTCAAGGTATCGGGTTCG
CCGTTGCAGCCTCAACCT
Found at i:511078 original size:13 final size:12
Alignment explanation
Indices: 511058--511108 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
511048 CTTTTTTCCC
511058 TTTT-TTTCTCTT
1 TTTTATTTCT-TT
511070 TTTTATTTCTTT
1 TTTTATTTCTTT
* *
511082 TTTTCTTTTTTTT
1 TTTT-ATTTCTTT
*
511095 TTTTATTTATTT
1 TTTTATTTCTTT
511107 TT
1 TT
511109 CTTCATCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 18 0.55
13 15 0.45
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTCTTT
Found at i:511081 original size:21 final size:21
Alignment explanation
Indices: 511057--511111 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
511047 TCTTTTTTCC
511057 CTTTTTTTCTCTTTTTTATTT
1 CTTTTTTTCTCTTTTTTATTT
* *
511078 CTTTTTTTCTTTTTTTTTTTT
1 CTTTTTTTCTCTTTTTTATTT
*
511099 ATTTATTTT-TCTT
1 CTTT-TTTTCTCTT
511112 CATCGAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (21 bp):
CTTTTTTTCTCTTTTTTATTT
Found at i:516578 original size:59 final size:58
Alignment explanation
Indices: 516499--516633 Score: 146
Period size: 59 Copynumber: 2.3 Consensus size: 58
516489 TTTTGAGGTC
* * * * * *
516499 AAAATGTAATTTTGGGAAGTTCGAGGGTCCAAATGTAATTTTTAGAAAG-TTAGGGGTT
1 AAAATGAAATTTTAGAAAGTTCAAGGGTCAAAATGTAATTTATAGAAAGTTTAGGGG-T
** * * *
516557 AAAATTTAATTATTAGAAAGTTTAAGGGTTAAAATGTAATTTATGGAAAGTTTAGGGGT
1 AAAATGAAATT-TTAGAAAGTTCAAGGGTCAAAATGTAATTTATAGAAAGTTTAGGGGT
516616 AAAATGAAATTTTAGAAA
1 AAAATGAAATTTTAGAAA
516634 ATTTTAGGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 17 0.27
59 40 0.62
60 7 0.11
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (58 bp):
AAAATGAAATTTTAGAAAGTTCAAGGGTCAAAATGTAATTTATAGAAAGTTTAGGGGT
Found at i:516588 original size:30 final size:29
Alignment explanation
Indices: 516499--516716 Score: 163
Period size: 30 Copynumber: 7.4 Consensus size: 29
516489 TTTTGAGGTC
* * ** *
516499 AAAATGTAATTTTGGGAAGTTCGAGGGTC
1 AAAATGTAATTTTAGAAAGTTTAAGGGTT
* *
516528 CAAATGTAATTTTTAGAAAG-TTAGGGGTT
1 AAAATGTAA-TTTTAGAAAGTTTAAGGGTT
*
516557 AAAATTTAATTATTAGAAAGTTTAAGGGTT
1 AAAATGTAATT-TTAGAAAGTTTAAGGGTT
* *
516587 AAAATGTAATTTATGGAAAGTTT-AGGGGT
1 AAAATGTAATTT-TAGAAAGTTTAAGGGTT
* * *
516616 AAAATGAAATTTTAGAAAATTTTA-GGTT
1 AAAATGTAATTTTAGAAAGTTTAAGGGTT
* * * **
516644 GAAATGTGATTTTGGGAAAGTTTGGGGGTT
1 AAAATGTAATTTT-AGAAAGTTTAAGGGTT
* * * *
516674 AAAATGTGATTTTGGGAAAGTTTAGGGGTC
1 AAAATGTAATTTT-AGAAAGTTTAAGGGTT
*
516704 AAAATGTGATTTT
1 AAAATGTAATTTT
516717 TGGGTAAAAC
Statistics
Matches: 155, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.15
29 53 0.34
30 79 0.51
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAAGGGTT
Found at i:526908 original size:21 final size:21
Alignment explanation
Indices: 526884--526923 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
526874 AAAAACAATA
*
526884 TAATGGTTTT-ACATTTTAACT
1 TAATGCTTTTAAC-TTTTAACT
526905 TAATGCTTTTAACTTTTAA
1 TAATGCTTTTAACTTTTAA
526924 TTTTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
TAATGCTTTTAACTTTTAACT
Found at i:527770 original size:16 final size:16
Alignment explanation
Indices: 527747--527784 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
527737 TAATACATTG
* *
527747 ATTATTTTGAATT-AT
1 ATTATTTTTAATTCAA
527762 ATTATTTTTAATTCAA
1 ATTATTTTTAATTCAA
527778 ATTATTT
1 ATTATTT
527785 ATATGTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTATTTTTAATTCAA
Found at i:528031 original size:11 final size:11
Alignment explanation
Indices: 528000--528024 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
527990 CTAATTTTGT
528000 TTTTTAATTTA
1 TTTTTAATTTA
528011 TTTTTAATTTA
1 TTTTTAATTTA
528022 TTT
1 TTT
528025 ATTATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTAATTTA
Found at i:528470 original size:11 final size:10
Alignment explanation
Indices: 528440--528484 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
528430 GTTACATATA
528440 TATATTTA-T
1 TATATTTATT
528449 T-TATTTATT
1 TATATTTATT
528458 TATATTCTATT
1 TATATT-TATT
*
528469 TATTTTTATT
1 TATATTTATT
528479 T-TATTT
1 TATATTT
528485 TTTCTTCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 6 0.19
9 7 0.23
10 9 0.29
11 9 0.29
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TATATTTATT
Found at i:528470 original size:15 final size:14
Alignment explanation
Indices: 528446--528484 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
528436 TATATATATT
528446 TATTTATTTATTTA
1 TATTTATTTATTTA
*
528460 TATTCTATTTATTTT
1 TATT-TATTTATTTA
528475 TATTTTATTT
1 TA-TTTATTT
528485 TTTCTTCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 16 0.73
16 2 0.09
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:529284 original size:38 final size:38
Alignment explanation
Indices: 529237--529310 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
529227 TTATTTTTCG
*** *
529237 TTTAATTTGCATGATTTTGATTATTTATTTTTTATTTA
1 TTTAATTTGCATGATTGAAATTATTTATTATTTATTTA
529275 TTTAATTTGCATGATTGAAATTATTTATTATTTATT
1 TTTAATTTGCATGATTGAAATTATTTATTATTTATT
529311 CTTTGCTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (38 bp):
TTTAATTTGCATGATTGAAATTATTTATTATTTATTTA
Found at i:529299 original size:34 final size:36
Alignment explanation
Indices: 529237--529310 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 36
529227 TTATTTTTCG
* *
529237 TTTAATTTGCATGATTTTGATTATTTATTTTTTATTTA
1 TTTAATTTGCATGA-TTTGA-TAATTATTTATTATTTA
529275 TTTAATTTGCATGA-TTGA-AATTATTTATTATTTA
1 TTTAATTTGCATGATTTGATAATTATTTATTATTTA
529309 TT
1 TT
529311 CTTTGCTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 16 0.47
36 4 0.12
38 14 0.41
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (36 bp):
TTTAATTTGCATGATTTGATAATTATTTATTATTTA
Found at i:529511 original size:18 final size:18
Alignment explanation
Indices: 529488--529522 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
529478 ACATTTAATT
529488 TTTATTTAAT-TATTATTA
1 TTTATTT-ATGTATTATTA
529506 TTTATTTATGTATTATT
1 TTTATTTATGTATTATT
529523 TTATGGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATTTATGTATTATTA
Found at i:530441 original size:5 final size:5
Alignment explanation
Indices: 530431--530481 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
530421 AATAGTGCAT
*
530431 AATAA AATAA AATAA AATAA AATGAA AATGAA AATGAA AATGA AATGAA
1 AATAA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA AATAA AAT-AA
530480 AA
1 AA
530482 AGAAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
5 22 0.52
6 20 0.48
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:530460 original size:6 final size:6
Alignment explanation
Indices: 530434--530537 Score: 77
Period size: 6 Copynumber: 18.7 Consensus size: 6
530424 AGTGCATAAT
530434 AAAAT- AAAAT- AAAAT- AAAATG AAAATG AAAATG AAAATG -AAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* * *
530478 AAAAAG AAAA-A AAAAAG AAAA-- AAAATGAG AAAATG -AAA-- AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAAT--G AAAATG AAAATG AAAATG
530522 AAAAATG AAAAT- AAAA
1 -AAAATG AAAATG AAAA
530538 GTACTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 22
0.77 0.03 0.20
Matches are distributed among these distances:
4 7 0.08
5 31 0.36
6 36 0.42
7 6 0.07
8 5 0.06
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:530476 original size:11 final size:11
Alignment explanation
Indices: 530434--530486 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
530424 AGTGCATAAT
*
530434 AAAATAAAAT-
1 AAAATGAAATG
*
530444 AAAATAAAATG
1 AAAATGAAATG
530455 AAAATGAAAATG
1 AAAATG-AAATG
530467 AAAATGAAATG
1 AAAATGAAATG
*
530478 AAAAAGAAA
1 AAAATGAAA
530487 AAAAAAAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
10 10 0.26
11 18 0.46
12 11 0.28
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (11 bp):
AAAATGAAATG
Found at i:530476 original size:17 final size:17
Alignment explanation
Indices: 530434--530533 Score: 74
Period size: 17 Copynumber: 6.3 Consensus size: 17
530424 AGTGCATAAT
*
530434 AAAATAAAAT-AAAAT-
1 AAAATGAAATGAAAATG
530449 AAAATGAAAATGAAAATG
1 AAAATG-AAATGAAAATG
*
530467 AAAATGAAATGAAAAAG
1 AAAATGAAATGAAAATG
** *
530484 AAAAAAAAAAGAAAA--
1 AAAATGAAATGAAAATG
530499 AAAATG--A-GAAAATG
1 AAAATGAAATGAAAATG
530513 AAAA--AAATGAAAAATG
1 AAAATGAAATG-AAAATG
530529 AAAAT
1 AAAAT
530534 AAAAGTACTA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
12 5 0.07
13 1 0.01
14 5 0.07
15 10 0.15
16 14 0.21
17 27 0.40
18 6 0.09
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (17 bp):
AAAATGAAATGAAAATG
Found at i:530498 original size:10 final size:11
Alignment explanation
Indices: 530478--530502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
530468 AAATGAAATG
530478 AAAAAGAAAAA
1 AAAAAGAAAAA
530489 AAAAAGAAAAA
1 AAAAAGAAAAA
530500 AAA
1 AAA
530503 TGAGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:530516 original size:16 final size:16
Alignment explanation
Indices: 530455--530532 Score: 78
Period size: 17 Copynumber: 5.1 Consensus size: 16
530445 AAATAAAATG
530455 AAAATG-AAAATGAAA
1 AAAATGAAAAATGAAA
530470 ATGAAATGAAAAA-GAAA
1 A--AAATGAAAAATGAAA
*
530487 AAAA--AAAGA--AAA
1 AAAATGAAAAATGAAA
530499 AAAATGAGAAAATGAAA
1 AAAATGA-AAAATGAAA
530516 AAAATGAAAAATGAAA
1 AAAATGAAAAATGAAA
530532 A
1 A
530533 TAAAAGTACT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
12 7 0.13
13 4 0.08
14 1 0.02
15 7 0.13
16 10 0.19
17 20 0.38
18 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (16 bp):
AAAATGAAAAATGAAA
Found at i:533416 original size:14 final size:13
Alignment explanation
Indices: 533396--533433 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
533386 ATAAAAAGAA
533396 AAAAAATTAAAAT
1 AAAAAATTAAAAT
533409 ATAAAAATT-AAAT
1 A-AAAAATTAAAAT
533422 AAAAAATGTAAA
1 AAAAAAT-TAAA
533434 TAGTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.27
13 7 0.32
14 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:533421 original size:13 final size:13
Alignment explanation
Indices: 533397--533441 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
533387 TAAAAAGAAA
533397 AAAAATTAAAATAT
1 AAAAATT-AAATAT
533411 AAAAATTAAATA-
1 AAAAATTAAATAT
533423 AAAAATGTAAATAGT
1 AAAAAT-TAAATA-T
533438 AAAA
1 AAAA
533442 CAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.21
13 11 0.39
14 7 0.25
15 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:534512 original size:25 final size:23
Alignment explanation
Indices: 534484--534529 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
534474 GTTGAATCCA
534484 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAATT-TAAAAA-ATAATTAG
*
534509 AATTAAATTTAAACAATAATT
1 AATTAAATTTAAAAAATAATT
534530 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATTTAAAAAATAATTAG
Found at i:535060 original size:29 final size:30
Alignment explanation
Indices: 535025--535084 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
535015 CTTTGACTCA
*
535025 TTGTGTAATGTTAATA-AT-AAATTTTGATT
1 TTGTGTAAT-TTAATATATGAAAATTTGATT
*
535054 TTGTGTAATTTTATATATGAAAATTTGATT
1 TTGTGTAATTTAATATATGAAAATTTGATT
535084 T
1 T
535085 GATTTAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 5 0.19
29 11 0.41
30 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (30 bp):
TTGTGTAATTTAATATATGAAAATTTGATT
Found at i:547950 original size:12 final size:12
Alignment explanation
Indices: 547933--547983 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
547923 AATTAATAAC
547933 TTTAATATTAAA
1 TTTAATATTAAA
*
547945 TTTAATCTAATAAA
1 TTTAA--TATTAAA
*
547959 TATT-AGATTAAA
1 T-TTAATATTAAA
547971 TTTAATATTAAA
1 TTTAATATTAAA
547983 T
1 T
547984 CTTATTAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
14 8 0.26
15 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:547960 original size:21 final size:21
Alignment explanation
Indices: 547936--547977 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
547926 TAATAACTTT
*
547936 AATATTAAATTTAATCTAATA
1 AATATTAAATTAAATCTAATA
* *
547957 AATATTAGATTAAATTTAATA
1 AATATTAAATTAAATCTAATA
547978 TTAAATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATTAAATTAAATCTAATA
Found at i:548119 original size:26 final size:24
Alignment explanation
Indices: 548090--548144 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
548080 TTAATATTAA
*
548090 ATTAATAAAATACTATTAAGATAAGT
1 ATTAATAAAAT-CTATTAAAATAA-T
*
548116 ATTAAATTAAATCTATTAAAATAAT
1 ATT-AATAAAATCTATTAAAATAAT
548141 ATTA
1 ATTA
548145 TTTTTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 4 0.15
26 14 0.54
27 7 0.27
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
ATTAATAAAATCTATTAAAATAAT
Found at i:548144 original size:37 final size:38
Alignment explanation
Indices: 548053--548144 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 38
548043 AAAAAATTAA
*
548053 ATTAAATTAAATATTAAGATAATCACTTTAATATTAAATT
1 ATTAAAAT-AATATTAAGATAATCAC-TTAATATTAAATT
* *
548093 AATAAAATACTATTAAGATAAGT-A-TTAA-ATTAAATCT
1 ATTAAAATAATATTAAGATAA-TCACTTAATATTAAAT-T
548130 ATTAAAATAATATTA
1 ATTAAAATAATATTA
548145 TTTTTGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 7 0.16
37 18 0.40
39 13 0.29
40 7 0.16
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
ATTAAAATAATATTAAGATAATCACTTAATATTAAATT
Found at i:550463 original size:25 final size:24
Alignment explanation
Indices: 550434--550489 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
550424 TAATCACTTT
*
550434 AATATTAAATTTAATCTAATATTTA
1 AATATTAAATTAAATCTAATA-TTA
* *
550459 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATTA
550483 AATATTA
1 AATATTA
550490 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATTA
Found at i:550571 original size:20 final size:18
Alignment explanation
Indices: 550524--550622 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 18
550514 CAAGATAAAC
550524 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
550541 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
550561 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
550580 ATTAAGATAAATATTT-A-
1 ATTAA-ATTAATATTTAAT
*
550597 ATTAAATTTAATATTAAATT
1 ATTAAA-TTAATATTTAA-T
550617 ATTAAA
1 ATTAAA
550623 ACAATATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
16 1 0.02
17 20 0.32
18 2 0.03
19 12 0.19
20 27 0.44
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:552085 original size:11 final size:12
Alignment explanation
Indices: 552055--552087 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
552045 GTCACAAGTG
552055 AATTAATTCACA
1 AATTAATTCACA
*
552067 AATGAATTCA-A
1 AATTAATTCACA
552078 AATTAATTCA
1 AATTAATTCA
552088 TCTTGAGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:554283 original size:28 final size:27
Alignment explanation
Indices: 554251--554348 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 27
554241 CACATGGGCT
* *
554251 TTCCTTTACAGAGACTCACCATAAAGGC
1 TTCCTTTACAAAGA-TCACCACAAAGGC
* *
554279 TTCCTTCAACAAAGATCGCCACAAAGGC
1 TTCCTT-TACAAAGATCACCACAAAGGC
* *
554307 TTCCTTTAACAAAG-TCAGTCACAAAGTC
1 TTCCTTT-ACAAAGATCA-CCACAAAGGC
*
554335 TTCTTTTAACAAAG
1 TTCCTTT-ACAAAG
554349 TTTAGCCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
27 2 0.03
28 50 0.86
29 6 0.10
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (27 bp):
TTCCTTTACAAAGATCACCACAAAGGC
Found at i:558653 original size:21 final size:21
Alignment explanation
Indices: 558629--558671 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
558619 GGTCACAAGG
558629 CCGTGTGGCTC-TCACACACGC
1 CCGTGTGGC-CATCACACACGC
*
558650 CCGTGTGGCCATCCCACACGC
1 CCGTGTGGCCATCACACACGC
558671 C
1 C
558672 TATGTATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.14, C:0.47, G:0.23, T:0.16
Consensus pattern (21 bp):
CCGTGTGGCCATCACACACGC
Found at i:563492 original size:16 final size:15
Alignment explanation
Indices: 563463--563514 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
563453 TACAGTTTAC
563463 CAATTTACTTTCTTG
1 CAATTTACTTTCTTG
*
563478 CAATTTATTTTTCTTG
1 CAATTTA-CTTTCTTG
563494 CAATTTACTTTCTTG
1 CAATTTACTTTCTTG
563509 C-ATTTA
1 CAATTTA
563515 AATTTTTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 5 0.15
15 15 0.44
16 14 0.41
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (15 bp):
CAATTTACTTTCTTG
Found at i:563717 original size:3 final size:3
Alignment explanation
Indices: 563709--563749 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
563699 TTAATACGCT
*
563709 TTA TTA TTA TTA TTA TTA TTA TTA CTTA TTA -TA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
563750 CTTTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:563755 original size:18 final size:17
Alignment explanation
Indices: 563708--563781 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 17
563698 TTTAATACGC
*
563708 TTTATTATTATTATTATT
1 TTTATTCTTATTA-TATT
*
563726 ATTATTACTTATTATATT
1 TTTATT-CTTATTATATT
563744 TTTATTCTT-TATATATT
1 TTTATTCTTAT-TATATT
* *
563761 TCTAATACTTATTATATT
1 T-TTATTCTTATTATATT
563779 TTT
1 TTT
563782 GCCATAGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 11 0.24
18 27 0.59
19 7 0.15
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTCTTATTATATT
Found at i:574574 original size:6 final size:6
Alignment explanation
Indices: 574563--574610 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
574553 ATGTTGAATG
574563 AGAAAA AG-AAA AGAAAA AGAGAGAA AGAGAAA AGAAAA A-AAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGA-A-AA AGA-AAA AGAAAA AGAAAA AGAAA
574611 TATTGCTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 10 0.26
6 15 0.39
7 6 0.16
8 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:574579 original size:11 final size:11
Alignment explanation
Indices: 574563--574610 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
574553 ATGTTGAATG
574563 AGAAAAAGAAA
1 AGAAAAAGAAA
*
574574 AGAAAAAG-AG
1 AGAAAAAGAAA
*
574584 AGAAAGAGAAA
1 AGAAAAAGAAA
*
574595 AGAAAAAAAAA
1 AGAAAAAGAAA
574606 AGAAA
1 AGAAA
574611 TATTGCTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:574586 original size:21 final size:21
Alignment explanation
Indices: 574562--574601 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
574552 AATGTTGAAT
574562 GAGAAAAAGAAAAGAAAAAGA
1 GAGAAAAAGAAAAGAAAAAGA
*
574583 GAGAAAGAGAAAAGAAAAA
1 GAGAAAAAGAAAAGAAAAA
574602 AAAAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
GAGAAAAAGAAAAGAAAAAGA
Found at i:580602 original size:22 final size:22
Alignment explanation
Indices: 580577--580619 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
580567 AAAATATTTC
*
580577 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
580599 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
580620 TTATTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:582187 original size:20 final size:20
Alignment explanation
Indices: 582162--582200 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
582152 TATTCCCTGT
582162 TCTATAGGTAATCATTATGC
1 TCTATAGGTAATCATTATGC
582182 TCTATAGGTAATCATTATG
1 TCTATAGGTAATCATTATG
582201 TAGGTAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
TCTATAGGTAATCATTATGC
Found at i:583519 original size:32 final size:32
Alignment explanation
Indices: 583478--583541 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
583468 AACCCCTGAG
583478 AAAGCTTTTGTGTACGTGACGGGCAAGTCAGT
1 AAAGCTTTTGTGTACGTGACGGGCAAGTCAGT
*
583510 AAAGCTTTTGTGTACGTGAGGGGCAAGTCAGT
1 AAAGCTTTTGTGTACGTGACGGGCAAGTCAGT
583542 TCTGTTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (32 bp):
AAAGCTTTTGTGTACGTGACGGGCAAGTCAGT
Found at i:587174 original size:18 final size:18
Alignment explanation
Indices: 587124--587175 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
587114 TATTCTTAGT
*
587124 CTTTATATTTTTAATACG
1 CTTTATATTTTTATTACG
*
587142 CTTTACTATTATTATTAC-
1 CTTTA-TATTTTTATTACG
*
587160 TTATTATATTTTTATT
1 CT-TTATATTTTTATT
587176 CTTTAAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (18 bp):
CTTTATATTTTTATTACG
Found at i:590572 original size:21 final size:21
Alignment explanation
Indices: 590533--590572 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
590523 TTCATCTAAT
* *
590533 CAAGGCAATTATAACCCAAGA
1 CAAGGCAATTACAAACCAAGA
*
590554 CAAGGGAATTACAAACCAA
1 CAAGGCAATTACAAACCAA
590573 AATAGCATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
CAAGGCAATTACAAACCAAGA
Found at i:611408 original size:26 final size:26
Alignment explanation
Indices: 611372--611434 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
611362 TTACTACTAT
*
611372 TGTCGCTGCATGAACATGTCCAGAAC
1 TGTCGCTGCATGAACACGTCCAGAAC
* * *
611398 TGTCGATGCATGAGCACGTCCAGAAT
1 TGTCGCTGCATGAACACGTCCAGAAC
611424 TGTCGCTGCAT
1 TGTCGCTGCAT
611435 CTAACAACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (26 bp):
TGTCGCTGCATGAACACGTCCAGAAC
Found at i:622853 original size:22 final size:22
Alignment explanation
Indices: 622810--622853 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
622800 GTGTCACACC
* *
622810 TTAATTTTTATGAAGTAGTTAA
1 TTAATTTTTATAAAGTAATTAA
*
622832 TTAATTTTTATAAATTAATTAA
1 TTAATTTTTATAAAGTAATTAA
622854 GTTAGTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TTAATTTTTATAAAGTAATTAA
Found at i:623440 original size:19 final size:19
Alignment explanation
Indices: 623413--623456 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
623403 ACCTTTCACT
*
623413 ATCGCCGTCGCCACCATGG
1 ATCGTCGTCGCCACCATGG
*
623432 ATCGTCGTCGCCACCGTGG
1 ATCGTCGTCGCCACCATGG
*
623451 ACCGTC
1 ATCGTC
623457 ACCGTCACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.41, G:0.27, T:0.18
Consensus pattern (19 bp):
ATCGTCGTCGCCACCATGG
Found at i:623462 original size:6 final size:6
Alignment explanation
Indices: 623451--623475 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
623441 GCCACCGTGG
623451 ACCGTC ACCGTC ACCGTC ACCGTC A
1 ACCGTC ACCGTC ACCGTC ACCGTC A
623476 GCAGTGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.48, G:0.16, T:0.16
Consensus pattern (6 bp):
ACCGTC
Found at i:624109 original size:68 final size:68
Alignment explanation
Indices: 624010--624138 Score: 156
Period size: 68 Copynumber: 1.9 Consensus size: 68
624000 AAGGTGTGGG
* * * *
624010 ATCTAGACTATGCTTTAAATCGTTTATGTGTTCTTAAAT-ATATGAAATAAAT-ATATGTGTGGA
1 ATCTAGACTATGCTCTAAATCGTTTAAGTGTT-TT-AATCAAATAAAATAAATAATATGTGTGGA
624073 ATCTA
64 ATCTA
* *
624078 ATCTAGTCTATGCCTCT-AATCTTTTAAGTGTTTTAATCAAATAAAATAAATAATATGTGTG
1 ATCTAGACTATG-CTCTAAATCGTTTAAGTGTTTTAATCAAATAAAATAAATAATATGTGTG
624139 AGTACATAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
66 3 0.06
67 13 0.25
68 33 0.63
69 3 0.06
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (68 bp):
ATCTAGACTATGCTCTAAATCGTTTAAGTGTTTTAATCAAATAAAATAAATAATATGTGTGGAAT
CTA
Found at i:624515 original size:46 final size:45
Alignment explanation
Indices: 624415--624516 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
624405 ATGTGATATG
*
624415 TGGATATGTGAGCATGATACATGTTAAAATGAGGAAATCGTGAAA
1 TGGATATGTGAGCATGATACATGCTAAAATGAGGAAATCGTGAAA
* * * * * * *
624460 TGTAATATGTGGGCATGCTACATGCTAAAATGTGTAAATTGTGACA
1 TG-GATATGTGAGCATGATACATGCTAAAATGAGGAAATCGTGAAA
624506 TGGATTATGTG
1 TGGA-TATGTG
624517 TGAGATCTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
45 3 0.07
46 43 0.93
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.31
Consensus pattern (45 bp):
TGGATATGTGAGCATGATACATGCTAAAATGAGGAAATCGTGAAA
Found at i:625441 original size:19 final size:19
Alignment explanation
Indices: 625420--625513 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
625410 TCAATGAACT
*
625420 TGTGACATTGATGTGAATT
1 TGTGACATTGATGTGAATA
*
625439 TGTGAAATTGATGTGAATA
1 TGTGACATTGATGTGAATA
*
625458 CGTGACATTGATGTGAATA
1 TGTGACATTGATGTGAATA
*
625477 TGTGACATGGATGTGAATA
1 TGTGACATTGATGTGAATA
**
625496 TGTTTCATTGATGTGAAT
1 TGTGACATTGATGTGAAT
625514 GTCAGATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (19 bp):
TGTGACATTGATGTGAATA
Found at i:625473 original size:11 final size:10
Alignment explanation
Indices: 625420--625494 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 10
625410 TCAATGAACT
625420 TGTGACATTGA
1 TGTGA-ATTGA
625431 TGTGAATT--
1 TGTGAATTGA
625439 TGTGAAATTGA
1 TGTG-AATTGA
625450 TGTGAA-T-A
1 TGTGAATTGA
*
625458 CGTGACATTGA
1 TGTGA-ATTGA
625469 TGTGAA-T-A
1 TGTGAATTGA
*
625477 TGTGACATGGA
1 TGTGA-ATTGA
625488 TGTGAAT
1 TGTGAAT
625495 ATGTTTCATT
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
8 15 0.29
9 8 0.15
10 9 0.17
11 20 0.38
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (10 bp):
TGTGAATTGA
Found at i:626240 original size:14 final size:13
Alignment explanation
Indices: 626221--626266 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
626211 ATTTTACGTA
626221 TTGTGTTTGGTTTT
1 TTGTGTTT-GTTTT
626235 TTGTGTTTGTATTT
1 TTGTGTTTGT-TTT
*
626249 GTGTGTTTGTTTT
1 TTGTGTTTGTTTT
*
626262 ATGTG
1 TTGTG
626267 CAACAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.04, C:0.00, G:0.28, T:0.67
Consensus pattern (13 bp):
TTGTGTTTGTTTT
Found at i:630445 original size:17 final size:19
Alignment explanation
Indices: 630423--630465 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
630413 ACAATGTCAT
*
630423 GTGCTT-AA-CCATTTTTA
1 GTGCTTGAACCCATTTTGA
*
630440 GTGCTTGAACCCGTTTTGA
1 GTGCTTGAACCCATTTTGA
630459 GTGCTTG
1 GTGCTTG
630466 TTGTTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 14 0.64
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (19 bp):
GTGCTTGAACCCATTTTGA
Done.