Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2573
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: 51834
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Found at i:1868 original size:20 final size:20
Alignment explanation
Indices: 1843--1882 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1833 GTTATAAGCA
*
1843 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTATC
1863 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
1883 GATACATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:1878 original size:33 final size:33
Alignment explanation
Indices: 1841--1909 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1831 CCGTTATAAG
*
1841 CAATGTATCGATACAATT-TATCATGTATCGATA
1 CAATGTATCGATAC-ATTATACCATGTATCGATA
1874 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATACCATGTATCGATA
1907 CAA
1 CAA
1910 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTATACCATGTATCGATA
Found at i:1894 original size:20 final size:20
Alignment explanation
Indices: 1871--1908 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1861 TCATGTATCG
1871 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
1891 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
1909 AACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:1907 original size:13 final size:13
Alignment explanation
Indices: 1841--1888 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1831 CCGTTATAAG
1841 CAATGTATCGATA
1 CAATGTATCGATA
1854 CAAT-T-T--AT-
1 CAATGTATCGATA
1862 C-ATGTATCGATA
1 CAATGTATCGATA
1874 CAATGTATCGATA
1 CAATGTATCGATA
1887 CA
1 CA
1889 TTATACCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 2 0.07
8 2 0.07
9 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1977 original size:13 final size:13
Alignment explanation
Indices: 1959--1985 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1949 ACAATTGTCC
1959 ATGTATCGATACA
1 ATGTATCGATACA
1972 ATGTATCGATACA
1 ATGTATCGATACA
1985 A
1 A
1986 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2970 original size:21 final size:20
Alignment explanation
Indices: 2946--2985 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2936 TTTAAAAGAA
2946 CAAAACTTGTTTATGGTTTTT
1 CAAAACTT-TTTATGGTTTTT
* *
2967 CAAATCTTTTTCTGGTTTT
1 CAAAACTTTTTATGGTTTT
2986 ATTCATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (20 bp):
CAAAACTTTTTATGGTTTTT
Found at i:5618 original size:208 final size:208
Alignment explanation
Indices: 5260--5663 Score: 799
Period size: 208 Copynumber: 1.9 Consensus size: 208
5250 TTGAGCTTCT
5260 TTTCGAGACATTTGAATTGTCTCCAAATCACCCCGATTAGCTTTGGAACCTCTTTTTGGACCTTT
1 TTTCGAGACATTTGAATTGTCTCCAAATCACCCCGATTAGCTTTGGAACCTCTTTTTGGACCTTT
5325 CTTAAACTATGTGAGGCATAAATATTTTTATATCTTTACCATCCTCATTCACATCAATTTTTATT
66 CTTAAACTATGTGAGGCATAAATATTTTTATATCTTTACCATCCTCATTCACATCAATTTTTATT
*
5390 AAAAAATATCAAAATTTTATTCACGATGATACTCTAACCTTGACCTTTCGAGAGGATACTCTAAC
131 AAAAAATATCAAAATTTTATTCACGATGATACTCTAACCTTGACCTTTCGAGAGGATACTCCAAC
5455 CTTAACCTTGACC
196 CTTAACCTTGACC
5468 TTTCGAGACATTTGAATTGTCTCCAAATCACCCCGATTAGCTTTGGAACCTCTTTTTGGACCTTT
1 TTTCGAGACATTTGAATTGTCTCCAAATCACCCCGATTAGCTTTGGAACCTCTTTTTGGACCTTT
5533 CTTAAACTATGTGAGGCATAAATATTTTTATATCTTTACCATCCTCATTCACATCAATTTTTATT
66 CTTAAACTATGTGAGGCATAAATATTTTTATATCTTTACCATCCTCATTCACATCAATTTTTATT
5598 AAAAAATATCAAAATTTTATTCACGATGATACTCTAACCTTGACCTTTCGAGAGGATACTCCAAC
131 AAAAAATATCAAAATTTTATTCACGATGATACTCTAACCTTGACCTTTCGAGAGGATACTCCAAC
5663 C
196 C
5664 CCCTTTTCGA
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 195 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (208 bp):
TTTCGAGACATTTGAATTGTCTCCAAATCACCCCGATTAGCTTTGGAACCTCTTTTTGGACCTTT
CTTAAACTATGTGAGGCATAAATATTTTTATATCTTTACCATCCTCATTCACATCAATTTTTATT
AAAAAATATCAAAATTTTATTCACGATGATACTCTAACCTTGACCTTTCGAGAGGATACTCCAAC
CTTAACCTTGACC
Found at i:8235 original size:19 final size:19
Alignment explanation
Indices: 8211--8249 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8201 AAGTATTTAT
*
8211 TTTAATAAGAGGAAAAAAA
1 TTTAATAAGAAGAAAAAAA
8230 TTTAATAAGAAGAAAAAAA
1 TTTAATAAGAAGAAAAAAA
8249 T
1 T
8250 ACAATATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (19 bp):
TTTAATAAGAAGAAAAAAA
Found at i:8255 original size:19 final size:19
Alignment explanation
Indices: 8214--8255 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8204 TATTTATTTT
* **
8214 AATAAGAGGAAAAAAATTT
1 AATAAGAAGAAAAAAATAC
8233 AATAAGAAGAAAAAAATAC
1 AATAAGAAGAAAAAAATAC
8252 AATA
1 AATA
8256 TGGGAATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (19 bp):
AATAAGAAGAAAAAAATAC
Found at i:13831 original size:13 final size:13
Alignment explanation
Indices: 13813--13837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13803 CAATTGAGCA
13813 TGTATCGATACAT
1 TGTATCGATACAT
13826 TGTATCGATACA
1 TGTATCGATACA
13838 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17101 original size:27 final size:27
Alignment explanation
Indices: 17063--17155 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
17053 TAAAAATAAC
* *
17063 AAAAATAAAGTTTAAACCTAAGGACCA
1 AAAAATAGAGTTTGAACCTAAGGACCA
17090 AAAAATAGAGTTTGAACCTAAGGACCA
1 AAAAATAGAGTTTGAACCTAAGGACCA
*
17117 GAAAATAGAGTTTGAACCTAAGGACCA
1 AAAAATAGAGTTTGAACCTAAGGACCA
* *
17144 GAAAGTAGAGTT
1 AAAAATAGAGTT
17156 GATAAAAAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAAATAGAGTTTGAACCTAAGGACCA
Found at i:20256 original size:78 final size:79
Alignment explanation
Indices: 20145--20325 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
20135 GTCCCCTTGA
* * * *
20145 AAATAACGGGGCTGGAGTAT-CCCAGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGATT
1 AAATAACGGGGTTGGAGTATCCCCAGGTTATGAGAAATCAAT-ATTTAGAAAAAAAACCGGGATT
20208 GGAGTATCCCATCGG
65 GGAGTATCCCATCGG
* * * * * * *
20223 AAATAACGAGGTTGGAGTATCCCCA-TTTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAATAACGGGGTTGGAGTATCCCCAGGTTATGAGAAATCAATA-TTTAGAAAAAAAACCGGGATT
*
20287 GGAGTATCCCCTCGG
65 GGAGTATCCCATCGG
**
20302 AGGTAACGGGGTTGGAGTATCCCC
1 AAATAACGGGGTTGGAGTATCCCC
20326 GATGAAATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.01
78 31 0.36
79 53 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (79 bp):
AAATAACGGGGTTGGAGTATCCCCAGGTTATGAGAAATCAATATTTAGAAAAAAAACCGGGATTG
GAGTATCCCATCGG
Found at i:20336 original size:28 final size:28
Alignment explanation
Indices: 20280--20351 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
20270 GGAATAAAGC
** **
20280 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
20308 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
20336 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
20352 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:20409 original size:52 final size:51
Alignment explanation
Indices: 20339--20508 Score: 214
Period size: 52 Copynumber: 3.3 Consensus size: 51
20329 GAAATAACGA
* * * *
20339 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCAATTATGGAAAATTGGTG-TTTTGGAAATAAAACCGG
* * * *
20391 AGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTTGAAAATAAAGCCGG
1 GGTTGGAGTATCCCCAATT-ATGGAAAATTGGTGTTTTGGAAATAAAACCGG
* * * *
20443 GGTTGGAGTATCCCCGATTATGGAAAATCGATGATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAACCGG
20494 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
20509 TCGGAGATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
51 41 0.41
52 49 0.49
53 11 0.11
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:20494 original size:51 final size:52
Alignment explanation
Indices: 20374--20508 Score: 182
Period size: 51 Copynumber: 2.6 Consensus size: 52
20364 AATTGGTGTT
* * * * *
20374 TTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGT
1 TTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATGA
* * * *
20426 TTTGAAAATAAAGCCGGGGTTGGAGTATCCCCGATT-ATGGAAAATCGATGA
1 TTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATGA
20477 TTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTGGAAATAAAACCGGGGTTGGAGTATCCCC
20509 TCGGAGATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 41 0.57
52 31 0.43
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (52 bp):
TTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATGA
Found at i:20538 original size:79 final size:80
Alignment explanation
Indices: 20440--20615 Score: 241
Period size: 79 Copynumber: 2.2 Consensus size: 80
20430 AAAATAAAGC
* *
20440 CGGGGTTGGAGTATCCCCGATTATG-GAAAATCGATGA-TTTGGAAATAAAACC-GGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAG
** *
20502 TATCCCCTCGGAGATAA
64 TATCCCCTCAAAAATAA
* * *
20519 CGGTGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
20584 TCCCCTCAAAAATAA
66 TCCCCTCAAAAATAA
20599 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
20616 TGATGATTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 43 0.51
80 41 0.48
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
TCCCCTCAAAAATAA
Found at i:20626 original size:27 final size:27
Alignment explanation
Indices: 20572--20649 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
20562 AATAAAGCCG
* **
20572 GGGGTTGGAGTATCCCCTCAAAAATAAC
1 GGGGTTGGAGTAT-CCCTGATGAATAAC
*
20600 GGGGTTGGAGTATCCCTGATGATTAAC
1 GGGGTTGGAGTATCCCTGATGAATAAC
*
20627 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCTGATGAA
20650 AAATTGATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 31 0.70
28 13 0.30
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCTGATGAATAAC
Found at i:20721 original size:51 final size:49
Alignment explanation
Indices: 20630--20746 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 49
20620 GATTAACGGG
20630 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCAGA
*
20678 GTTGGAGTATCCCCGATTATAGAAAATT-A-GTGTTTAGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGATGT-TTTAG-AAATAAAATCAGA
20729 GTTGGA-TATCCCCGATTG
1 GTTGGAGTATCCCCGATTG
20747 CGGAGAATTG
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 16 0.26
49 3 0.05
50 18 0.29
51 25 0.40
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCAGA
Found at i:23195 original size:19 final size:18
Alignment explanation
Indices: 23171--23265 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
23161 CGATACATTA
23171 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
23190 TATCGATAC---C-T-TG
1 TATCGATACAAACTTATG
23203 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
23222 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
*
23235 TATCGATACAACATTTATG
1 TATCGATACAA-ACTTATG
23254 TATCGATACAAA
1 TATCGATACAAA
23266 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 25
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
15 1 0.02
16 2 0.03
17 1 0.02
18 3 0.05
19 33 0.52
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:23207 original size:32 final size:32
Alignment explanation
Indices: 23161--23263 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
23151 AGCTTCCTAG
* *
23161 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
23193 CGATACCTTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
23225 CGATACATTGTATCGATACAACATTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
23257 CGATACA
1 CGATACA
23264 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:23244 original size:13 final size:13
Alignment explanation
Indices: 23188--23244 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
23178 ACAAAACTTA
*
23188 TGTATCGATACCT
1 TGTATCGATACAT
23201 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
23219 ATGTATCGATACAT
1 -TGTATCGATACAT
23233 TGTATCGATACA
1 TGTATCGATACA
23245 ACATTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.24
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23937 original size:40 final size:42
Alignment explanation
Indices: 23893--23993 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
23883 CCACTTTTCA
* *
23893 AGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCCTTG
* * * *
23933 AGGACCAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTG
23975 AGGACAAAGTGAAAA-AAGA
1 AGGACAAAG-GAAAAGAAGA
23994 GTACGTCCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
40 13 0.27
41 4 0.08
42 28 0.57
43 4 0.08
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.16
Consensus pattern (42 bp):
AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTG
Found at i:24167 original size:55 final size:54
Alignment explanation
Indices: 24082--25562 Score: 1471
Period size: 55 Copynumber: 25.6 Consensus size: 54
24072 AATAAAGTGT
*
24082 ATCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAA-A-TGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * * *
24137 GTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT
1 ATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * * *
24192 GTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAC
1 ATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
24247 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAGAGC
1 ATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAG-GC
* * * *
24301 TGTCCTACTCCTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGC
1 -ATCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
*
24363 ATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGT
1 ATCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGC
* * *
24418 GTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
* *
24479 ATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGAC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
* *
24534 ATCCTGCTCTTTGAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTCGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
24589 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGC
* ** * *
24650 GTCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTAGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
*
24709 ATCCTGCTCTTT-AGGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGC
1 ATCCTGCTCTTTGA-GGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
24764 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
24819 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGC
* ** * *
24880 GTCCTGCTCTTTGAGGACTGAAGGTACCACTAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
* *
24939 ATCCTGTTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
* *
25000 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGTCTTCGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
25055 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGC
* ** * **
25116 GTCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAAC
1 ATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
* *
25175 GTCCTGCTCTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
* *
25236 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACATGTGTGGGCTTCGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
25291 ATCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGC
* ** *
25352 GTCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
* * * *
25411 GTCGTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGT
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
*
25472 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
25527 ATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACT
1 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACT
25563 CTTTGAGGAC
Statistics
Matches: 1243, Mismatches: 108, Indels: 150
0.83 0.07 0.10
Matches are distributed among these distances:
53 3 0.00
54 4 0.00
55 551 0.44
56 28 0.02
57 2 0.00
58 4 0.00
59 104 0.08
60 228 0.18
61 312 0.25
62 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (54 bp):
ATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:24405 original size:116 final size:111
Alignment explanation
Indices: 24083--25562 Score: 1521
Period size: 116 Copynumber: 12.8 Consensus size: 111
24073 ATAAAGTGTA
* *
24083 TCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
* ** *
24147 TTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG--GTG
65 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAGAAGCG
* * *
24193 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
**
24258 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAG-AGCTG
66 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAGC-G
* * *
24303 TCCTACTCCTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCATCCT
* * *
24368 GCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
60 GCTCTTTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGAAGCG
* *
24419 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCATCCT
* *
24484 GCTCTTTGAGGACT-AGAAAATGCCACCAACTTGTGTAGGCTTTGAAAG-A-CA
60 GCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT-AAAGAAGCG
* *
24535 TCCTGCTCTTTGAGGACTGGAAAA-TGCCATCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
24599 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
65 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AA--AGAA-GCG
* * *
24651 TCCTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTAGGCTTTAAAAGAAAAGGCATCCTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
* * *
24715 CTCTTT-AGGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAG--GCA
61 CTCTTTGA-GGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAGAAGCG
*
24765 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
24829 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
65 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AA--AGAA-GCG
* * *
24881 TCCTGCTCTTTGAGGACTG-AAGGTACCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
* * * *
24945 TTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
61 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AAAG---AAGCG
* *
25001 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGTCTTCGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
*
25065 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCG
65 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT---AA-AGAA-GCG
* * ** *
25117 TCCTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAACGTCCTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
* *
25181 CTCTTTGGGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
61 CTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT--AAAG---AAGCG
* *
25237 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACATGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
*
25301 TTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
65 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AA--AGAA-GCG
* * * *
25353 TCCTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
* * **
25417 CTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTA
61 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AAAG---AAGCG
*
25473 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
* *
25537 TTAAGGACTGGAAAATGCCACCAACT
65 TTGAGGACTGAAAAATGCCACCAACT
25563 CTTTGAGGAC
Statistics
Matches: 1185, Mismatches: 106, Indels: 152
0.82 0.07 0.11
Matches are distributed among these distances:
108 3 0.00
109 1 0.00
110 233 0.20
111 14 0.01
113 4 0.00
114 29 0.02
115 115 0.10
116 406 0.34
117 17 0.01
118 13 0.01
119 10 0.01
120 265 0.22
121 69 0.06
122 6 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAGCG
Found at i:24468 original size:29 final size:29
Alignment explanation
Indices: 24383--24469 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
24373 TTGAGGACTA
24383 AAAGGTGCCACCAACTTGTGTGGGCTTT-
1 AAAGGTGCCACCAACTTGTGTGGGCTTTG
** *
24411 AAGAGGTGTCCTGC-TCTT-TG-GGGAC--TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTTG
24438 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTG
24467 AAA
1 AAA
24470 AGAAAAAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 17
0.66 0.09 0.25
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 8 0.18
28 8 0.18
29 13 0.30
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (29 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:25134 original size:236 final size:231
Alignment explanation
Indices: 24082--25562 Score: 2105
Period size: 236 Copynumber: 6.4 Consensus size: 231
24072 AATAAAGTGT
* * *
24082 ATCCTGCTCTTTGAGGACT--AAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGGAAA-A-TGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCT
* ** *
24145 CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTT
64 CTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTT
* * * *
24204 AAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGACATCCTGCTCTTTGAGGA
129 GAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGA
*
24264 CT-GAAAGGTGCCACCAACTTGTGTGGGCTTT--AAGAGC
193 CTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGAGC
* * * * *
24301 TGTCCTACTCCTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCAT
1 -ATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTCG-AAAG-----GCAT
* *
24365 CCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT---A--AG-AGGTGTCCT
58 CCTGCTCTTTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
* * *
24423 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTC
122 GCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTGCTC
* * *
24488 TTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGA-C
185 TTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGC
*
24534 ATCCTGCTCTTTGAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
24599 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
* *
24664 GGACTGAAGGTGCCACTAACTTGTGTAGGCTTTAAAAGAAAAGGCATCCTGCTCTTTAGGGACTG
131 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGACTG
*
24729 GAAAATGCCACCAACTTGTGTAGGCTTTGAAAG-GC
196 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGC
24764 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
24829 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
* *
24894 GGACTGAAGGTACCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGTTCTTTGGGGACTG
131 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGACTG
24959 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
196 GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG----AGC
*
25000 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGTCTTCGAAAGGCATCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
* *
25065 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
** * *
25130 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAACGTCCTGCTCTTTGGGGACTA
131 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGACTG
25195 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
196 GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG----AGC
*
25236 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACATGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
*
25301 TTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
* *
25366 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCGTGCTCTTTGGGGACTG
131 GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGACTG
*
25431 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGT
196 GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG----AGC
25472 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
* *
25537 TTAAGGACTGGAAAATGCCACCAACT
66 TTGAGGACTGAAAAATGCCACCAACT
25563 CTTTGAGGAC
Statistics
Matches: 1171, Mismatches: 56, Indels: 52
0.92 0.04 0.04
Matches are distributed among these distances:
220 42 0.04
221 7 0.01
225 3 0.00
226 138 0.12
227 4 0.00
229 1 0.00
230 280 0.24
231 36 0.03
232 104 0.09
233 10 0.01
234 4 0.00
236 542 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (231 bp):
ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCATCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGA
GGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGGGGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGC
Found at i:25656 original size:60 final size:60
Alignment explanation
Indices: 25561--25759 Score: 231
Period size: 60 Copynumber: 3.3 Consensus size: 60
25551 ATGCCACCAA
** * *
25561 CTCTTTGAGGACT-GAAGGTGCCACTAACTTGTGTGGGTTTTAAAAGAAAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCATCCTG
* * *
25620 CTCTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG-TTTTAAAAGAAAAGGCATCCTG
* ** * * * *
25681 CTCTTTGAGGA-TTGAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAACAGGCATCTTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGTTTTAAAA-GAAAAGGCATCCTG
*
25741 CTCTTTGAGGACTAAAAAA
1 CTCTTTGAGGACTAGAAAA
25760 CGGAAGGAGA
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
59 18 0.16
60 65 0.57
61 32 0.28
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (60 bp):
CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCATCCTG
Found at i:36949 original size:28 final size:28
Alignment explanation
Indices: 36909--36980 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
36899 GGAATAAAGC
** *
36909 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
36937 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
36965 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
36981 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:37038 original size:52 final size:50
Alignment explanation
Indices: 36969--37138 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
36959 AAATAACGAG
* * *
36969 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
37021 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
37074 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
37125 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
37139 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:37157 original size:28 final size:28
Alignment explanation
Indices: 37112--37193 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
37102 AGTGTTTTAA
* *
37112 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
37139 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
37166 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
37194 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:39627 original size:13 final size:13
Alignment explanation
Indices: 39609--39634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39599 ACAAAGATCC
39609 ATGTATCGATACA
1 ATGTATCGATACA
39622 ATGTATCGATACA
1 ATGTATCGATACA
39635 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:39630 original size:33 final size:33
Alignment explanation
Indices: 39588--39654 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
39578 AAAATTTCCA
***
39588 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
39621 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
39654 A
1 A
39655 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:39698 original size:19 final size:18
Alignment explanation
Indices: 39674--39741 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
39664 CAGTAGCTAA
39674 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
39693 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
39708 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
39725 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
39742 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:39714 original size:13 final size:13
Alignment explanation
Indices: 39696--39720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39686 ACAATACTTA
39696 TGTATCGATACAT
1 TGTATCGATACAT
39709 TGTATCGATACA
1 TGTATCGATACA
39721 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39718 original size:32 final size:32
Alignment explanation
Indices: 39677--39739 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
39667 TAGCTAATTA
*
39677 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
39709 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
39740 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:39821 original size:21 final size:21
Alignment explanation
Indices: 39797--39853 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
39787 CATTTGTAGG
39797 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
39818 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
39839 ATGTATCGATACATT
1 ATGTATCGATACATT
39854 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:39863 original size:1 final size:1
Alignment explanation
Indices: 39857--39899 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
39847 ATACATTTAA
****
39857 TTTTTTTTTTTTTTTTTTTTTTTCAAATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39900 CAAACACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:39889 original size:21 final size:20
Alignment explanation
Indices: 39864--39903 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39854 TAATTTTTTT
39864 TTTTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTTTCAAA
39884 TTTTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTTTCAAA
39904 CACTTTATCT
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:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTTCAAA
Found at i:40485 original size:55 final size:54
Alignment explanation
Indices: 40401--41353 Score: 1409
Period size: 55 Copynumber: 17.3 Consensus size: 54
40391 ATAAATTGTA
* * * * * *
40401 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* * *
40456 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTCGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
40511 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
40566 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
40621 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
40676 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
40731 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
40786 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
40841 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
40896 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* * *
40951 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTAGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
41006 TCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
41061 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
41116 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
41171 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
41226 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
41281 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
41336 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
41354 AAAAAGCGGA
Statistics
Matches: 844, Mismatches: 35, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 23 0.03
55 795 0.94
56 22 0.03
57 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:40679 original size:165 final size:165
Alignment explanation
Indices: 40401--41353 Score: 1578
Period size: 165 Copynumber: 5.8 Consensus size: 165
40391 ATAAATTGTA
* * * * *
40401 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * * *
40465 TTGAGGACTGAAAGGTGCCACCCACTCGTGTGGGCTTTGAA-AAGTGTCCTGCTCTTTGGGGAAT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
40529 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
40566 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
40631 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
40696 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
40731 TCCTGCTCTTTGAGGACTGGACAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
40796 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
40861 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
40896 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGTTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * * *
40961 TGAGGACTGGAAA-ATGCCACCAACTTGTGTAGGCTTTGAA-AGGTGTCCTTCTCTTTGAGGACT
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
41024 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
41061 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
41126 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-
* *
41190 GAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
**
41226 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
*
41290 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT
41354 AAAAAGCGGA
Statistics
Matches: 753, Mismatches: 27, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
164 10 0.01
165 729 0.97
166 14 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:41221 original size:27 final size:27
Alignment explanation
Indices: 41136--41221 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
41126 TGAGGACTGG
41136 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
** * * * **
41163 AAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AAAA--TG-CCACCAACTTGTGTGGGCTTT
41191 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
41218 AAAA
1 AAAA
41222 GGTGTCCTGC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTGTGGGCTTT
Found at i:41306 original size:26 final size:26
Alignment explanation
Indices: 41219--41306 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
41209 GTGGGCTTTA
41219 AAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
41245 GAAGGTG-CCACCAACTTGTGTGGGCTTT
1 AAAGGTGTCCTGC-TCTT-TGAGGAC-TG
41273 AAGAGGTGTCCTGCTCTTTGAGGACTG
1 AA-AGGTGTCCTGCTCTTTGAGGACTG
41300 AAAGGTG
1 AAAGGTG
41307 CCACCAACTT
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 14 0.33
27 8 0.19
28 7 0.16
29 8 0.19
30 3 0.07
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:42339 original size:1 final size:1
Alignment explanation
Indices: 42335--42381 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
42325 CTTTTCTCTC
* * * *
42335 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42382 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:42358 original size:14 final size:13
Alignment explanation
Indices: 42335--42381 Score: 69
Period size: 14 Copynumber: 3.6 Consensus size: 13
42325 CTTTTCTCTC
*
42335 TTTTTCTTTGTTT
1 TTTTTTTTTGTTT
42348 TGTTTTTTTTGTTT
1 T-TTTTTTTTGTTT
42362 TTTTTTTTT-TTT
1 TTTTTTTTTGTTT
42374 TTTTTTTT
1 TTTTTTTT
42382 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 11 0.34
13 9 0.28
14 12 0.38
ACGTcount: A:0.00, C:0.02, G:0.06, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Done.