Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003105.1 Kokia drynarioides strain JFW-HI SEQ_115673, 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: 79597
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Warning! 20 characters in sequence are not A, C, G, or T
Found at i:464 original size:17 final size:16
Alignment explanation
Indices: 444--498 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
434 TTAAATTAGG
444 TTTACTTTGAATTTAAA
1 TTTA-TTTGAATTTAAA
*
461 TTTATTTGAAATTTAAG
1 TTTATTTG-AATTTAAA
*
478 TTTATTATAAATTTAAA
1 TTTATT-TGAATTTAAA
495 TTTA
1 TTTA
499 AATTTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 4 0.12
17 28 0.85
18 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTATTTGAATTTAAA
Found at i:465 original size:34 final size:34
Alignment explanation
Indices: 422--498 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
412 CCCAACAAAC
* * *
422 TTAAATTTATTTTTAAA-TTAGGTTTACTT-TGAAT
1 TTAAATTTA-TTTGAAATTTAAGTTTA-TTATAAAT
456 TTAAATTTATTTGAAATTTAAGTTTATTATAAAT
1 TTAAATTTATTTGAAATTTAAGTTTATTATAAAT
490 TTAAATTTA
1 TTAAATTTA
499 AATTTATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 8 0.21
34 30 0.79
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (34 bp):
TTAAATTTATTTGAAATTTAAGTTTATTATAAAT
Found at i:512 original size:17 final size:17
Alignment explanation
Indices: 453--498 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
443 GTTTACTTTG
453 AATTTAAATTTATT-TGA
1 AATTTAAATTTATTAT-A
*
470 AATTTAAGTTTATTATA
1 AATTTAAATTTATTATA
487 AATTTAAATTTA
1 AATTTAAATTTA
499 AATTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:512 original size:23 final size:24
Alignment explanation
Indices: 464--510 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
454 ATTTAAATTT
*
464 ATTTGAAATTTAAGTTTATTATAA
1 ATTTGAAATTTAAATTTATTATAA
488 ATTT-AAATTTAAATTTATT-TAA
1 ATTTGAAATTTAAATTTATTATAA
510 A
1 A
511 ATGTCCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 14 0.64
24 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTGAAATTTAAATTTATTATAA
Found at i:2310 original size:30 final size:30
Alignment explanation
Indices: 2241--2853 Score: 465
Period size: 30 Copynumber: 20.7 Consensus size: 30
2231 AGAGGTCCCT
*
2241 AAACTGTCCAAAAACTCCATTTTT-ACCACCG
1 AAACT-TCCAAAAATTCCATTTTTAACC-CCG
*
2272 -AACTTCCAAAAATTCTATTTTTAACCCCG
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* ** **
2301 AATCTTCCAAAAATTGAATTTTT-ACCCTA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* * *
2330 AAACTTCAAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* * * * *
2360 AAACTT-TAAAATTTTCTTTTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCC-CG
** *
2390 -AACTTCCAAAAA-TCTCATTTTTTGCCTCG
1 AAACTTCCAAAAATTC-CATTTTTAACCCCG
* * **
2419 AAATTTACAAAAATTCTGTTTTT-ACCCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCC-CG
* * *
2449 -AACATCCAAAAA-TCCTATTTTTGACCCCA
1 AAACTTCCAAAAATTCC-ATTTTTAACCCCG
*
2478 AAACTTCCAAAAATTCCATTTTT-ACCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
*
2507 -AACTTCCAAAAATAT-CATTTTTAACCCCA
1 AAACTTCCAAAAAT-TCCATTTTTAACCCCG
* * *
2536 AAACTTCTAAAAATTCCTTTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* ***
2566 -AACTTCCAAAAATCCCA-TTTTAACCTTA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* * *
2594 AAACTTCCAAAAATTCCGTATTT-ACCCCA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* *
2623 AAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
**
2653 AAACTTCCAAAAATTCCATTTTT-ACCCTT
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* * *
2682 AAACTTCCAAAAATCCCATTATTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* *
2712 AAACTCCCAAAAATTCTATTTTT-ACCCACG
1 AAACTTCCAAAAATTCCATTTTTAACCC-CG
** * ***
2742 -AACTTTTAAAAATCCCATTTTTAACCTTA
1 AAACTTCCAAAAATTCCATTTTTAACCCCG
* * *
2771 AAACTCCCAAAAATTCTATTTTT-ACGCCCA
1 AAACTTCCAAAAATTCCATTTTTAAC-CCCG
*
2801 AAAC-TCCTAAAAATTCCATTTTTAACCTCG
1 AAACTTCC-AAAAATTCCATTTTTAACCCCG
* *
2831 AATCTTCCCAAAATTACCATTTT
1 AAACTTCCAAAAATT-CCATTTT
2854 GCCCTCGGGT
Statistics
Matches: 457, Mismatches: 96, Indels: 58
0.75 0.16 0.09
Matches are distributed among these distances:
28 29 0.06
29 193 0.42
30 218 0.48
31 17 0.04
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTAACCCCG
Found at i:2342 original size:59 final size:59
Alignment explanation
Indices: 2241--2853 Score: 574
Period size: 59 Copynumber: 10.4 Consensus size: 59
2231 AGAGGTCCCT
* * * * *
2241 AAACTGTCCAAAAACTCCATTTTTACCAC-CGAACTTCCAAAAATTCTATTTTTAACCCCG
1 AAACT-TCCAAAAATTCCATTTTTACC-CTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* ** * *
2301 AATCTTCCAAAAATTGAATTTTTACCCTAAAACTTCAAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * ** * * ** * *
2360 AAACTT-TAAAATTTTCTTTTTTTACCCTCGAACTTCCAAAAATCTCATTTTTTGCCTCG
1 AAACTTCCAAAA-ATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * ** * * * *
2419 AAATTTACAAAAATTCTGTTTTTACCCTCGAACATCCAAAAATCCTATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* **
2478 AAACTTCCAAAAATTCCATTTTTA-CCTCGAACTTCCAAAAATATCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * ** **
2536 AAACTTCTAAAAATTCCTTTTTTACCCCCGAACTTCCAAAAATCCCA-TTTTAACCTTA
1 AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * * *
2594 AAACTTCCAAAAATTCCGTATTTACCCCAAAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * *
2653 AAACTTCCAAAAATTCCATTTTTACCCTTA-AACTTCCAAAAATCCCATTATTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTACCC-TAGAACTTCCAAAAATCCCATTTTTAACCCCA
* * ** **
2712 AAACTCCCAAAAATTCTATTTTTACCC-ACGAACTTTTAAAAATCCCATTTTTAACCTTA
1 AAACTTCCAAAAATTCCATTTTTACCCTA-GAACTTCCAAAAATCCCATTTTTAACCCCA
* * * * * * *
2771 AAACTCCCAAAAATTCTATTTTTACGCCCAAAAC-TCCTAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTAC-CCTAGAACTTCC-AAAAATCCCATTTTTAACCCCA
* *
2831 AATCTTCCCAAAATTACCATTTT
1 AAACTTCCAAAAATT-CCATTTT
2854 GCCCTCGGGT
Statistics
Matches: 460, Mismatches: 81, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
57 1 0.00
58 107 0.23
59 300 0.65
60 45 0.10
61 7 0.02
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCTAGAACTTCCAAAAATCCCATTTTTAACCCCA
Found at i:4658 original size:21 final size:22
Alignment explanation
Indices: 4633--4673 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4623 TAAAACCATG
*
4633 AAAACCCAAT-ACCCAAACCGT
1 AAAACCAAATCACCCAAACCGT
4654 AAAACCAAATCACCCAAACC
1 AAAACCAAATCACCCAAACC
4674 TTAGACCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.39, G:0.02, T:0.07
Consensus pattern (22 bp):
AAAACCAAATCACCCAAACCGT
Found at i:14361 original size:21 final size:20
Alignment explanation
Indices: 14337--14387 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
14327 TTTTTGGTAT
*
14337 CGGTAGATGCATGACTTGTAC
1 CGGTAGATCCAT-ACTTGTAC
* *
14358 CGGTAGAAACCATACTTGTAT
1 CGGTAG-ATCCATACTTGTAC
14379 CGGTAGATC
1 CGGTAGATC
14388 AAACACAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (20 bp):
CGGTAGATCCATACTTGTAC
Found at i:22635 original size:16 final size:16
Alignment explanation
Indices: 22614--22653 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22604 AATTATAGAT
22614 TATATATAGTTATAAA
1 TATATATAGTTATAAA
*
22630 TATATATAGTTATATA
1 TATATATAGTTATAAA
22646 TATATATA
1 TATATATA
22654 TGTATGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TATATATAGTTATAAA
Found at i:23332 original size:3 final size:3
Alignment explanation
Indices: 23318--23373 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
23308 CCCACAAGTT
*
23318 TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23366 TTA TTA TT
1 TTA TTA TT
23374 TCATGACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30479 original size:23 final size:23
Alignment explanation
Indices: 30453--30497 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30443 TTGGATGTGG
30453 TAGTTATGGATAACTAGGATTGC
1 TAGTTATGGATAACTAGGATTGC
* **
30476 TAGTTGTGGATATTTAGGATTG
1 TAGTTATGGATAACTAGGATTG
30498 TATGTGTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.40
Consensus pattern (23 bp):
TAGTTATGGATAACTAGGATTGC
Found at i:41475 original size:29 final size:28
Alignment explanation
Indices: 41436--41498 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
41426 CCCAATCTAA
41436 TATATTATGTTATAA-AATAATTATATTAAT
1 TATA-TATGTTA-AATAATAATTATA-TAAT
*
41466 TATATATGTTAAATAATAATTATATATT
1 TATATATGTTAAATAATAATTATATAAT
41494 TATAT
1 TATAT
41499 TTATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.32
29 17 0.55
30 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
TATATATGTTAAATAATAATTATATAAT
Found at i:41651 original size:39 final size:38
Alignment explanation
Indices: 41608--41697 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 38
41598 AAAAATTATA
* *
41608 TTTAATACAATATAATATTTATTATATTTACTTG-TGTTT
1 TTTAATATAATATAATATTTATTATATTTA--TGATATTT
*
41647 TTTAATATAATAAAATATTTATTATATTTATGATATTT
1 TTTAATATAATATAATATTTATTATATTTATGATATTT
41685 TTTAATATAATAT
1 TTTAATATAATAT
41698 TTTTTTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 2 0.04
38 16 0.35
39 28 0.61
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (38 bp):
TTTAATATAATATAATATTTATTATATTTATGATATTT
Found at i:42260 original size:30 final size:31
Alignment explanation
Indices: 42224--42295 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
42214 GTTACGTGTA
* * *
42224 ACAAAACAGTCACTCAACTT-TGGAAATGTG
1 ACAAAACAGTCACTAAACTTATCGAAAAGTG
*
42254 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGTCACTAAACTTATCGAAAAGTG
*
42285 ACAAAATAGTC
1 ACAAAACAGTC
42296 CTCTTGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (31 bp):
ACAAAACAGTCACTAAACTTATCGAAAAGTG
Found at i:42876 original size:12 final size:12
Alignment explanation
Indices: 42859--42897 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
42849 TATTTATATG
42859 TAACAATAAAAA
1 TAACAATAAAAA
*
42871 TAACAAGAAAAA
1 TAACAATAAAAA
**
42883 TATTAATAAAAA
1 TAACAATAAAAA
42895 TAA
1 TAA
42898 TTTCTTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (12 bp):
TAACAATAAAAA
Found at i:45208 original size:15 final size:14
Alignment explanation
Indices: 45188--45251 Score: 76
Period size: 15 Copynumber: 4.5 Consensus size: 14
45178 ATCGACCTAT
45188 TTATATGCGAACTG
1 TTATATGCGAACTG
* *
45202 ATTATATACAAACTG
1 -TTATATGCGAACTG
*
45217 TTGTATGCGAACTG
1 TTATATGCGAACTG
45231 CTTATATGCGAACTG
1 -TTATATGCGAACTG
45246 TT-TATG
1 TTATATG
45252 TACGAGCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 4 0.10
14 13 0.31
15 25 0.60
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (14 bp):
TTATATGCGAACTG
Found at i:45224 original size:29 final size:28
Alignment explanation
Indices: 45191--45251 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
45181 GACCTATTTA
45191 TATGCGAACTGATTATATACAAACTGTT
1 TATGCGAACTGATTATATACAAACTGTT
* * *
45219 GTATGCGAACTGCTTATATGCGAACTGTT
1 -TATGCGAACTGATTATATACAAACTGTT
45248 TATG
1 TATG
45252 TACGAGCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (28 bp):
TATGCGAACTGATTATATACAAACTGTT
Found at i:51792 original size:16 final size:17
Alignment explanation
Indices: 51761--51792 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51751 ATACATTGCA
51761 TGTGAACATATGTTATG
1 TGTGAACATATGTTATG
51778 TGTGAACAT-TGTTAT
1 TGTGAACATATGTTAT
51793 TGCATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (17 bp):
TGTGAACATATGTTATG
Found at i:52326 original size:15 final size:15
Alignment explanation
Indices: 52306--52361 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
52296 ATCACTGAAT
52306 TGTTTATATGCGAAC
1 TGTTTATATGCGAAC
*
52321 TGTTTATATGTGAAC
1 TGTTTATATGCGAAC
*** *
52336 TAACTATATGCGAAA
1 TGTTTATATGCGAAC
52351 TGTTGTATATG
1 TGTT-TATATG
52362 AACTAATTGT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (15 bp):
TGTTTATATGCGAAC
Found at i:52375 original size:29 final size:29
Alignment explanation
Indices: 52310--52367 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
52300 CTGAATTGTT
*
52310 TATATGCGAACTGTTTATATGTGAACTAAC
1 TATATGCGAAATGTTTATA-GTGAACTAAC
52340 TATATGCGAAATGTTGTATA-TGAACTAA
1 TATATGCGAAATGTT-TATAGTGAACTAA
52368 TTGTATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 14 0.54
31 4 0.15
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (29 bp):
TATATGCGAAATGTTTATAGTGAACTAAC
Found at i:55404 original size:81 final size:81
Alignment explanation
Indices: 55297--55445 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
55287 TTATTGGTTC
* * * *
55297 AACTTCTTGTGATGGTGGCTTTGCTTCA-GAATCTTTGATTTCAGTTTTGCAAGCTTCTTCACTA
1 AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAA-CTTTGACTTCAGTTTTGCAAGCTTCTTCACTA
55361 TCTTTCTTCGATGTTGG
65 TCTTTCTTCGATGTTGG
* ** *
55378 AACTTCTTGTGAAGCTGGGTTGGCTTCAGGAACTTTGACTTCCTTTTTGGAAGCTTCTTCACTAT
1 AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAACTTTGACTTCAGTTTTGCAAGCTTCTTCACTAT
55443 CTT
66 CTT
55446 CCTTTAAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 56 0.95
82 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (81 bp):
AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAACTTTGACTTCAGTTTTGCAAGCTTCTTCACTAT
CTTTCTTCGATGTTGG
Found at i:55467 original size:81 final size:81
Alignment explanation
Indices: 55274--55470 Score: 180
Period size: 81 Copynumber: 2.4 Consensus size: 81
55264 CGAAGCCTGC
* ** ** * * * * *
55274 TCACTATCTTCCTTTATTGGTTCAACTTCTTGTGATGGTGGCTTTGCTTCAGAATCTTTGATTTC
1 TCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCAGAATCTTTGACTTC
55339 AGTTTTGCAAGCTTCT
66 AGTTTTGCAAGCTTCT
* * * * * *
55355 TCACTATCTTTCTTCGATGTTGGAACTTCTTGTGAAGCTGGGTTGGCTTCAGGAA-CTTTGACTT
1 TCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCA-GAATCTTTGACTT
** *
55419 CCTTTTTGGAAGCTTCT
65 CAGTTTTGCAAGCTTCT
* **
55436 TCACTATCTTCCTTTAAAGGTGGGGCCTCTTGTGA
1 TCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGA
55471 CGGCAGCTTT
Statistics
Matches: 92, Mismatches: 23, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
81 89 0.97
82 3 0.03
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (81 bp):
TCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCAGAATCTTTGACTTC
AGTTTTGCAAGCTTCT
Found at i:63483 original size:58 final size:59
Alignment explanation
Indices: 63421--63535 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 59
63411 GAGAATTTGC
*
63421 GGTCAAAATGTGATTTTGGAAAGTTTAGG-GTTAAAATGTGATTTTTGGGAAGTTTGAG
1 GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTGAG
*
63479 GGTCAAAATGTGATTTTTGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTG
1 GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTG
63536 GGGACCTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 28 0.52
59 26 0.48
ACGTcount: A:0.29, C:0.03, G:0.30, T:0.39
Consensus pattern (59 bp):
GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTGAG
Found at i:63495 original size:29 final size:29
Alignment explanation
Indices: 63421--63534 Score: 169
Period size: 29 Copynumber: 3.9 Consensus size: 29
63411 GAGAATTTGC
63421 GGTCAAAATGTGA-TTTTGGAAAGTTTAG
1 GGTCAAAATGTGATTTTTGGAAAGTTTAG
* *
63449 GGTTAAAATGTGATTTTTGGGAAGTTTGAG
1 GGTCAAAATGTGATTTTTGGAAAGTTT-AG
63479 GGTCAAAATGTGATTTTT-GAAAGTTTAG
1 GGTCAAAATGTGATTTTTGGAAAGTTTAG
*
63507 GTGTCAAAATGTGATTTTTGGGAAGTTT
1 G-GTCAAAATGTGATTTTTGGAAAGTTT
63535 GGGGACCTAC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
28 15 0.19
29 36 0.47
30 26 0.34
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (29 bp):
GGTCAAAATGTGATTTTTGGAAAGTTTAG
Found at i:64499 original size:20 final size:20
Alignment explanation
Indices: 64474--64516 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
64464 GTCAGTCTTC
*
64474 TTTTTTTATT-TTATTAATTA
1 TTTTTTTATTATTA-AAATTA
64494 TTTTTTTATTATTAAAATTA
1 TTTTTTTATTATTAAAATTA
64514 TTT
1 TTT
64517 ATTATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTTATTATTAAAATTA
Found at i:64526 original size:20 final size:20
Alignment explanation
Indices: 64476--64523 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
64466 CAGTCTTCTT
*
64476 TTTTTATTTTATT--AATTA
1 TTTTTATATTATTAAAATTA
*
64494 TTTTTTTATTATTAAAATTA
1 TTTTTATATTATTAAAATTA
64514 TTTATTATAT
1 TTT-TTATAT
64524 ATTTAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATATTATTAAAATTA
Found at i:65212 original size:6 final size:6
Alignment explanation
Indices: 65191--65264 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
65181 GAACATTCTT
* *
65191 TTTAAA TTCAAA --TAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
** *
65237 --TAAA TTTAAA AATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
65265 ATTGGGTTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
4 4 0.08
5 7 0.13
6 41 0.77
7 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:65222 original size:17 final size:17
Alignment explanation
Indices: 65191--65246 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
65181 GAACATTCTT
*
65191 TTTAAA-TTCAAATAAA
1 TTTAAATTTAAAATAAA
65207 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
65224 TTTAAATTTAAGATAAA
1 TTTAAATTTAAAATAAA
65241 TTTAAA
1 TTTAAA
65247 AATAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
16 6 0.16
17 31 0.84
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:65265 original size:17 final size:16
Alignment explanation
Indices: 65191--65266 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
65181 GAACATTCTT
*
65191 TTTAAATTCAAATAAA
1 TTTAAATTAAAATAAA
65207 TTTAAATTTAAAATAAA
1 TTTAAA-TTAAAATAAA
*
65224 TTTAAATTTAAGATAAA
1 TTTAAA-TTAAAATAAA
65241 TTT--A--AAAATAAA
1 TTTAAATTAAAATAAA
65253 TTTAAACTTAAAAT
1 TTTAAA-TTAAAAT
65267 TGGGTTCAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.20
14 1 0.02
15 1 0.02
16 6 0.12
17 33 0.65
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
TTTAAATTAAAATAAA
Found at i:68496 original size:8 final size:8
Alignment explanation
Indices: 68483--68508 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
68473 TTTTGATTTG
68483 TTAAGCAA
1 TTAAGCAA
68491 TTAAGCAA
1 TTAAGCAA
68499 TTAAGCAA
1 TTAAGCAA
68507 TT
1 TT
68509 CTCCATTTTA
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:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (8 bp):
TTAAGCAA
Found at i:69346 original size:97 final size:96
Alignment explanation
Indices: 69161--69348 Score: 220
Period size: 97 Copynumber: 1.9 Consensus size: 96
69151 TCTTTGCGAA
* ** *
69161 AAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAGGGCGCAATATTTCG
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCG
* * *
69226 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 AAACCGAAGATAAAGAAACATTGCCTCGATT
* * *
69257 AAGGGTATTCGATTATTTCGATTTGAAGAAACAATTGCACCTAGTGAGTTAAGGCGCAA-ATTTT
1 AAGGATATTCGATTATCTCGATTTGAAGAAA-AATTGCACCTAGTAAGTTAAGGCGCAATA-TTT
*
69321 CGAAACCCGAA-ATGAAAG-AATATTGCCT
64 CGAAA-CCGAAGAT-AAAGAAACATTGCCT
69349 TGATATTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
96 29 0.38
97 41 0.53
98 7 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCG
AAACCGAAGATAAAGAAACATTGCCTCGATT
Found at i:69671 original size:30 final size:30
Alignment explanation
Indices: 69637--69706 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
69627 GTGAAATGAT
* *
69637 AATTTTGGGAAAATTCGAGGTTAAAAATGG
1 AATTTTTGGAAAATTCGAGGCTAAAAATGG
* *
69667 AATTTTTGG-AAGTTCGGGGCTAAAAATGG
1 AATTTTTGGAAAATTCGAGGCTAAAAATGG
69696 AATTTTTGGAA
1 AATTTTTGGAA
69707 GTTTTAGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
AATTTTTGGAAAATTCGAGGCTAAAAATGG
Found at i:69700 original size:59 final size:57
Alignment explanation
Indices: 69654--69813 Score: 189
Period size: 59 Copynumber: 2.7 Consensus size: 57
69644 GGAAAATTCG
* *
69654 AGGTTAAAAATGGAATTTTTGGAAGTTCGGGGCTAAAAATGGAATTTTTGGAAGTTTT
1 AGGTTAAAAATGGGATTTTTGGAAGTTCGGGGCTAAAAATGGAATTTTTGGAAG-TTC
* *
69712 AGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGG-TCAAAAATGGGATTTTTGGAAGTTC
1 A-GGTTAAAAATGGGATTTTTGGAAG-TTCGGGGCT-AAAAATGGAATTTTTGGAAGTTC
** *
69771 AGGAGCAAAAATGGGATTTTTGGAAGTTCAGGAGC-AAAAATGG
1 AGG-TTAAAAATGGGATTTTTGGAAGTTC-GGGGCTAAAAATGG
69814 NNNNNNNNNN
Statistics
Matches: 88, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
58 13 0.15
59 50 0.57
60 25 0.28
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (57 bp):
AGGTTAAAAATGGGATTTTTGGAAGTTCGGGGCTAAAAATGGAATTTTTGGAAGTTC
Found at i:69723 original size:30 final size:30
Alignment explanation
Indices: 69655--69802 Score: 178
Period size: 29 Copynumber: 5.0 Consensus size: 30
69645 GAAAATTCGA
* *
69655 GGTTAAAAATGGAATTTTTGGAAG-TTCGG
1 GGTTAAAAATGGGATTTTTGGAAGTTTCAG
* * *
69684 GGCTAAAAATGGAATTTTTGGAAGTTTTAG
1 GGTTAAAAATGGGATTTTTGGAAGTTTCAG
**
69714 GGTTAAAAATGGGATTTTTGGAAGTTTTGG
1 GGTTAAAAATGGGATTTTTGGAAGTTTCAG
*
69744 GGTCAAAAATGGGATTTTTGGAAG-TTCAG
1 GGTTAAAAATGGGATTTTTGGAAGTTTCAG
*
69773 GAG-CAAAAATGGGATTTTTGGAAG-TTCAG
1 G-GTTAAAAATGGGATTTTTGGAAGTTTCAG
69802 G
1 G
69803 AGCAAAAATG
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
29 54 0.50
30 54 0.50
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (30 bp):
GGTTAAAAATGGGATTTTTGGAAGTTTCAG
Found at i:71598 original size:58 final size:59
Alignment explanation
Indices: 71536--71650 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 59
71526 GAGAATTTGC
*
71536 GGTCAAAATGTGATTTTGGAAAGTTTAGG-GTTAAAATGTGATTTTTGGGAAGTTTGAG
1 GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTGAG
*
71594 GGTCAAAATGTGATTTTTGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTG
1 GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTG
71651 GGGACCTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 28 0.52
59 26 0.48
ACGTcount: A:0.29, C:0.03, G:0.30, T:0.39
Consensus pattern (59 bp):
GGTCAAAATGTGATTTTGGAAAGTTTAGGTGTCAAAATGTGATTTTTGGGAAGTTTGAG
Found at i:71610 original size:29 final size:29
Alignment explanation
Indices: 71536--71649 Score: 169
Period size: 29 Copynumber: 3.9 Consensus size: 29
71526 GAGAATTTGC
71536 GGTCAAAATGTGA-TTTTGGAAAGTTTAG
1 GGTCAAAATGTGATTTTTGGAAAGTTTAG
* *
71564 GGTTAAAATGTGATTTTTGGGAAGTTTGAG
1 GGTCAAAATGTGATTTTTGGAAAGTTT-AG
71594 GGTCAAAATGTGATTTTT-GAAAGTTTAG
1 GGTCAAAATGTGATTTTTGGAAAGTTTAG
*
71622 GTGTCAAAATGTGATTTTTGGGAAGTTT
1 G-GTCAAAATGTGATTTTTGGAAAGTTT
71650 GGGGACCTAC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
28 15 0.19
29 36 0.47
30 26 0.34
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (29 bp):
GGTCAAAATGTGATTTTTGGAAAGTTTAG
Found at i:72614 original size:20 final size:20
Alignment explanation
Indices: 72589--72631 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
72579 GTCAGTCTTC
*
72589 TTTTTTTATT-TTATTAATTA
1 TTTTTTTATTATTA-AAATTA
72609 TTTTTTTATTATTAAAATTA
1 TTTTTTTATTATTAAAATTA
72629 TTT
1 TTT
72632 ATTATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTTATTATTAAAATTA
Found at i:72641 original size:20 final size:20
Alignment explanation
Indices: 72591--72638 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
72581 CAGTCTTCTT
*
72591 TTTTTATTTTATT--AATTA
1 TTTTTATATTATTAAAATTA
*
72609 TTTTTTTATTATTAAAATTA
1 TTTTTATATTATTAAAATTA
72629 TTTATTATAT
1 TTT-TTATAT
72639 ATTTAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATATTATTAAAATTA
Found at i:73327 original size:6 final size:6
Alignment explanation
Indices: 73306--73379 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
73296 GAACATTCTT
* *
73306 TTTAAA TTCAAA --TAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
** *
73352 --TAAA TTTAAA AATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
73380 ATTGGGTTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
4 4 0.08
5 7 0.13
6 41 0.77
7 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:73337 original size:17 final size:17
Alignment explanation
Indices: 73306--73361 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
73296 GAACATTCTT
*
73306 TTTAAA-TTCAAATAAA
1 TTTAAATTTAAAATAAA
73322 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
73339 TTTAAATTTAAGATAAA
1 TTTAAATTTAAAATAAA
73356 TTTAAA
1 TTTAAA
73362 AATAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
16 6 0.16
17 31 0.84
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:73380 original size:17 final size:16
Alignment explanation
Indices: 73306--73381 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
73296 GAACATTCTT
*
73306 TTTAAATTCAAATAAA
1 TTTAAATTAAAATAAA
73322 TTTAAATTTAAAATAAA
1 TTTAAA-TTAAAATAAA
*
73339 TTTAAATTTAAGATAAA
1 TTTAAA-TTAAAATAAA
73356 TTT--A--AAAATAAA
1 TTTAAATTAAAATAAA
73368 TTTAAACTTAAAAT
1 TTTAAA-TTAAAAT
73382 TGGGTTCAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.20
14 1 0.02
15 1 0.02
16 6 0.12
17 33 0.65
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
TTTAAATTAAAATAAA
Found at i:76611 original size:8 final size:8
Alignment explanation
Indices: 76598--76623 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
76588 TTTTGATTTG
76598 TTAAGCAA
1 TTAAGCAA
76606 TTAAGCAA
1 TTAAGCAA
76614 TTAAGCAA
1 TTAAGCAA
76622 TT
1 TT
76624 CTCCATTTTA
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:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (8 bp):
TTAAGCAA
Found at i:77461 original size:97 final size:96
Alignment explanation
Indices: 77276--77463 Score: 220
Period size: 97 Copynumber: 1.9 Consensus size: 96
77266 TCTTTGCGAA
* ** *
77276 AAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAGGGCGCAATATTTCG
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCG
* * *
77341 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 AAACCGAAGATAAAGAAACATTGCCTCGATT
* * *
77372 AAGGGTATTCGATTATTTCGATTTGAAGAAACAATTGCACCTAGTGAGTTAAGGCGCAA-ATTTT
1 AAGGATATTCGATTATCTCGATTTGAAGAAA-AATTGCACCTAGTAAGTTAAGGCGCAATA-TTT
*
77436 CGAAACCCGAA-ATGAAAG-AATATTGCCT
64 CGAAA-CCGAAGAT-AAAGAAACATTGCCT
77464 TGATATTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
96 29 0.38
97 41 0.53
98 7 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCG
AAACCGAAGATAAAGAAACATTGCCTCGATT
Found at i:77807 original size:29 final size:28
Alignment explanation
Indices: 77773--78148 Score: 358
Period size: 29 Copynumber: 12.8 Consensus size: 28
77763 AATTCGAGGT
77773 TAAAAATGGAATTTTTGGAAGTTCGGGG
1 TAAAAATGGAATTTTTGGAAGTTCGGGG
* *
77801 CTAAAAATGGAATTTTTGGAAGTTTTAGGGT
1 -TAAAAATGGAATTTTTGGAAG--TTCGGGG
* *
77832 TAAAAATGGGATTTTTGGAAGTTTTGGGG
1 TAAAAATGGAATTTTTGGAAG-TTCGGGG
* *
77861 TCAAAAATGGGATTTTTGGAAGTTCAGGAG
1 T-AAAAATGGAATTTTTGGAAGTTC-GGGG
* * *
77891 CAAAAATGGGATTTTTGGAAGTTCAGGAG
1 TAAAAATGGAATTTTTGGAAGTTC-GGGG
* * *
77920 CAAAAATGGGATTTTTGGAAGTTCAGGAG
1 TAAAAATGGAATTTTTGGAAGTTC-GGGG
* * * *
77949 CAAAAATGGCATTTTTGGAAGTTTTGTGG
1 TAAAAATGGAATTTTTGGAAG-TTCGGGG
77978 TCAAAAAT-GAGATTTTTGGAAGTTCGGGGG
1 T-AAAAATGGA-ATTTTTGGAAGTTC-GGGG
* **
78008 TAAAAATGGAATTTTTGGAACTTTTAGGG
1 TAAAAATGGAATTTTTGGAA-GTTCGGGG
* *
78037 TCAAAAATGGGATTTTTGAAAGTTCGGGG
1 T-AAAAATGGAATTTTTGGAAGTTCGGGG
* *
78066 TAAAAATGGAATTTTTGGAACTTTTGGGG
1 TAAAAATGGAATTTTTGGAA-GTTCGGGG
* *
78095 TCAAAAATGGGATTTTTGGAAGTTTGGGGG
1 T-AAAAATGGAATTTTTGGAAG-TTCGGGG
78125 TAAAAATGGAATTTTTGGATAGTT
1 TAAAAATGGAATTTTTGGA-AGTT
78149 TAGGGACCTT
Statistics
Matches: 300, Mismatches: 32, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
28 17 0.06
29 164 0.55
30 114 0.38
31 5 0.02
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (28 bp):
TAAAAATGGAATTTTTGGAAGTTCGGGG
Found at i:77815 original size:59 final size:58
Alignment explanation
Indices: 77765--78149 Score: 456
Period size: 59 Copynumber: 6.6 Consensus size: 58
77755 TTTGGGAAAA
* * *
77765 TTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGGGG-CTAAAAATGGAATTTTTGGAAG
1 TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGGGGTC-AAAAATGGGATTTTTGGAAG
** *
77823 TTTTAGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
1 TTCGAGGG-TAAAAATGGAATTTTTGGAAG-TTTGGGGTCAAAAATGGGATTTTTGGAAG
* * * *
77883 TTC-AGGAGCAAAAATGGGATTTTTGGAAGTTCAGGAG-CAAAAATGGGATTTTTGGAAG
1 TTCGAGG-GTAAAAATGGAATTTTTGGAAGTT-TGGGGTCAAAAATGGGATTTTTGGAAG
* * * *
77941 TTC-AGGAGCAAAAATGGCATTTTTGGAAGTTTTGTGGTCAAAAATGAGATTTTTGGAAG
1 TTCGAGG-GTAAAAATGGAATTTTTGGAAG-TTTGGGGTCAAAAATGGGATTTTTGGAAG
* * * *
78000 TTCGGGGGTAAAAATGGAATTTTTGGAACTTTTAGGGTCAAAAATGGGATTTTTGAAAG
1 TTCGAGGGTAAAAATGGAATTTTTGGAA-GTTTGGGGTCAAAAATGGGATTTTTGGAAG
*
78059 TTCG-GGGTAAAAATGGAATTTTTGGAACTTTTGGGGTCAAAAATGGGATTTTTGGAAG
1 TTCGAGGGTAAAAATGGAATTTTTGGAA-GTTTGGGGTCAAAAATGGGATTTTTGGAAG
* *
78117 TTTGGGGGTAAAAATGGAATTTTTGGATAGTTT
1 TTCGAGGGTAAAAATGGAATTTTTGGA-AGTTT
78150 AGGGACCTTC
Statistics
Matches: 289, Mismatches: 27, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
58 113 0.39
59 144 0.50
60 31 0.11
61 1 0.00
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (58 bp):
TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGGGGTCAAAAATGGGATTTTTGGAAG
Found at i:77995 original size:117 final size:115
Alignment explanation
Indices: 77773--78153 Score: 519
Period size: 117 Copynumber: 3.2 Consensus size: 115
77763 AATTCGAGGT
* * *
77773 TAAAAATGGAATTTTTGGAAGTTCGGGGCTAAAAATGGAATTTTTGGAAGTTTTAGGGTTAAAAA
1 TAAAAATGGAATTTTTGGAAGTTCAGGGC-AAAAATGGGATTTTTGGAAG-TTCAGGG-TAAAAA
* * *
77838 TGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCAGGAG
63 TGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
* * *
77891 CAAAAATGGGATTTTTGGAAGTTCAGGAGCAAAAATGGGATTTTTGGAAGTTCAGGAGCAAAAAT
1 TAAAAATGGAATTTTTGGAAGTTCAGG-GCAAAAATGGGATTTTTGGAAGTTCAGG-GTAAAAAT
* * *
77956 GGCATTTTTGGAAGTTTTGTGGTCAAAAATGAGATTTTTGGAAGTTCGGGGG
64 GGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
* * * *
78008 TAAAAATGGAATTTTTGGAACTTTTAGGGTCAAAAATGGGATTTTTGAAAGTTCGGGGTAAAAAT
1 TAAAAATGGAATTTTTGGAA-GTTCAGGG-CAAAAATGGGATTTTTGGAAGTTCAGGGTAAAAAT
* *
78073 GGAATTTTTGGAACTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTGGGGG
64 GGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
*
78125 TAAAAATGGAATTTTTGGATAGTTTAGGG
1 TAAAAATGGAATTTTTGGA-AGTTCAGGG
78154 ACCTTCAGGG
Statistics
Matches: 234, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
117 157 0.67
118 75 0.32
119 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.34
Consensus pattern (115 bp):
TAAAAATGGAATTTTTGGAAGTTCAGGGCAAAAATGGGATTTTTGGAAGTTCAGGGTAAAAATGG
AATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
Found at i:79167 original size:3 final size:3
Alignment explanation
Indices: 79161--79215 Score: 83
Period size: 3 Copynumber: 17.7 Consensus size: 3
79151 TATTAATGTC
79161 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
*
79208 AAT ATT AT
1 ATT ATT AT
79216 AATAATCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 43 0.90
4 4 0.08
5 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Done.