Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 66 of 199
Found at i:18707330 original size:21 final size:23
Alignment explanation
Indices: 18707283--18707332 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
18707273 AAAGCTGAGC
*
18707283 TTATTCTAATTAATTTTTCTTTA
1 TTATTCTAATTAATTGTTCTTTA
*
18707306 -TATT-TATTTAATTGTT-TTTA
1 TTATTCTAATTAATTGTTCTTTA
18707326 TTATTCT
1 TTATTCT
18707333 GTTTTCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTCTAATTAATTGTTCTTTA
Found at i:18716641 original size:20 final size:19
Alignment explanation
Indices: 18716612--18716649 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18716602 AGTGTGTGTT
18716612 TCTTTTTGTTTTGATTTTA
1 TCTTTTTGTTTTGATTTTA
*
18716631 TCTTGTTTGTTTTTATTTT
1 TCTT-TTTGTTTTGATTTT
18716650 CTTTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.11, T:0.76
Consensus pattern (19 bp):
TCTTTTTGTTTTGATTTTA
Found at i:18718577 original size:20 final size:20
Alignment explanation
Indices: 18718552--18718589 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18718542 TCATGAACAT
18718552 TTCCATTCACTTACTTACTG
1 TTCCATTCACTTACTTACTG
* *
18718572 TTCCATTCCCTTTCTTAC
1 TTCCATTCACTTACTTAC
18718590 CCGTTGAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.34, G:0.03, T:0.47
Consensus pattern (20 bp):
TTCCATTCACTTACTTACTG
Found at i:18719234 original size:6 final size:6
Alignment explanation
Indices: 18719223--18719248 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18719213 TCAGTTTCGG
18719223 ATGCAA ATGCAA ATGCAA ATGCAA AT
1 ATGCAA ATGCAA ATGCAA ATGCAA AT
18719249 TCTAACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATGCAA
Found at i:18722027 original size:126 final size:125
Alignment explanation
Indices: 18721802--18722245 Score: 622
Period size: 126 Copynumber: 3.5 Consensus size: 125
18721792 CTAAAAAGCA
* * * ** *
18721802 AAGCAGGATGCTTTATCAA-AAGAATTTTTGAAGTCGCGCCCACGTGTATTCGCTTTTGCTACAG
1 AAGCAGGATGCTTTAT-AAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAG
*
18721866 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAATACTTC
65 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAATGCTTC
*
18721928 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAA-CAGCGCCCTCGTGGACGCGCTTTTACTACAG
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATC-GCGCCCACGTGGACGCGCTTTTACTACAG
* * * *
18721992 TAGGTCTTGGAAGAAATAATTTTGACTTGACGTTTCTGAGTAAATAGTTTAAAAATGCTTC
65 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTC
* * *
18722053 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGT
* *
18722118 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTC
*** * * * *
18722178 AAGCAGGATGCAACATTGAGAAGAATTTGTGAAATCGCGCCCACGTTGATGCGCTTTTACTACTG
1 AAGCAGGATGCTTTA-TAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAG
18722243 TAG
65 TAG
18722246 CATGTTTGGG
Statistics
Matches: 286, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
125 140 0.49
126 146 0.51
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGT
AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTC
Found at i:18725309 original size:22 final size:22
Alignment explanation
Indices: 18725278--18725438 Score: 121
Period size: 22 Copynumber: 7.6 Consensus size: 22
18725268 GGTTAGGGTT
18725278 AGGG-TTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
18725299 AGGGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
18725321 AGGG-TTAGAG--TTTAAGTTTT
1 AGGGTTTAGGGTTTTTAAG-TTA
* *
18725341 AGGGTTAAGGG--TTTAGGGTT-
1 AGGGTTTAGGGTTTTTA-AGTTA
*
18725361 ATGGTTT----TTTAAGTTAAGTTA
1 AGGGTTTAGGGTTT---TTAAGTTA
*
18725382 AGGGTTTAGGGTTTATAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
**
18725404 AAAGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
18725426 AGGG-TTAGGGTTT
1 AGGGTTTAGGGTTT
18725439 AGGGTTTACG
Statistics
Matches: 111, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.01
19 6 0.05
20 14 0.13
21 37 0.33
22 50 0.45
25 3 0.03
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (22 bp):
AGGGTTTAGGGTTTTTAAGTTA
Found at i:18725348 original size:49 final size:48
Alignment explanation
Indices: 18725272--18725465 Score: 162
Period size: 49 Copynumber: 3.8 Consensus size: 48
18725262 GTCAAGGGTT
*
18725272 AGGGTTAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTA-GG-TTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTA
* *
18725321 AGGGTTAGAGTTTAAGTTTTAGGGTTAAGGGTTTAGGGTTATGGTTTTTTAAGTTA
1 AGGGTTAGGGTTTAGGTTTTA-GGTTAAGGGTTTA--G----GG-TTTTTAAGTTA
* **
18725377 A--GTTAAGGGTTTAGGGTTTATAAGTTAAAAGTTTAGGGTTTTTAAGTTA
1 AGGGTT-AGGGTTTA-GGTTT-TAGGTTAAGGGTTTAGGGTTTTTAAGTTA
* *
18725426 AGGGTTAGGGTTTAGGGTTTACGGTT-AGGGTTTAAGGTTT
1 AGGGTTAGGGTTTAGGTTTTA-GGTTAAGGGTTTAGGGTTT
18725466 AGGGTTTAGG
Statistics
Matches: 117, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
48 18 0.15
49 41 0.35
50 13 0.11
51 4 0.03
54 4 0.03
55 9 0.08
56 26 0.22
57 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.43
Consensus pattern (48 bp):
AGGGTTAGGGTTTAGGTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTA
Found at i:18725432 original size:7 final size:7
Alignment explanation
Indices: 18725426--18725479 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
18725416 TTTTAAGTTA
18725426 AGGG-TT
1 AGGGTTT
18725432 AGGGTTT
1 AGGGTTT
18725439 AGGGTTT
1 AGGGTTT
*
18725446 ACGG-TT
1 AGGGTTT
18725452 AGGGTTT
1 AGGGTTT
*
18725459 AAGGTTT
1 AGGGTTT
18725466 AGGGTTT
1 AGGGTTT
18725473 AGGGTTT
1 AGGGTTT
18725480 GTCAATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
6 9 0.21
7 33 0.79
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:18725444 original size:13 final size:13
Alignment explanation
Indices: 18725426--18725478 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
18725416 TTTTAAGTTA
18725426 AGGG-TTAGGGTTT
1 AGGGTTTAGGG-TT
*
18725439 AGGGTTTACGGTT
1 AGGGTTTAGGGTT
*
18725452 AGGGTTTAAGGTTT
1 AGGGTTT-AGGGTT
18725466 AGGGTTTAGGGTT
1 AGGGTTTAGGGTT
18725479 TGTCAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 18 0.53
14 16 0.47
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.40
Consensus pattern (13 bp):
AGGGTTTAGGGTT
Found at i:18725453 original size:20 final size:20
Alignment explanation
Indices: 18725428--18725479 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
18725418 TTAAGTTAAG
*
18725428 GGTTAGGGTTTAGGGTTTAC
1 GGTTAGGGTTTAAGGTTTAC
*
18725448 GGTTAGGGTTTAAGGTTTAG
1 GGTTAGGGTTTAAGGTTTAC
18725468 GGTTTAGGGTTT
1 GG-TTAGGGTTT
18725480 GTCAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.42
Consensus pattern (20 bp):
GGTTAGGGTTTAAGGTTTAC
Found at i:18725467 original size:14 final size:14
Alignment explanation
Indices: 18725407--18725479 Score: 71
Period size: 14 Copynumber: 5.3 Consensus size: 14
18725397 TAAGTTAAAA
18725407 GTTTAGGGTTTTTAA-
1 GTTTAGGG--TTTAAG
* *
18725422 GTTAAGGG-TTAGG
1 GTTTAGGGTTTAAG
*
18725435 GTTTAGGGTTTACG
1 GTTTAGGGTTTAAG
18725449 G-TTAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
18725462 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAAG
18725476 GTTT
1 GTTT
18725480 GTCAATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
12 3 0.06
13 19 0.39
14 20 0.41
15 7 0.14
ACGTcount: A:0.18, C:0.01, G:0.37, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:18725472 original size:105 final size:104
Alignment explanation
Indices: 18725278--18725472 Score: 284
Period size: 105 Copynumber: 1.9 Consensus size: 104
18725268 GGTTAGGGTT
* ** * *
18725278 AGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGTTTTAG
1 AGGGTTAGGGTTTATAAGTTAAAAGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTAC
*
18725343 GGTTAAGGGTTTAGGGTTATGGTTTTTTAAGTTAAGTTA
66 GGTTAAGGGTTTAGGGTTAGGGTTTTTTAAGTTAAGTTA
* *
18725382 AGGGTTTAGGGTTTATAAGTTAAAAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTAGGGTTTA
1 AGGG-TTAGGGTTTATAAGTTAAAAGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTA
*
18725447 CGGTT-AGGGTTTAAGGTTTAGGGTTT
65 CGGTTAAGGGTTT-AGGGTTAGGGTTT
18725473 AGGGTTTGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 11 0.14
105 69 0.86
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.43
Consensus pattern (104 bp):
AGGGTTAGGGTTTATAAGTTAAAAGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTAC
GGTTAAGGGTTTAGGGTTAGGGTTTTTTAAGTTAAGTTA
Found at i:18726931 original size:20 final size:20
Alignment explanation
Indices: 18726894--18726931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18726884 TATTATTTTA
*
18726894 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
18726914 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
18726932 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:18727892 original size:11 final size:12
Alignment explanation
Indices: 18727878--18727914 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
18727868 TAAAATAGTG
18727878 ATTTAAGAG-AA
1 ATTTAAGAGCAA
18727889 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
18727901 A-TTGAGAGCAA
1 ATTTAAGAGCAA
18727912 ATT
1 ATT
18727915 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:18727924 original size:11 final size:11
Alignment explanation
Indices: 18727894--18727918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18727884 GAGAAATTTA
18727894 AGAGCAAATTG
1 AGAGCAAATTG
18727905 AGAGCAAATTG
1 AGAGCAAATTG
18727916 AGA
1 AGA
18727919 TTAAATATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:18728845 original size:24 final size:23
Alignment explanation
Indices: 18728814--18728860 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
18728804 ACACTTTTTA
18728814 ATTATATTATTAAGTAATAATTT
1 ATTATATTATTAAGTAATAATTT
* * *
18728837 ATTAGTATTGTTATGTGATAATTT
1 ATTA-TATTATTAAGTAATAATTT
18728861 TGATGAAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
ATTATATTATTAAGTAATAATTT
Found at i:18729086 original size:23 final size:23
Alignment explanation
Indices: 18729060--18729104 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18729050 ATTTTTTAAA
18729060 TAATAAATTTATAT-AATCTATTG
1 TAATAAATTTATATGAAT-TATTG
*
18729083 TAATATATTTATATGAATTATT
1 TAATAAATTTATATGAATTATT
18729105 ATGGTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
TAATAAATTTATATGAATTATTG
Found at i:18729797 original size:24 final size:24
Alignment explanation
Indices: 18729702--18729800 Score: 67
Period size: 24 Copynumber: 4.0 Consensus size: 24
18729692 GGACATTATT
*
18729702 ATTTGAAAATTATAAAAAAATCTAAAA
1 ATTT-AAAATTATATAAAAAT-T-AAA
* *
18729729 AATTAAAATTATA-AAAAGTTTTATAA
1 ATTTAAAATTATATAAAA--ATTA-AA
* * * *
18729755 A-TAAAAATAAAATATAAATTAAA
1 ATTTAAAATTATATAAAAATTAAA
18729778 ATTTAAAATTATATAAAAATTAA
1 ATTTAAAATTATATAAAAATTAA
18729801 TTACATTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
23 3 0.05
24 20 0.36
25 13 0.23
26 16 0.29
27 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTTAAAATTATATAAAAATTAAA
Found at i:18730002 original size:59 final size:59
Alignment explanation
Indices: 18729936--18730057 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
18729926 TAAAATCATG
*
18729936 AAAACATTCATTACTACACATAATTTTTATAAAAAATAAATATATATTTATATAAAAAT
1 AAAACATTCATTACGACACATAATTTTTATAAAAAATAAATATATATTTATATAAAAAT
18729995 AAAACATTCATTACGACACATAATTTTTATAAAAAATAAATATATATTTATATAAAAAT
1 AAAACATTCATTACGACACATAATTTTTATAAAAAATAAATATATATTTATATAAAAAT
18730054 AAAA
1 AAAA
18730058 ATAAAAATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (59 bp):
AAAACATTCATTACGACACATAATTTTTATAAAAAATAAATATATATTTATATAAAAAT
Found at i:18730068 original size:30 final size:29
Alignment explanation
Indices: 18730023--18730081 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
18730013 CATAATTTTT
*
18730023 ATAAAAAATAAATATATATTTATATAAAA
1 ATAAAAAAAAAATATATATTTATATAAAA
*
18730052 ATAAAAATAAAAATATATATTTATGTAAAA
1 ATAAAAA-AAAAATATATATTTATATAAAA
18730082 TATTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
ATAAAAAAAAAATATATATTTATATAAAA
Found at i:18734533 original size:18 final size:19
Alignment explanation
Indices: 18734512--18734549 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18734502 TTAGTTTCGG
* *
18734512 TATTTTAAATTTTG-AATT
1 TATTTGAAAGTTTGTAATT
18734530 TATTTGAAAGTTTGTAATT
1 TATTTGAAAGTTTGTAATT
18734549 T
1 T
18734550 TTGGGACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TATTTGAAAGTTTGTAATT
Found at i:18736618 original size:41 final size:40
Alignment explanation
Indices: 18736564--18736687 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
18736554 AAAGTACATC
* * *
18736564 CAGGAGTACCGAAGTACAAACATGTGCACGTATGTGCAA-T
1 CAGGGGTACCGAAGTACAAATAAG-GCACGTATGTGCAATT
** *
18736604 CTAGGGGTTTCGAAGTACAAATAAGGACATGTATGTGCAATT
1 C-AGGGGTACCGAAGTACAAATAAGG-CACGTATGTGCAATT
* * *
18736646 CAGGGGTACCAAAGTTCAAATAGGGGCACGTATGTGCAATT
1 CAGGGGTACCGAAGTACAAATA-AGGCACGTATGTGCAATT
18736687 C
1 C
18736688 TTTATTATTC
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
41 62 0.91
42 4 0.06
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAATAAGGCACGTATGTGCAATT
Found at i:18738392 original size:20 final size:20
Alignment explanation
Indices: 18738367--18738409 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18738357 AAAACTTAGA
* *
18738367 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAAATCATTT
18738387 CTTGTTGATAAAAATCATTT
1 CTTGTTGATAAAAATCATTT
18738407 CTT
1 CTT
18738410 AAGTTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (20 bp):
CTTGTTGATAAAAATCATTT
Found at i:18739096 original size:26 final size:26
Alignment explanation
Indices: 18739062--18739128 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
18739052 TGTAGTAAAA
* *
18739062 CTGCTAGTAATAG-AATTGCAGCAAAG
1 CTGCCAGTAATAGTAA-CGCAGCAAAG
*
18739088 TTGCCAGTAATAGTAACGCAGCAAAG
1 CTGCCAGTAATAGTAACGCAGCAAAG
*
18739114 CTGCCAGTAACAGTA
1 CTGCCAGTAATAGTA
18739129 TATGTGGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
CTGCCAGTAATAGTAACGCAGCAAAG
Found at i:18739459 original size:81 final size:80
Alignment explanation
Indices: 18739322--18739653 Score: 307
Period size: 81 Copynumber: 4.1 Consensus size: 80
18739312 TATAACGGTT
* * * * *
18739322 ATTTTACCCTAT-AGGAGTATTTCGCTCATTTTACCCTTCAGCGGTATTT-TGATAATTTTACCC
1 ATTTTACCCTTTAAGG-GTATTTTGGTAATTTTACCCTTCAG-GGTATTTCAGATAATTTTACCC
*
18739385 TTTGAAGGTATTTCAATA
64 TTT-AAGGTATTTCGATA
* * * *
18739403 ATTTTA-CCTTTCAATGCTATTTTGGTAATTTTACCCTTCGAGGGTGTTTCAG-TAATTTTACTC
1 ATTTTACCCTTT-AAGGGTATTTTGGTAATTTTACCCTTC-AGGGTATTTCAGATAATTTTACCC
*
18739466 TTTAAGGGTATTTCGGTA
64 TTTAA-GGTATTTCGATA
* * * * * * *
18739484 ATTTTACCCTTTGAGGGTATTTCGATAAATTTATCCTTTAAGGTTATTTC-GATAATTTTACCCT
1 ATTTTACCCTTTAAGGGTATTTTGGTAATTTTA-CCCTTCAGGGTATTTCAGATAATTTTACCCT
* * *
18739548 TCAAGGTATTTCGGTT
65 TTAAGGTATTTCGATA
* * * *
18739564 ATTTTACCCTTTAAGGGTATTTTGGTTATTTTACCCTTTAGGGGTATTTTAG-TCATTTTACCCT
1 ATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTCA-GGGTATTTCAGATAATTTTACCCT
*
18739628 TTAGAGGTATTTCGATC
65 TTA-AGGTATTTCGATA
18739645 ATTTTACCC
1 ATTTTACCC
18739654 ATCGAGGGTA
Statistics
Matches: 203, Mismatches: 37, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
79 5 0.02
80 66 0.33
81 118 0.58
82 14 0.07
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.46
Consensus pattern (80 bp):
ATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTCAGGGTATTTCAGATAATTTTACCCTT
TAAGGTATTTCGATA
Found at i:18739672 original size:54 final size:54
Alignment explanation
Indices: 18739349--18739675 Score: 315
Period size: 54 Copynumber: 6.1 Consensus size: 54
18739339 TATTTCGCTC
* * * * *
18739349 ATTTTACCC-TTCAGCGGTATTTTGATAATTTTACCCTTTGAAGGTATTTCAATA
1 ATTTTACCCTTTAAG-GGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
* * * * *
18739403 ATTTTA-CCTTTCAATGCTATTTTGGTAATTTTACCCTTCGAGGGTGTTTCAGTA
1 ATTTTACCCTTT-AAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
* * *
18739457 ATTTTACTCTTTAAGGGTATTTCGGTAATTTTACCCTTTGAGGGTATTTC-GATA
1 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAG-TA
* * * * * *
18739511 AATTTATCCTTTAAGGTTATTTCGATAATTTTACCCTTC-AAGGTATTTCGGTT
1 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
* * * * * *
18739564 ATTTTACCCTTTAAGGGTATTTTGGTTATTTTACCCTT-TAGGGGTATTTTAGTC
1 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGA-GGGTATTTCAGTA
* * *
18739618 ATTTTACCCTTT-AGAGGTATTTCGATCATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCTTTAAG-GGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
18739672 ATTT
1 ATTT
18739676 GCCTACGAAT
Statistics
Matches: 226, Mismatches: 38, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
53 48 0.21
54 172 0.76
55 6 0.03
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (54 bp):
ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:18739675 original size:27 final size:26
Alignment explanation
Indices: 18739322--18739667 Score: 254
Period size: 27 Copynumber: 12.9 Consensus size: 26
18739312 TATAACGGTT
* *
18739322 ATTTTACCCTAT-AGGAGTATTTCGCTC
1 ATTTTACCCTTTAAGG-GTATTTCG-TA
* *
18739349 ATTTTACCC-TTCAGCGGTATTTTGATA
1 ATTTTACCCTTTAAG-GGTATTTCG-TA
*
18739376 ATTTTACCCTTTGAA-GGTATTTCAATA
1 ATTTTACCCTTT-AAGGGTATTTC-GTA
* * *
18739403 ATTTTA-CCTTTCAATGCTATTTTGGTA
1 ATTTTACCCTTT-AAGGGTA-TTTCGTA
** *
18739430 ATTTTACCCTTCGAGGGTGTTTCAGTA
1 ATTTTACCCTTTAAGGGTATTTC-GTA
*
18739457 ATTTTACTCTTTAAGGGTATTTCGGTA
1 ATTTTACCCTTTAAGGGTATTTC-GTA
*
18739484 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTTAAGGGTATTTCG-TA
* * *
18739511 AATTTATCCTTTAAGGTTATTTCGATA
1 ATTTTACCCTTTAAGGGTATTTCG-TA
* *
18739538 ATTTTACCCTTCAA-GGTATTTCGGTT
1 ATTTTACCCTTTAAGGGTATTTC-GTA
* *
18739564 ATTTTACCCTTTAAGGGTATTTTGGTT
1 ATTTTACCCTTTAAGGGTA-TTTCGTA
* * *
18739591 ATTTTACCCTTTAGGGGTATTTTAGTC
1 ATTTTACCCTTTAAGGGTA-TTTCGTA
*
18739618 ATTTTACCCTTT-AGAGGTATTTCGATC
1 ATTTTACCCTTTAAG-GGTATTTCG-TA
* **
18739645 ATTTTACCCATCGAGGGTATTTC
1 ATTTTACCCTTTAAGGGTATTTC
18739668 AGTCATTTGC
Statistics
Matches: 261, Mismatches: 42, Indels: 32
0.78 0.13 0.10
Matches are distributed among these distances:
26 38 0.15
27 207 0.79
28 15 0.06
29 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTTTAAGGGTATTTCGTA
Found at i:18744260 original size:25 final size:24
Alignment explanation
Indices: 18744201--18744285 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
18744191 ACATGTATGT
*
18744201 TCATATGAGCATATAAACGAGAAGC
1 TCATATGAGCATAT-AACGGGAAGC
* **
18744226 TCTTCCGAGCCATATAACGGGAAGC
1 TCATATGAG-CATATAACGGGAAGC
* *
18744251 TCATGTGAGCAGTATAAAGGGAAGC
1 TCATATGAGCA-TATAACGGGAAGC
*
18744276 TCATTTGAGC
1 TCATATGAGC
18744286 TGAGAATCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.04
25 42 0.86
26 5 0.10
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (24 bp):
TCATATGAGCATATAACGGGAAGC
Found at i:18744300 original size:25 final size:25
Alignment explanation
Indices: 18744271--18744335 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
18744261 AGTATAAAGG
*
18744271 GAAGCTCATTTGAGCTG-AGAATCAA
1 GAAGCTCATATGAGCTGTA-AATCAA
* * *
18744296 TAAGCTCATAAGAGCTGTAAATCAG
1 GAAGCTCATATGAGCTGTAAATCAA
18744321 GAAGCTCATATGAGC
1 GAAGCTCATATGAGC
18744336 CAATATTGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
GAAGCTCATATGAGCTGTAAATCAA
Found at i:18744375 original size:25 final size:26
Alignment explanation
Indices: 18744343--18744436 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 26
18744333 AGCCAATATT
18744343 GAGAAGCTCTGGAGAGCC-ATTAATC
1 GAGAAGCTCTGGAGAGCCAATTAATC
**
18744368 GAGAAGCT-TATAAGAGCCAATT-ATC
1 GAGAAGCTCT-GGAGAGCCAATTAATC
*
18744393 GAGAAGCTCAT-GAGAGCCAAATAA-C
1 GAGAAGCTC-TGGAGAGCCAATTAATC
*
18744418 G-GCAAGCTCAGGAGAGCCA
1 GAG-AAGCTCTGGAGAGCCA
18744437 TATATCAGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.04
25 50 0.88
26 4 0.07
27 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (26 bp):
GAGAAGCTCTGGAGAGCCAATTAATC
Found at i:18744425 original size:50 final size:49
Alignment explanation
Indices: 18744321--18744442 Score: 124
Period size: 50 Copynumber: 2.4 Consensus size: 49
18744311 TGTAAATCAG
* * *
18744321 GAAGCTCATATGAGCCAATATTGAGAAGCTCTGGAGAGCCATTAATCGA
1 GAAGCTCATAAGAGCCAATATCGAGAAGCTCTGGAGAGCCAATAATCGA
*
18744370 GAAGCTTATAAGAGCCAATTATCGAGAAGCTCAT-GAGAGCCAAATAA-CG-
1 GAAGCTCATAAGAGCCAA-TATCGAGAAGCTC-TGGAGAGCC-AATAATCGA
**
18744419 GCAAGCTCAGGAGAGCCATATATC
1 G-AAGCTCATAAGAGCCA-ATATC
18744443 AGGATGCTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
49 17 0.28
50 38 0.62
51 6 0.10
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (49 bp):
GAAGCTCATAAGAGCCAATATCGAGAAGCTCTGGAGAGCCAATAATCGA
Found at i:18749057 original size:18 final size:18
Alignment explanation
Indices: 18749034--18749072 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
18749024 TCAAGATTTA
18749034 TTGGACCGTACGAGATTG
1 TTGGACCGTACGAGATTG
*
18749052 TTGGACCGTAGGAGATTG
1 TTGGACCGTACGAGATTG
18749070 TTG
1 TTG
18749073 AGCATATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.31
Consensus pattern (18 bp):
TTGGACCGTACGAGATTG
Found at i:18753077 original size:54 final size:54
Alignment explanation
Indices: 18752995--18753102 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
18752985 CGTACCATTA
18752995 GCTAATCATCTCCGCGATGTCATCTTACTTCCTTGAATTCCCATTTCAATCCAC
1 GCTAATCATCTCCGCGATGTCATCTTACTTCCTTGAATTCCCATTTCAATCCAC
18753049 GCTAATCATCTCCGCGATGTCATCTTACTTCCTTGAATTCCCATTTCAATCCAC
1 GCTAATCATCTCCGCGATGTCATCTTACTTCCTTGAATTCCCATTTCAATCCAC
18753103 TCATTCCTCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.35
Consensus pattern (54 bp):
GCTAATCATCTCCGCGATGTCATCTTACTTCCTTGAATTCCCATTTCAATCCAC
Found at i:18754959 original size:14 final size:14
Alignment explanation
Indices: 18754940--18754971 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18754930 AGTTTGAATG
*
18754940 TCAAATTATTTGAA
1 TCAAATTAATTGAA
18754954 TCAAATTAATTGAA
1 TCAAATTAATTGAA
18754968 TCAA
1 TCAA
18754972 CTTGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (14 bp):
TCAAATTAATTGAA
Found at i:18755449 original size:18 final size:18
Alignment explanation
Indices: 18755374--18755449 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 18
18755364 CAATTTCACA
* *
18755374 TTTTATTTTAAAAATAAT
1 TTTTAATTTAAAAATATT
*
18755392 TTTT-ATTAAAAAATTACATTT
1 TTTTAATTTAAAAA-T--A-TT
*
18755413 TTTTACATTTAATATATATT
1 TTTTA-ATTTAA-AAATATT
18755433 TTTTAATTTAAAAATAT
1 TTTTAATTTAAAAATAT
18755450 ATGGTGACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
17 7 0.16
18 10 0.22
19 6 0.13
20 8 0.18
21 6 0.13
23 6 0.13
24 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATTTAAAAATATT
Found at i:18756831 original size:23 final size:23
Alignment explanation
Indices: 18756800--18756850 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
18756790 ACTAAAATGT
*
18756800 TATAATTTTTTTATTTACCAAAA
1 TATATTTTTTTTATTTACCAAAA
18756823 TATATTTTTTTTATTTACCAAAA
1 TATATTTTTTTTATTTACCAAAA
18756846 TATAT
1 TATAT
18756851 CAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (23 bp):
TATATTTTTTTTATTTACCAAAA
Found at i:18756929 original size:27 final size:27
Alignment explanation
Indices: 18756893--18756952 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
18756883 ACCTGATCAG
* *
18756893 GCCAATTAAATTTCTGGCACC-ATAGAT
1 GCCAAATAAATTGCTGGCACCAATAG-T
*
18756920 GCCAAATAAATTGGTGGCACCAATAGT
1 GCCAAATAAATTGCTGGCACCAATAGT
18756947 GCCAAA
1 GCCAAA
18756953 GTCATTGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (27 bp):
GCCAAATAAATTGCTGGCACCAATAGT
Found at i:18756959 original size:27 final size:27
Alignment explanation
Indices: 18756907--18756979 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
18756897 ATTAAATTTC
18756907 TGGCACCATAGATGCCAAA-TAAATTGG
1 TGGCACCATAG-TGCCAAAGTAAATTGG
*
18756934 TGGCACCAATAGTGCCAAAGT-CATTGG
1 TGGCACC-ATAGTGCCAAAGTAAATTGG
* * *
18756961 CGTCACCATGGTGCCAAAG
1 TGGCACCATAGTGCCAAAG
18756980 GAAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.28
27 24 0.60
28 5 0.12
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
TGGCACCATAGTGCCAAAGTAAATTGG
Found at i:18757077 original size:19 final size:19
Alignment explanation
Indices: 18757050--18757118 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
18757040 CTTCAAGTTT
*
18757050 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
18757069 TTTTAATTTAATAA--ATA
1 TTTTAATTTAATAACTCTA
* *
18757086 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
18757105 TTTTAATTTAATAA
1 TTTTAATTTAATAA
18757119 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 14 0.34
19 27 0.66
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:18757098 original size:36 final size:37
Alignment explanation
Indices: 18757055--18757124 Score: 133
Period size: 36 Copynumber: 1.9 Consensus size: 37
18757045 AGTTTTTTTT
18757055 ATTTAATAACTCTATTTTAATTTAATAAA-TATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
18757091 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
18757125 AAGTAATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:18757368 original size:19 final size:19
Alignment explanation
Indices: 18757341--18757410 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
18757331 TCAACTCAAT
*
18757341 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
18757360 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
18757378 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
18757397 TTTTAATTTAATAA
1 TTTTAATTTAATAA
18757411 AATATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:18757391 original size:37 final size:37
Alignment explanation
Indices: 18757346--18757416 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
18757336 TCAATTTTTT
*
18757346 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
18757383 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
18757417 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:18757711 original size:19 final size:19
Alignment explanation
Indices: 18757687--18757759 Score: 96
Period size: 18 Copynumber: 3.9 Consensus size: 19
18757677 CTTAATTTTT
18757687 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
18757706 TTAAATGATAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
18757724 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
*
18757743 TTAAA-TAAAAAAGAGTT
1 TTAAATTAAAATAGAGTT
18757760 GAAGGGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
18 26 0.57
19 20 0.43
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:18757881 original size:27 final size:28
Alignment explanation
Indices: 18757828--18757904 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
18757818 TTTTTCCTTC
*
18757828 GGCACCA-TGGTGCCGCCAA-TGACTTT
1 GGCACCATTGGTGCCGCCAATTTACTTT
*
18757854 GGCACCATTGGTGCCACCAATTTA-TTT
1 GGCACCATTGGTGCCGCCAATTTACTTT
*
18757881 GGCA-CATTTGTTGCCGCCAATTTA
1 GGCACCA-TTGGTGCCGCCAATTTA
18757905 ATTAACCTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.20
27 33 0.75
28 2 0.05
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (28 bp):
GGCACCATTGGTGCCGCCAATTTACTTT
Found at i:18757997 original size:26 final size:25
Alignment explanation
Indices: 18757942--18758000 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
18757932 TTTTTGATAT
* *
18757942 ATTTTGATAAATAAAAAATATATAT
1 ATTTTAATAAATAAAAAATATATAC
*
18757967 TTTTTAATAAATAAAAAA-ATTATAAC
1 ATTTTAATAAATAAAAAATA-TAT-AC
18757993 ATTTTAAT
1 ATTTTAAT
18758001 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.68
26 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTTAATAAATAAAAAATATATAC
Found at i:18760638 original size:17 final size:16
Alignment explanation
Indices: 18760616--18760658 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
18760606 CAAAAAAAAT
18760616 ATATTTTATACTTTTAA
1 ATATTTTATA-TTTTAA
*
18760633 ATATTTTAATATTTTTA
1 ATATTTT-ATATTTTAA
18760650 AT-TTTTATA
1 ATATTTTATA
18760659 AATAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 4 0.17
17 14 0.58
18 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTTATATTTTAA
Found at i:18761632 original size:16 final size:18
Alignment explanation
Indices: 18761611--18761644 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18761601 AACTTTTTAC
18761611 ATTAA-TAA-TACGAAAA
1 ATTAATTAATTACGAAAA
18761627 ATTAATTAATTACGAAAA
1 ATTAATTAATTACGAAAA
18761645 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
ATTAATTAATTACGAAAA
Found at i:18763244 original size:11 final size:11
Alignment explanation
Indices: 18763217--18763273 Score: 78
Period size: 11 Copynumber: 5.1 Consensus size: 11
18763207 ATTAATGCTT
*
18763217 TCTCAATTATTC
1 TCTCAATT-TCC
18763229 TCTCAATTTCC
1 TCTCAATTTCC
18763240 TCTCAATTTCC
1 TCTCAATTTCC
* *
18763251 TTTCAATTTGC
1 TCTCAATTTCC
18763262 TCTCAATTTCC
1 TCTCAATTTCC
18763273 T
1 T
18763274 TCCAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 32 0.80
12 8 0.20
ACGTcount: A:0.19, C:0.30, G:0.02, T:0.49
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:18763287 original size:22 final size:22
Alignment explanation
Indices: 18763240--18763289 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18763230 CTCAATTTCC
* *
18763240 TCTCAATTTCCTTTCAATTTGC
1 TCTCAATTTCCTTCCAATTTGA
18763262 TCTCAATTTCCTTCCAAATTT-A
1 TCTCAATTTCCTTCC-AATTTGA
18763284 TCTCAA
1 TCTCAA
18763290 ATCCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAATTTGA
Found at i:18763299 original size:17 final size:18
Alignment explanation
Indices: 18763274--18763307 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18763264 TCAATTTCCT
18763274 TCCAAATTT-ATCTCAAA
1 TCCAAATTTAATCTCAAA
*
18763291 TCCATATTTAATCTCAA
1 TCCAAATTTAATCTCAA
18763308 TTTCCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (18 bp):
TCCAAATTTAATCTCAAA
Found at i:18763307 original size:40 final size:40
Alignment explanation
Indices: 18763262--18763339 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
18763252 TTCAATTTGC
18763262 TCTCAATTTCCT-TCCAAATTTATCTCAAATCCATATTTAA
1 TCTCAATTTCCTCT-CAAATTTATCTCAAATCCATATTTAA
* * *
18763302 TCTCAATTTCCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTTATCTCAAATCCATATTT
18763340 TTAATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.00, T:0.45
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAAATTTATCTCAAATCCATATTTAA
Found at i:18764492 original size:7 final size:7
Alignment explanation
Indices: 18764480--18764508 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18764470 AGCTAGTTGA
18764480 TTAGTAT
1 TTAGTAT
18764487 TTAGTAT
1 TTAGTAT
18764494 TTAGTAT
1 TTAGTAT
18764501 TTAGTAT
1 TTAGTAT
18764508 T
1 T
18764509 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTAGTAT
Found at i:18765485 original size:21 final size:21
Alignment explanation
Indices: 18765439--18765500 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
18765429 CCAACACCGA
*
18765439 CAACCAG-ATACCCTACCGGAG
1 CAACCAGAAT-CCCTGCCGGAG
* *
18765460 GAACCAGAATCCCTGCCGGAT
1 CAACCAGAATCCCTGCCGGAG
* * *
18765481 CAACCACAACCCCCGCCGGA
1 CAACCAGAATCCCTGCCGGA
18765501 AGCTAGACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.42, G:0.19, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCTGCCGGAG
Found at i:18765662 original size:34 final size:35
Alignment explanation
Indices: 18765618--18765685 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
18765608 ATTTTGAATA
* *
18765618 TTTTGATATTATTTGATGTAATAAAATATAAATTC
1 TTTTGATATTATTTCATGTAATAAAATAGAAATTC
*
18765653 TTTT-ATATTATTTCATGTACTAAAATAGAAATT
1 TTTTGATATTATTTCATGTAATAAAATAGAAATT
18765686 TACTTTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (35 bp):
TTTTGATATTATTTCATGTAATAAAATAGAAATTC
Found at i:18766413 original size:18 final size:18
Alignment explanation
Indices: 18766390--18766442 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
18766380 TTTCAGTACT
18766390 TCTGCTAACAAAGCATCC
1 TCTGCTAACAAAGCATCC
18766408 TCTGCTAACAAAGCATCC
1 TCTGCTAACAAAGCATCC
*
18766426 TCTGCTAACAAAACATC
1 TCTGCTAACAAAGCATC
18766443 TTGCTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (18 bp):
TCTGCTAACAAAGCATCC
Found at i:18766780 original size:29 final size:29
Alignment explanation
Indices: 18766748--18766805 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18766738 TTATTCTTTA
*
18766748 ATTTTAAA-ATTTTTTTAAAATACTTTTTT
1 ATTTTAAATA-TTTTTTAAAATAATTTTTT
**
18766777 ATTTTATTTATTTTTTAAAATAATTTTTT
1 ATTTTAAATATTTTTTAAAATAATTTTTT
18766806 TGGTGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
ATTTTAAATATTTTTTAAAATAATTTTTT
Found at i:18766814 original size:28 final size:29
Alignment explanation
Indices: 18766758--18766816 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
18766748 ATTTTAAAAT
* **
18766758 TTTTTTAAAATACTTTTTTATTTTATTTA
1 TTTTTTAAAATAATTTTTTATGGTATTTA
*
18766787 TTTTTTAAAATAATTTTTT-TGGTGTTTA
1 TTTTTTAAAATAATTTTTTATGGTATTTA
18766815 TT
1 TT
18766817 AAAAAATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTTAAAATAATTTTTTATGGTATTTA
Found at i:18770523 original size:3 final size:3
Alignment explanation
Indices: 18770510--18770579 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
18770500 TAATATTAAT
* * * ** *
18770510 TTA TCA TTA TTA TTTA TTA CTA TTA TTA CTA TCG TTA TTT TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
18770556 TTA TTA TTA GTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
18770580 ATATATTAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18786127 original size:66 final size:66
Alignment explanation
Indices: 18786038--18786170 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
18786028 CTATATAGGA
18786038 AGAAAATCAAAATAAGTGATGTGTGTAAAAAGTATGTATTAAGAAAAATGAGATTAATAATAATA
1 AGAAAATCAAAATAAGTGATGTGTGTAAAAAGTATGTATTAAGAAAAATGAGATTAATAATAATA
18786103 C
66 C
18786104 AGAAAATCAAAATAAGTGATGTGTGTAAAAAGTATGTATTAAGAAAAATGAGATTAATAATAATA
1 AGAAAATCAAAATAAGTGATGTGTGTAAAAAGTATGTATTAAGAAAAATGAGATTAATAATAATA
18786169 C
66 C
18786170 A
1 A
18786171 TTAAGAATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (66 bp):
AGAAAATCAAAATAAGTGATGTGTGTAAAAAGTATGTATTAAGAAAAATGAGATTAATAATAATA
C
Found at i:18786612 original size:4 final size:4
Alignment explanation
Indices: 18786603--18786643 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
18786593 TAATAGAACT
*
18786603 AGTA AGTA AGTT AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
18786644 TAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (4 bp):
AGTA
Found at i:18786649 original size:3 final size:3
Alignment explanation
Indices: 18786641--18786732 Score: 125
Period size: 3 Copynumber: 31.3 Consensus size: 3
18786631 AGTAAGTAAG
18786641 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*** * *
18786689 TAA TAA -AA GGC TAA TAA TAA -AA TAA TAA TGA TAA TAA AAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18786733 GGAGCTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
2 4 0.05
3 74 0.95
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18788026 original size:2 final size:2
Alignment explanation
Indices: 18788008--18788043 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
18787998 ATTTAAAAGT
*
18788008 TA TA T- TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18788044 GTTTAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:18795334 original size:23 final size:23
Alignment explanation
Indices: 18795292--18795341 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
18795282 TTCTAAATTC
* * * *
18795292 AATATAAATATGATTTAATATTA
1 AATATAAATATAAATGAATAATA
18795315 AATATAAATATAAATGAATAATA
1 AATATAAATATAAATGAATAATA
18795338 AATA
1 AATA
18795342 AATGCTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATAAATATAAATGAATAATA
Found at i:18799912 original size:3 final size:3
Alignment explanation
Indices: 18799864--18799892 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18799854 TGCGTGCGCT
18799864 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18799893 TCAATTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18802160 original size:22 final size:21
Alignment explanation
Indices: 18802135--18802199 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 21
18802125 TGGTATTGTT
*
18802135 TTTTTAATATAATTTTTTTTAA
1 TTTTT-ATATAATTTTTTATAA
18802157 --TTT-TA-AATTTTTTATAA
1 TTTTTATATAATTTTTTATAA
18802174 CTTTTT-TATATATTTTTTATAA
1 -TTTTTATATA-ATTTTTTATAA
18802196 TTTT
1 TTTT
18802200 GTAAATATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 11 0.30
18 2 0.05
20 8 0.22
21 5 0.14
22 11 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTATATAATTTTTTATAA
Found at i:18802180 original size:11 final size:10
Alignment explanation
Indices: 18802142--18802199 Score: 68
Period size: 11 Copynumber: 5.9 Consensus size: 10
18802132 GTTTTTTTAA
18802142 TATAATTTTT
1 TATAATTTTT
*
18802152 TTTAA--TTT
1 TATAATTTTT
18802160 TA-AATTTTT
1 TATAATTTTT
18802169 TATAACTTTTT
1 TATAA-TTTTT
18802180 TATATATTTTT
1 TATA-ATTTTT
18802191 TATAATTTT
1 TATAATTTT
18802200 GTAAATATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
9 5 0.12
10 11 0.27
11 18 0.44
12 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TATAATTTTT
Found at i:18808777 original size:20 final size:19
Alignment explanation
Indices: 18808751--18808796 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
18808741 GGCATATTAA
18808751 TTAAAATTT-TCAAAAAAAT
1 TTAAAATTTAT-AAAAAAAT
18808770 TGTAAAATTTATAAAAAAAT
1 T-TAAAATTTATAAAAAAAT
18808790 TTAAAAT
1 TTAAAAT
18808797 AAAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 17 0.68
21 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAAATTTATAAAAAAAT
Found at i:18810947 original size:14 final size:14
Alignment explanation
Indices: 18810928--18810954 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18810918 GTCGTGCTGC
18810928 CATCATTAGTATGT
1 CATCATTAGTATGT
18810942 CATCATTAGTATG
1 CATCATTAGTATG
18810955 AGTCCTTAAC
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (14 bp):
CATCATTAGTATGT
Found at i:18812232 original size:9 final size:9
Alignment explanation
Indices: 18812218--18812289 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
18812208 TTTGGTTAAA
18812218 AATTACCCG
1 AATTACCCG
18812227 AATTACCCG
1 AATTACCCG
*
18812236 AATTAACCG
1 AATTACCCG
* *
18812245 AATTAACCA
1 AATTACCCG
* *
18812254 AATTAACCA
1 AATTACCCG
18812263 AATTA-CCG
1 AATTACCCG
*
18812271 AAAAATACCCG
1 --AATTACCCG
18812282 AATTACCC
1 AATTACCC
18812290 AAAATTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
8 2 0.04
9 46 0.84
10 4 0.07
11 3 0.05
ACGTcount: A:0.44, C:0.28, G:0.07, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:18812245 original size:18 final size:18
Alignment explanation
Indices: 18812217--18812292 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 18
18812207 TTTTGGTTAA
*
18812217 AAATTACCCGAATTACCC
1 AAATTAACCGAATTACCC
* *
18812235 GAATTAACCGAATTAACC
1 AAATTAACCGAATTACCC
* *
18812253 AAATTAACCAAATTACCGA
1 AAATTAACCGAATTACC-C
* *
18812272 AAAATACCCGAATTACCC
1 AAATTAACCGAATTACCC
18812290 AAA
1 AAA
18812293 ATTTTTTTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
18 32 0.70
19 14 0.30
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATTAACCGAATTACCC
Found at i:18812453 original size:13 final size:13
Alignment explanation
Indices: 18812435--18812464 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18812425 TTTTAGTTTT
18812435 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
18812448 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
18812461 ATTG
1 ATTG
18812465 AGTTTGAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:18817631 original size:94 final size:92
Alignment explanation
Indices: 18817446--18817633 Score: 295
Period size: 94 Copynumber: 2.0 Consensus size: 92
18817436 GTGCACCACT
* *
18817446 TCTCCTGGAAGATACAATCTAGATCTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACA
1 TCTCCTGGAAGAGAAAATCTAGATCTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACA
* *
18817511 GCTAGTATATAAGGAATTATCTAATCC
66 GCCAGTATATAAAGAATTATCTAATCC
* * *
18817538 TCTCCTGGAAGAGAAAATCTAGATTTGGGTGTTCTTTTTTCCCCTTTTTTTTCCATTATGCAACA
1 TCTCCTGGAAGAGAAAATCTAGATCTGGGTGTTCCTTTTTCCCC--TTTTTTCCAATATGCAACA
18817603 CAGCCAGTATATAAAGAATTATCTAATCC
64 CAGCCAGTATATAAAGAATTATCTAATCC
18817632 TC
1 TC
18817634 ATCTTTGTCA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 40 0.46
94 47 0.54
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (92 bp):
TCTCCTGGAAGAGAAAATCTAGATCTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACA
GCCAGTATATAAAGAATTATCTAATCC
Found at i:18818205 original size:20 final size:20
Alignment explanation
Indices: 18818180--18818219 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18818170 TCCTCTCTCC
18818180 CTCAAGGCAACACCTTTTAT
1 CTCAAGGCAACACCTTTTAT
18818200 CTCAAGGCAACACCTTTTAT
1 CTCAAGGCAACACCTTTTAT
18818220 GCTGAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (20 bp):
CTCAAGGCAACACCTTTTAT
Found at i:18819862 original size:21 final size:22
Alignment explanation
Indices: 18819838--18819878 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18819828 TTAGTTTAAG
*
18819838 TAGTTAAAG-TATGTATTTAGT
1 TAGTTAAAGCTATCTATTTAGT
*
18819859 TAGTTCAAGCTATCTATTTA
1 TAGTTAAAGCTATCTATTTA
18819879 CTGATATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
TAGTTAAAGCTATCTATTTAGT
Found at i:18822650 original size:9 final size:9
Alignment explanation
Indices: 18822636--18822714 Score: 52
Period size: 9 Copynumber: 9.8 Consensus size: 9
18822626 ATCAATTTTA
18822636 AAAAATTAT
1 AAAAATTAT
18822645 AAAAA-TAT
1 AAAAATTAT
18822653 AAAAATT-T
1 AAAAATTAT
18822661 AGAAAA-TAT
1 A-AAAATTAT
* *
18822670 --ACATAAT
1 AAAAATTAT
*
18822677 AAAAAGTAT
1 AAAAATTAT
18822686 -AAAA--AT
1 AAAAATTAT
18822692 AAAAATTAT
1 AAAAATTAT
18822701 AAAAA--AT
1 AAAAATTAT
18822708 AAAAATT
1 AAAAATT
18822715 CATTAATTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
6 4 0.07
7 13 0.24
8 15 0.28
9 22 0.41
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18822690 original size:24 final size:22
Alignment explanation
Indices: 18822643--18822713 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 22
18822633 TTAAAAAATT
*
18822643 ATAAAAAT-ATAAAAATTTAGAAA
1 ATAAAAATAATAAAAA-ATA-AAA
* *
18822666 ATATACATAATAAAAAGTATAAAA
1 ATAAAAATAATAAAAA--ATAAAA
*
18822690 ATAAAAATTATAAAAAATAAAA
1 ATAAAAATAATAAAAAATAAAA
18822712 AT
1 AT
18822714 TCATTAATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.20
23 6 0.15
24 23 0.57
25 3 0.08
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (22 bp):
ATAAAAATAATAAAAAATAAAA
Found at i:18822714 original size:16 final size:15
Alignment explanation
Indices: 18822643--18822713 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 15
18822633 TTAAAAAATT
18822643 ATAAAAATATAAAAA
1 ATAAAAATATAAAAA
* * *
18822658 TTTAGAAAATATACATA
1 -ATA-AAAATATAAAAA
18822675 ATAAAAAGTAT-AAAA
1 ATAAAAA-TATAAAAA
18822690 ATAAAAATTATAAAAA
1 ATAAAAA-TATAAAAA
18822706 ATAAAAAT
1 ATAAAAAT
18822714 TCATTAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
15 17 0.38
16 18 0.40
17 10 0.22
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAAAAA
Found at i:18829029 original size:32 final size:33
Alignment explanation
Indices: 18828965--18829033 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
18828955 AACAATTGAA
* * *
18828965 TTAAAAATATATATTTATTAATTAAATTAAATT
1 TTAAAAATATATATTTATCAAGTAAATAAAATT
18828998 TTAATAAATATATATTT-TCAAGTAAA-AAAATT
1 TTAA-AAATATATATTTATCAAGTAAATAAAATT
18829030 TTAA
1 TTAA
18829034 GTAATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 9 0.28
33 11 0.34
34 12 0.38
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (33 bp):
TTAAAAATATATATTTATCAAGTAAATAAAATT
Found at i:18829865 original size:17 final size:18
Alignment explanation
Indices: 18829845--18829878 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18829835 AAAATGAACT
18829845 AAAAATAAAAA-ATAAAG
1 AAAAATAAAAAGATAAAG
*
18829862 AAAATTAAAAAGATAAA
1 AAAAATAAAAAGATAAA
18829879 ATAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAAGATAAAG
Found at i:18838418 original size:62 final size:62
Alignment explanation
Indices: 18838321--18838444 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
18838311 ATGTTAATTG
* *
18838321 AATGAGTAATTAGGTTCAAGTGGTAAATACTTAAAGTCAAGTGGTTTTAGAAAATAAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATACTTAAAGTCAAGCGGTTTTAAAAAATAAGGTAT
*
18838383 AATGAGTAATTAGGTTCAAGTGGTAAAT-CTTTAAAGTCAAGCGGTTTTAAAAAATGAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATAC-TTAAAGTCAAGCGGTTTTAAAAAATAAGGTAT
18838445 TGGGACCTCG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 1 0.02
62 57 0.98
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (62 bp):
AATGAGTAATTAGGTTCAAGTGGTAAATACTTAAAGTCAAGCGGTTTTAAAAAATAAGGTAT
Found at i:18841093 original size:19 final size:18
Alignment explanation
Indices: 18841056--18841104 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
18841046 GTGACCCCTG
*
18841056 TTTCCCAATTTTTCACAT
1 TTTCCCAAATTTTCACAT
*
18841074 TTTCCCAAAATTTTCTCAT
1 TTTCCC-AAATTTTCACAT
*
18841093 TTGTTCCAAATT
1 TT-TCCCAAATT
18841105 AGTCCTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 17 0.65
20 3 0.12
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTCCCAAATTTTCACAT
Found at i:18843184 original size:3 final size:3
Alignment explanation
Indices: 18843178--18843222 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
18843168 ATTATTATTA
*
18843178 TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
18843223 ATATTGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.02, C:0.00, G:0.31, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:18843190 original size:12 final size:12
Alignment explanation
Indices: 18843175--18843229 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
18843165 ATTATTATTA
18843175 TTATTGTTGTTG
1 TTATTGTTGTTG
18843187 TTATTGTTGTTG
1 TTATTGTTGTTG
*
18843199 TTGTTGTTGTTG
1 TTATTGTTGTTG
*
18843211 TTGTTGTTGTTG
1 TTATTGTTGTTG
*
18843223 ATATTGT
1 TTATTGT
18843230 AATTATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.07, C:0.00, G:0.27, T:0.65
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:18847863 original size:24 final size:25
Alignment explanation
Indices: 18847818--18847866 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
18847808 ACTTGATTTA
*
18847818 ATATTATTTATTTGTTTATTTGTTC
1 ATATTATTTATTTATTTATTTGTTC
18847843 ATATT-TTTATTTA-TTATTTTGTTC
1 ATATTATTTATTTATTTA-TTTGTTC
18847867 GAATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
ATATTATTTATTTATTTATTTGTTC
Found at i:18852519 original size:88 final size:88
Alignment explanation
Indices: 18852255--18852522 Score: 331
Period size: 88 Copynumber: 3.0 Consensus size: 88
18852245 AGCAGATCAG
* *** *
18852255 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGTAAAGCAAATCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGACACCAGCCTTGCCT
*
18852320 CCCTAGGTTGCAGTGTAGCAGGT
66 CCCTAGGTTGCAGTGGAGCAGGT
* * * *
18852343 TAAAAATAGTAGATCTTGCCTTCCTGCACCGATAACGAAGCAGATCGAAGACACCAACCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGACACCAGCCTTGCCT
* * *
18852408 CCTTGGGTTGCAGCGGAGCAGGT
66 CCCTAGGTTGCAGTGGAGCAGGT
* * * **
18852431 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATTGATGACCCCAGCCTTATCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGACACCAGCCTTGCCT
* **
18852496 CCCT-GGTCAGCAGTGGAATAGGT
66 CCCTAGGT-TGCAGTGGAGCAGGT
18852519 TAAA
1 TAAA
18852523 GATTGTGAAT
Statistics
Matches: 152, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
87 3 0.02
88 149 0.98
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGTGGAGCAGGT
Found at i:18852555 original size:44 final size:44
Alignment explanation
Indices: 18852491--18852864 Score: 408
Period size: 44 Copynumber: 8.6 Consensus size: 44
18852481 ACCCCAGCCT
*
18852491 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
* * *
18852535 TATCTCCCTGGACAGTAGTGGAATAGGTTAAATATTGTGAATCT
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
* * *
18852579 TATCTCCCT-GATCAGCAGTGGAATAGGTTGAAGATTGAGAATTC
1 TATCTCCCTGGA-CAGCAGTGGAATAGGTTAAAGATTGTGAATCC
* * * *
18852623 TATCTCCTTGGGCAAG-AGTGGAATAGATT-AA-A----GAACCC
1 TATCTCCCTGGAC-AGCAGTGGAATAGGTTAAAGATTGTGAATCC
18852661 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
* * * * *
18852705 TATTTCCCTGGTCAGCAGTGGAATAGGTTAAAAATTGAGAATTC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
* * * * *
18852749 TATCTCCCTGGGCAGCAGTGGAATTGATTGAAGATTGT-AGGTCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGA-ATCC
* * * *
18852793 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAACCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
*
18852837 TATCTCCCT-GAGCAGCAGTGGAGTAGGT
1 TATCTCCCTGGA-CAGCAGTGGAATAGGT
18852865 GGAAAATAGC
Statistics
Matches: 276, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
37 2 0.01
38 27 0.10
39 2 0.01
40 1 0.00
42 1 0.00
43 6 0.02
44 233 0.84
45 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
Found at i:18852664 original size:38 final size:38
Alignment explanation
Indices: 18852622--18852694 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
18852612 ATTGAGAATT
* *
18852622 CTATCTCCTTGGGCAAG-AGTGGAATAGATTAAAGAACC
1 CTATCTCCCTGGAC-AGCAGTGGAATAGATTAAAGAACC
*
18852660 CTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGA
1 CTATCTCCCTGGACAGCAGTGGAATAGATTAAAGA
18852695 TTGTGAATCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.06
38 29 0.94
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (38 bp):
CTATCTCCCTGGACAGCAGTGGAATAGATTAAAGAACC
Found at i:18852698 original size:126 final size:131
Alignment explanation
Indices: 18852491--18852864 Score: 474
Period size: 126 Copynumber: 2.9 Consensus size: 131
18852481 ACCCCAGCCT
* * * * *
18852491 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGT-GAATCCTATCTCCCTGGACAGTAGTG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TGTAG-ACCCTATCTCCCTGGACAGCAGTG
* * * *
18852555 GAATAGGTTAAATATTGTGAATCTTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGAGAA
64 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAAATTGAGAA
18852620 TTC
129 TTC
*
18852623 TATCTCCTTGGGCAAG-AGTGGAATAGATT-AA-A-G-A-ACCCTATCTCCCTGGACAGCAGTGG
1 TATCTCCCTGGGC-AGCAGTGGAATAGATTGAAGATGTAGACCCTATCTCCCTGGACAGCAGTGG
* *
18852682 AATAGGTTAAAGATTGTGAATCCTATTTCCCTGGTCAGCAGTGGAATAGGTTAAAAATTGAGAAT
65 AATAGGTTAAAGATTGTGAATCCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAAATTGAGAAT
18852747 TC
130 TC
* ** *
18852749 TATCTCCCTGGGCAGCAGTGGAATTGATTGAAGATTGTAGGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TGTAGACCCTATCTCCCTGGACAGCAGTGG
* * * * *
18852814 AATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGCAGCAGTGGAGTAGGT
65 AATAGGTTAAAGATTGTGAATCCTATCTCCCTGATCAGCAGTGGAATAGGT
18852865 GGAAAATAGC
Statistics
Matches: 210, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
125 2 0.01
126 108 0.51
127 2 0.01
128 2 0.01
130 2 0.01
131 3 0.01
132 89 0.42
133 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (131 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGTAGACCCTATCTCCCTGGACAGCAGTGGA
ATAGGTTAAAGATTGTGAATCCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAAATTGAGAATT
C
Found at i:18852782 original size:170 final size:173
Alignment explanation
Indices: 18852491--18852864 Score: 492
Period size: 170 Copynumber: 2.2 Consensus size: 173
18852481 ACCCCAGCCT
* *
18852491 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGG
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGG
* * * *
18852556 AATAGGTTAAATATTGTGAATCTTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTG-AGAA
66 AATAGGTTAAAAATTGAGAATCTTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTGTAG-A
* *
18852620 TTCTATCTCCTTGGGCAAG-AGTGGAATAGATT-AA-A-GAACCC
130 TCCTATCTCCCTGGGC-AGCAGTGGAATAGATTGAAGATGAACCC
* *
18852661 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATTTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGG
* * *
18852726 AATAGGTTAAAAATTGAGAAT-TCTATCTCCCTGGGCAGCAGTGGAATTGATTGAAGATTGTAGG
66 AATAGGTTAAAAATTGAGAATCT-TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTGTAGA
* *
18852790 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAACCC
130 TCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA---TGAACCC
*
18852837 TATCTCCCT-GAGCAGCAGTGGAGTAGGT
1 TATCTCCCTGGA-CAGCAGTGGAATAGGT
18852865 GGAAAATAGC
Statistics
Matches: 178, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
169 3 0.02
170 138 0.78
171 4 0.02
172 1 0.01
175 2 0.01
176 30 0.17
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (173 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGG
AATAGGTTAAAAATTGAGAATCTTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTGTAGAT
CCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAACCC
Found at i:18853264 original size:44 final size:43
Alignment explanation
Indices: 18853171--18853286 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
18853161 ATGGTAAATT
* * *
18853171 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTTCTTGAAGTTGCAGT-GAGCAGATTAAAACCGATAATC
* *
18853215 CTATCTTCTTGAAGTTGCAGTGAAGCAGATTAAAACC-TTAGATC
1 TTATCTTCTTGAAGTTGCAGTG-AGCAGATTAAAACCGATA-ATC
* *
18853259 TTATC-TCTCAGAAGTTGCAGAGAGCAGA
1 TTATCTTCT-TGAAGTTGCAGTGAGCAGA
18853287 ACGCATCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 12 0.20
44 49 0.80
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TTATCTTCTTGAAGTTGCAGTGAGCAGATTAAAACCGATAATC
Found at i:18854738 original size:3 final size:3
Alignment explanation
Indices: 18854732--18854782 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
18854722 ATTATTATTA
*
18854732 TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
18854780 TTG
1 TTG
18854783 ATATTGTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.31, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:18856498 original size:16 final size:16
Alignment explanation
Indices: 18856477--18856513 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
18856467 TTGGTTCGCT
18856477 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
18856493 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
18856509 GTAAT
1 GTAAT
18856514 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:18856605 original size:44 final size:45
Alignment explanation
Indices: 18856493--18856605 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 45
18856483 GAATAGAGGC
*
18856493 GTAATGGAATAGAGGTGTAATAGCA-AATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCATAAT-AATTCTTTGGTTGAAT
* * **
18856538 GTAATGGAATAGAGGCG---TA--ATAAT-ATTCTTGTGTTTGGTT
1 GTAATGGAATAGAGGTGTAATAGCATAATAATTCTT-TGGTTGAAT
18856578 G-AATGGAATAGAGGTGTAATAGCATAAT
1 GTAATGGAATAGAGGTGTAATAGCATAAT
18856606 GGAAAAAACT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
39 19 0.35
40 8 0.15
41 3 0.05
42 4 0.07
44 5 0.09
45 16 0.29
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (45 bp):
GTAATGGAATAGAGGTGTAATAGCATAATAATTCTTTGGTTGAAT
Found at i:18856764 original size:16 final size:16
Alignment explanation
Indices: 18856727--18856768 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18856717 TTAATCATAT
*
18856727 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18856743 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18856758 TTAAAATATAT
1 TTAAAATATAT
18856769 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18856775 original size:14 final size:15
Alignment explanation
Indices: 18856736--18856777 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18856726 TTTAAACATA
*
18856736 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18856751 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18856765 A-TATAATTTAATA
1 ATTATAATTAAATA
18856778 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18856801 original size:16 final size:15
Alignment explanation
Indices: 18856773--18856848 Score: 50
Period size: 16 Copynumber: 4.9 Consensus size: 15
18856763 ATATATAATT
*
18856773 TAATAAAATTCTTAA
1 TAATAATATTCTTAA
18856788 TAATCAATATTCTT-A
1 TAAT-AATATTCTTAA
*
18856803 T-ATGAAT-TTACTCAAA
1 TAAT-AATATT-CT-TAA
*
18856819 TCATAATATTCTTAA
1 TAATAATATTCTTAA
*
18856834 TAATTGATATTCTTA
1 TAA-TAATATTCTTA
18856849 TATATTGTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.04
14 7 0.15
15 10 0.21
16 25 0.52
17 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (15 bp):
TAATAATATTCTTAA
Found at i:18859243 original size:15 final size:15
Alignment explanation
Indices: 18859220--18859260 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
18859210 TGAGCAATAC
18859220 AAACATACAAAACAG
1 AAACATACAAAACAG
*
18859235 AACCATACAAAACAG
1 AAACATACAAAACAG
18859250 AAACA-ACAAAA
1 AAACATACAAAA
18859261 GCTGCTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.05
Consensus pattern (15 bp):
AAACATACAAAACAG
Found at i:18860115 original size:17 final size:18
Alignment explanation
Indices: 18860076--18860115 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18860066 GTTTGTTTGG
*
18860076 ATTAAACTTTAGTTATGA
1 ATTAAACTTTAGTTATAA
18860094 A-TAAACTTTAGTTA-AA
1 ATTAAACTTTAGTTATAA
18860110 ATTAAA
1 ATTAAA
18860116 ATTTTATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.85
18 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
ATTAAACTTTAGTTATAA
Found at i:18870284 original size:27 final size:26
Alignment explanation
Indices: 18870219--18870308 Score: 71
Period size: 27 Copynumber: 3.4 Consensus size: 26
18870209 TTAAAAAAAT
18870219 TAAAAA-T-TAAAAATATAAAATATA
1 TAAAAATTATAAAAATATAAAATATA
* * *
18870243 AAAAAATTCA-AAAAAGTATATAATGTA
1 TAAAAATT-ATAAAAA-TATAAAATATA
*
18870270 TAAAAATTATAAAAATGA-AAAGAAATGA
1 TAAAAATTATAAAAAT-ATAAA-ATAT-A
18870298 TAAAAATTATA
1 TAAAAATTATA
18870309 TATAAAGTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.10
25 1 0.02
26 9 0.18
27 24 0.47
28 12 0.24
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.27
Consensus pattern (26 bp):
TAAAAATTATAAAAATATAAAATATA
Found at i:18870286 original size:19 final size:20
Alignment explanation
Indices: 18870264--18870308 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
18870254 AAAAGTATAT
*
18870264 AATGTATAA-AAATTATAAA
1 AATGTATAAGAAATGATAAA
*
18870283 AATG-AAAAGAAATGATAAA
1 AATGTATAAGAAATGATAAA
18870302 AAT-TATA
1 AATGTATA
18870309 TATAAAGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (20 bp):
AATGTATAAGAAATGATAAA
Found at i:18872066 original size:40 final size:40
Alignment explanation
Indices: 18872022--18872109 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
18872012 TACGTAAGCC
*
18872022 CGATTTGCTT-CCACGTCAGCAAATCGCGCTTACAAGGACG
1 CGATTTGCTTGCCACGTAAG-AAATCGCGCTTACAAGGACG
* **
18872062 CGATTTG-TTGCCACGTAAGTAATCGCGCTTACGTGGACG
1 CGATTTGCTTGCCACGTAAGAAATCGCGCTTACAAGGACG
*
18872101 CAATTTGCT
1 CGATTTGCT
18872110 GACACGTCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 25 0.61
40 16 0.39
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CGATTTGCTTGCCACGTAAGAAATCGCGCTTACAAGGACG
Found at i:18872493 original size:28 final size:28
Alignment explanation
Indices: 18872461--18872517 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
18872451 CTATTGAAGT
*
18872461 ATATTTAGTT-TCACATTTTGGTACTTAA
1 ATATTT-GTTGTCACAATTTGGTACTTAA
* *
18872489 ATATTTTTTGTCTCAATTTGGTACTTAA
1 ATATTTGTTGTCACAATTTGGTACTTAA
18872517 A
1 A
18872518 GAATCAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (28 bp):
ATATTTGTTGTCACAATTTGGTACTTAA
Found at i:18872726 original size:21 final size:19
Alignment explanation
Indices: 18872702--18872767 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 19
18872692 ATGAAAAACA
18872702 AAAATAAATATATAAAATTT
1 AAAA-AAATATATAAAATTT
* *
18872722 CAAAAAAGATACATAAAATCT
1 -AAAAAA-ATATATAAAATTT
*
18872743 AGAAAAAATATATAAATTTT
1 A-AAAAAATATATAAAATTT
18872763 AAAAA
1 AAAAA
18872768 TAATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 4 0.11
20 14 0.37
21 20 0.53
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAAAATATATAAAATTT
Found at i:18875490 original size:20 final size:20
Alignment explanation
Indices: 18875465--18875503 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18875455 TAAATGTATA
18875465 TTAAAAAAT-TACTAAAAATC
1 TTAAAAAATATA-TAAAAATC
*
18875485 TTAAAAGATATATAAAAAT
1 TTAAAAAATATATAAAAAT
18875504 ACTAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATC
Found at i:18877826 original size:47 final size:47
Alignment explanation
Indices: 18877762--18877857 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
18877752 AAAGGCTTAG
18877762 TTTGACCAATGTCAAGGCGCTTCTGTTGGTAAGTCGAGTTTGAGTTT
1 TTTGACCAATGTCAAGGCGCTTCTGTTGGTAAGTCGAGTTTGAGTTT
18877809 TTTGACCAATGTCAAGGCGCTTCTGTTGGTAAGTCGAGTTTGAGTTT
1 TTTGACCAATGTCAAGGCGCTTCTGTTGGTAAGTCGAGTTTGAGTTT
18877856 TT
1 TT
18877858 ACTTTCCAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.40
Consensus pattern (47 bp):
TTTGACCAATGTCAAGGCGCTTCTGTTGGTAAGTCGAGTTTGAGTTT
Found at i:18880975 original size:32 final size:32
Alignment explanation
Indices: 18880932--18881036 Score: 131
Period size: 32 Copynumber: 3.3 Consensus size: 32
18880922 TGGTTCCATA
*
18880932 AAATGATAACAATTATCAACTTTCATTTTGTG
1 AAATGATAACAATTATCAACTTTAATTTTGTG
* * *
18880964 ACATGATAACAAATTA-CAAGTTTAATTTTTTG
1 AAATGATAAC-AATTATCAACTTTAATTTTGTG
* * *
18880996 AAATGATAATAAATATCAACTTTAATTTTGTT
1 AAATGATAACAATTATCAACTTTAATTTTGTG
18881028 AAATGATAA
1 AAATGATAA
18881037 TAATATTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
31 4 0.07
32 52 0.85
33 5 0.08
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (32 bp):
AAATGATAACAATTATCAACTTTAATTTTGTG
Found at i:18881088 original size:18 final size:18
Alignment explanation
Indices: 18881062--18881100 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18881052 AAAACATAAT
18881062 AATAAAAATCATCGATAC
1 AATAAAAATCATCGATAC
* **
18881080 AATAGAAATGTTCGATAC
1 AATAAAAATCATCGATAC
18881098 AAT
1 AAT
18881101 GATAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (18 bp):
AATAAAAATCATCGATAC
Found at i:18893370 original size:31 final size:31
Alignment explanation
Indices: 18893335--18893400 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
18893325 ACGATGAAAA
18893335 TTATCTTATTAAAGCTTATACACCACATGAC
1 TTATCTTATTAAAGCTTATACACCACATGAC
* *
18893366 TTATCTTATTAAAGCTTATGCGCCACATGAC
1 TTATCTTATTAAAGCTTATACACCACATGAC
18893397 TTAT
1 TTAT
18893401 ACTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (31 bp):
TTATCTTATTAAAGCTTATACACCACATGAC
Found at i:18895302 original size:14 final size:15
Alignment explanation
Indices: 18895265--18895302 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18895255 AAATGTTTTA
*
18895265 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
18895280 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
18895294 ATTTTCTGG
1 ATTTTCTGG
18895303 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:18897329 original size:4 final size:4
Alignment explanation
Indices: 18897320--18897352 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
18897310 TGACAGCAAA
18897320 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
18897353 TTAATTGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18902506 original size:18 final size:18
Alignment explanation
Indices: 18902485--18902535 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
18902475 TCGAAACCGG
18902485 TCGGTTAACCGAAAATTT
1 TCGGTTAACCGAAAATTT
18902503 TCGGTTAACCGAAAATTT
1 TCGGTTAACCGAAAATTT
*
18902521 TTGGTTAACCGAAAA
1 TCGGTTAACCGAAAA
18902536 AATTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (18 bp):
TCGGTTAACCGAAAATTT
Found at i:18902758 original size:9 final size:9
Alignment explanation
Indices: 18902739--18902796 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
18902729 TCGGGTATTT
18902739 TTCGG-TAA
1 TTCGGTTAA
18902747 TTCGGTTAA
1 TTCGGTTAA
18902756 TTCGGTTAA
1 TTCGGTTAA
18902765 TTCGGTTAA
1 TTCGGTTAA
*
18902774 TTCGGGTAA
1 TTCGGTTAA
*
18902783 TTCGGGTAA
1 TTCGGTTAA
18902792 TTCGG
1 TTCGG
18902797 GCGGGTAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 5 0.10
9 43 0.90
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.40
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:18902797 original size:9 final size:9
Alignment explanation
Indices: 18902742--18902815 Score: 86
Period size: 9 Copynumber: 8.8 Consensus size: 9
18902732 GGTATTTTTC
18902742 GGTAATTCG
1 GGTAATTCG
*
18902751 GTTAATTCG
1 GGTAATTCG
*
18902760 GTTAATTCG
1 GGTAATTCG
*
18902769 GTTAATTCG
1 GGTAATTCG
18902778 GGTAATTCG
1 GGTAATTCG
18902787 GGTAATTCG
1 GGTAATTCG
18902796 GG-----CG
1 GGTAATTCG
18902800 GGTAATTCG
1 GGTAATTCG
18902809 GGTAATT
1 GGTAATT
18902816 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
9 54 0.93
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (9 bp):
GGTAATTCG
Found at i:18902803 original size:13 final size:13
Alignment explanation
Indices: 18902785--18902810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18902775 TCGGGTAATT
18902785 CGGGTAATTCGGG
1 CGGGTAATTCGGG
18902798 CGGGTAATTCGGG
1 CGGGTAATTCGGG
18902811 TAATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.46, T:0.23
Consensus pattern (13 bp):
CGGGTAATTCGGG
Found at i:18904613 original size:23 final size:23
Alignment explanation
Indices: 18904587--18904731 Score: 227
Period size: 23 Copynumber: 6.3 Consensus size: 23
18904577 ATAAGTGCCA
18904587 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18904610 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
18904633 CACAGAAATGTAGGCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18904656 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18904679 CACTGATACGTAGCAGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18904702 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18904725 CACTGAT
1 CACTGAT
18904732 CAATAACACT
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 108 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18909770 original size:23 final size:23
Alignment explanation
Indices: 18909744--18909908 Score: 258
Period size: 23 Copynumber: 7.2 Consensus size: 23
18909734 ATCAGTGCCA
18909744 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
18909767 CACTGATACGTAGCCGTAGCCAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18909790 CACTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18909813 CACTGGTATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18909836 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18909859 CACTGATACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18909882 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18909905 CACT
1 CACT
18909909 AATCAATAAC
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 126 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18915980 original size:13 final size:13
Alignment explanation
Indices: 18915962--18915988 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18915952 AAGTTGATTG
18915962 AATTGAAGATATT
1 AATTGAAGATATT
18915975 AATTGAAGATATT
1 AATTGAAGATATT
18915988 A
1 A
18915989 TTAATTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AATTGAAGATATT
Found at i:18916221 original size:24 final size:24
Alignment explanation
Indices: 18916194--18916243 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
18916184 GTATAGTACA
* * *
18916194 AAATTTATACAAGTGTAATTATAT
1 AAATATATACAAATGTAATTAAAT
*
18916218 AAATATGTACAAATGTAATTAAAT
1 AAATATATACAAATGTAATTAAAT
18916242 AA
1 AA
18916244 TTGGTTTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (24 bp):
AAATATATACAAATGTAATTAAAT
Found at i:18916294 original size:14 final size:14
Alignment explanation
Indices: 18916275--18916304 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18916265 CATAAGATAC
18916275 AATAAAGTAAATAA
1 AATAAAGTAAATAA
18916289 AATAAAGTAAATAA
1 AATAAAGTAAATAA
18916303 AA
1 AA
18916305 GAAACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAAGTAAATAA
Found at i:18916322 original size:18 final size:18
Alignment explanation
Indices: 18916291--18916345 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
18916281 GTAAATAAAA
*
18916291 TAAAGTAAATAAAAGAAAC
1 TAAAG-AAAGAAAAGAAAC
*
18916310 TAAAGAAAGAAAAGAAAG
1 TAAAGAAAGAAAAGAAAC
*
18916328 AAAAG-AAGTAAAAGAAAC
1 TAAAGAAAG-AAAAGAAAC
18916346 AAAAAGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 3 0.10
18 23 0.74
19 5 0.16
ACGTcount: A:0.71, C:0.04, G:0.16, T:0.09
Consensus pattern (18 bp):
TAAAGAAAGAAAAGAAAC
Done.