Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011946.1 Kokia drynarioides strain JFW-HI SEQ_126944, 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: 96523
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Warning! 51 characters in sequence are not A, C, G, or T
Found at i:39 original size:13 final size:13
Alignment explanation
Indices: 21--45 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11 GAGGAGGGAC
21 GAGAGGTTTTTTT
1 GAGAGGTTTTTTT
34 GAGAGGTTTTTT
1 GAGAGGTTTTTT
46 GGTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (13 bp):
GAGAGGTTTTTTT
Found at i:644 original size:30 final size:28
Alignment explanation
Indices: 572--1212 Score: 568
Period size: 30 Copynumber: 21.8 Consensus size: 28
562 GGAGGTCCCT
* *
572 AAACTTCAAAAAATTCCATTTTTACCCTC
1 AAACTTCCAAAAATCCCATTTTTACCC-C
*
601 GAACTTTCC-AAAATCCCATTTTTAACCCC
1 AAAC-TTCCAAAAATCCCATTTTT-ACCCC
*
630 AAAACTTCCAAAAATCCCATTTTTAACCTCG
1 -AAACTTCCAAAAATCCCATTTTT-ACC-CC
*
661 AAACTTCCAAAAATTCCATTTTTACCCTC
1 AAACTTCCAAAAATCCCATTTTTACCC-C
* *
690 GAACTTCCAAAAATCCCATTTTTGATCCCA
1 AAACTTCCAAAAATCCCATTTTT-A-CCCC
*
720 AAACTTCCAAAAATTCCATTTTTACCCC
1 AAACTTCCAAAAATCCCATTTTTACCCC
* *
748 GAACTTCCAAAAATTCCATTTTTAACCCC
1 AAACTTCCAAAAATCCCATTTTT-ACCCC
* *
777 AAAACTTCTAAAAATTCCCA-TTTTACCTC
1 -AAACTTCCAAAAA-TCCCATTTTTACCCC
* * *
806 GAACTTCCCAAAATCCCATTTTTGACCTCG
1 AAACTTCCAAAAATCCCATTTTT-ACC-CC
**
836 AAACTTCCAAAAATCCCATTTTTGACCTTG
1 AAACTTCCAAAAATCCCATTTTT-ACC-CC
*
866 AAACTTCCAAAAATTCCATTTTTACCCTC
1 AAACTTCCAAAAATCCCATTTTTACCC-C
* *
895 CAACTTCCAAAAATTCCATTTTTGACCCC
1 AAACTTCCAAAAATCCCATTTTT-ACCCC
*
924 AAAACTTCCAAAAATTCCATTTTTACCCCC
1 -AAACTTCCAAAAATCCCATTTTTA-CCCC
* * *
954 GAACTTCCAAAAATCTCATTTTTAACCCTG
1 AAACTTCCAAAAATCCCATTTTT-ACCC-C
* *
984 AAACTTCCAAAAATTCCATTTTTACCATC
1 AAACTTCCAAAAATCCCATTTTTACC-CC
* *
1013 GAACTTCCAAAAATCCTATTTTTAACCCTC
1 AAACTTCCAAAAATCCCATTTTT-ACCC-C
* * * *
1043 GAACTTCCAAAAATTCCATATTTACACTC
1 AAACTTCCAAAAATCCCATTTTTAC-CCC
* * *
1072 AAACTTTCAAAAATCCAATTTTTTACCCT
1 AAACTTCCAAAAATCCCA-TTTTTACCCC
* *
1101 AGAACTTCCAAAAATCCCTTTTTTGCCCCCC
1 A-AACTTCCAAAAATCCCATTTTT--ACCCC
* *
1132 GAACTTCCAAAAAT-TCATTTTTACCCC
1 AAACTTCCAAAAATCCCATTTTTACCCC
* * *
1159 TGAACTTCCAAAAATCTCATTTTTGACCCTG
1 -AAACTTCCAAAAATCCCATTTTT-ACCC-C
*
1190 AAACTTCCAAAAAATACCATTTT
1 AAACTTCC-AAAAATCCCATTTT
1213 ACCGTCGGAT
Statistics
Matches: 511, Mismatches: 68, Indels: 64
0.79 0.11 0.10
Matches are distributed among these distances:
27 9 0.02
28 54 0.11
29 169 0.33
30 256 0.50
31 23 0.05
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.32
Consensus pattern (28 bp):
AAACTTCCAAAAATCCCATTTTTACCCC
Found at i:669 original size:59 final size:58
Alignment explanation
Indices: 573--1212 Score: 624
Period size: 59 Copynumber: 10.9 Consensus size: 58
563 GAGGTCCCTA
* * *
573 AACTTCAAAAAATTCCATTTTTACCCTCG-AACTTTCC-AAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATTCCATTTTTAACCTCGAAAC-TTCCAAAAATCCCATTTTT-ACCCC-G
* *
632 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTTACCC-CG
* * * *
691 AACTTCCAAAAATCCCATTTTTGATCC-CAAAACTTCCAAAAATTCCATTTTTACCCCG
1 AACTTCCAAAAATTCCATTTTT-AACCTCGAAACTTCCAAAAATCCCATTTTTACCCCG
* * * *
749 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTAAAAATTCCCA-TTTTACCTCG
1 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAA-TCCCATTTTTACCCCG
* * * **
807 AACTTCCCAAAATCCCATTTTTGACCTCGAAACTTCCAAAAATCCCATTTTTGACCTTG
1 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTT-ACCCCG
* * * *
866 AAACTTCCAAAAATTCCATTTTTACCCTC-CAACTTCCAAAAATTCCATTTTTGACCCCAA
1 -AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTT-ACCCC-G
* * * *
926 AACTTCCAAAAATTCCATTTTTACCCCCG-AACTTCCAAAAATCTCATTTTTAACCCTG
1 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTT-ACCCCG
*
984 AAACTTCCAAAAATTCCATTTTT-ACCATCG-AACTTCCAAAAATCCTATTTTTAACCCTCG
1 -AACTTCCAAAAATTCCATTTTTAACC-TCGAAACTTCCAAAAATCCCATTTTT-ACCC-CG
* * * *
1044 AACTTCCAAAAATTCCATATTT-ACACTC-AAACTTTCAAAAATCCAATTTTTTACCCTAG
1 AACTTCCAAAAATTCCATTTTTAAC-CTCGAAACTTCCAAAAATCCCA-TTTTTACCC-CG
* * ** * *
1103 AACTTCCAAAAATCCCTTTTTTGCCCCCCG-AACTTCCAAAAAT-TCATTTTTACCCCTG
1 AACTTCCAAAAATTCCATTTTT-AACCTCGAAACTTCCAAAAATCCCATTTTTACCCC-G
* *
1161 AACTTCCAAAAA-TCTCATTTTTGACC-CTGAAACTTCCAAAAAATACCATTTT
1 AACTTCCAAAAATTC-CATTTTTAACCTC-GAAACTTCC-AAAAATCCCATTTT
1213 ACCGTCGGAT
Statistics
Matches: 498, Mismatches: 57, Indels: 51
0.82 0.09 0.08
Matches are distributed among these distances:
56 1 0.00
57 12 0.02
58 123 0.25
59 290 0.58
60 71 0.14
61 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (58 bp):
AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTTACCCCG
Found at i:723 original size:89 final size:87
Alignment explanation
Indices: 572--1212 Score: 646
Period size: 89 Copynumber: 7.3 Consensus size: 87
562 GGAGGTCCCT
*
572 AAACTTCAAAAAATTCCATTTTT-ACCCTCGAACTTTCC-AAAATCCCATTTTTAACCCCAAAAC
1 AAACTTCCAAAAATTCCATTTTTAACCCTCGAAC-TTCCAAAAATCCCATTTTT-A-CCC-AAAC
*
635 TTCCAAAAATCCCATTTTTAACCTCG
62 TTCCAAAAATCCCATTTTTGACCTCG
661 AAACTTCCAAAAATTCCATTTTT-ACCCTCGAACTTCCAAAAATCCCATTTTTGATCCCAAAACT
1 AAACTTCCAAAAATTCCATTTTTAACCCTCGAACTTCCAAAAATCCCATTTTT-A-CCC-AAACT
* *
725 TCCAAAAATTCCATTTTT-ACCCCG
63 TCCAAAAATCCCATTTTTGACCTCG
* * *
749 -AACTTCCAAAAATTCCATTTTTAACCC-CAAAACTTCTAAAAATTCCCA-TTTTACCTCGAACT
1 AAACTTCCAAAAATTCCATTTTTAACCCTC-GAACTTCCAAAAA-TCCCATTTTTACC-CAAACT
*
811 TCCCAAAATCCCATTTTTGACCTCG
63 TCCAAAAATCCCATTTTTGACCTCG
* * * * *
836 AAACTTCCAAAAATCCCATTTTTGA-CCTTGAAACTTCCAAAAATTCCATTTTTACCCTCCAACT
1 AAACTTCCAAAAATTCCATTTTTAACCCTCG-AACTTCCAAAAATCCCATTTTTA-CC-CAAACT
* * *
900 TCCAAAAATTCCATTTTTGACCCCA
63 TCCAAAAATCCCATTTTTGACCTCG
* *
925 AAACTTCCAAAAATTCCATTTTT-ACCCCCGAACTTCCAAAAATCTCATTTTTAACCCTGAAACT
1 AAACTTCCAAAAATTCCATTTTTAACCCTCGAACTTCCAAAAATCCCATTTTT-ACCC--AAACT
*
989 TCCAAAAATTCCATTTTT-ACCATCG
63 TCCAAAAATCCCATTTTTGACC-TCG
* *
1014 -AACTTCCAAAAA-TCCTATTTTTAACCCTCGAACTTCCAAAAATTCCATATTTACACTCAAACT
1 AAACTTCCAAAAATTCC-ATTTTTAACCCTCGAACTTCCAAAAATCCCATTTTTAC-C-CAAACT
* * * *
1077 TTCAAAAATCCAATTTTTTACC-CT
63 TCCAAAAATCCCATTTTTGACCTCG
* * ** * * *
1101 AGAACTTCCAAAAATCCCTTTTTTGCCCCCCGAACTTCCAAAAAT-TCATTTTTACCCCTGAACT
1 A-AACTTCCAAAAATTCCATTTTTAACCCTCGAACTTCCAAAAATCCCATTTTTA-CCC-AAACT
*
1165 TCCAAAAATCTCATTTTTGACC-CTG
63 TCCAAAAATCCCATTTTTGACCTC-G
*
1190 AAACTTCCAAAAAATACCATTTT
1 AAACTTCC-AAAAATTCCATTTT
1213 ACCGTCGGAT
Statistics
Matches: 471, Mismatches: 53, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
86 22 0.05
87 42 0.09
88 170 0.36
89 234 0.50
90 3 0.01
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.32
Consensus pattern (87 bp):
AAACTTCCAAAAATTCCATTTTTAACCCTCGAACTTCCAAAAATCCCATTTTTACCCAAACTTCC
AAAAATCCCATTTTTGACCTCG
Found at i:3330 original size:12 final size:12
Alignment explanation
Indices: 3315--3340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3305 TTCTGCCTCT
3315 ATATCCTCCACG
1 ATATCCTCCACG
3327 ATATCCTCCACG
1 ATATCCTCCACG
3339 AT
1 AT
3341 TGCTTGTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.38, G:0.08, T:0.27
Consensus pattern (12 bp):
ATATCCTCCACG
Found at i:3697 original size:21 final size:21
Alignment explanation
Indices: 3673--3724 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
3663 TGAGGCAGTA
*
3673 CTACCGATACAAGTGA-GACTT
1 CTACCGATACAAGTCATG-CTT
* * *
3694 CTACCTAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
3715 CTACCGATAC
1 CTACCGATAC
3725 TAAAAACTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:22281 original size:33 final size:33
Alignment explanation
Indices: 22228--22292 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
22218 AAGTCATCTA
* * *
22228 AAATGACAAGACCCAACTTTCTACTTTATGGAG
1 AAATGACAAAAACCAACTTTCTACCTTATGGAG
*
22261 AAATGACAAAAACCAGCTTTCTACCTTATGGA
1 AAATGACAAAAACCAACTTTCTACCTTATGGA
22293 AAAGGGAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (33 bp):
AAATGACAAAAACCAACTTTCTACCTTATGGAG
Found at i:24286 original size:10 final size:10
Alignment explanation
Indices: 24271--24300 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24261 CATAGATTTT
24271 TTTTTTATTA
1 TTTTTTATTA
24281 TTTTTTATTA
1 TTTTTTATTA
*
24291 TTTTTCATTA
1 TTTTTTATTA
24301 AACACCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:55273 original size:21 final size:21
Alignment explanation
Indices: 55228--55281 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
55218 TGTGCTAGTT
**
55228 CTACCGATACAAGTATGATTT
1 CTACCGATACAAGTATGATAA
55249 CTACCGATACAAGTCATG-TAA
1 CTACCGATACAAGT-ATGATAA
*
55270 CTACCAATACAA
1 CTACCGATACAA
55282 AAAACTCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (21 bp):
CTACCGATACAAGTATGATAA
Found at i:60401 original size:21 final size:22
Alignment explanation
Indices: 60366--60409 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
60356 ACAATAATCG
60366 TATTCATACACATATATACATTA
1 TATTCATACACATATATA-ATTA
*
60389 TATTCA-A-ACATATGTAATTA
1 TATTCATACACATATATAATTA
60409 T
1 T
60410 TAGGATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 1 0.05
23 6 0.30
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (22 bp):
TATTCATACACATATATAATTA
Found at i:62371 original size:20 final size:20
Alignment explanation
Indices: 62348--62630 Score: 82
Period size: 20 Copynumber: 14.6 Consensus size: 20
62338 TTGTACATTT
62348 TCATATTTTTTGGTATTCTC
1 TCATATTTTTTGGTATTCTC
*
62368 TCATAATTTTTT-GCACTT-TC
1 TCAT-ATTTTTTGGTA-TTCTC
62388 TC--ATTTTTTGGTATT-TCC
1 TCATATTTTTTGGTATTCT-C
** * *
62406 TCAGGTTTTAT-G-ATACTC
1 TCATATTTTTTGGTATTCTC
* * *
62424 TCATAATATTTAGTATT-TAC
1 TCATATTTTTTGGTATTCT-C
* *
62444 TCATA-TTTTTAGTATTCCC
1 TCATATTTTTTGGTATTCTC
** *
62463 TTGTGTTTTTTAGGTATTCTC
1 TCATATTTTTT-GGTATTCTC
**
62484 TCATA-TTTTT-ACA-TC-C
1 TCATATTTTTTGGTATTCTC
62500 TCATATTTTTTTGGTACTT-TC
1 TCATA-TTTTTTGGTA-TTCTC
* * *
62521 TCAAATTTATTGGTA--C-A
1 TCATATTTTTTGGTATTCTC
***
62538 TCATTATTTTTTTAAACTTC-C
1 TCA-TATTTTTTGGTA-TTCTC
* *
62559 TCAAATTTTATGGTATTCTC
1 TCATATTTTTTGGTATTCTC
*
62579 TCATAATTTTTGGTACTT-TC
1 TCATATTTTTTGGTA-TTCTC
* * * *
62599 TAATATTTTTTAGTATCCCC
1 TCATATTTTTTGGTATTCTC
62619 TCATAATTTTTT
1 TCAT-ATTTTTT
62631 ATATCCCTCA
Statistics
Matches: 187, Mismatches: 48, Indels: 55
0.64 0.17 0.19
Matches are distributed among these distances:
16 6 0.03
17 15 0.08
18 27 0.14
19 22 0.12
20 80 0.43
21 37 0.20
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (20 bp):
TCATATTTTTTGGTATTCTC
Found at i:62378 original size:40 final size:39
Alignment explanation
Indices: 62325--62402 Score: 97
Period size: 38 Copynumber: 1.9 Consensus size: 39
62315 TTTAAATTTC
*
62325 CTCATAATTTTTTTTGTACATTT-TCATATTTTTTGGTATTCT
1 CTCATAA-TTTTTTTGCAC-TTTCTC--ATTTTTTGGTATTCT
62367 CTCATAA-TTTTTTGCACTTTCTCATTTTTTGGTATT
1 CTCATAATTTTTTTGCACTTTCTCATTTTTTGGTATT
62403 TCCTCAGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
38 13 0.38
39 3 0.09
40 11 0.32
42 7 0.21
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.60
Consensus pattern (39 bp):
CTCATAATTTTTTTGCACTTTCTCATTTTTTGGTATTCT
Found at i:62589 original size:40 final size:39
Alignment explanation
Indices: 62545--62676 Score: 90
Period size: 40 Copynumber: 3.3 Consensus size: 39
62535 ACATCATTAT
*
62545 TTTTTTAAACTTCCTCAAATTTTATGGTATTCTCTCATAA
1 TTTTTTAAACTTCCTCAAATTTT-TGGTATTCCCTCATAA
*** * * *
62585 TTTTTGGTACTTTCT-AATATTTTTTAGTATCCCCTCATAA
1 TTTTTTAAACTTCCTCAA-A-TTTTTGGTATTCCCTCATAA
* * * **
62625 TTTTTTATA-TCCCTCATAACTTTTGGTATTCGATCATAA
1 TTTTTTAAACTTCCTCA-AATTTTTGGTATTCCCTCATAA
62664 -TTTTTAATACTTC
1 TTTTTTAA-ACTTC
62677 TTCATGTTTT
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
38 6 0.09
39 21 0.31
40 36 0.53
41 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (39 bp):
TTTTTTAAACTTCCTCAAATTTTTGGTATTCCCTCATAA
Found at i:62638 original size:19 final size:21
Alignment explanation
Indices: 62603--62648 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
62593 ACTTTCTAAT
62603 ATTTTTTAGTATCCCCTCATA
1 ATTTTTTAGTATCCCCTCATA
62624 ATTTTTTA-TAT-CCCTCATA
1 ATTTTTTAGTATCCCCTCATA
*
62643 ACTTTT
1 ATTTTT
62649 GGTATTCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 3 0.12
21 8 0.33
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTTTTAGTATCCCCTCATA
Found at i:62764 original size:20 final size:20
Alignment explanation
Indices: 62712--62763 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
62702 TTGTTTGGAA
*
62712 CTCATAAATTTTTATACATC
1 CTCATAATTTTTTATACATC
* *
62732 CTCGTAATTTTTTATACTTC
1 CTCATAATTTTTTATACATC
*
62752 CTTAT-ATTTTTT
1 CTCATAATTTTTT
62764 TTGTACTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.56
Consensus pattern (20 bp):
CTCATAATTTTTTATACATC
Found at i:63122 original size:21 final size:20
Alignment explanation
Indices: 63106--63164 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
63096 ACTTTTTTGG
*
63106 TATTCTCTCATAATTTTTTA
1 TATTTTCTCATAATTTTTTA
* * *
63126 TATTTTCTTAGATTTTTTTTA
1 TATTTTCTCATA-ATTTTTTA
63147 TATTTTCTCATAATTTTT
1 TATTTTCTCATAATTTTT
63165 CGTAGTTCCT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTCTCATAATTTTTTA
Found at i:63369 original size:20 final size:19
Alignment explanation
Indices: 63346--63493 Score: 77
Period size: 20 Copynumber: 7.4 Consensus size: 19
63336 GTTTAGGTTT
63346 TTTTTTTATACTTTCTCATA
1 TTTTTTTATA-TTTCTCATA
*
63366 TTTTTTTGATATTACATCATAA
1 TTTTTTT-ATATTTC-TCAT-A
** *
63388 TTTTTTGT-TGCTCCTCAT-
1 TTTTTT-TATATTTCTCATA
* **
63406 TTTATTTTGTACTTTCTTTTA
1 TTT-TTTTATA-TTTCTCATA
63427 -TTTTTTATATTCTCTCATA
1 TTTTTTTATATT-TCTCATA
* * *
63446 ATTTTTTACATTCTCTCAAA
1 TTTTTTTATATT-TCTCATA
*
63466 ATTTTTTATATTTTCTCATA
1 TTTTTTTATA-TTTCTCATA
*
63486 ATTTTTTA
1 TTTTTTTA
63494 GTATACCCTC
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
18 6 0.06
19 15 0.15
20 60 0.59
21 12 0.12
22 7 0.07
23 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTTATATTTCTCATA
Found at i:63514 original size:40 final size:39
Alignment explanation
Indices: 63430--63516 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
63420 TCTTTTATTT
* * *
63430 TTTATATTCTCTCATAATTTTTTACATTCTCTCAAAATTT
1 TTTATATTCTCTCATAATTTTTTACATACCCTCAAAA-TA
* *
63470 TTTATATTTTCTCATAATTTTTTAGTATACCCTCAATAA-A
1 TTTATATTCTCTCATAATTTTTTA-CATACCCTCAA-AATA
63510 TTTATAT
1 TTTATAT
63517 GATTTCGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 30 0.75
41 8 0.20
42 2 0.05
ACGTcount: A:0.30, C:0.15, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTATATTCTCTCATAATTTTTTACATACCCTCAAAATA
Found at i:63780 original size:19 final size:18
Alignment explanation
Indices: 63755--63798 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
63745 ATTCCCTCGT
63755 ATTTTTTTGTACTTCTTA
1 ATTTTTTTGTACTTCTTA
* * *
63773 ATTTTTTTGTATTTTTTT
1 ATTTTTTTGTACTTCTTA
63791 ATTTTTTT
1 ATTTTTTT
63799 CATAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (18 bp):
ATTTTTTTGTACTTCTTA
Found at i:66864 original size:19 final size:19
Alignment explanation
Indices: 66828--66868 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
66818 ATAATTTTAA
66828 AAATATTTTTATACTTTTT
1 AAATATTTTTATACTTTTT
*
66847 AAATGATTTTTA-ATTTTTT
1 AAAT-ATTTTTATACTTTTT
66866 AAA
1 AAA
66869 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
AAATATTTTTATACTTTTT
Found at i:66870 original size:20 final size:20
Alignment explanation
Indices: 66822--66870 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66812 TTTAAAATAA
*
66822 TTTTAAAAATATTTTTATAC
1 TTTTTAAAATATTTTTATAC
*
66842 TTTTT-AAATGATTTTTA-AT
1 TTTTTAAAAT-ATTTTTATAC
66861 TTTTTAAAAT
1 TTTTTAAAAT
66871 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATATTTTTATAC
Found at i:69991 original size:35 final size:35
Alignment explanation
Indices: 69967--70052 Score: 163
Period size: 35 Copynumber: 2.5 Consensus size: 35
69957 GAATTTGTTC
*
69967 TAAATTTAAATTCATTTTTTAGTTTAAATTTACTT
1 TAAATTTAAATTCATTTTTGAGTTTAAATTTACTT
70002 TAAATTTAAATTCATTTTTGAGTTTAAATTTACTT
1 TAAATTTAAATTCATTTTTGAGTTTAAATTTACTT
70037 TAAATTTAAATTCATT
1 TAAATTTAAATTCATT
70053 GTAAATTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (35 bp):
TAAATTTAAATTCATTTTTGAGTTTAAATTTACTT
Found at i:70003 original size:11 final size:11
Alignment explanation
Indices: 69984--70044 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
69974 AAATTCATTT
*
69984 TTTAGTTTAAA
1 TTTACTTTAAA
69995 TTTACTTTAAA
1 TTTACTTTAAA
* * **
70006 TTTAAATTCATT
1 TTT-ACTTTAAA
*
70018 TTTGAGTTTAAA
1 TTT-ACTTTAAA
70030 TTTACTTTAAA
1 TTTACTTTAAA
70041 TTTA
1 TTTA
70045 AATTCATTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
11 24 0.63
12 14 0.37
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (11 bp):
TTTACTTTAAA
Found at i:70011 original size:17 final size:17
Alignment explanation
Indices: 69935--70048 Score: 86
Period size: 17 Copynumber: 6.6 Consensus size: 17
69925 CCAAATTTTT
*
69935 AATTTTAATTTACTTTA
1 AATTTAAATTTACTTTA
* * *
69952 AGTTTGAATTT-GTTCTA
1 AATTTAAATTTACTT-TA
* * *
69969 AATTTAAATTCATTTTTT
1 AATTTAAATTTA-CTTTA
*
69987 AGTTTAAATTTACTTTA
1 AATTTAAATTTACTTTA
* * *
70004 AATTTAAATTCATTTTTG
1 AATTTAAATTTA-CTTTA
*
70022 AGTTTAAATTTACTTTA
1 AATTTAAATTTACTTTA
70039 AATTTAAATT
1 AATTTAAATT
70049 CATTGTAAAT
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
16 2 0.03
17 44 0.61
18 24 0.33
19 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
AATTTAAATTTACTTTA
Found at i:70057 original size:17 final size:17
Alignment explanation
Indices: 69967--70065 Score: 83
Period size: 17 Copynumber: 5.7 Consensus size: 17
69957 GAATTTGTTC
*
69967 TAAATTTAAATTCATTTT
1 TAAATTTAAATTCA-CTT
* * *
69985 TTAGTTTAAATTTACTT
1 TAAATTTAAATTCACTT
*
70002 TAAATTTAAATTCATTTT
1 TAAATTTAAATTCA-CTT
* * *
70020 TGAGTTTAAATTTACTT
1 TAAATTTAAATTCACTT
70037 TAAATTTAAATTCA-TT
1 TAAATTTAAATTCACTT
*
70053 GTAAATTAAAATT
1 -TAAATTTAAATT
70066 AATTAAAAAG
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
16 2 0.03
17 37 0.59
18 24 0.38
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (17 bp):
TAAATTTAAATTCACTT
Found at i:70812 original size:20 final size:20
Alignment explanation
Indices: 70787--70825 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
70777 AATATATTAA
70787 TAATAATAATAAATATTTTT
1 TAATAATAATAAATATTTTT
70807 TAATAATAATAAATATTTT
1 TAATAATAATAAATATTTT
70826 GGGTAATATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATAATAAATATTTTT
Found at i:71929 original size:29 final size:29
Alignment explanation
Indices: 71896--72166 Score: 189
Period size: 29 Copynumber: 9.2 Consensus size: 29
71886 CCCAAACTTA
71896 CATTTTTACCCCTAAACTTCCAAAAATTC
1 CATTTTTACCCCTAAACTTCCAAAAATTC
* * *
71925 CATTTTTAACCTCGAAACTTCCATAAATTC
1 CATTTTT-ACCCCTAAACTTCCAAAAATTC
* * * *
71955 CATTTTTACCTCTGAACTTTCAAAAATCC
1 CATTTTTACCCCTAAACTTCCAAAAATTC
* *
71984 CGATTTTGA-CCCTGAAACTCCCAAAAATTAC
1 C-ATTTTTACCCCT-AAACTTCCAAAAATT-C
* *
72015 CA-TTTTACCCTTGAACTTCCAAAAATTC
1 CATTTTTACCCCTAAACTTCCAAAAATTC
* * *
72043 CATTTTAACCTCGAAACTTCCAAAAATTAC
1 CATTTTTACCCCTAAACTTCCAAAAATT-C
* ** *
72073 CA-TTTTGCCCCCGAA-TGTCTAAAAATTC
1 CATTTTTACCCCTAAACT-TCCAAAAATTC
* **
72101 CA-TTTTAACCCTAAAACTTTAAAAAATTAC
1 CATTTTTACCCCT-AAACTTCCAAAAATT-C
*
72131 C-CTTTTATCCCC-AAA-TGTCCAAAAAATTC
1 CATTTTTA-CCCCTAAACT-TCC-AAAAATTC
72160 CATTTTT
1 CATTTTT
72167 GATCCCGATT
Statistics
Matches: 187, Mismatches: 39, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
28 15 0.08
29 98 0.52
30 69 0.37
31 5 0.03
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
CATTTTTACCCCTAAACTTCCAAAAATTC
Found at i:71945 original size:30 final size:30
Alignment explanation
Indices: 71896--72078 Score: 191
Period size: 29 Copynumber: 6.2 Consensus size: 30
71886 CCCAAACTTA
* *
71896 CATTTTT-ACCCCTAAACTTCCAAAAATTC
1 CATTTTTAACCTCGAAACTTCCAAAAATTC
*
71925 CATTTTTAACCTCGAAACTTCCATAAATTC
1 CATTTTTAACCTCGAAACTTCCAAAAATTC
* *
71955 CATTTTT-ACCTCTG-AACTTTCAAAAATCC
1 CATTTTTAACCTC-GAAACTTCCAAAAATTC
* * *
71984 CGATTTTGACCCT-GAAACTCCCAAAAATTAC
1 C-ATTTTTAACCTCGAAACTTCCAAAAATT-C
* *
72015 CA-TTTTACCCTTG-AACTTCCAAAAATTC
1 CATTTTTAACCTCGAAACTTCCAAAAATTC
72043 CA-TTTTAACCTCGAAACTTCCAAAAATTAC
1 CATTTTTAACCTCGAAACTTCCAAAAATT-C
72073 CATTTT
1 CATTTT
72079 GCCCCCGAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.09
29 61 0.47
30 48 0.37
31 8 0.06
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (30 bp):
CATTTTTAACCTCGAAACTTCCAAAAATTC
Found at i:72071 original size:58 final size:57
Alignment explanation
Indices: 71899--72283 Score: 316
Period size: 59 Copynumber: 6.6 Consensus size: 57
71889 AAACTTACAT
* *
71899 TTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCTCGAAACTTCCATAAATT-CCA
1 TTTTACCCCTGAA-TGTCCAAAAATTCCA-TTTTAACC-CGAAACTTCCAAAAATTACCA
* * * * *
71957 TTTTTACCTCTGAACT-TTCAAAAATCCCGATTTTGACCCTGAAACTCCCAAAAATTACCA
1 -TTTTACCCCTGAA-TGTCCAAAAATTCC-ATTTTAACCC-GAAACTTCCAAAAATTACCA
*
72017 TTTTACCCTTGAACT-TCCAAAAATTCCATTTTAACCTCGAAACTTCCAAAAATTACCA
1 TTTTACCCCTGAA-TGTCCAAAAATTCCATTTTAACC-CGAAACTTCCAAAAATTACCA
* * * * ** *
72075 TTTTGCCCCCGAATGTCTAAAAATTCCATTTTAACCCTAAAACTTTAAAAAATTACCC
1 TTTTACCCCTGAATGTCCAAAAATTCCATTTTAACCC-GAAACTTCCAAAAATTACCA
* * ** * *
72133 TTTTATCCCC-AAATGTCCAAAAAATTCCATTTTTGATCCCG-ATTTTCCTAAAAATTATCG
1 TTTTA-CCCCTGAATGTCC-AAAAATTCCA-TTTT-AACCCGAAACTTCC-AAAAATTACCA
* * * **
72193 TTTTACCCCTGGATGTCCAAAAATTCCATTTTTGATCTCG-ATTTTCCTAAAAATTACCA
1 TTTTACCCCTGAATGTCCAAAAATTCCA-TTTT-AACCCGAAACTTCC-AAAAATTACCA
*
72252 TTTTACCCCTGAATGTCCAAAAATTCCGTTTT
1 TTTTACCCCTGAATGTCCAAAAATTCCATTTT
72284 TGATCCCCAT
Statistics
Matches: 275, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
57 2 0.01
58 88 0.32
59 153 0.56
60 28 0.10
61 4 0.01
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (57 bp):
TTTTACCCCTGAATGTCCAAAAATTCCATTTTAACCCGAAACTTCCAAAAATTACCA
Found at i:72186 original size:30 final size:30
Alignment explanation
Indices: 72152--72306 Score: 119
Period size: 30 Copynumber: 5.2 Consensus size: 30
72142 CAAATGTCCA
72152 AAAAATTCCATTTTTGATCCCGATTTTCCT
1 AAAAATTCCATTTTTGATCCCGATTTTCCT
* *
72182 AAAAATT--ATCGTTTT-ACCCCTGGA-TGTCC-
1 AAAAATTCCAT--TTTTGATCCC--GATTTTCCT
*
72211 AAAAATTCCATTTTTGATCTCGATTTTCCT
1 AAAAATTCCATTTTTGATCCCGATTTTCCT
* * *
72241 AAAAATTACCA-TTTT-ACCCCTGAATGTCC-
1 AAAAATT-CCATTTTTGATCCC-GATTTTCCT
* * *
72270 AAAAATTCCGTTTTTGATCCCCATTTTTCT
1 AAAAATTCCATTTTTGATCCCGATTTTCCT
72300 AAAAATT
1 AAAAATT
72307 ACAGTTTTAC
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
28 6 0.06
29 37 0.39
30 46 0.48
31 7 0.07
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AAAAATTCCATTTTTGATCCCGATTTTCCT
Found at i:72285 original size:59 final size:58
Alignment explanation
Indices: 72006--72318 Score: 269
Period size: 59 Copynumber: 5.3 Consensus size: 58
71996 TGAAACTCCC
* * * * **
72006 AAAAATTACCATTTTACCCTTGAACT-TCCAAAAATTCCATTTTAACCTCGAAACTTCC-
1 AAAAATTACCATTTTACCCCTGAA-TGTCCAAAAATTCCTTTTTGATCTCG-ATTTTCCT
* * * * * * ** * *
72064 AAAAATTACCATTTTGCCCCCGAATGTCTAAAAATTCCATTTTAACCCTAAAACTTT--A
1 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCTTTTTGA-TCT-CGATTTTCCT
* * *
72122 AAAAATTACCCTTTTATCCCC-AAATGTCCAAAAAATTCCATTTTTGATCCCGATTTTCCT
1 AAAAATTACCATTTTA-CCCCTGAATGTCC-AAAAATTCC-TTTTTGATCTCGATTTTCCT
* * *
72182 AAAAATTATCGTTTTACCCCTGGATGTCCAAAAATTCCATTTTTGATCTCGATTTTCCT
1 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCC-TTTTTGATCTCGATTTTCCT
* * *
72241 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCGTTTTTGATCCCCATTTTTCT
1 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCC-TTTTTGATCTCGATTTTCCT
72300 AAAAATTA-CAGTTTTACCC
1 AAAAATTACCA-TTTTACCC
72319 TCGAGTGTCT
Statistics
Matches: 212, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.00
58 65 0.31
59 121 0.57
60 25 0.12
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCTTTTTGATCTCGATTTTCCT
Found at i:72343 original size:59 final size:58
Alignment explanation
Indices: 72145--72342 Score: 206
Period size: 59 Copynumber: 3.3 Consensus size: 58
72135 TTATCCCCAA
* * *
72145 ATGTCCAAAAAATTCCATTTTTGATCCCGATTTTCCTAAAAATTATC-GTTTTACCCCTGG
1 ATGTCC-AAAAATT-CGTTTTTGATCCCGATTTTCCTAAAAATTACCAGTTTTA-CCCTCG
* *
72205 ATGTCCAAAAATTCCATTTTTGATCTCGATTTTCCTAAAAATTACCA-TTTTACCC-CTG
1 ATGTCCAAAAATT-CGTTTTTGATCCCGATTTTCCTAAAAATTACCAGTTTTACCCTC-G
* *
72263 AATGTCCAAAAATTCCGTTTTTGATCCCCATTTTTCTAAAAATTA-CAGTTTTACCCTCG
1 -ATGTCCAAAAATT-CGTTTTTGATCCCGATTTTCCTAAAAATTACCAGTTTTACCCTCG
* * *
72322 AGTGTCTAAAAACTAGTTTTT
1 A-TGTCCAAAAATTCGTTTTT
72343 TAACCCTCGA
Statistics
Matches: 122, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
58 13 0.11
59 102 0.84
60 7 0.06
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (58 bp):
ATGTCCAAAAATTCGTTTTTGATCCCGATTTTCCTAAAAATTACCAGTTTTACCCTCG
Found at i:72394 original size:118 final size:118
Alignment explanation
Indices: 72122--72374 Score: 282
Period size: 118 Copynumber: 2.1 Consensus size: 118
72112 TAAAACTTTA
* *
72122 AAAAATTACCCTTTTATCCCCA--AATGTCCAAAAAATTCCATTTTTGATCCCGATTTTCCTAAA
1 AAAAATTACCATTTTA--CCCATGAATGTCC-AAAAATTCCATTTTTGATCCCCATTTTCCTAAA
* * * * * *
72185 AATTATCGTTTTACCCCTGGATGTCCAAAAATTCCATTTTTGATCTCGATTTTCCT
63 AATTATCGTTTTACCCCTCGATGTCCAAAAACTACATTTTTAACCTCGAATTTCCT
* * *
72241 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCGTTTTTGATCCCCATTTTTCTAAAAAT
1 AAAAATTACCATTTTACCCATGAATGTCCAAAAATTCCATTTTTGATCCCCATTTTCCTAAAAAT
* **
72306 TA-CAGTTTTA-CCCTCGAGTGTCTAAAAACTAGTTTTTTAACCCTCGAAATTTCCT
66 TATC-GTTTTACCCCTCGA-TGTCCAAAAACTACATTTTTAA-CCTCG-AATTTCCT
72361 -AAAATTACCATTTT
1 AAAAATTACCATTTT
72375 GTCCTCATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
117 10 0.09
118 57 0.50
119 40 0.35
120 7 0.06
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (118 bp):
AAAAATTACCATTTTACCCATGAATGTCCAAAAATTCCATTTTTGATCCCCATTTTCCTAAAAAT
TATCGTTTTACCCCTCGATGTCCAAAAACTACATTTTTAACCTCGAATTTCCT
Found at i:72403 original size:118 final size:117
Alignment explanation
Indices: 72006--72403 Score: 268
Period size: 118 Copynumber: 3.4 Consensus size: 117
71996 TGAAACTCCC
* * * **
72006 AAAAATTACCATTTTACCCTTGAACT-TCCAAAAATTCCATTTT-AACCTCGAAACTTCC-AAAA
1 AAAAATTACCATTTTACCCATGAA-TGTCCAAAAATTCCATTTTGATCC-C-CATTTTCCTAAAA
* * * * * * ** *
72068 ATTACCATTTTGCCCC-CGAATGTCTAAAAATTCCA-TTTTAACCCTAAAACTTT--A
63 ATTATCGTTTTACCCCTCG-ATGTCCAAAAACTACATTTTTAA-CCTCGAA-TTTCCT
* *
72122 AAAAATTACCCTTTTATCCCCA--AATGTCCAAAAAATTCCATTTTTGATCCCGATTTTCCTAAA
1 AAAAATTACCATTTTA--CCCATGAATGTCC-AAAAATTCCA-TTTTGATCCCCATTTTCCTAAA
* * * * * *
72185 AATTATCGTTTTACCCCTGGATGTCCAAAAATTCCATTTTTGATCTCGATTTTCCT
62 AATTATCGTTTTACCCCTCGATGTCCAAAAACTACATTTTTAACCTCGAATTTCCT
* * *
72241 AAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCGTTTTTGATCCCCATTTTTCTAAAAAT
1 AAAAATTACCATTTTACCCATGAATGTCCAAAAATTCC-ATTTTGATCCCCATTTTCCTAAAAAT
* **
72306 TA-CAGTTTTA-CCCTCGAGTGTCTAAAAACTAGTTTTTTAACCCTCGAAATTTCCT
65 TATC-GTTTTACCCCTCGA-TGTCCAAAAACTACATTTTTAA-CCTCG-AATTTCCT
*
72361 -AAAATTACCATTTTGTCCTCATG-A-GTCC-AAAATTACCATTTTG
1 AAAAATTACCATTTT-ACC-CATGAATGTCCAAAAATT-CCATTTTG
72404 CCCCCGGGTA
Statistics
Matches: 227, Mismatches: 34, Indels: 40
0.75 0.11 0.13
Matches are distributed among these distances:
115 1 0.00
116 20 0.09
117 28 0.12
118 110 0.48
119 55 0.24
120 10 0.04
121 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.36
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCATGAATGTCCAAAAATTCCATTTTGATCCCCATTTTCCTAAAAATT
ATCGTTTTACCCCTCGATGTCCAAAAACTACATTTTTAACCTCGAATTTCCT
Found at i:76147 original size:18 final size:18
Alignment explanation
Indices: 76114--76148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76104 GATTTTTTCT
* *
76114 ATTTTTAATATTTTTATA
1 ATTTTTAAAATATTTATA
76132 ATTTTTAAAATATTTAT
1 ATTTTTAAAATATTTAT
76149 TGATATGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTAAAATATTTATA
Found at i:77886 original size:8 final size:8
Alignment explanation
Indices: 77846--77897 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
77836 TTAGTGATTT
77846 TTATAGTAA
1 TTATA-TAA
*
77855 TTA-ATAT
1 TTATATAA
* *
77862 TTTTAAAA
1 TTATATAA
77870 TTATA-AA
1 TTATATAA
77877 TTATATAA
1 TTATATAA
77885 TTATATAA
1 TTATATAA
77893 TTATA
1 TTATA
77898 ATGTATATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 11 0.31
8 22 0.61
9 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (8 bp):
TTATATAA
Found at i:82924 original size:73 final size:73
Alignment explanation
Indices: 82805--82950 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
82795 TCAAGGTACT
82805 ACTGGAACTTTTCATTTAATAATAAACTTCATGCAATCTGGTGGGGTGCACACCATCAAATGCCC
1 ACTGGAACTTTTCATTTAATAATAAACTTCATGCAATCTGGTGGGGTGCACACCATCAAATGCCC
82870 CTTCGAGG
66 CTTCGAGG
*
82878 ACTGGAACTTTTCATTTAGTAATAAACTTCATGCAATCTGGTGGGGTGCACACCATCAAATGCCC
1 ACTGGAACTTTTCATTTAATAATAAACTTCATGCAATCTGGTGGGGTGCACACCATCAAATGCCC
82943 CTTCGAGG
66 CTTCGAGG
82951 GAGTTCCATG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (73 bp):
ACTGGAACTTTTCATTTAATAATAAACTTCATGCAATCTGGTGGGGTGCACACCATCAAATGCCC
CTTCGAGG
Found at i:83823 original size:2 final size:2
Alignment explanation
Indices: 83816--83848 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
83806 GGTTCACTCA
83816 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
83849 ATATCTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:92364 original size:22 final size:22
Alignment explanation
Indices: 92334--92376 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
92324 ACTTAGTAAT
*
92334 TAATTTTTTTGCATTTTATAGC
1 TAATCTTTTTGCATTTTATAGC
92356 TAATCTTTTTGCATTTTATAG
1 TAATCTTTTTGCATTTTATAG
92377 ACCCATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (22 bp):
TAATCTTTTTGCATTTTATAGC
Done.