Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_26 ID=scaffold_26-JGI_221_v2.0
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: 71148
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.26
Warning! 14166 characters in sequence are not A, C, G, or T
Found at i:258 original size:18 final size:18
Alignment explanation
Indices: 235--271 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
225 TTTGGGCTTC
235 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
253 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
271 G
1 G
272 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:1283 original size:106 final size:106
Alignment explanation
Indices: 1098--1310 Score: 347
Period size: 106 Copynumber: 2.0 Consensus size: 106
1088 TTATATTTTT
*
1098 AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAGCTTC
1 AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
*
1163 AGAGAGACAAAGTTTGATATGATCTGCTCTATTGCAACTTC
66 AGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
* * * *
1204 AACTTGCCCCATTGCAACTTCATGGGG-ATAAGGTTTGTTATTTCAACCTGCTCTACTGCAACTT
1 AACTTGCCCCACTGCAACTTCA-GGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTT
*
1268 TAGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
65 CAGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
1310 A
1 A
1311 GAGAGACGAG
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 95 0.96
107 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (106 bp):
AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
AGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
Found at i:3407 original size:7 final size:7
Alignment explanation
Indices: 3392--3437 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
3382 TGGCCTCTCC
*
3392 TTTTCCT
1 TTTTTCT
3399 TTTTTC-
1 TTTTTCT
3405 TTTTTCT
1 TTTTTCT
*
3412 TTTCTCT
1 TTTTTCT
3419 TCTTTT-T
1 T-TTTTCT
3426 TTTTTCT
1 TTTTTCT
3433 TTTTT
1 TTTTT
3438 TGAATCTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 10 0.30
7 20 0.61
8 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:3423 original size:16 final size:16
Alignment explanation
Indices: 3402--3432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3392 TTTTCCTTTT
3402 TTCTTTTTCTTTTCTC
1 TTCTTTTTCTTTTCTC
*
3418 TTCTTTTTTTTTTCT
1 TTCTTTTTCTTTTCT
3433 TTTTTTGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTC
Found at i:3429 original size:21 final size:19
Alignment explanation
Indices: 3391--3435 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
3381 TTGGCCTCTC
3391 CTTTTCCTTTTTTCTTTTT
1 CTTTTCCTTTTTTCTTTTT
*
3410 CTTTTCTCTTCTTTTTTTTTT
1 CTTTTC-CTT-TTTTCTTTTT
3431 CTTTT
1 CTTTT
3436 TTTGAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
CTTTTCCTTTTTTCTTTTT
Found at i:8057 original size:22 final size:22
Alignment explanation
Indices: 7992--8047 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
7982 AGAGATTTGT
7992 AGATATATATAATAAGATATAA
1 AGATATATATAATAAGATATAA
* *
8014 ATATATACATAATAAGATATAA
1 AGATATATATAATAAGATATAA
8036 AGATATATATAA
1 AGATATATATAA
8048 ATAGTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
AGATATATATAATAAGATATAA
Found at i:8814 original size:21 final size:19
Alignment explanation
Indices: 8773--8815 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
8763 TCGAAAAAGG
*
8773 TATTTTTTATTTCTTTTTT
1 TATTTTTTATTTCTTTATT
*
8792 TATTTTCTATATTTGTTTATT
1 TATTTT-T-TATTTCTTTATT
8813 TAT
1 TAT
8816 ATATGTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
TATTTTTTATTTCTTTATT
Found at i:9303 original size:18 final size:18
Alignment explanation
Indices: 9280--9316 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9270 TTTGGGCTTC
9280 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
9298 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
9316 G
1 G
9317 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:17060 original size:21 final size:21
Alignment explanation
Indices: 17015--17060 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17005 CATGGGTGGG
* **
17015 CACACGGGGGTGTGGGGTAGT
1 CACACGGGGGTGTGGGATAAC
*
17036 CACACGGGTGTGTGGGATAAC
1 CACACGGGGGTGTGGGATAAC
17057 CACA
1 CACA
17061 GGACCATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.17
Consensus pattern (21 bp):
CACACGGGGGTGTGGGATAAC
Found at i:24988 original size:15 final size:17
Alignment explanation
Indices: 24970--25001 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24960 CAGAATAGAA
24970 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
24985 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
25002 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:30727 original size:18 final size:18
Alignment explanation
Indices: 30704--30740 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30694 TTTGGGCTTC
30704 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
30722 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
30740 G
1 G
30741 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:31381 original size:207 final size:208
Alignment explanation
Indices: 31155--31547 Score: 655
Period size: 207 Copynumber: 1.9 Consensus size: 208
31145 ACTTTAATCC
* * *
31155 GCTCCATGCTTCAACCTATTCCGCTACAACTTCAGGGAAATAAGATTCGACATGATAAGAATCGT
1 GCTCCATGCTTCAACCTATTCCGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
*
31220 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCACT
66 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTATTTTCAGTCTACTCCACT
31285 GCATCTTCAG-GGAAATAAGACTTGTACCTTCAACCTACT-CACTGCAACTTCAGGGTAATAGGA
131 GCATCTTCAGAGG-AATAAGACTTGTACCTTCAACCTACTCCACTGCAACTTCAGGGTAATAGGA
31348 TTCGTAGCCGATCT
195 TTCGTAGCCGATCT
*
31362 GCTCCATGCTTCAACCTATTCCGCTGCAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
1 GCTCCATGCTTCAACCTATTCCGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
* * * **
31427 TATCTGCTGTCTGCTCCACTACAACTTTAGGGAGATACGACTTGTTATTTTTTGTCTACTCCACT
66 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTATTTTCAGTCTACTCCACT
* *
31492 GCATCTTCAGAGGAATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGG
131 GCATCTTCAGAGGAATAAGACTTGTACCTTCAACCTACTCCACTGCAACTTCAGGG
31548 AGATAAGACT
Statistics
Matches: 172, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
207 154 0.90
208 18 0.10
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (208 bp):
GCTCCATGCTTCAACCTATTCCGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTATTTTCAGTCTACTCCACT
GCATCTTCAGAGGAATAAGACTTGTACCTTCAACCTACTCCACTGCAACTTCAGGGTAATAGGAT
TCGTAGCCGATCT
Found at i:31536 original size:44 final size:44
Alignment explanation
Indices: 31485--31635 Score: 164
Period size: 44 Copynumber: 3.4 Consensus size: 44
31475 TTTTTGTCTA
*
31485 CTCCACTGCATCTTCAGAGGAATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGAGGAATAAGACTTGTATCTTCAACCTG
* * * *
31529 CTCCACTGCAACTTCAG-GGAGATAAGACTTATATTTTTAACTTG
1 CTCCACTGCAACTTCAGAGGA-ATAAGACTTGTATCTTCAACCTG
* * * *
31573 CCCCACTGCAACTTCAGGGGTATAAG-GTTAGTGA-CTTCAACCTG
1 CTCCACTGCAACTTCAGAGGAATAAGACTT-GT-ATCTTCAACCTG
*
31617 CTCTACTGCAACTTCAGAG
1 CTCCACTGCAACTTCAGAG
31636 AGACAAAGTT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 5 0.06
44 80 0.91
45 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGAGGAATAAGACTTGTATCTTCAACCTG
Found at i:31752 original size:106 final size:106
Alignment explanation
Indices: 31567--31779 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
31557 TTATATTTTT
31567 AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
1 AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
*
31632 AGAGAGACAAAGTTTGATATGACCTGCTCTATTGCAACTTC
66 AGAGAGACAAAGTTTGATATGACCTGCTCTACTGCAACTTC
* * * *
31673 AACTTGCCCCATTGCAACTTCATGGGG-ATAAGGTTTGTTATTTCAACCTGCTCTACTGCAACTT
1 AACTTGCCCCACTGCAACTTCA-GGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTT
*
31737 CAGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
65 CAGAGAGACAAAGTTTGATATGACCTGCTCTACTGCAACTTC
31779 A
1 A
31780 GAGAGACGAG
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
106 96 0.96
107 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (106 bp):
AACTTGCCCCACTGCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
AGAGAGACAAAGTTTGATATGACCTGCTCTACTGCAACTTC
Found at i:31753 original size:44 final size:42
Alignment explanation
Indices: 31705--32012 Score: 119
Period size: 44 Copynumber: 7.0 Consensus size: 42
31695 TGGGGATAAG
31705 GTTTGTTATTTCAACCTGCTCTACTGCAACTTCAGAGAGACAAA
1 GTTTG-TATTT-AACCTGCTCTACTGCAACTTCAGAGAGACAAA
* * * *
31749 GTTTG-ATATGATCTGCTCTACTGCAACTTCAGAGAGACGAGATCT
1 GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGAC-A-A--A
* * *
31794 GTTATGATAGATTTAATCC-GTTCCACTGCAACTTCAG-G-GA-AATGC
1 GTT-TG-T--ATTTAA-CCTGCTCTACTGCAACTTCAGAGAGACAA--A
** * * * *
31839 GATTTGCTATCTTTAATATGCT-TCACTGCAACTTTAGGGAGATAAG
1 G-TTTG-TA--TTTAACCTGCTCT-ACTGCAACTTCAGAGAGACAAA
* * * * * * * * *
31885 GCTTGTACCTTCAACTTGCCCCATTGCAACTTCATG-GGGATAAT
1 GTTTGTA--TTTAACCTGCTCTACTGCAACTTCA-GAGAGACAAA
31929 GTTTGTTATTTCAACCTGCTCTACTGCAACTTCAGAGAGACAAA
1 GTTTG-TATTT-AACCTGCTCTACTGCAACTTCAGAGAGACAAA
* * * *
31973 GTTTG-ATATGATCTGCTCTACTGCAATTTCAGAGAGACAA
1 GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGACAA
32013 GATCTGTTCC
Statistics
Matches: 199, Mismatches: 42, Indels: 49
0.69 0.14 0.17
Matches are distributed among these distances:
41 55 0.28
42 7 0.04
43 5 0.03
44 63 0.32
45 34 0.17
46 7 0.04
47 2 0.01
48 4 0.02
49 1 0.01
50 20 0.10
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGACAAA
Found at i:33882 original size:19 final size:19
Alignment explanation
Indices: 33860--33902 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33850 TTGGCCTCTC
*
33860 CTTTTC-CTTTTTTCTTTTT
1 CTTTTCTCTTCTTT-TTTTT
33879 CTTTTCTCTTCTTTTTTTT
1 CTTTTCTCTTCTTTTTTTT
33898 CTTTT
1 CTTTT
33903 TTTGAATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
CTTTTCTCTTCTTTTTTTT
Found at i:40181 original size:18 final size:18
Alignment explanation
Indices: 40158--40194 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
40148 TCTGGGCTTC
40158 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
40176 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
40194 G
1 G
40195 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:43962 original size:62 final size:59
Alignment explanation
Indices: 43856--43972 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
43846 ATCACTTTAA
* * *
43856 TATTAAATTAATATAATATTTATTAAAATAAATATTAGATTAAATTTAACATTAAATGT
1 TATTAAAATAATAGAATATTTATTAAAATAAATATTAAATTAAATTTAACATTAAATGT
* *
43915 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTAT-TA-AA-ATAAATATTAAATTAAATTTAACATTAA
43973 GACAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 2 0.04
62 26 0.52
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATTAAAATAAATATTAAATTAAATTTAACATTAAATGT
Found at i:45664 original size:13 final size:13
Alignment explanation
Indices: 45646--45670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45636 AAATTCAATG
45646 TCAATTTCATATA
1 TCAATTTCATATA
45659 TCAATTTCATAT
1 TCAATTTCATAT
45671 CCAAACATAT
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:47453 original size:14 final size:14
Alignment explanation
Indices: 47434--47460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47424 CTACTATTGT
47434 CTCTCGTATCAAGC
1 CTCTCGTATCAAGC
47448 CTCTCGTATCAAG
1 CTCTCGTATCAAG
47461 TGATACTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (14 bp):
CTCTCGTATCAAGC
Found at i:52299 original size:12 final size:12
Alignment explanation
Indices: 52282--52322 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
52272 CCCTCTGCCA
52282 CCACCAACTCAG
1 CCACCAACTCAG
52294 CCACCAACTCAG
1 CCACCAACTCAG
* *
52306 CTACCAACTCTG
1 CCACCAACTCAG
52318 CCACC
1 CCACC
52323 TGCACCTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.29, C:0.51, G:0.07, T:0.12
Consensus pattern (12 bp):
CCACCAACTCAG
Found at i:52472 original size:26 final size:26
Alignment explanation
Indices: 52436--52488 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
52426 ATCACTGTAA
52436 TAGGGTTTTTTTTCTCTTTTATTTCT
1 TAGGGTTTTTTTTCTCTTTTATTTCT
52462 TAGGGTTTTTTTTCTCTTTTATTTCT
1 TAGGGTTTTTTTTCTCTTTTATTTCT
52488 T
1 T
52489 CTTCTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.08, C:0.11, G:0.11, T:0.70
Consensus pattern (26 bp):
TAGGGTTTTTTTTCTCTTTTATTTCT
Found at i:53283 original size:3 final size:3
Alignment explanation
Indices: 53275--53372 Score: 151
Period size: 3 Copynumber: 32.7 Consensus size: 3
53265 TATTTTTAAC
* * * *
53275 ATT ATT ATT TTT AAT ATT TTT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
53323 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
53371 AT
1 AT
53373 ATTTCTATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:53516 original size:12 final size:14
Alignment explanation
Indices: 53499--53531 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
53489 ATACTTTTTA
53499 TATATACATAT-T-
1 TATATACATATATC
53511 TATATACATATATC
1 TATATACATATATC
53525 TATATAC
1 TATATAC
53532 TCTTTTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATACATATATC
Found at i:54258 original size:109 final size:108
Alignment explanation
Indices: 54080--54383 Score: 423
Period size: 109 Copynumber: 2.8 Consensus size: 108
54070 TCTAATTGAA
* * *
54080 GCAATATTTAGCGTTTGGAAATTCGAGAAAACATACCCTAATGTGCTGGGTTTCGATTTTTCTCG
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCTCG
* * **
54145 TTCAACCAAATAACTAAGTATCCTTTTAAAAATTTCAAAATAAG
65 TTCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATAAG
*
54189 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTATCTCG
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT-TCTCG
*
54254 TTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAG
65 TTCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATAAG
* * * * * *
54298 GCAATCTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGCGCGGGGTTTC-AATTTCTTGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGT
* *
54361 TTAACCAAATAGCCAAATATCCT
66 TCAACCAAATAACCAAATATCCT
54384 CTTGAATTTG
Statistics
Matches: 178, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
106 27 0.15
107 3 0.02
108 26 0.15
109 122 0.69
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (108 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGT
TCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATAAG
Found at i:55916 original size:19 final size:21
Alignment explanation
Indices: 55888--55932 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
55878 GGTACTCGTC
55888 GCAAAACTTA-AGAAA-TGGA
1 GCAAAACTTAGAGAAACTGGA
* *
55907 TCAAAGCTTAGAGAAACTGGA
1 GCAAAACTTAGAGAAACTGGA
55928 GCAAA
1 GCAAA
55933 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (21 bp):
GCAAAACTTAGAGAAACTGGA
Found at i:58481 original size:37 final size:39
Alignment explanation
Indices: 58431--58506 Score: 102
Period size: 37 Copynumber: 2.0 Consensus size: 39
58421 AAGAAAATCC
* *
58431 AAATCAAAATCAAAAGCAGAA-AAAAA-AAGAAAAAGGA
1 AAATCAAAATCAAAAACAAAAGAAAAAGAAGAAAAAGGA
* *
58468 AAATTAAAATCAAAAATAAAAGAAAAAGAAGAAAAAGGA
1 AAATCAAAATCAAAAACAAAAGAAAAAGAAGAAAAAGGA
58507 GAGGTCAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 17 0.52
38 5 0.15
39 11 0.33
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (39 bp):
AAATCAAAATCAAAAACAAAAGAAAAAGAAGAAAAAGGA
Found at i:62905 original size:50 final size:49
Alignment explanation
Indices: 62768--63006 Score: 120
Period size: 50 Copynumber: 4.8 Consensus size: 49
62758 TTCCCAAGCA
** * * * * *
62768 GTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCTGACA
1 GTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTAC-CT-CCAGGCG
* * ** * * * **
62819 TTGCGGTTAAAAAGATTAAAGCTACATCAGCAAATCTTACCTCTCAGGCG
1 GTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTACCTC-CAGGCG
* ** * *
62869 GTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGTCTCCCTGACG
1 GTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTACCT-CCAGGCG
* * ** * * * * *
62919 TTAC-GATTAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCTAGGTG
1 GTGCAG-TGGAAAAGATTAAAGCCACAACGGTGAATCTTACCTCC-AGGCG
* * *
62969 GTGCAGTGGAACAGATTAAAACCACATCGGTGAATCTT
1 GTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTT
63007 GCTTCCCCTA
Statistics
Matches: 129, Mismatches: 54, Indels: 11
0.66 0.28 0.06
Matches are distributed among these distances:
49 4 0.03
50 95 0.74
51 30 0.23
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (49 bp):
GTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTACCTCCAGGCG
Found at i:62959 original size:100 final size:101
Alignment explanation
Indices: 62768--63038 Score: 363
Period size: 100 Copynumber: 2.7 Consensus size: 101
62758 TTCCCAAGCA
* * * *
62768 GTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCTGACATTGCGGTTAAAAAG
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCTCCCTGACATTACGATTAAAAAG
*
62833 ATTAAAGCTACATCAGCAAATCTTACCT-CTCAGGCG
66 ATTAAAGCTACAGCAGCAAATCTTACCTCCT-AGGCG
* *
62869 GTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACGTTACGATTAAAAAG
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCTCCCTGACATTACGATTAAAAAG
* *
62933 ATTAAAGCTACAGCAGCGAATCTTACCTCCTAGGTG
66 ATTAAAGCTACAGCAGCAAATCTTACCTCCTAGGCG
* * *
62969 GTGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCT-TCCCCT-ACATTGC-AGTTAAAA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCT-CCCTGACATTACGA-TTAAAA
*
63031 AAATTAAA
64 AGATTAAA
63039 TCCACATCGA
Statistics
Matches: 151, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
99 1 0.01
100 106 0.70
101 44 0.29
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (101 bp):
GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCTCCCTGACATTACGATTAAAAAG
ATTAAAGCTACAGCAGCAAATCTTACCTCCTAGGCG
Found at i:63154 original size:125 final size:125
Alignment explanation
Indices: 62932--63169 Score: 327
Period size: 125 Copynumber: 1.9 Consensus size: 125
62922 CGATTAAAAA
* * * * * *
62932 GATTAAAGCTACAGCAGCGAATCTTACCTCCTAGGTGGTGCAGTGGAACAGATTAAAACCACATC
1 GATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
*
62997 GGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAAATTAAATCCACATCGATGAATCTT
66 GGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAAATTAAAGCCACATCGATGAATCTT
*
63057 GATTAAAGCTACAACAGCGAATCTTA-CTCCCCAAGCGATGCAGTGGAACAGATTAAAGCCAAAT
1 GATTAAAGCTACAACAGCGAATCTTACCT-CCCAAGCGATGCAGTGGAACAGATTAAAACCAAAT
* * * * *
63121 TGGTGAATCTTG-TTTCTCTGACATTGTAGTTAAAAAGATTAAAGCCACA
65 CGGTGAATCTTGCTTCCCCT-ACATTGCAGTTAAAAAAATTAAAGCCACA
63170 ATGGCAAATC
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
124 7 0.07
125 91 0.93
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (125 bp):
GATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
GGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAAATTAAAGCCACATCGATGAATCTT
Found at i:63450 original size:129 final size:129
Alignment explanation
Indices: 63297--63753 Score: 621
Period size: 129 Copynumber: 3.5 Consensus size: 129
63287 AAGGTACAAA
* * * * *
63297 TCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTG-ATGCAGAT-AATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAG-AAATCAATCCTATCTCCCTGAAGTTG
* ** * * *
63360 CAGAGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTCGCAGTAGAGTAGATCGTATCCA
64 CAGTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCA
63425 G
129 G
* * * *
63426 TCTTATCTTCCTGAAGTTGCAGTGGAGTAGACGAAAGAAATCAATCCTATCTTCCTGAAGTTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCA
* * * * * *
63491 GTGGAGCGGATTAAAGCCACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATACAA
66 GTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAG
* *
63555 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCA
* * *
63620 GTGGAGAGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAG
66 GTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAG
* * *
63684 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATAAATCTTCTCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCA
63749 GTGGA
66 GTGGA
63754 AGAGACTAAA
Statistics
Matches: 285, Mismatches: 41, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
128 4 0.01
129 281 0.99
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAG
Found at i:63731 original size:85 final size:85
Alignment explanation
Indices: 63339--63750 Score: 263
Period size: 85 Copynumber: 4.8 Consensus size: 85
63329 TGATGCAGAT
* * * * * * *
63339 AATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAATAAATCTTATCTCTCTGAAGTTG
* *
63404 CAGTAGAGTAGATCG-TATCC
65 CAGTAGAGTAGATAGACATCC
* * * * *
63424 AGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACGAAAGAAATCAATCCTATCT-TCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAAATAAATCTTATCTCT-CTGAAGTT
* * ** * *
63488 GAAGTGGAGCGGATTAAAGCCA-CA
64 GCAGTAGAGTAGA-T--AGACATCC
* * * * *
63512 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC----ACATACAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAATA-AATCTTATCTCTCTGAAGTT
* * *
63573 GCAATGGAGCAG-ACGAAAGAAAT-C
64 GC-A-GTAG-AGTA-GATAGACATCC
* * * * *
63597 AATCCTATCTCCCTGAAGTTGCGGTGGAG-AGGATCAAA-ACCACAGATCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GA-CAAAGA-AATAAATCTTATCTCTCTGAAGT
*
63660 TGCAGTAGAGTAGATCG-CATCC
63 TGCAGTAGAGTAGATAGACATCC
* * *
63682 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATAAATCTTCTCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAAATAAATCTTATCTCTCTGAAGTTG
63747 CAGT
65 CAGT
63751 GGAAGAGACT
Statistics
Matches: 246, Mismatches: 57, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
84 8 0.03
85 168 0.68
86 8 0.03
87 3 0.01
88 54 0.22
89 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAATAAATCTTATCTCTCTGAAGTTGC
AGTAGAGTAGATAGACATCC
Found at i:63752 original size:44 final size:44
Alignment explanation
Indices: 63294--63753 Score: 249
Period size: 44 Copynumber: 10.7 Consensus size: 44
63284 TTGAAGGTAC
* * * * *
63294 AAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTG-ATG-CAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGACAT
* * * **
63337 ATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGTA-AT
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAG-ACAT
* * * * * * *
63382 AGATCTTATCTCTCTGAAGTCGCAGTAGAGTAGATCG-TA-TC--
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGACAT
* * * * *
63423 CAGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACGAAAGAAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACAT
* * * * * ** * *
63467 CAATCCTATCTTCCTGAAGTTGAAGTGGAGCGGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACAT
* * *
63511 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC-----ACAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGACAT
* *
63551 ACAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACGAAAGAAAT
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACAT
* * * *
63596 CAATCCTATCTCCCTGAAGTTGCGGTGGAG-AGGATC-AAA-ACCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GA-CGAAAGA-CAT
* * **
63640 AGATCTTATCTCTCTGAAGTTGCAGT--AG-AGTA-GATCG-CAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACGAAAGACAT
* * *
63680 CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAAT
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACAT
*
63725 AAATCTTCTCTCCCTGAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
63754 AGAGACTAAA
Statistics
Matches: 308, Mismatches: 80, Indels: 57
0.69 0.18 0.13
Matches are distributed among these distances:
40 8 0.03
41 81 0.26
42 4 0.01
43 7 0.02
44 200 0.65
45 8 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACAT
Found at i:64246 original size:12 final size:12
Alignment explanation
Indices: 64229--64269 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
64219 CCCTCTGCCA
64229 CCACCAACTCAG
1 CCACCAACTCAG
64241 CCACCAACTCAG
1 CCACCAACTCAG
* *
64253 CTACCAACTCTG
1 CCACCAACTCAG
64265 CCACC
1 CCACC
64270 TGCACCTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.29, C:0.51, G:0.07, T:0.12
Consensus pattern (12 bp):
CCACCAACTCAG
Found at i:64419 original size:26 final size:26
Alignment explanation
Indices: 64383--64435 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
64373 ATCACTGTAA
64383 TAGGGTTTTTTTTCTCTTTTATTTCT
1 TAGGGTTTTTTTTCTCTTTTATTTCT
64409 TAGGGTTTTTTTTCTCTTTTATTTCT
1 TAGGGTTTTTTTTCTCTTTTATTTCT
64435 T
1 T
64436 CTTCTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.08, C:0.11, G:0.11, T:0.70
Consensus pattern (26 bp):
TAGGGTTTTTTTTCTCTTTTATTTCT
Found at i:65211 original size:17 final size:16
Alignment explanation
Indices: 65185--65242 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
65175 CGATTCAGTC
65185 TATTTTTAGCATCTTT
1 TATTTTTAGCATCTTT
**
65201 TATTATTTAGC-T-AAT
1 TATT-TTTAGCATCTTT
65216 TATTTTTAGCATCTTT
1 TATTTTTAGCATCTTT
65232 TATTATTTAGC
1 TATT-TTTAGC
65243 TAATTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 10 0.29
17 12 0.35
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (16 bp):
TATTTTTAGCATCTTT
Found at i:65220 original size:31 final size:31
Alignment explanation
Indices: 65185--65254 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
65175 CGATTCAGTC
65185 TATTTTTAGCATCTTTTATTATTTAGCTAAT
1 TATTTTTAGCATCTTTTATTATTTAGCTAAT
65216 TATTTTTAGCATCTTTTATTATTTAGCTAAT
1 TATTTTTAGCATCTTTTATTATTTAGCTAAT
65247 TATTTTTA
1 TATTTTTA
65255 ACATTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (31 bp):
TATTTTTAGCATCTTTTATTATTTAGCTAAT
Found at i:65265 original size:3 final size:3
Alignment explanation
Indices: 65257--65399 Score: 198
Period size: 3 Copynumber: 47.7 Consensus size: 3
65247 TATTTTTAAC
*
65257 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
65305 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
65353 ATCT -TT ACT ATT ATT ATT AAT ATT AAT GTT ATT ATT ATT ATC ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65398 AT
1 AT
65400 ATTTCTATTT
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
2 1 0.01
3 123 0.99
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:66278 original size:108 final size:108
Alignment explanation
Indices: 66112--66404 Score: 423
Period size: 108 Copynumber: 2.7 Consensus size: 108
66102 GTAATATTTA
* *
66112 GCGTTTGGAAATTCGAGAAAACGTACCCTATTGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAA
1 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCAACCAAA
* * ** *
66177 TAACTAAGTATCCTT-TTAAAATTTCAAAATAAGGCAAAGTTTT
65 TAACCAAATATCCTTCCAAAAATTTCAAAATAAGGCAAACTTTT
66220 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTATCTCGTTCAACCAAA
1 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT-TCTCGTTCAACCAAA
*
66285 TAACCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATCTTTT
65 TAACCAAATATCCTTCCAAAAATTTCAAAATAAGGCAAACTTTT
* * *
66329 GCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGC-GAGGTTTCGA-TTTCTTGTTTAACCAAA
1 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG-GGTTTCGATTTTCTCGTTCAACCAAA
*
66391 TAGCCAAATATCCT
65 TAACCAAATATCCT
66405 CTTGAATTTG
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
106 26 0.15
107 6 0.04
108 97 0.57
109 41 0.24
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (108 bp):
GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAAT
AACCAAATATCCTTCCAAAAATTTCAAAATAAGGCAAACTTTT
Done.