Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010194.1 Kokia drynarioides strain JFW-HI SEQ_125009, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 232108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:672 original size:17 final size:17
Alignment explanation
Indices: 647--689 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
637 TGGAACTCGT
*
647 AGACGATGAAGATGTTA
1 AGACAATGAAGATGTTA
*
664 AGACAATGAAGATGTTG
1 AGACAATGAAGATGTTA
*
681 AGAAAATGA
1 AGACAATGA
690 TCGCTCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.21
Consensus pattern (17 bp):
AGACAATGAAGATGTTA
Found at i:3135 original size:28 final size:28
Alignment explanation
Indices: 3082--3139 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
3072 CATTTTTCTG
*
3082 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTAAGTTTATAATTGAAT
**
3110 TTGGAATTAATTCTGTTTA-AATTTGAAT
1 TTGGAATTAATTAAGTTTATAA-TTGAAT
3138 TT
1 TT
3140 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAGTTTATAATTGAAT
Found at i:3180 original size:26 final size:26
Alignment explanation
Indices: 3131--3180 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
3121 TCTGTTTAAA
**
3131 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
3157 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
3181 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:3257 original size:6 final size:6
Alignment explanation
Indices: 3246--3286 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
3236 ATATTTACAT
*
3246 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
3287 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:5405 original size:33 final size:33
Alignment explanation
Indices: 5368--5439 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
5358 TTAATTTGTC
* *
5368 ATTTTAAAAT-TTTAAAAATA-ATTTTTATTTCAA
1 ATTTTAAAATATTCAAAAATATATATTT-TTT-AA
*
5401 ATTTT-TAATATTCAAAAATATATATTTTTTAA
1 ATTTTAAAATATTCAAAAATATATATTTTTTAA
5433 ATTTTAA
1 ATTTTAA
5440 TATAGTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.31
33 17 0.53
34 5 0.16
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (33 bp):
ATTTTAAAATATTCAAAAATATATATTTTTTAA
Found at i:6487 original size:96 final size:95
Alignment explanation
Indices: 6305--6489 Score: 241
Period size: 96 Copynumber: 1.9 Consensus size: 95
6295 GAAAAGGATG
* * *
6305 TTCGATTATCCCGATTTGATGAAAGATTGCACCTGGTAAGTTAAGGCGCAAATTTTCAGAATCGA
1 TTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
* *
6370 AGATAAGGAAACGTTGTCTCGATTAAGGGTA
66 AGATAAAGAAAC-TTGCCTCGATTAAGGGTA
**
6401 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTC-GAAACTC
1 TTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TC
6465 GAA-ATAAAAGAATA-TTGCCTCGATT
64 GAAGAT-AAAGAA-ACTTGCCTCGATT
6490 TTAAAGTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
95 1 0.01
96 66 0.85
97 10 0.13
98 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (95 bp):
TTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
AGATAAAGAAACTTGCCTCGATTAAGGGTA
Found at i:6774 original size:30 final size:29
Alignment explanation
Indices: 6729--7105 Score: 384
Period size: 29 Copynumber: 12.8 Consensus size: 29
6719 ACCCAGGGGC
*
6729 AAAATGGTAATTTTTGGAAGCTTTGGGGTTA
1 AAAATGG-GATTTTTGGAAG-TTTGGGGTTA
* *
6760 AAAATGGGATTTTTGAAAGTTTGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGTTA
* *
6789 AATATGGGATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGGATTTTTGGAAG-TTTGGGGTTA
6819 AAAATGGGATTTTTGGAAGTTTAGGGG-TA
1 AAAATGGGATTTTTGGAAGTTT-GGGGTTA
* * *
6848 AAATTGGGATTTTTGGAAGTTTTGAGGTCA
1 AAAATGGGATTTTTGGAAG-TTTGGGGTTA
* * *
6878 AAATTGGGATTTTTTGAAGTTCGAGGG-TA
1 AAAATGGGATTTTTGGAAGTTTG-GGGTTA
* * *
6907 AAAATGAGATTTTTGGAAATTTCGGGGTAA
1 AAAATGGGATTTTTGGAAGTTT-GGGGTTA
*
6937 AAAATGGGATTTTTGGAAGTTCGAGGG-TA
1 AAAATGGGATTTTTGGAAGTTTG-GGGTTA
* * *
6966 AAAATGGGATTTTTGGAAATTCTAGGGTCA
1 AAAATGGGATTTTTGGAAGTT-TGGGGTTA
* * *
6996 GAAATGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTGGGGTTA
* * *
7025 AAAATGGGACTTTTGGAAGTTCGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTGGGGTTA
* * *
7054 AAAATAGAATTTTTTGAAGTTTGAGGG-TA
1 AAAATGGGATTTTTGGAAGTTTG-GGGTTA
7083 AAAATGGGATTTTTGGACAGTTT
1 AAAATGGGATTTTTGGA-AGTTT
7106 AGGGACTTTC
Statistics
Matches: 285, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
29 162 0.57
30 116 0.41
31 7 0.02
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.35
Consensus pattern (29 bp):
AAAATGGGATTTTTGGAAGTTTGGGGTTA
Found at i:6813 original size:59 final size:59
Alignment explanation
Indices: 6729--7105 Score: 470
Period size: 59 Copynumber: 6.4 Consensus size: 59
6719 ACCCAGGGGC
* * * * * *
6729 AAAATGGTAATTTTTGGAAGCTTTGGGGTTAAAAATGGGATTTTTGAAAGTTTGGGGGTA
1 AAAATGG-GATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
* *
6789 AATATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT-TAGGGGTA
1 AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGA-GGGTA
* * * *
6848 AAATTGGGATTTTTGGAAGTTTTGAGGTCAAAATTGGGATTTTTTGAAGTTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
* * * *
6907 AAAATGAGATTTTTGGAAATTTCGGGGTAAAAAATGGGATTTTTGGAAGTTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
* * * * *
6966 AAAATGGGATTTTTGGAAATTCTAGGGTCAGAAATGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
* * * * * *
7025 AAAATGGGACTTTTGGAAG-TTCGGGGTCAAAAATAGAATTTTTTGAAGTTTGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
7083 AAAATGGGATTTTTGGACAGTTT
1 AAAATGGGATTTTTGGA-AGTTT
7106 AGGGACTTTC
Statistics
Matches: 273, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
58 46 0.17
59 218 0.80
60 9 0.03
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.35
Consensus pattern (59 bp):
AAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
Found at i:7960 original size:21 final size:20
Alignment explanation
Indices: 7934--7987 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
7924 AATATTATTA
7934 ATTATTATTATTAATAATAAT
1 ATTATTATTATTAATAA-AAT
* *
7955 ATTATTATTATCAA-AACAT
1 ATTATTATTATTAATAAAAT
7974 -TTATTATTATTAAT
1 ATTATTATTATTAAT
7988 GAGTATTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 12 0.41
19 2 0.07
20 2 0.07
21 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTATTATTATTAATAAAAT
Found at i:8791 original size:6 final size:6
Alignment explanation
Indices: 8770--8817 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
8760 TAATTGTTTC
* ** *
8770 AAATTT AAA-CT AAATTT AAATTT AAAAAT GAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
8817 A
1 A
8818 GAGTAAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:8825 original size:41 final size:41
Alignment explanation
Indices: 8770--8848 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
8760 TAATTGTTTC
*
8770 AAATTTAAACTAAATTTAAATT-TAAAAATGAATTTAAATTT
1 AAATTTAAACTAAATTT-AATTCTAAAAATGAATCTAAATTT
* * *
8811 AAATTTAGAGTAAATTTAATTCTAGAAATGAATCTAAA
1 AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAA
8849 ACTCATCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (41 bp):
AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAATTT
Found at i:9561 original size:206 final size:205
Alignment explanation
Indices: 9203--9821 Score: 771
Period size: 206 Copynumber: 3.0 Consensus size: 205
9193 TCTGGTTTCA
* * ** *
9203 TTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACCGTATCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCTTTAGGAAGATGACCGCATCACTTGTTTCAATTCACTT
* * * *
9268 CTCTGTGT-TCCATCAAGAAGACGAATTTGATTCACTTCTCCGTATCTCATCAGGAAGCTAACCA
66 CTCTGTATCT-CATCAGGAAGACGAATTCG-TTCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * *
9332 CTCTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTTGGGTTCGAAGATTTGCTCACA
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTTGGGTTCGAAGATTTGCTCGCA
*
9397 TCGAGCGTTG-TT
194 TCGAGCG-TGAGT
* * *
9409 TTGATTTGGTTTTCTTCTCAGTATCTCTTTAGGAAGATGACCACATCACTTGTTTCAATTCATTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCTTTAGGAAGATGACCGCATCACTTGTTTCAATTCACTT
* *
9474 CCCTGTATCTCATCAGGAAGACGAATTCGTTCCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTCGTT-CACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
9539 TTTATTACTTCGACCCGCTTCTCAGTATCTCATCAGGAAG-TTAGGGTTCAAAGATTTGCTCGCA
130 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTT-GGGTTCGAAGATTTGCTCGCA
9603 TCGAGCGTGAGT
194 TCGAGCGTGAGT
* * * * *** *
9615 TTGATTTGGTCTTCTTCTCAGCATCT-TATCAAGAAGATGACCGCGTTGTTTGTTTCAATTCGCT
1 TTGATTTGGTCTTCTTCTCAGTATCTCT-TTAGGAAGATGACCGCATCACTTGTTTCAATTCACT
* * * * *
9679 TCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTCCTCAGTATCTCATCAAGAAGCTAATCG
65 TCTCTGTATCTCATCAGGAAGACGAA-TTCGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * * * *
9744 TTTTATTGCTTCAAACTGCTTCTCAGTATCTCATCAGGAATC-TAGGTTCGAAGACTTGCTCGCA
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTTGGGTTCGAAGATTTGCTCGCA
*
9808 TCGAGTCCTGAGT
194 TCGAG-CGTGAGT
9821 T
1 T
9822 AGTATACTTC
Statistics
Matches: 358, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
205 30 0.08
206 322 0.90
207 6 0.02
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (205 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCTTTAGGAAGATGACCGCATCACTTGTTTCAATTCACTT
CTCTGTATCTCATCAGGAAGACGAATTCGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATT
TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTTGGGTTCGAAGATTTGCTCGCATC
GAGCGTGAGT
Found at i:14336 original size:10 final size:10
Alignment explanation
Indices: 14321--14348 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14311 CTATGTGGTA
14321 TATGTATGAG
1 TATGTATGAG
14331 TATGTATGAG
1 TATGTATGAG
14341 TATGTATG
1 TATGTATG
14349 TATTAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (10 bp):
TATGTATGAG
Found at i:17495 original size:20 final size:21
Alignment explanation
Indices: 17470--17508 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17460 CCCTGCATCG
17470 CGTCGAT-TTTCTCCTCTAGT
1 CGTCGATATTTCTCCTCTAGT
*
17490 CGTCGATATTTTTCCTCTA
1 CGTCGATATTTCTCCTCTA
17509 TTTGTCTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.13, C:0.28, G:0.13, T:0.46
Consensus pattern (21 bp):
CGTCGATATTTCTCCTCTAGT
Found at i:21950 original size:117 final size:115
Alignment explanation
Indices: 21804--22175 Score: 453
Period size: 117 Copynumber: 3.2 Consensus size: 115
21794 CAAAAGTTCG
* *
21804 GGGGTAAAGATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTTTGGGGTTA
1 GGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGG-TA
* *
21869 AAAATGGGATTTTTTGGAAGGTCGAGGGTAAAAATGGATTTTTGGAAATTTT
65 AAAATGGGA-TTTTTGGAAGATCGAGGGTAAAAATGGATTTTTGGAAATTTA
* *
21921 GGGGAAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAG-TTCGAGGGTA
1 GGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTTAG-GGGTA
* * * *
21985 AAAATGGGATTTTTGGAAGATTGGGGGTAAAAATGGGATTTTTGGAAGTTTC
65 AAAATGGGATTTTTGGAAGATCGAGGGTAAAAAT-GGATTTTTGGAAATTTA
* * * * * * *
22037 GAGGTTAAAATGGGATTTTTTGAAGTTTTAGGGTTAAAAATGGGATTTTTGGATGTTTAGGGGTA
1 GGGGTAAAAATGGGATTTTTGGAAG-TTTGGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGGTA
* * * *
22102 AAAATGAGATTTTTGGATGTTC-AGGGGTAAAAATGAGATTTTTGG-AAGTTA
65 AAAATGGGATTTTTGGAAGATCGA-GGGTAAAAATG-GATTTTTGGAAATTTA
*
22153 GGGGTCAAAAATAGGATTTTTGG
1 GGGGT-AAAAATGGGATTTTTGG
22176 CCAATTTAGG
Statistics
Matches: 219, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
115 22 0.10
116 58 0.26
117 136 0.62
118 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.33, T:0.35
Consensus pattern (115 bp):
GGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGGTAA
AAATGGGATTTTTGGAAGATCGAGGGTAAAAATGGATTTTTGGAAATTTA
Found at i:22027 original size:29 final size:29
Alignment explanation
Indices: 21759--22175 Score: 451
Period size: 29 Copynumber: 14.2 Consensus size: 29
21749 AAATGGTAAT
* * *
21759 TTTTTGGAAGTTTCGAGGTTAAAAAATGGTA
1 TTTTTGGAAGTTT-GGGGGT-AAAAATGGGA
*** * *
21790 TTTTCAAAAGTTCGGGGGTAAAGATGGGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
*
21819 TTTTTGGAAGTTTGGGGGTAAAAATGAGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
*
21848 TTTTTGGAAGTTTTGGGGTTAAAAATGGGA
1 TTTTTGGAAG-TTTGGGGGTAAAAATGGGA
* * *
21878 TTTTTTGGAAGGTCGAGGGTAAAAAT-GGA
1 -TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* * *
21907 TTTTTGGAAATTTTGGGGAAAAAATGGGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
*
21936 TTTTTGGAAGTTTGGGGGTAAAAATGAGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* *
21965 TTTTTGGAAGTTCGAGGGTAAAAATGGGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
*
21994 TTTTTGGAAGATTGGGGGTAAAAATGGGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* * *
22023 TTTTTGGAAGTTTCGAGGTTAAAATGGGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* * *
22052 TTTTTTGAAGTTTTAGGGTTAAAAATGGGA
1 TTTTTGGAAG-TTTGGGGGTAAAAATGGGA
* * *
22082 TTTTTGGATGTTTAGGGGTAAAAATGAGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* ** *
22111 TTTTTGGATGTTCAGGGGTAAAAATGAGA
1 TTTTTGGAAGTTTGGGGGTAAAAATGGGA
* *
22140 TTTTTGGAAG-TTAGGGGTCAAAAATAGGA
1 TTTTTGGAAGTTTGGGGGT-AAAAATGGGA
22169 TTTTTGG
1 TTTTTGG
22176 CCAATTTAGG
Statistics
Matches: 327, Mismatches: 54, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
28 26 0.08
29 227 0.69
30 55 0.17
31 19 0.06
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.35
Consensus pattern (29 bp):
TTTTTGGAAGTTTGGGGGTAAAAATGGGA
Found at i:22057 original size:146 final size:143
Alignment explanation
Indices: 21779--22175 Score: 494
Period size: 146 Copynumber: 2.7 Consensus size: 143
21769 TTTCGAGGTT
* *** * * * * *
21779 AAAAAATGGTATTTTCAAAAGTTCGGGGGTAAAGATGGGATTTTTGGAAGTTTGGGGGTAAAAAT
1 AAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTCGAGGGTAAAAAT
*
21844 GAGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTTGGAAGGTCGAGGGTAAAAATGGATT
66 GAGATTTTTGGAAG--TTGGGGGTAAAAATGGGA-TTTTTGGAAGGTCGAGGGTAAAAATGGATT
21909 TTTGGAAATTTT-GGGG
128 TTT-GAAATTTTAGGGG
21925 AAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTCGAGGGTAAAAAT
1 AAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTCGAGGGTAAAAAT
* * *
21990 GGGATTTTTGGAAGATTGGGGGTAAAAATGGGATTTTTGGAAGTTTCGA-GGTTAAAATGGGATT
66 GAGATTTTTGGAAG-TTGGGGGTAAAAATGGGATTTTTGGAAG-GTCGAGGGTAAAAAT-GGA-T
* *
22054 TTTTGAAGTTTTAGGGT
127 TTTTGAAATTTTAGGGG
* * * *
22071 TAAAAATGGGATTTTTGGATGTTTAGGGGTAAAAATGAGATTTTTGGATGTTC-AGGGGTAAAAA
1 AAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTCGA-GGGTAAAAA
* *
22135 TGAGATTTTTGGAAGTTAGGGGTCAAAAATAGGATTTTTGG
65 TGAGATTTTTGGAAGTTGGGGGT-AAAAATGGGATTTTTGG
22176 CCAATTTAGG
Statistics
Matches: 222, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
144 18 0.08
145 39 0.18
146 165 0.74
ACGTcount: A:0.31, C:0.02, G:0.32, T:0.35
Consensus pattern (143 bp):
AAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTCGAGGGTAAAAAT
GAGATTTTTGGAAGTTGGGGGTAAAAATGGGATTTTTGGAAGGTCGAGGGTAAAAATGGATTTTT
GAAATTTTAGGGG
Found at i:22186 original size:117 final size:113
Alignment explanation
Indices: 21759--22175 Score: 449
Period size: 117 Copynumber: 3.5 Consensus size: 113
21749 AAATGGTAAT
* *** * *
21759 TTTTTGGAAGTTTCGAGGTTAAAAAATGGTATTTTCAAAAGTTCGGGGGTAAAGATGGGATTTTT
1 TTTTTGGAAG-TTCG-GGGT-AAAAATGG-ATTTTTGGAAGTT-AGGGGTAAAAATGGGATTTTT
* *
21824 GGAAGTTTGGGGGTAAAAATGAGATTTTTGGAAGTTTTGGGGTTAAAAATGGGA
61 GGAAGTTTAGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGG-TAAAAATGGGA
* * * *
21878 TTTTTTGGAAGGTCGAGGGTAAAAATGGATTTTTGGAAATTTTGGGGAAAAAATGGGATTTTTGG
1 -TTTTTGGAAGTTCG-GGGTAAAAATGGATTTTTGG-AAGTTAGGGGTAAAAATGGGATTTTTGG
* *
21943 AAGTTTGGGGGTAAAAATGAGATTTTTGGAAG-TTCGAGGGTAAAAATGGGA
63 AAGTTTAGGGGTAAAAATGAGATTTTTGGAAGTTTAG-GGGTAAAAATGGGA
* * * * *
21994 TTTTTGGAAGATTGGGGGTAAAAATGGGATTTTTGGAAGTTTCGAGGTTAAAATGGGATTTTTTG
1 TTTTTGGAAG-TTCGGGGTAAAAAT-GGATTTTTGGAAG-TTAGGGGTAAAAATGGGATTTTTGG
* * * *
22059 AAGTTTTAGGGTTAAAAATGGGATTTTTGGATGTTTAGGGGTAAAAATGAGA
63 AAG-TTTAGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGGTAAAAATGGGA
* *
22111 TTTTTGGATGTTCAGGGGTAAAAATGAGATTTTTGGAAGTTAGGGGTCAAAAATAGGATTTTTGG
1 TTTTTGGAAGTTC-GGGGTAAAAATG-GATTTTTGGAAGTTAGGGGT-AAAAATGGGATTTTTGG
22176 CCAATTTAGG
Statistics
Matches: 256, Mismatches: 31, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
115 22 0.09
116 58 0.23
117 144 0.56
118 15 0.06
119 7 0.03
120 10 0.04
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.35
Consensus pattern (113 bp):
TTTTTGGAAGTTCGGGGTAAAAATGGATTTTTGGAAGTTAGGGGTAAAAATGGGATTTTTGGAAG
TTTAGGGGTAAAAATGAGATTTTTGGAAGTTTAGGGGTAAAAATGGGA
Found at i:23994 original size:6 final size:6
Alignment explanation
Indices: 23973--24020 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
23963 TAATTGTTTC
* ** *
23973 AAATTT AAA-CT AAATTT AAATTT AAAAAT GAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
24020 A
1 A
24021 GAGTAAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:24028 original size:41 final size:41
Alignment explanation
Indices: 23973--24051 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
23963 TAATTGTTTC
*
23973 AAATTTAAACTAAATTTAAATT-TAAAAATGAATTTAAATTT
1 AAATTTAAACTAAATTT-AATTCTAAAAATGAATCTAAATTT
* * *
24014 AAATTTAGAGTAAATTTAATTCTAGAAATGAATCTAAA
1 AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAA
24052 ACCCATCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (41 bp):
AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAATTT
Found at i:24191 original size:17 final size:17
Alignment explanation
Indices: 24171--24204 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24161 TTTTACATGA
*
24171 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
24188 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
24205 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:27741 original size:16 final size:16
Alignment explanation
Indices: 27722--27756 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27712 TAGTAATTTT
27722 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
27738 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
27754 AAT
1 AAT
27757 TGCAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:28261 original size:26 final size:26
Alignment explanation
Indices: 28231--28307 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
28221 GAATAGCAGA
* *
28231 CTTTGTATCTGTGAATATCTATCAGG
1 CTTTGTGTCAGTGAATATCTATCAGG
* * *
28257 TTTTGTGCCGGTGAATATCTATCAGG
1 CTTTGTGTCAGTGAATATCTATCAGG
*
28283 CTTCGTGTCAGTGAATATCTATCAG
1 CTTTGTGTCAGTGAATATCTATCAG
28308 AATATCTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (26 bp):
CTTTGTGTCAGTGAATATCTATCAGG
Found at i:28310 original size:12 final size:12
Alignment explanation
Indices: 28295--28320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28285 TCGTGTCAGT
28295 GAATATCTATCA
1 GAATATCTATCA
28307 GAATATCTATCA
1 GAATATCTATCA
28319 GA
1 GA
28321 CTTTATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (12 bp):
GAATATCTATCA
Found at i:28319 original size:26 final size:26
Alignment explanation
Indices: 28235--28319 Score: 64
Period size: 26 Copynumber: 3.3 Consensus size: 26
28225 AGCAGACTTT
* ** *
28235 GTATCTGTGAATATCTATCAGGTTTT
1 GTATCAGTGAATATCTATCAGAATTC
** * **
28261 GTGCCGGTGAATATCTATCAGGCTTC
1 GTATCAGTGAATATCTATCAGAATTC
*
28287 GTGTCAGTGAATATCTATCAGAATATC
1 GTATCAGTGAATATCTATCAGAAT-TC
28314 -TATCAG
1 GTATCAG
28320 ACTTTATGTC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 46 0.96
27 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (26 bp):
GTATCAGTGAATATCTATCAGAATTC
Found at i:30640 original size:24 final size:24
Alignment explanation
Indices: 30584--30637 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
30574 AATATGGCCC
*
30584 AAATTTAATTTAAATAATAATTTT
1 AAATTTAATTTAAATAATAATTAT
30608 AAATTTAATTTAATTATAATAA-TAT
1 AAATTTAATTTAA--ATAATAATTAT
30633 AAATT
1 AAATT
30638 AATAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 13 0.48
25 7 0.26
26 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATTTAATTTAAATAATAATTAT
Found at i:31949 original size:34 final size:34
Alignment explanation
Indices: 31910--31985 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
31900 AAATAAATAA
**
31910 ATTTGGGTAAGGTAAAACGTAAAAAATTAAAAAT
1 ATTTGGGTAAAATAAAACGTAAAAAATTAAAAAT
* * *
31944 ATTTGGGTAAAATTAAAGGTAAAAATTTAAAAAT
1 ATTTGGGTAAAATAAAACGTAAAAAATTAAAAAT
31978 ATTTGGGT
1 ATTTGGGT
31986 TTAGTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (34 bp):
ATTTGGGTAAAATAAAACGTAAAAAATTAAAAAT
Found at i:32145 original size:18 final size:18
Alignment explanation
Indices: 32122--32159 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32112 TAATATAGTT
*
32122 TTATTCG-GTTTATTCGAA
1 TTATTCGAG-TTATTCAAA
32140 TTATTCGAGTTATTCAAA
1 TTATTCGAGTTATTCAAA
32158 TT
1 TT
32160 CGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:44064 original size:57 final size:56
Alignment explanation
Indices: 43974--44080 Score: 169
Period size: 57 Copynumber: 1.9 Consensus size: 56
43964 ACTTTCGGTA
* * *
43974 CTTTTTCATGTATTATAGCTAGTTGAAACTTATCTAACAGATATAATTTAAGTCAGT
1 CTTTTTCATGCACTATAGCTAGTTGAAACTTATCTAACAGA-ACAATTTAAGTCAGT
*
44031 CTTTTTCATGCACTATAGCTAGTTGAAATTTATCTAACAGAACAATTTAA
1 CTTTTTCATGCACTATAGCTAGTTGAAACTTATCTAACAGAACAATTTAA
44081 AACAGTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 8 0.17
57 38 0.83
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (56 bp):
CTTTTTCATGCACTATAGCTAGTTGAAACTTATCTAACAGAACAATTTAAGTCAGT
Found at i:45899 original size:29 final size:32
Alignment explanation
Indices: 45841--45901 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
45831 AAATTTTATG
*
45841 TATTGTTTTTCTATTCGTATTATTTATATTAA
1 TATTGTTTTTCTATTCGAATTATTTATATTAA
*
45873 TATT-TTTTTCTATTC-AATT-TTTTTATTAA
1 TATTGTTTTTCTATTCGAATTATTTATATTAA
45902 ACAGATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 3 0.11
31 11 0.41
32 4 0.15
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.66
Consensus pattern (32 bp):
TATTGTTTTTCTATTCGAATTATTTATATTAA
Found at i:46117 original size:31 final size:30
Alignment explanation
Indices: 46082--46155 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
46072 AAAAAAAATT
**
46082 AATAATTCAATGACTTAAATAAAAAATTTTG
1 AATAATTCAATGACTT-AATAAAAAACGTTG
* ** *
46113 AATAATTTAGCGACTTAATTAAAAACGTTG
1 AATAATTCAATGACTTAATAAAAAACGTTG
*
46143 AATAGTTCAATGA
1 AATAATTCAATGA
46156 TCAAATTGTA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (30 bp):
AATAATTCAATGACTTAATAAAAAACGTTG
Found at i:46258 original size:12 final size:11
Alignment explanation
Indices: 46225--46270 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
46215 TAAAATATTC
*
46225 TTATATTAATT
1 TTATAATAATT
46236 TTATAATAATT
1 TTATAATAATT
*
46247 TATATTATAATT
1 T-TATAATAATT
46259 TTATAAT-ATT
1 TTATAATAATT
46269 TT
1 TT
46271 CATATCTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 5 0.16
11 16 0.52
12 10 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATAATAATT
Found at i:46261 original size:23 final size:24
Alignment explanation
Indices: 46231--46275 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
46221 ATTCTTATAT
46231 TAATTTTATAATAATTT-ATATTA
1 TAATTTTATAATAATTTCATATTA
*
46254 TAATTTTATAATATTTTCATAT
1 TAATTTTATAATAATTTCATAT
46276 CTTTCAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATTTTATAATAATTTCATATTA
Found at i:46467 original size:39 final size:39
Alignment explanation
Indices: 46413--46491 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
46403 AAGTTGGGTG
46413 TGAAACACGCTTGTTCATAGGTCAGGCTACCAACCCATA
1 TGAAACACGCTTGTTCATAGGTCAGGCTACCAACCCATA
*
46452 TGAAACACGCTTGTTCATAGGTCAGGTTACCAACCCATA
1 TGAAACACGCTTGTTCATAGGTCAGGCTACCAACCCATA
46491 T
1 T
46492 TTAAAGGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (39 bp):
TGAAACACGCTTGTTCATAGGTCAGGCTACCAACCCATA
Found at i:46878 original size:8 final size:8
Alignment explanation
Indices: 46865--46893 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
46855 AATAAATAAA
46865 AAATTATT
1 AAATTATT
46873 AAATTATT
1 AAATTATT
46881 AAA-TATT
1 AAATTATT
46888 AAATTA
1 AAATTA
46894 ACATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAATTATT
Found at i:51864 original size:40 final size:40
Alignment explanation
Indices: 51709--51865 Score: 176
Period size: 40 Copynumber: 4.0 Consensus size: 40
51699 AATGTGATAC
* * *
51709 GATTCAAGCTACGGCTTAGCAAGCTTTAAGTTGGTGAGAT
1 GATTCAAGCTACGGCTTAGCAGGCTTTAAGTCGGTGAAAT
* * * *
51749 GATTCAAGCTATGGCTTAGCAGGCTTTTAGCCGATGAAAT
1 GATTCAAGCTACGGCTTAGCAGGCTTTAAGTCGGTGAAAT
*
51789 CATTCAAGCT-CGGCTTAGCAGG-TTTCAAG-CAGGTGAAAT
1 GATTCAAGCTACGGCTTAGCAGGCTTT-AAGTC-GGTGAAAT
* * *
51828 GATTCAAGCTACGACTTAGCAGGCTATGAGTCGGTGAA
1 GATTCAAGCTACGGCTTAGCAGGCTTTAAGTCGGTGAA
51866 GTGGTAAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.04
39 29 0.30
40 61 0.63
41 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (40 bp):
GATTCAAGCTACGGCTTAGCAGGCTTTAAGTCGGTGAAAT
Found at i:52384 original size:108 final size:108
Alignment explanation
Indices: 52195--52409 Score: 412
Period size: 108 Copynumber: 2.0 Consensus size: 108
52185 GATAATAATT
52195 GTAGATCGGACGGCTTGGAAGATCACACTATCAACCCCTTTTTGGTAGCCTTTGTTCCTCATGTT
1 GTAGATCGGACGGCTTGGAAGATCACACTATCAACCCCTTTTTGGTAGCCTTTGTTCCTCATGTT
52260 TTGGTTATAAGTGACATGTCATAGGACTTTTGGTCAAAATGTC
66 TTGGTTATAAGTGACATGTCATAGGACTTTTGGTCAAAATGTC
* *
52303 GTAGATTGGATGGCTTGGAAGATCACACTATCAACCCCTTTTTGGTAGCCTTTGTTCCTCATGTT
1 GTAGATCGGACGGCTTGGAAGATCACACTATCAACCCCTTTTTGGTAGCCTTTGTTCCTCATGTT
52368 TTGGTTATAAGTGACATGTCATAGGACTTTTGGTCAAAATGT
66 TTGGTTATAAGTGACATGTCATAGGACTTTTGGTCAAAATGT
52410 TTAGTTAGGG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (108 bp):
GTAGATCGGACGGCTTGGAAGATCACACTATCAACCCCTTTTTGGTAGCCTTTGTTCCTCATGTT
TTGGTTATAAGTGACATGTCATAGGACTTTTGGTCAAAATGTC
Found at i:54834 original size:74 final size:74
Alignment explanation
Indices: 54712--54856 Score: 263
Period size: 74 Copynumber: 2.0 Consensus size: 74
54702 ACTAGACTTT
*
54712 GGCATATGTGTCTAGGGCATATGAGTGAAAATGGCATGACATAATTGAGTAAAAGAGGACTTCTT
1 GGCATATGTGTCTAGGGCATATGAGTGAAAATGGCATGACAGAATTGAGTAAAAGAGGACTTCTT
54777 GATGGGTTA
66 GATGGGTTA
* *
54786 GGCATATGTGTCTAGGGCATATGAGTGAAAATGGCATGTCAGAGTTGAGTAAAAGAGGACTTCTT
1 GGCATATGTGTCTAGGGCATATGAGTGAAAATGGCATGACAGAATTGAGTAAAAGAGGACTTCTT
54851 GATGGG
66 GATGGG
54857 CAAGGCATTA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.28
Consensus pattern (74 bp):
GGCATATGTGTCTAGGGCATATGAGTGAAAATGGCATGACAGAATTGAGTAAAAGAGGACTTCTT
GATGGGTTA
Found at i:56181 original size:17 final size:17
Alignment explanation
Indices: 56146--56184 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56136 AGTTGGAGAA
* *
56146 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
*
56163 CTTGTTCGTAGATAATT
1 CTTGTTCGTAGAGAATT
56180 CTTGT
1 CTTGT
56185 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:60774 original size:17 final size:17
Alignment explanation
Indices: 60752--60784 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60742 TTTGAAAGCA
60752 TAAAATA-AAAGATAAAC
1 TAAAATAGAAA-ATAAAC
60769 TAAAATAGAAAATAAA
1 TAAAATAGAAAATAAA
60785 AGCGAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAATAGAAAATAAAC
Found at i:63722 original size:24 final size:23
Alignment explanation
Indices: 63685--63754 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
63675 CTTCTCACAC
63685 TTTTTCTTAC-CATTTTCTTTTTG
1 TTTTT-TTACTCATTTTCTTTTTG
*
63708 TATTTTTTACTCATTTTCATTTTG
1 T-TTTTTTACTCATTTTCTTTTTG
* *
63732 TTCTTTTCACTTATTTTTCTTTT
1 TT-TTTTTACTCA-TTTTCTTTT
63755 CTTTGGCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.15
24 25 0.64
25 8 0.21
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.70
Consensus pattern (23 bp):
TTTTTTTACTCATTTTCTTTTTG
Found at i:64305 original size:105 final size:105
Alignment explanation
Indices: 64123--64336 Score: 401
Period size: 105 Copynumber: 2.0 Consensus size: 105
64113 GCTTGTTTCC
*
64123 TCATATTATGCATATCATGTGGTATCAATAAAGCTTTTTCTATCTATATATAGTGTAACATATAG
1 TCATATTATGCATATCATGTGGTATCAATAAAGCTTTTTCTATCTATATATAGTGTAACATATAA
* *
64188 AACTTCAAAATTCTCATGCTAAAAAATGTAAAATTCCTCA
66 AACTTCAAAATTCTCATGCTAAAAAACGCAAAATTCCTCA
64228 TCATATTATGCATATCATGTGGTATCAATAAAGCTTTTTCTATCTATATATAGTGTAACATATAA
1 TCATATTATGCATATCATGTGGTATCAATAAAGCTTTTTCTATCTATATATAGTGTAACATATAA
64293 AACTTCAAAATTCTCATGCTAAAAAACGCAAAATTCCTCA
66 AACTTCAAAATTCTCATGCTAAAAAACGCAAAATTCCTCA
64333 TCAT
1 TCAT
64337 CATGCCAAAT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (105 bp):
TCATATTATGCATATCATGTGGTATCAATAAAGCTTTTTCTATCTATATATAGTGTAACATATAA
AACTTCAAAATTCTCATGCTAAAAAACGCAAAATTCCTCA
Found at i:74892 original size:17 final size:17
Alignment explanation
Indices: 74870--74902 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
74860 TTTGAAAGCA
74870 TAAAATAAAAAATAAAC
1 TAAAATAAAAAATAAAC
*
74887 TAAAATAGAAAATAAA
1 TAAAATAAAAAATAAA
74903 AGCGAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAATAAAAAATAAAC
Found at i:78612 original size:31 final size:31
Alignment explanation
Indices: 78577--78644 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
78567 CACACTTTAG
*
78577 AAAATACATTGTTCCTAATGTGTAGTCCCCT
1 AAAATACATTGTCCCTAATGTGTAGTCCCCT
78608 AAAATACATTGTCCCTAATGTGTAGTCCCCT
1 AAAATACATTGTCCCTAATGTGTAGTCCCCT
78639 AAAATA
1 AAAATA
78645 AAGGAGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (31 bp):
AAAATACATTGTCCCTAATGTGTAGTCCCCT
Found at i:85746 original size:16 final size:16
Alignment explanation
Indices: 85713--85743 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
85703 TATCCTGAAT
85713 TTCCCACTCTTTGTAA
1 TTCCCACTCTTTGTAA
85729 TTCCCA-TCTTTGTAA
1 TTCCCACTCTTTGTAA
85744 ATTTCGACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (16 bp):
TTCCCACTCTTTGTAA
Found at i:91907 original size:14 final size:15
Alignment explanation
Indices: 91883--91913 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
91873 GAATTATGTG
91883 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
91898 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
91912 AA
1 AA
91914 TAGAGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:93224 original size:209 final size:209
Alignment explanation
Indices: 92845--93469 Score: 880
Period size: 209 Copynumber: 3.0 Consensus size: 209
92835 TGTGGTCTCA
* ** * *
92845 TGCACACTCACCAAGTATGTTAGCTAACCTTTAGTCATT-ATTTGGCCTTAAAGATAACT-AAAT
1 TGCACACTCACCAAATACATTAGCTAACCTTTAGTC-TTGATTTGGCCTTAAAGACAAATAAAAT
* *
92908 CATCATTTTGACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAA
65 GA-CATTTTAACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAA
92973 ACATAATGAAAATACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAATCTGCTAGGTATA
129 ACATAATGAAAATACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAATCTGCTAGGTATA
* *
93038 AAATCGACAGATCACT
194 AAATCGACAAATCACC
* * *
93054 TGCGCACTTACCAAATACATTAGCTAACCTTTAATCTTGATTTGGCCTTAAAGACAAATAAAATG
1 TGCACACTCACCAAATACATTAGCTAACCTTTAGTCTTGATTTGGCCTTAAAGACAAATAAAATG
93119 ACATTTTAACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAAAC
66 ACATTTTAACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAAAC
*
93184 ATAATGAAATTACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAATCTGCTAGGTATAAA
131 ATAATGAAAATACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAATCTGCTAGGTATAAA
* *
93249 ATTGACAAATGACC
196 ATCGACAAATCACC
* * **
93263 TGCACACTCACCAAATATATTAGCTAACCTTTAGTCCTGATTTGGTGTTAAAGACAAATAAAATG
1 TGCACACTCACCAAATACATTAGCTAACCTTTAGTCTTGATTTGGCCTTAAAGACAAATAAAATG
* * * * * *
93328 ACGTTTCAACACTTAGGTTACACAATTTATTCAAATAAGAAATCTAAACTAAATCCTGTGAAAAC
66 ACATTTTAACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAAAC
** * ** * * * *
93393 ATAACAAAAATAGTTGATTCCAAGCTCTTCAAATGTGAAAAATAGTTCAAGT-TGCTACGTATGA
131 ATAATGAAAATACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAA-TCTGCTAGGTATAA
93457 AA-CTGACAAATCA
195 AATC-GACAAATCA
93470 AGTATGTAGA
Statistics
Matches: 372, Mismatches: 40, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
208 2 0.01
209 364 0.98
210 6 0.02
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (209 bp):
TGCACACTCACCAAATACATTAGCTAACCTTTAGTCTTGATTTGGCCTTAAAGACAAATAAAATG
ACATTTTAACACTTAGGTTACACAATTTATTTAAATAAGAAATCTAAACTAAATCTTATTAAAAC
ATAATGAAAATACTTGATTTAAAGCTCTTCAAGTGTGAAAATTAGTTCAATCTGCTAGGTATAAA
ATCGACAAATCACC
Found at i:97464 original size:17 final size:18
Alignment explanation
Indices: 97439--97473 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97429 ACTTTTGTTT
*
97439 TTATTTTTTATT-TTATG
1 TTATCTTTTATTCTTATG
97456 TTATCTTTTATTCTTATG
1 TTATCTTTTATTCTTATG
97474 CTCTCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATCTTTTATTCTTATG
Found at i:113797 original size:38 final size:38
Alignment explanation
Indices: 113754--113830 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
113744 TAGTAAATTA
113754 AATCCCTGTAAAGAGTAAAATTAATTAGAAATTATTTT
1 AATCCCTGTAAAGAGTAAAATTAATTAGAAATTATTTT
113792 AATCCCTGTAAAGAGTAAAATTAATTAGAAATTATTTT
1 AATCCCTGTAAAGAGTAAAATTAATTAGAAATTATTTT
113830 A
1 A
113831 TGGTTTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (38 bp):
AATCCCTGTAAAGAGTAAAATTAATTAGAAATTATTTT
Found at i:116512 original size:9 final size:9
Alignment explanation
Indices: 116498--116523 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
116488 TGCTAAAAGG
116498 TGACTTTAT
1 TGACTTTAT
116507 TGACTTTAT
1 TGACTTTAT
116516 TGACTTTA
1 TGACTTTA
116524 AGGTCGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (9 bp):
TGACTTTAT
Found at i:119161 original size:18 final size:18
Alignment explanation
Indices: 119135--119193 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
119125 ACCATATAAT
119135 ATGCAATCACATG-ACCAG
1 ATGCAATCACA-GAACCAG
*
119153 ATGCGATCACAGAACCAG
1 ATGCAATCACAGAACCAG
* * *
119171 ATGCAATCATATAACCAA
1 ATGCAATCACAGAACCAG
119189 ATGCA
1 ATGCA
119194 TCCACAAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.17
Consensus pattern (18 bp):
ATGCAATCACAGAACCAG
Found at i:123611 original size:20 final size:18
Alignment explanation
Indices: 123564--123670 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 18
123554 CAAGATAAAA
123564 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
123581 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
123601 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
123620 ATTAAAATAAGT-TTTAA-
1 ATTAAATTAA-TATTTAAT
*
123637 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
123657 ATTAAAATAATATT
1 ATTAAATTAATATT
123671 ATTTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 10 0.14
19 21 0.30
20 23 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:123636 original size:37 final size:37
Alignment explanation
Indices: 123595--123666 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
123585 AGATAATCAC
123595 TTTAATATTAAA-TTAATA-AAATACTATTAAAATAAGT
1 TTTAA-ATTAAATTTAATATAAA-ACTATTAAAATAAGT
*
123632 TTTAAATTAAATTTAATATTAAACTATTAAAATAA
1 TTTAAATTAAATTTAATATAAAACTATTAAAATAA
123667 TATTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 6 0.19
37 24 0.75
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (37 bp):
TTTAAATTAAATTTAATATAAAACTATTAAAATAAGT
Found at i:128231 original size:7 final size:7
Alignment explanation
Indices: 128219--128250 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
128209 TAAGTTGGTA
128219 TGAAGTG
1 TGAAGTG
128226 TGAAGTG
1 TGAAGTG
128233 TGAAGTG
1 TGAAGTG
128240 TGAAGTG
1 TGAAGTG
128247 TGAA
1 TGAA
128251 CTGGGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (7 bp):
TGAAGTG
Found at i:128728 original size:18 final size:18
Alignment explanation
Indices: 128705--128741 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
128695 CCGTACATGT
128705 ACGTTTTATTTCATTTTA
1 ACGTTTTATTTCATTTTA
128723 ACGTTTTATTTCATTTTA
1 ACGTTTTATTTCATTTTA
128741 A
1 A
128742 GTTATATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.59
Consensus pattern (18 bp):
ACGTTTTATTTCATTTTA
Found at i:140910 original size:12 final size:12
Alignment explanation
Indices: 140887--140916 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
140877 CCTAACTCTA
140887 TTTGAA-TTTTT
1 TTTGAATTTTTT
140898 TTTGAATTTTTT
1 TTTGAATTTTTT
140910 TTTGAAT
1 TTTGAAT
140917 CGAGTCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (12 bp):
TTTGAATTTTTT
Found at i:141238 original size:18 final size:19
Alignment explanation
Indices: 141217--141255 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
141207 ATATTCAAAT
*
141217 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
141235 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
141254 TT
1 TT
141256 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:144476 original size:58 final size:57
Alignment explanation
Indices: 144365--144504 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 57
144355 TTTTTGGATG
* * * ***
144365 CTCGGGGGTAAAATGGTAATTTTTAGAGATTCGAAGGTAAAACAATAAATTTTGGTCA
1 CTCGGGGGCAAAAT-GTAATTTTTAGACATTCGAAGGTAAAACAAGAAATTTTGAAAA
* *** *
144423 CTCGGGGGCGAAAATGTAATTTTTAGACATTCGAGGGTAAAATGGGAATTTTTGAAAA
1 CTCGGGGGC-AAAATGTAATTTTTAGACATTCGAAGGTAAAACAAGAAATTTTGAAAA
*
144481 CTCGGGGGCAAAATTTTAATTTTT
1 CTCGGGGGCAAAA-TGTAATTTTT
144505 GATCCAAGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 59 0.87
59 5 0.07
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (57 bp):
CTCGGGGGCAAAATGTAATTTTTAGACATTCGAAGGTAAAACAAGAAATTTTGAAAA
Found at i:144493 original size:29 final size:28
Alignment explanation
Indices: 144422--144494 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
144412 AATTTTGGTC
* *
144422 ACTCGGGGGCGAAAATGTAATTTTTAGAC
1 ACTCGGGGGC-AAAATGGAATTTTTAGAA
* * *
144451 ATTCGAGGGTAAAATGGGAATTTTT-GAAA
1 ACTCGGGGGCAAAAT-GGAATTTTTAG-AA
144480 ACTCGGGGGCAAAAT
1 ACTCGGGGGCAAAAT
144495 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (28 bp):
ACTCGGGGGCAAAATGGAATTTTTAGAA
Found at i:144549 original size:55 final size:54
Alignment explanation
Indices: 144456--144559 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 54
144446 TAGACATTCG
* *
144456 AGGGTAAAATGGGAATTTTTGAAAACTCGGGGGCAAAATTTTAATTTTTGATCCA
1 AGGGTAAAATGGGAATTTTTGAAAACTCGGGGG-AAAAATATAATTTTTGATCCA
* * * *
144511 AGGGTTAAATGGTAATTTTTGGAAACAT-GGGGTAAAAATATAATTTTTG
1 AGGGTAAAATGGGAATTTTTGAAAAC-TCGGGGGAAAAATATAATTTTTG
144560 GACATCCGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
54 14 0.33
55 27 0.64
56 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (54 bp):
AGGGTAAAATGGGAATTTTTGAAAACTCGGGGGAAAAATATAATTTTTGATCCA
Found at i:144629 original size:30 final size:30
Alignment explanation
Indices: 144572--144774 Score: 198
Period size: 30 Copynumber: 6.8 Consensus size: 30
144562 CATCCGGGCG
* * *
144572 TAAAATGTGATTTTTG-GAAGTTCAAGGGT
1 TAAAATGTAATTTTTGAAAAGTTTAAGGGT
* * *
144601 AAAAATGCAATTTTGGAAAAGTTTAAGGGT
1 TAAAATGTAATTTTTGAAAAGTTTAAGGGT
* * *
144631 TAAAATTTAATTTTTGATAAG-TTCAGGCGT
1 TAAAATGTAATTTTTGAAAAGTTTAAGG-GT
*
144661 TAAAATGTAATTTTTGAAAAGTTT-AGGTT
1 TAAAATGTAATTTTTGAAAAGTTTAAGGGT
* * *
144690 TAAAATATAATTTTTGAGAAGTTTAGGGGT
1 TAAAATGTAATTTTTGAAAAGTTTAAGGGT
**
144720 TAAAATGTAATTTTTGAAAAGTTCGAGGGT
1 TAAAATGTAATTTTTGAAAAGTTTAAGGGT
* **
144750 CAAAATACAATTTTT-AGAAAGTTTA
1 TAAAATGTAATTTTTGA-AAAGTTTA
144775 GGGACCTTCT
Statistics
Matches: 140, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
29 41 0.29
30 97 0.69
31 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (30 bp):
TAAAATGTAATTTTTGAAAAGTTTAAGGGT
Found at i:144675 original size:89 final size:88
Alignment explanation
Indices: 144568--144777 Score: 219
Period size: 89 Copynumber: 2.4 Consensus size: 88
144558 TGGACATCCG
* * *
144568 GGCGTAAAATGTGATTTTTG-GAAGTTCAAGGGTAAAAATGCAATTTTGGAAAAGTTTAAGGGTT
1 GGCGTAAAATGTAATTTTTGAAAAGTT-AAGGGTAAAAATACAATTTTGGAAAAGTTTAAGGGTT
* *
144632 AAAATTTAATTTTTGATAAGTTCA
65 AAAATGTAATTTTTGAAAAGTTCA
* * * * * * *
144656 GGCGTTAAAATGTAATTTTTGAAAAGTTTAGGTTTAAAATATAATTTTTGAGAAGTTTAGGGGTT
1 GGCG-TAAAATGTAATTTTTGAAAAGTTAAGGGTAAAAATACAATTTTGGAAAAGTTTAAGGGTT
144721 AAAATGTAATTTTTGAAAAGTTCGA
65 AAAATGTAATTTTTGAAAAGTTC-A
** *
144746 GG-GTCAAAATACAATTTTT-AGAAAGTTTAGGG
1 GGCGT-AAAATGTAATTTTTGA-AAAGTTAAGGG
144778 ACCTTCTGCA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 6 0.06
89 88 0.86
90 8 0.08
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (88 bp):
GGCGTAAAATGTAATTTTTGAAAAGTTAAGGGTAAAAATACAATTTTGGAAAAGTTTAAGGGTTA
AAATGTAATTTTTGAAAAGTTCA
Found at i:144694 original size:59 final size:59
Alignment explanation
Indices: 144572--144777 Score: 229
Period size: 59 Copynumber: 3.5 Consensus size: 59
144562 CATCCGGGCG
* * * * *
144572 TAAAATGTGATTTTTG-GAAGTTCAAGGGTAAAAATGCAATTTTGGAAAAGTTTAAGGGT
1 TAAAATATAATTTTTGAGAAGTTC-AGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGT
* * *
144631 TAAAATTTAATTTTTGATAAGTTCAGGCGTTAAAATGTAATTTTTGAAAAGTTT-AGGTT
1 TAAAATATAATTTTTGAGAAGTTCAGG-GTTAAAATGTAATTTTTGAAAAGTTTAAGGGT
* **
144690 TAAAATATAATTTTTGAGAAGTTTAGGGGTTAAAATGTAATTTTTGAAAAGTTCGAGGGT
1 TAAAATATAATTTTTGAGAAGTTCA-GGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGT
* * *
144750 CAAAATACAATTTTT-AGAAAGTTTAGGG
1 TAAAATATAATTTTTGAG-AAGTTCAGGG
144778 ACCTTCTGCA
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
59 73 0.57
60 55 0.43
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (59 bp):
TAAAATATAATTTTTGAGAAGTTCAGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGT
Found at i:146544 original size:17 final size:17
Alignment explanation
Indices: 146512--146585 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
146502 TATTTGGACT
146512 TTTAAACCTAAA-TTAAA
1 TTTAAA-CTAAATTTAAA
*
146529 TTTAGACTAAATTTAAA
1 TTTAAACTAAATTTAAA
*
146546 TTTAAAATAAATTTAAA
1 TTTAAACTAAATTTAAA
* *
146563 CTTAAACTTAAA-ATAAA
1 TTTAAAC-TAAATTTAAA
146580 TTTAAA
1 TTTAAA
146586 AATTGGGCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
16 5 0.10
17 39 0.81
18 4 0.08
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (17 bp):
TTTAAACTAAATTTAAA
Found at i:146547 original size:6 final size:6
Alignment explanation
Indices: 146536--146585 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
146526 AAATTTAGAC
* * * *
146536 TAAATT TAAATT TAAA-A TAAATT TAAACT TAAACT TAAA-A TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
146582 TAAA
1 TAAA
146586 AATTGGGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 8 0.22
6 29 0.78
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:146556 original size:11 final size:11
Alignment explanation
Indices: 146542--146586 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
146532 AGACTAAATT
146542 TAAATTTAAAA
1 TAAATTTAAAA
*
146553 TAAATTTAAACT
1 TAAATTTAAA-A
*
146565 TAAACTTAAAA
1 TAAATTTAAAA
146576 TAAATTTAAAA
1 TAAATTTAAAA
146587 ATTGGGCTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:146562 original size:23 final size:23
Alignment explanation
Indices: 146536--146585 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
146526 AAATTTAGAC
* *
146536 TAAATTTAAATTTAAAATAAATT
1 TAAACTTAAACTTAAAATAAATT
146559 TAAACTTAAACTTAAAATAAATT
1 TAAACTTAAACTTAAAATAAATT
146582 TAAA
1 TAAA
146586 AATTGGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAACTTAAACTTAAAATAAATT
Found at i:147328 original size:209 final size:208
Alignment explanation
Indices: 146962--147959 Score: 1476
Period size: 209 Copynumber: 4.8 Consensus size: 208
146952 TTTCATCTCT
* * * * *
146962 TGGTTTACTTCTCTGTATCTCATCAAGAAGATAATCGCTTTATTACTTCGACCTGATTCTCAGTA
1 TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTA
* *
147027 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGTCTAGTTTCATTGATTTGGTCTA
66 TCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTA
* * * * * *
147092 CTTCCCAGTATGTCATCGGGAAGATGACCGCGTCACTTATTTTGATCCACTTCTCTGTGTCTCAT
130 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCAT
147157 C-AGAAAGACGGATC
195 CAAG-AAGACGGATC
* * *
147171 CGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCAGTA
1 TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTA
* * *
147236 TCTCATCAGGAAGCTGGGATTCGAAGACTTGCTCACTTTGAACCTGGTTTCATTTATTTGGTCTA
66 TCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTA
147301 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCAT
130 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCAT
*
147366 CAGGAAGACGGATC
195 CAAGAAGACGGATC
* * * **
147380 TGGTTCATTTCTCTATATCTCATCAGGAAGGTAATCGCTTTTATTACTTCGATTTGCTTCTCAGT
1 TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGC-TTTATTACTTCGACCTGCTTCTCAGT
* *
147445 ATCTCGTCAGGAAGCTGGGGTTCGAAGATTTACTCACTTTGAGCCTGGTTTCATTGATTTGGTCT
65 ATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCT
* *
147510 ACTTCTCAGTATCTCATCAGGAAGATGACCGCATTACTTGTTTTGATCTACTTCTCTATGTCTCA
129 ACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCA
*
147575 TCAAGAAGACAGATC
194 TCAAGAAGACGGATC
* * * *
147590 TGGTTCACTTCTCTGTATCTCATTAGGAAGGTAACCACTTTATTACTTCGACCTACTTTTCAGTA
1 TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTA
*
147655 TCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTA
66 TCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTA
* *
147720 CTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
130 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCAT
147785 CAAGAAGACGGATC
195 CAAGAAGACGGATC
* * * * *
147799 TAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGTTTCTCAATA
1 TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTA
* * * * *
147864 TCTCATCATGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTTGTTTCATTGAGTTGGTATA
66 TCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTA
* * *
147929 CTTTTCTGTATCTCCTCAGGAAGATGACCGC
130 CTTCTCAGTATCTCATCAGGAAGATGACCGC
147960 CTCGTTGTTT
Statistics
Matches: 711, Mismatches: 74, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
208 3 0.00
209 517 0.73
210 188 0.26
211 3 0.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (208 bp):
TGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTA
TCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTAC
TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGTCTCATC
AAGAAGACGGATC
Found at i:147783 original size:419 final size:418
Alignment explanation
Indices: 146968--147959 Score: 1511
Period size: 419 Copynumber: 2.4 Consensus size: 418
146958 CTCTTGGTTT
* *
146968 ACTTCTCTGTATCTCATCAAGAAGATAATCGCTTTATTACTTCGACCTGATTCTCAGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTACTTCGACCTGATTCTCAGTATCTCAT
* *
147033 CAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGTCTAGTTTCATTGATTTGGTCTACTTCCC
66 CAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTCATTGATTTGGTCTACTTCTC
* * * *
147098 AGTATGTCATCGGGAAGATGACCGCGTCACTTATTTTGATCCACTTCTCTGTGTCTCATCAGAAA
131 AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTCTATGTCTCATCAGAAA
* * * * *
147163 GACGGATCCGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCT
196 GACAGATCCGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTACT
*
147228 TCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGACTTGCTCACTTTGAACCTGGTTTCATTTAT
261 TCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGACTTGCTCACTTTGAACCTGGTTTCATTGAT
147293 TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTA
326 TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTA
* *
147358 TGTCTCATCAGGAAGACGGATCTGGTTC
391 TGTCTCATCAAGAAGACGGATCTAGTTC
* * ** * *
147386 ATTTCTCTATATCTCATCAGGAAGGTAATCGCTTTTATTACTTCGATTTGCTTCTCAGTATCTCG
1 ACTTCTCTGTATCTCATCAGGAAGGTAATCGC-TTTATTACTTCGACCTGATTCTCAGTATCTCA
* * *
147451 TCAGGAAGCTGGGGTTCGAAGATTTACTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCT
65 TCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTCATTGATTTGGTCTACTTCT
* * *
147516 CAGTATCTCATCAGGAAGATGACCGCATTACTTGTTTTGATCTACTTCTCTATGTCTCATCA-AG
130 CAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTCTATGTCTCATCAGA-
* *
147580 AAGACAGATCTGGTTCACTTCTCTGTATCTCATTAGGAAGGTAACCACTTTATTACTTCGACCTA
194 AAGACAGATCCGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTA
* * * * *
147645 CTTTTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTG
259 CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGACTTGCTCACTTTGAACCTGGTTTCATTG
*
147710 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTGTTTTGATCCACTTCTC
324 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTC
*
147775 TGTGTCTCATCAAGAAGACGGATCTAGTTC
389 TATGTCTCATCAAGAAGACGGATCTAGTTC
* * *
147805 ACTTCTCTGTATCTCATCAGGAAGGTAA-CTGCTTTATTGCTTCGACCTGTTTCTCAATATCTCA
1 ACTTCTCTGTATCTCATCAGGAAGGTAATC-GCTTTATTACTTCGACCTGATTCTCAGTATCTCA
* * * * * *
147869 TCATGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTTGTTTCATTGAGTTGGTATACTTTT
65 TCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTCATTGATTTGGTCTACTTCT
* *
147934 CTGTATCTCCTCAGGAAGATGACCGC
130 CAGTATCTCATCAGGAAGATGACCGC
147960 CTCGTTGTTT
Statistics
Matches: 516, Mismatches: 55, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
418 137 0.27
419 379 0.73
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (418 bp):
ACTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTACTTCGACCTGATTCTCAGTATCTCAT
CAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTAGTTTCATTGATTTGGTCTACTTCTC
AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTCTATGTCTCATCAGAAA
GACAGATCCGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTCGACCTACT
TCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGACTTGCTCACTTTGAACCTGGTTTCATTGAT
TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTA
TGTCTCATCAAGAAGACGGATCTAGTTC
Found at i:150122 original size:3 final size:3
Alignment explanation
Indices: 150114--150151 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
150104 ATCCCTTTCC
* *
150114 TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT GCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
150152 GATATCACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:151165 original size:25 final size:25
Alignment explanation
Indices: 151131--151181 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
151121 TTTGACCTTA
151131 AAATTCTATTAGAACATTGTATTTG
1 AAATTCTATTAGAACATTGTATTTG
151156 AAATTCTATTAGAACATTGTATTTG
1 AAATTCTATTAGAACATTGTATTTG
151181 A
1 A
151182 CACTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (25 bp):
AAATTCTATTAGAACATTGTATTTG
Found at i:151645 original size:19 final size:18
Alignment explanation
Indices: 151623--151660 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
151613 ATACAAAATG
151623 ATAATAAAACAATAAAAAA
1 ATAAT-AAACAATAAAAAA
*
151642 ATAATAAATAATAAAAAA
1 ATAATAAACAATAAAAAA
151660 A
1 A
151661 CTATAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
ATAATAAACAATAAAAAA
Found at i:159201 original size:31 final size:31
Alignment explanation
Indices: 159161--159220 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
159151 AATTCATTAT
* *
159161 AACCTTATTT-TTGTTATCATAGCTTTTAAGA
1 AACCCTATTTATT-TTATCATAGATTTTAAGA
159192 AACCCTATTTAATTTTATCATAGATTTTA
1 AACCCTATTT-ATTTTATCATAGATTTTA
159221 CTCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.36
32 14 0.56
33 2 0.08
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (31 bp):
AACCCTATTTATTTTATCATAGATTTTAAGA
Found at i:165621 original size:27 final size:27
Alignment explanation
Indices: 165591--165644 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
165581 TTATGACAAT
**
165591 TAAAACAAATTGG-AAAAAAAATAAAAA
1 TAAAACAAAAAGGTAAAAAAAA-AAAAA
*
165618 TAAACCAAAAAGGTAAAAAAAAAAAAA
1 TAAAACAAAAAGGTAAAAAAAAAAAAA
165645 GTACAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (27 bp):
TAAAACAAAAAGGTAAAAAAAAAAAAA
Found at i:165652 original size:24 final size:23
Alignment explanation
Indices: 165631--165675 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
165621 ACCAAAAAGG
165631 TAAAAAAAAAAAAAGTACAAAACA
1 TAAAAAAAAAAAAAGTA-AAAACA
* *
165655 TTAAACAAAAAAAAGTAAAAA
1 TAAAAAAAAAAAAAGTAAAAA
165676 TTAATACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (23 bp):
TAAAAAAAAAAAAAGTAAAAACA
Found at i:165860 original size:16 final size:16
Alignment explanation
Indices: 165830--165869 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
165820 CAAATGCAGC
165830 ATTAGAAAATATAATT
1 ATTAGAAAATATAATT
165846 ATTAGTAAAAT-TAATT
1 ATTAG-AAAATATAATT
165862 ATATAGAA
1 AT-TAGAA
165870 TAACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTAGAAAATATAATT
Found at i:173051 original size:18 final size:18
Alignment explanation
Indices: 173028--173064 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
173018 ACAATTCATA
173028 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
173046 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
173064 T
1 T
173065 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:173395 original size:17 final size:18
Alignment explanation
Indices: 173363--173396 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
173353 AATTTTTATC
173363 CAATTTATACCCTAATTT
1 CAATTTATACCCTAATTT
*
173381 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
173397 AACTCATTTA
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:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATACCCTAATTT
Found at i:176319 original size:24 final size:21
Alignment explanation
Indices: 176281--176339 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
176271 TTAGACCCGC
176281 TTATATTATTTTTTAA-AATAT
1 TTATATTATTTTTTAATAAT-T
176302 TTATATTATTAATATTTAATAATT
1 TTATATTATT--T-TTTAATAATT
*
176326 TTATA-CATTTTTTA
1 TTATATTATTTTTTA
176340 TTTATTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
23 4 0.12
24 11 0.33
25 3 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATATTATTTTTTAATAATT
Found at i:180110 original size:19 final size:19
Alignment explanation
Indices: 180086--180126 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
180076 ATTTTTAGAG
* *
180086 ATTCTAATTAGGAGATATT
1 ATTCTAACTAAGAGATATT
*
180105 ATTCTAACTAAGATATATT
1 ATTCTAACTAAGAGATATT
180124 ATT
1 ATT
180127 TTCTTAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTCTAACTAAGAGATATT
Found at i:184705 original size:19 final size:19
Alignment explanation
Indices: 184681--184721 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
184671 GGTGCCTGAG
*
184681 ATTCTAATTAGGAGATATT
1 ATTCTAATTAAGAGATATT
184700 ATTCTAATTAAGAGATATT
1 ATTCTAATTAAGAGATATT
184719 ATT
1 ATT
184722 TCCTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
ATTCTAATTAAGAGATATT
Found at i:192771 original size:233 final size:234
Alignment explanation
Indices: 192359--192828 Score: 915
Period size: 233 Copynumber: 2.0 Consensus size: 234
192349 TGCAGGGGAG
192359 ATAAATGAATAAATTGGATGCAGGTAATGTCAAAAAGACTAAGTATAGAAATTCTAGTTTCAAAC
1 ATAAATGAATAAATTGGATGCAGGTAATGTCAAAAAGACTAAGTATAGAAATTCTAGTTTCAAAC
192424 TGAATTAGAAAAAAACTAATAAATAAGATCCAGAGTTTTCACCAAACACTAAAACTAACTATGAA
66 TGAATTAGAAAAAAACTAATAAATAAGATCCAGAGTTTTCACCAAACACTAAAACTAACTATGAA
*
192489 GCTGTCAAAGTAAAGGAGATACCTCAGCTCAGTTTTAGAATGTGCTATGTCGGATTGAACAGAAA
131 GCTGTCAAAGTAAAGGAGATACCTCAGCTCAGTTTTAGAATGCGCTATGTCGGATTGAACAGAAA
192554 CATGAGGAACTGTGATCAACTGACTCTCATCTATGCTAT
196 CATGAGGAACTGTGATCAACTGACTCTCATCTATGCTAT
192593 ATAAATGAATAAATTGGATGCAGGTAATGTCAAAAAGACTAAGTATAGAAATTCTAGTTTCAAAC
1 ATAAATGAATAAATTGGATGCAGGTAATGTCAAAAAGACTAAGTATAGAAATTCTAGTTTCAAAC
*
192658 TGAATTA-AAAAAAACTAATAAATAAGATCCAGAGTTTTCACCAAACACTCAAACTAACTATGAA
66 TGAATTAGAAAAAAACTAATAAATAAGATCCAGAGTTTTCACCAAACACTAAAACTAACTATGAA
192722 GCTGTCAAAGTAAAGGAGATACCTCAGCTCAGTTTTAGAATGCGCTATGTCGGATTGAACAGAAA
131 GCTGTCAAAGTAAAGGAGATACCTCAGCTCAGTTTTAGAATGCGCTATGTCGGATTGAACAGAAA
192787 CATGAGGAACTGTGATCAACTGACTCTCATCTATGCTAT
196 CATGAGGAACTGTGATCAACTGACTCTCATCTATGCTAT
192826 ATA
1 ATA
192829 TTGCATGACC
Statistics
Matches: 234, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
233 162 0.69
234 72 0.31
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (234 bp):
ATAAATGAATAAATTGGATGCAGGTAATGTCAAAAAGACTAAGTATAGAAATTCTAGTTTCAAAC
TGAATTAGAAAAAAACTAATAAATAAGATCCAGAGTTTTCACCAAACACTAAAACTAACTATGAA
GCTGTCAAAGTAAAGGAGATACCTCAGCTCAGTTTTAGAATGCGCTATGTCGGATTGAACAGAAA
CATGAGGAACTGTGATCAACTGACTCTCATCTATGCTAT
Found at i:196912 original size:21 final size:21
Alignment explanation
Indices: 196888--196928 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
196878 TAAAAAAAAA
*
196888 GATTGATTAAAACTA-AAATAT
1 GATTAATTAAAA-TATAAATAT
196909 GATTAATTAAAATATAAATA
1 GATTAATTAAAATATAAATA
196929 AGCTTTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
GATTAATTAAAATATAAATAT
Found at i:198756 original size:17 final size:17
Alignment explanation
Indices: 198736--198776 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
198726 TTCCTTGACT
*
198736 TTTAACCTTTCATCTTC
1 TTTAACCTTTCATATTC
*
198753 TTTAATCTTTCATATTC
1 TTTAACCTTTCATATTC
198770 TTGTAAC
1 TT-TAAC
198777 TATTTTTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAACCTTTCATATTC
Found at i:199112 original size:7 final size:7
Alignment explanation
Indices: 199064--199120 Score: 62
Period size: 7 Copynumber: 7.7 Consensus size: 7
199054 AAAATTTAAA
*
199064 TTTAAAT
1 TTTATAT
199071 TTTATAT
1 TTTATAT
199078 TTTATAT
1 TTTATAT
199085 TTTAATAT
1 TTT-ATAT
199093 AATTTAT-T
1 --TTTATAT
199101 TTTATAT
1 TTTATAT
199108 TTTATAAT
1 TTTAT-AT
199116 TTTAT
1 TTTAT
199121 TAATTACTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
6 5 0.11
7 22 0.50
8 12 0.27
9 2 0.05
10 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATAT
Found at i:199118 original size:15 final size:14
Alignment explanation
Indices: 199064--199120 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
199054 AAAATTTAAA
*
199064 TTTAAATTTTATAT
1 TTTATATTTTATAT
199078 TTTATATTTTAATAT
1 TTTATATTTT-ATAT
199093 AATTTAT-TTTTATAT
1 --TTTATATTTTATAT
199108 TTTATAATTTTAT
1 TTTAT-ATTTTAT
199121 TAATTACTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 5 0.14
14 9 0.24
15 14 0.38
16 4 0.11
17 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATATTTTATAT
Found at i:203942 original size:22 final size:22
Alignment explanation
Indices: 203903--203955 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
203893 CACAAATGAA
**
203903 CGGAGAGCACCGAGGTGCTAAT
1 CGGAGAGCACAAAGGTGCTAAT
*
203925 CGGAGAGCACAAATGTGCTAAT
1 CGGAGAGCACAAAGGTGCTAAT
**
203947 TAGAGAGCA
1 CGGAGAGCA
203956 TTACACATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.15
Consensus pattern (22 bp):
CGGAGAGCACAAAGGTGCTAAT
Found at i:209942 original size:71 final size:71
Alignment explanation
Indices: 209857--210010 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 71
209847 ACCGGAACTT
* * * * * *
209857 CTCAAGTCAATAGCCAAGATCTTCTTTCCCTTGAACATT-TA-TCGATACTTTGGT-GAGTTGTT
1 CTCAAGTCAGTAGCCAAGATATTCTCTCCCTTGAAC-TTCTACT-AATACCTT-ATAGAGTTGTT
*
209919 CCGAAATAA
63 CCGAAACAA
* *
209928 CTCAAGTCAGTAGCCAAGGTATTCTCTCCCTTGCACTTCTACTAATACCTTATAGAGTTGTTCCG
1 CTCAAGTCAGTAGCCAAGATATTCTCTCCCTTGAACTTCTACTAATACCTTATAGAGTTGTTCCG
209993 AAACAA
66 AAACAA
209999 CTCAAGTCAGTA
1 CTCAAGTCAGTA
210011 TCATAATATG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
70 3 0.04
71 67 0.94
72 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (71 bp):
CTCAAGTCAGTAGCCAAGATATTCTCTCCCTTGAACTTCTACTAATACCTTATAGAGTTGTTCCG
AAACAA
Found at i:210593 original size:26 final size:24
Alignment explanation
Indices: 210564--210703 Score: 131
Period size: 24 Copynumber: 5.8 Consensus size: 24
210554 ATATATCTAT
* *
210564 GTTTACGTTGGTCAACATGTATATAC
1 GTTTACGCTCGTCAACATG-A-ATAC
* *
210590 GTTTAAGCTCGTCAGCATGAATAC
1 GTTTACGCTCGTCAACATGAATAC
*
210614 GTTTACGCTCGTCAGCATG-A-AC
1 GTTTACGCTCGTCAACATGAATAC
** *
210636 GTTTACGCTTATCAGCATGAATAC
1 GTTTACGCTCGTCAACATGAATAC
* **
210660 GTTTTCGCTTATCAACATGAATAC
1 GTTTACGCTCGTCAACATGAATAC
* *
210684 GTTTTCGCTCGTCAGCATGA
1 GTTTACGCTCGTCAACATGA
210704 TTTCGTGTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.19
23 2 0.02
24 63 0.63
25 1 0.01
26 15 0.15
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
GTTTACGCTCGTCAACATGAATAC
Found at i:210618 original size:24 final size:24
Alignment explanation
Indices: 210586--210703 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 24
210576 CAACATGTAT
*
210586 ATACGTTTAAGCTCGTCAGCATGA
1 ATACGTTTACGCTCGTCAGCATGA
210610 ATACGTTTACGCTCGTCAGCATG-
1 ATACGTTTACGCTCGTCAGCATGA
**
210633 A-ACGTTTACGCTTATCAGCATGA
1 ATACGTTTACGCTCGTCAGCATGA
* ** *
210656 ATACGTTTTCGCTTATCAACATGA
1 ATACGTTTACGCTCGTCAGCATGA
*
210680 ATACGTTTTCGCTCGTCAGCATGA
1 ATACGTTTACGCTCGTCAGCATGA
210704 TTTCGTGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.23
23 2 0.02
24 63 0.75
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (24 bp):
ATACGTTTACGCTCGTCAGCATGA
Found at i:210640 original size:46 final size:48
Alignment explanation
Indices: 210575--210703 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 48
210565 TTTACGTTGG
* *
210575 TCAACATGTATATACGTTTAAGCTCGTCAGCATGAATACGTTTACGCTCG
1 TCAACATG-A-ATACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCA
* ** * *
210625 TCAGCATG-A-ACGTTTACGCTTATCAGCATGAATACGTTTTCGCTTA
1 TCAACATGAATACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCA
*
210671 TCAACATGAATACGTTTTCGCTCGTCAGCATGA
1 TCAACATGAATACGTTTACGCTCGTCAGCATGA
210704 TTTCGTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 38 0.58
47 2 0.03
48 19 0.29
50 7 0.11
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (48 bp):
TCAACATGAATACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCA
Found at i:212884 original size:3 final size:3
Alignment explanation
Indices: 212878--212912 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
212868 TAGTGACTTT
212878 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
212913 CATACTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:214011 original size:3 final size:3
Alignment explanation
Indices: 214005--214042 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
213995 CGATCTTCTT
214005 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
214043 TAAAAGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:215469 original size:20 final size:20
Alignment explanation
Indices: 215424--215471 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
215414 TTCGAAATAG
* *
215424 TTAAAAAAATCAAATTTTGT
1 TTAAAAAAATCAAACTTTCT
* *
215444 TT-AAAAATTTAAACTTTCT
1 TTAAAAAAATCAAACTTTCT
215463 TTAAAAAAA
1 TTAAAAAAA
215472 AAAATCACTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAAAAAATCAAACTTTCT
Found at i:215471 original size:94 final size:97
Alignment explanation
Indices: 215373--215565 Score: 302
Period size: 94 Copynumber: 2.0 Consensus size: 97
215363 TTCTCTTTTT
* * *
215373 AAAAAAAAATCACTAATTTTCTTAATAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATC-AA
1 AAAAAAAAATCACTAATTTACTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAA
* * *
215437 ATTTTGTTTAAAAATTTAAAC-T-TTCTTTAA
66 ACTTTGTTTAAAAACTAAAACTTCTTCTTTAA
*
215467 AAAAAAAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAA
1 AAAAAAAAATCACTAATTTACTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAA
215532 ACTTTGTTTAAAAACTAAAACTTCTTCTTTAA
66 ACTTTGTTTAAAAACTAAAACTTCTTCTTTAA
215564 AA
1 AA
215566 TGACTAAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 58 0.65
95 20 0.22
96 1 0.01
97 10 0.11
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (97 bp):
AAAAAAAAATCACTAATTTACTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAA
ACTTTGTTTAAAAACTAAAACTTCTTCTTTAA
Found at i:215543 original size:51 final size:51
Alignment explanation
Indices: 215469--215708 Score: 138
Period size: 51 Copynumber: 4.7 Consensus size: 51
215459 TTCTTTAAAA
* **
215469 AAAAAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAATT
1 AAAAAAATCAATACTTTGTTTAAAAATCAAAACTTTTATTTCGAAATAATT
* * * * *
215520 AAAAAAATCAAAACTTTGTTTAAAAA-CTAAAACTTCTTCTTT-AAAATGACT
1 AAAAAAATCAATACTTTGTTTAAAAATC-AAAACTT-TTATTTCGAAATAATT
** * * **
215571 AAAAAAA-CAGATTTTTATTTTTAAAAATCTAAAC-TTTATTTTC----TTTTT
1 AAAAAAATCA-ATACTT-TGTTTAAAAATCAAAACTTTTA-TTTCGAAATAATT
** * * * *
215619 ATGAAAATCATTA-TTTTTCTTAAAATTCAAAACTTTTATTTCGAAATAGTT
1 AAAAAAATCAATACTTTGT-TTAAAAATCAAAACTTTTATTTCGAAATAATT
* **
215670 AAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTT
1 --AAAAAAATCAATACTTTGTTTAAAAATCAAAACTTTT
215709 TCTTTAAAAT
Statistics
Matches: 139, Mismatches: 33, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
46 3 0.02
47 18 0.13
48 12 0.09
49 2 0.01
50 5 0.04
51 52 0.37
52 18 0.13
53 25 0.18
54 4 0.03
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (51 bp):
AAAAAAATCAATACTTTGTTTAAAAATCAAAACTTTTATTTCGAAATAATT
Found at i:215718 original size:152 final size:148
Alignment explanation
Indices: 215472--215980 Score: 634
Period size: 152 Copynumber: 3.4 Consensus size: 148
215462 TTTAAAAAAA
* * *
215472 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
1 AAAATCACTATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* *
215537 GTTTAAAAACTAAAACTTCTTCTTTAAAATGACTAAAAAAACAGATTTTTATTTTTAAAAATCTA
66 GTTTAAAAATTAAAACTTTTTCTTTAAAATGACT-AAAAAACAGATTTTTATTTTTAAAAATCTA
215602 AACTTTATTTTCTTTTTATG
130 AACTTTATTTT-TTTTTATG
* *
215622 AAAATCATTATTTTTCTTAAAATTCAAAACTTTTATTTCGAAATAGTTAAAAAAAAATCAAAACT
1 AAAATCACTATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTT--AAAAAAATCAAAACT
* ** *
215687 TTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTAAAAAAAATT
64 TTGTTTAAAAATTAAAACTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTT-TTAAAAATC
* *
215752 TAAAC-TT-TCTTTTTTAATG
128 TAAACTTTATTTTTTTTTATG
* * *
215771 AAAATCACTATTTTT-TTAAAAAATCCAAATTTTTATTTCAAAATAGTTAAAAAAAT-AAAA-TA
1 AAAATCACTATTTTTCTT-AAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACT-
* * * *
215833 TTATTTAAAAATTAAAATTTTTTCTTTAAAATGACT-AAAAACAGTTTTTTGTTTTTAAAAATCT
64 TTGTTTAAAAATTAAAACTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTTTAAAAATCT
215897 AAACTTTCTTTATTTTATTTTATTTTATG
129 AAA----CTTTA---T-TTTT-TTTTATG
* *
215926 AAAATCACTATTTTTCTTAAAATTCAAAACTTTTATTTCGAAATTGTTAAAAAAA
1 AAAATCACTATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAA
215981 AATCCATTTT
Statistics
Matches: 309, Mismatches: 33, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
144 10 0.03
145 17 0.06
146 37 0.12
147 8 0.03
148 3 0.01
149 49 0.16
150 46 0.15
151 21 0.07
152 59 0.19
153 1 0.00
154 3 0.01
155 53 0.17
156 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (148 bp):
AAAATCACTATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
GTTTAAAAATTAAAACTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTTTAAAAATCTAA
ACTTTATTTTTTTTTATG
Found at i:216414 original size:3 final size:3
Alignment explanation
Indices: 216406--216442 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
216396 AATGAAACCC
216406 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
216443 TTGGGCCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:216627 original size:104 final size:105
Alignment explanation
Indices: 216444--216657 Score: 394
Period size: 104 Copynumber: 2.0 Consensus size: 105
216434 AATAATAATT
*
216444 TGGGCCCTTGACAAGCCCAAAAAGGAAAGAAAAAGAAAAGAAAAACAAATATTTCTATTTGACCT
1 TGGGCCCTTGACAAGCCCAAAAAGGAAAGAAAAAGAAAAGAAAAACAAAGATTTCTATTTGACCT
*
216509 AAAATCGAGTGGGCTTCGAACGGGCCCACGAGAGAAAAAA
66 AAAATCGAGTGGGCTTCGAACGGGCCCAAGAGAGAAAAAA
216549 TGGGCCCTTGACAAGCCCAAAAAGGAAAGAAAAAGAAAA-AAAAACAAAGATTTCTATTTGACCT
1 TGGGCCCTTGACAAGCCCAAAAAGGAAAGAAAAAGAAAAGAAAAACAAAGATTTCTATTTGACCT
*
216613 AAAATCGAGTGGGCTTCGAACGGGCCCAAGAGAGAACAAA
66 AAAATCGAGTGGGCTTCGAACGGGCCCAAGAGAGAAAAAA
216653 TGGGC
1 TGGGC
216658 TTCTAATTGG
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 67 0.63
105 39 0.37
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (105 bp):
TGGGCCCTTGACAAGCCCAAAAAGGAAAGAAAAAGAAAAGAAAAACAAAGATTTCTATTTGACCT
AAAATCGAGTGGGCTTCGAACGGGCCCAAGAGAGAAAAAA
Found at i:217039 original size:42 final size:41
Alignment explanation
Indices: 216987--217288 Score: 307
Period size: 42 Copynumber: 7.0 Consensus size: 41
216977 TACAATTAAA
* * * *
216987 AAAAATAAATGGACCTCTACGCTTGGGCCTCTAAATTCGATG
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGC-ATG
*
217029 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCACTA
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCA-TG
* * *
217071 AAAAGTAAATGAACCTCCATACTTGGGCCTCTAAATGCACTA
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCA-TG
*
217113 AAAAGTAAATGGACCTCCACACTTGGGCCTCTGCCTCTAAATACGATG
1 AAAAGTAAATGGACCTCCACACTT-GG-----GCCTCTAAATGC-ATG
* ** *
217161 AAAAGTAAATGGACATTTACACTTGGACCTCTAAATGCAATG
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGC-ATG
* * *
217203 AAAAGTAAATGAAACTCCACACCTGGGCCTCTAAATGCAATG
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGC-ATG
* * **
217245 AAAAGTAAATGAACCTCCACACCTACGCCTCTAAATGCAATG
1 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGC-ATG
217287 AA
1 AA
217289 TGCTTTCCTT
Statistics
Matches: 225, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.00
42 186 0.83
43 2 0.01
47 2 0.01
48 33 0.15
49 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCATG
Found at i:217221 original size:132 final size:132
Alignment explanation
Indices: 217013--217266 Score: 391
Period size: 132 Copynumber: 1.9 Consensus size: 132
217003 CTACGCTTGG
* * * *
217013 GCCTCTAAATTCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCACTAAAAAGTA
1 GCCTCTAAATACGATGAAAAGTAAATGGACATCCACACTTGGACCTCTAAATGCAATAAAAAGTA
* * * * *
217078 AATGAACCTCCATACTTGGGCCTCTAAATGCACTAAAAAGTAAATGGACCTCCACACTTGGGCCT
66 AATGAAACTCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAATGAACCTCCACACTTGGGCCT
217143 CT
131 CT
** *
217145 GCCTCTAAATACGATGAAAAGTAAATGGACATTTACACTTGGACCTCTAAATGCAATGAAAAGTA
1 GCCTCTAAATACGATGAAAAGTAAATGGACATCCACACTTGGACCTCTAAATGCAATAAAAAGTA
*
217210 AATGAAACTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACAC
66 AATGAAACTCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAATGAACCTCCACAC
217267 CTACGCCTCT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 109 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (132 bp):
GCCTCTAAATACGATGAAAAGTAAATGGACATCCACACTTGGACCTCTAAATGCAATAAAAAGTA
AATGAAACTCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAATGAACCTCCACACTTGGGCCT
CT
Done.