Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003145.1 Kokia drynarioides strain JFW-HI SEQ_115728, 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: 49543
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Found at i:7719 original size:45 final size:45
Alignment explanation
Indices: 7655--7744 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
7645 TCATGTTTTT
* *
7655 TTAATTTTTTGATGATGTACATATACCTTGCACATACAGGTGTTC
1 TTAATTTTTTGATGATGTACATATACATTGCACACACAGGTGTTC
*
7700 TTAATTTTTTGATGATGTACATATATATTGCACACACAGGTGTTC
1 TTAATTTTTTGATGATGTACATATACATTGCACACACAGGTGTTC
7745 AAATTTGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (45 bp):
TTAATTTTTTGATGATGTACATATACATTGCACACACAGGTGTTC
Found at i:16480 original size:35 final size:35
Alignment explanation
Indices: 16440--16511 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
16430 CGCAGAAGCT
*
16440 AACATGATAGATCAATACAATTATACTCCACGAAC
1 AACATGATAGATCAATACAAGTATACTCCACGAAC
*
16475 AACATGATAGGTCAATACAAGTATACTCCACGAAC
1 AACATGATAGATCAATACAAGTATACTCCACGAAC
16510 AA
1 AA
16512 AATCCTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.21
Consensus pattern (35 bp):
AACATGATAGATCAATACAAGTATACTCCACGAAC
Found at i:17727 original size:27 final size:27
Alignment explanation
Indices: 17693--17749 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
17683 TTAAAATGAT
*
17693 ATTTT-TTTT-AAA-TAAAATATTTTAT
1 ATTTTATTTTAAAATTAAAA-ATTTTAA
*
17718 ATTTTATTTTAAAATTTAAAATTTTAA
1 ATTTTATTTTAAAATTAAAAATTTTAA
17745 ATTTT
1 ATTTT
17750 TAATGAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 4 0.15
27 14 0.52
28 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTATTTTAAAATTAAAAATTTTAA
Found at i:17812 original size:15 final size:15
Alignment explanation
Indices: 17789--17823 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17779 TTTTGAAGTA
17789 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
17803 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
*
17818 ATATAT
1 AAATAT
17824 GTCAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:18980 original size:34 final size:36
Alignment explanation
Indices: 18913--18995 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 36
18903 TAATTATTTA
** *
18913 TATTTAATAATATAATAATTTATTATTTTAATAA-AT
1 TATTTAATAATATAAT-ATTTATTATTAAAATAATAC
18949 TATTTAATAATATAAT-TTTATT-TTAAAAATAATAC
1 TATTTAATAATATAATATTTATTATT-AAAATAATAC
18984 T-TTTAATAATAT
1 TATTTAATAATAT
18996 TCTTTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.05
34 22 0.52
35 2 0.05
36 16 0.38
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (36 bp):
TATTTAATAATATAATATTTATTATTAAAATAATAC
Found at i:21502 original size:22 final size:23
Alignment explanation
Indices: 21472--21519 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
21462 AATAAATTTT
21472 AAAAATCAAAA-TAT-TTTATAA
1 AAAAATCAAAATTATATTTATAA
*
21493 AAAAATTCAAAATTATATTTTTAA
1 AAAAA-TCAAAATTATATTTATAA
21517 AAA
1 AAA
21520 TTATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 6 0.26
23 3 0.13
24 9 0.39
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATCAAAATTATATTTATAA
Found at i:21520 original size:22 final size:21
Alignment explanation
Indices: 21468--21540 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
21458 TCAAAATAAA
21468 TTTTAAAAA-TCAAAA-TATT
1 TTTTAAAAATTCAAAATTATT
*
21487 TTATAAAAAAATTCAAAATTATAT
1 TT-T-TAAAAATTCAAAATTAT-T
* *
21511 TTTTAAAAATT-ATAATTTTT
1 TTTTAAAAATTCAAAATTATT
*
21531 TTTTTAAAAT
1 TTTTAAAAAT
21541 CTAAAGAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
19 2 0.05
20 11 0.25
21 11 0.25
22 13 0.30
23 4 0.09
24 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTAAAAATTCAAAATTATT
Found at i:21521 original size:15 final size:16
Alignment explanation
Indices: 21501--21530 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21491 AAAAAAATTC
21501 AAAATTAT-ATTTTTA
1 AAAATTATAATTTTTA
21516 AAAATTATAATTTTT
1 AAAATTATAATTTTT
21531 TTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTATAATTTTTA
Found at i:22651 original size:22 final size:20
Alignment explanation
Indices: 22620--22660 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
22610 ATTATACTTA
22620 AAAAACAATTAATAATGTCATT
1 AAAAACAATTAA-AAT-TCATT
*
22642 AAAAATAATTAAAATTCAT
1 AAAAACAATTAAAATTCAT
22661 AGCAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAACAATTAAAATTCATT
Found at i:23678 original size:7 final size:7
Alignment explanation
Indices: 23663--23698 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
23653 CTCCTTTTTA
*
23663 CTGCATC
1 CTGCTTC
23670 CTGCTTC
1 CTGCTTC
23677 CTGCTTC
1 CTGCTTC
23684 CTGCTTC
1 CTGCTTC
23691 CTGCTTC
1 CTGCTTC
23698 C
1 C
23699 ATTGAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.03, C:0.44, G:0.14, T:0.39
Consensus pattern (7 bp):
CTGCTTC
Found at i:26759 original size:16 final size:17
Alignment explanation
Indices: 26729--26761 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26719 TTTTCATAGA
*
26729 TAAAAGAATTGTTATTT
1 TAAAAGAATTATTATTT
26746 TAAAA-AATTATTATTT
1 TAAAAGAATTATTATTT
26762 GTCATTCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TAAAAGAATTATTATTT
Found at i:29798 original size:28 final size:28
Alignment explanation
Indices: 29758--29817 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
29748 AAATGAGACT
**
29758 TTTTGGATACTCGAGGTTAAAATGGTAA
1 TTTTGGATACTCGAGGGCAAAATGGTAA
* *
29786 TTTTGGATTCTCGGGGGCAAAATGGTAA
1 TTTTGGATACTCGAGGGCAAAATGGTAA
29814 TTTT
1 TTTT
29818 AGGAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (28 bp):
TTTTGGATACTCGAGGGCAAAATGGTAA
Found at i:29915 original size:59 final size:58
Alignment explanation
Indices: 29835--30088 Score: 228
Period size: 59 Copynumber: 4.3 Consensus size: 58
29825 TTTGGGGTTT
* * * *** * *
29835 AAAAT-GAAATTTTAGACATTCGAGGTTAAAACGATAATTTTTAGAAAAATCAAGATAA
1 AAAATGGAATTTTTGGACATTCGAGGTTAAAATG-TAATTTTTAGAAGTTTCGAGGTAA
* *
29893 AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTTAG-AGTTTCGAGGTCA
1 AAAATGGAATTTTTGGACATTCGAGGTTAAAAT-GTAA-TTTTTAGAAGTTTCGAGGTAA
* * * *
29952 AAAATGGAGTTTTTGGACATTCGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGGTAA
1 AAAATGGAATTTTTGGACATTC-GAGGTTAAAATGTAATTTTTAGAAGTTTCGAGGTAA
* * * * * *
30011 AAAATGGAATTTTT-GAAAGTTCGGGGGTAAAAATGTAA-TTTTCGAAAGTTTCGAGATCA
1 AAAATGGAATTTTTGGACA-TTC-GAGGTTAAAATGTAATTTTTAG-AAGTTTCGAGGTAA
*
30070 AAAATGGAATTTTTAGACA
1 AAAATGGAATTTTTGGACA
30089 GTTTAGGAAC
Statistics
Matches: 166, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
58 19 0.11
59 128 0.77
60 19 0.11
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (58 bp):
AAAATGGAATTTTTGGACATTCGAGGTTAAAATGTAATTTTTAGAAGTTTCGAGGTAA
Found at i:29924 original size:30 final size:29
Alignment explanation
Indices: 29892--30052 Score: 143
Period size: 29 Copynumber: 5.5 Consensus size: 29
29882 AATCAAGATA
29892 AAAAATGGAATTTTTGGACATTCGAGGGT
1 AAAAATGGAATTTTTGGACATTCGAGGGT
* **
29921 -AAAATGGTAATTTTTTAGAGTTTCGA-GGT
1 AAAAATGG-AA-TTTTTGGACATTCGAGGGT
* *
29950 CAAAAATGGAGTTTTTGGACATTCGGGGGT
1 -AAAAATGGAATTTTTGGACATTCGAGGGT
*
29980 AAAAATGTAATTTTTGGA-AGTTTCGA-GGT
1 AAAAATGGAATTTTTGGACA--TTCGAGGGT
* *
30009 AAAAAATGGAATTTTT-GAAAGTTCGGGGGT
1 -AAAAATGGAATTTTTGGACA-TTCGAGGGT
*
30039 AAAAATGTAATTTT
1 AAAAATGGAATTTT
30053 CGAAAGTTTC
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
28 8 0.07
29 54 0.50
30 38 0.36
31 7 0.07
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGACATTCGAGGGT
Found at i:30075 original size:30 final size:29
Alignment explanation
Indices: 29892--30092 Score: 153
Period size: 30 Copynumber: 6.8 Consensus size: 29
29882 AATCAAGATA
*
29892 AAAAATGGAATTTTTGGACA--TTCGAGGGT
1 AAAAATGGAATTTTT-GAAAGTTTCGA-GGT
* *
29921 -AAAATGGTAATTTTTTAGAGTTTCGAGGT
1 AAAAATGG-AATTTTTGAAAGTTTCGAGGT
* * *
29950 CAAAAATGGAGTTTTTGGACA--TTCGGGGGT
1 -AAAAATGGAATTTTT-GAAAGTTTC-GAGGT
* *
29980 AAAAATGTAATTTTTGGAAGTTTCGAGGT
1 AAAAATGGAATTTTTGAAAGTTTCGAGGT
*
30009 AAAAAATGGAATTTTTGAAAG-TTCGGGGGT
1 -AAAAATGGAATTTTTGAAAGTTTC-GAGGT
* * *
30039 AAAAATGTAATTTTCGAAAGTTTCGAGAT
1 AAAAATGGAATTTTTGAAAGTTTCGAGGT
*
30068 CAAAAATGGAATTTTTAGACAGTTT
1 -AAAAATGGAATTTTT-GAAAGTTT
30093 AGGAACCTTC
Statistics
Matches: 137, Mismatches: 21, Indels: 26
0.74 0.11 0.14
Matches are distributed among these distances:
28 11 0.08
29 54 0.39
30 56 0.41
31 16 0.12
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGAAAGTTTCGAGGT
Found at i:36129 original size:206 final size:206
Alignment explanation
Indices: 35558--36226 Score: 843
Period size: 206 Copynumber: 3.3 Consensus size: 206
35548 AATTATCCAC
* * *
35558 AAAC-AGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACGAGG
1 AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC-A--AATCAAGG
* * * * * *
35622 CTCAAAGCGAGCAAATCTTCGAATCTCAGCTTCCTGATAAGATATTGAGAAGCAAGG-CGAAGCA
63 CTCGATGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGC-AGGTCGAAGCA
* * * *
35686 ATAAAA-GGTTAGCTTCCTGATGAGAGACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGGTA
127 ATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
35750 CAGAGAAGCGGATTG
192 CAGAGAAGTGGATTG
** * * * * * *
35765 AAACAAGTAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACC-AA-C---TCAAGGATC
1 AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAATCAAGGCTC
* *
35825 GATGTGAGCAAATCTTCGAACCTCAACTTCCTGATGAGATACTGAGAAGCATGTCGAAGCAATAA
66 GATGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* *
35890 AATGATTAGCTTCCCGATGAGATACTA-AGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
131 AATGGTTAGCTTCCTGATGAGATAC-AGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
35954 AGAAGTGGATTG
195 AGAAGTGGATTG
* * * * *
35966 AAATAAGCGATACGATCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAAATCCACGCTC
1 AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAATCAAGGCTC
* ** *
36031 GATGTGAGCAAATCTTCGAACCCCAGCTTTTTGATGAGATACTGAGAAGCAGGTCAAAGCAATAA
66 GATGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * *
36096 AATGGTTAGCTTCCTGATGAGTTACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAAACACAGA
131 AATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
**
36161 GAAGTGGATCA
196 GAAGTGGATTG
* *
36172 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAAATCAA
1 AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
36227 TGAAACCAGA
Statistics
Matches: 394, Mismatches: 58, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
199 2 0.01
200 62 0.16
201 103 0.26
202 2 0.01
203 1 0.00
205 1 0.00
206 182 0.46
207 6 0.02
208 35 0.09
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (206 bp):
AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAATCAAGGCTC
GATGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
AATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
GAAGTGGATTG
Found at i:36529 original size:11 final size:11
Alignment explanation
Indices: 36514--36593 Score: 72
Period size: 11 Copynumber: 7.0 Consensus size: 11
36504 TCGGGCCTCT
*
36514 TTTAAATTTAT
1 TTTAAATTTAA
36525 TTTAAATTTAGA
1 TTTAAATTTA-A
*
36537 TTT-ATTTTAAA
1 TTTAAATTT-AA
*
36548 TTTGAATTTAA
1 TTTAAATTTAA
*
36559 ATTAAATTTAAA
1 TTTAAATTT-AA
*
36571 TTTAAATTTAT
1 TTTAAATTTAA
36582 TTTCAAATTTAA
1 TTT-AAATTTAA
36594 AAAAATTATT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
11 31 0.55
12 25 0.45
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:36539 original size:17 final size:17
Alignment explanation
Indices: 36514--36574 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
36504 TCGGGCCTCT
36514 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
36531 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* **
36548 TTTGAATTTAAATTAAA
1 TTTAAATTTATTTTAAA
36565 TTTAAATTTA
1 TTTAAATTTA
36575 AATTTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:36555 original size:23 final size:23
Alignment explanation
Indices: 36515--36594 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
36505 CGGGCCTCTT
* *
36515 TTAAATTT-ATTTTAAATTTAGA
1 TTAAATTTAAATTTAAATTTAAA
* * *
36537 TTTATTTTAAATTTGAATTTAAA
1 TTAAATTTAAATTTAAATTTAAA
**
36560 TTAAATTTAAATTTAAATTTATT
1 TTAAATTTAAATTTAAATTTAAA
36583 TTCAAATTTAAA
1 TT-AAATTTAAA
36595 AAAATTATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
22 6 0.13
23 31 0.67
24 9 0.20
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
TTAAATTTAAATTTAAATTTAAA
Found at i:36563 original size:5 final size:6
Alignment explanation
Indices: 36514--36594 Score: 80
Period size: 6 Copynumber: 14.0 Consensus size: 6
36504 TCGGGCCTCT
* * * *
36514 TTTAAA TTT-AT TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
36560 -TTAAA TTTAAA TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
36595 AAAATTATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
5 16 0.27
6 40 0.67
7 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:36575 original size:17 final size:17
Alignment explanation
Indices: 36514--36594 Score: 81
Period size: 17 Copynumber: 4.7 Consensus size: 17
36504 TCGGGCCTCT
**
36514 TTTAAATTTATTTTAAA
1 TTTAAATTTAAATTAAA
* **
36531 TTTAGATTTATTTTAAA
1 TTTAAATTTAAATTAAA
*
36548 TTTGAATTTAAATTAAA
1 TTTAAATTTAAATTAAA
* *
36565 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTAAA
36582 TTTCAAATTTAAA
1 TTT-AAATTTAAA
36595 AAAATTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 46 0.84
18 9 0.16
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTAAA
Found at i:36623 original size:14 final size:15
Alignment explanation
Indices: 36606--36634 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36596 AAATTATTAT
36606 AAAGTCC-AATTACA
1 AAAGTCCAAATTACA
36620 AAAGTCCAAATTACA
1 AAAGTCCAAATTACA
36635 TGTCCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (15 bp):
AAAGTCCAAATTACA
Found at i:47208 original size:4 final size:4
Alignment explanation
Indices: 47199--47225 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47189 AAGCACAAAA
47199 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
47226 ACCTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Done.