Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002933.1 Hibiscus syriacus cultivar Beakdansim tig00006060_pilon, 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: 163544
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2371 original size:101 final size:100
Alignment explanation
Indices: 2196--2399 Score: 374
Period size: 101 Copynumber: 2.0 Consensus size: 100
2186 CTAATGGTTT
2196 TTTTGCCCCAATACTAGGGTATTGGGCCAACATAGATTTCATTTTGGAAACTACGATTCTCTACA
1 TTTTGCCCCAATACTAGGGTATTGGGCCAACATA-ATTTCATTTTGGAAACTACGATTCTCTACA
2261 GTGAATACTAATTTTTTACCCATTTTTTTATTGTTA
65 GTGAATACTAATTTTTTACCCATTTTTTTATTGTTA
2297 TTTTGCCCCAATACTAGGGTATTGGGCCAACAT-ATTTCATTTTGGAAACTACGACATTCTCTAC
1 TTTTGCCCCAATACTAGGGTATTGGGCCAACATAATTTCATTTTGGAAACTACG--ATTCTCTAC
2361 AGTGAATACTAATTTTTTACCCATTTTTTTATTGTTA
64 AGTGAATACTAATTTTTTACCCATTTTTTTATTGTTA
2398 TT
1 TT
2400 ATTATTATTT
Statistics
Matches: 101, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
99 20 0.20
101 81 0.80
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (100 bp):
TTTTGCCCCAATACTAGGGTATTGGGCCAACATAATTTCATTTTGGAAACTACGATTCTCTACAG
TGAATACTAATTTTTTACCCATTTTTTTATTGTTA
Found at i:2401 original size:3 final size:3
Alignment explanation
Indices: 2389--2445 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
2379 ACCCATTTTT
* **
2389 TTA TTG TTA TTA TTA TTA TT- TTA TTTA TTA TTA TTA TTA TTA AAA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
2434 TTA TTA TTA TTA
1 TTA TTA TTA TTA
2446 CAAACAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2416 original size:24 final size:23
Alignment explanation
Indices: 2383--2430 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
2373 TTTTTTACCC
*
2383 ATTTTTTTATTGTTATTATTATT
1 ATTTTTTTATTATTATTATTATT
2406 ATTTTATTTATTATTATTATTATT
1 ATTTT-TTTATTATTATTATTATT
2430 A
1 A
2431 AAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
ATTTTTTTATTATTATTATTATT
Found at i:2606 original size:17 final size:17
Alignment explanation
Indices: 2584--2622 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2574 TCCAGAAGGC
*
2584 CAGCCGCCGCC-TCTGCT
1 CAGCCGCCACCTTC-GCT
2601 CAGCCGCCACCTTCGCT
1 CAGCCGCCACCTTCGCT
2618 CAGCC
1 CAGCC
2623 TCTACCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.10, C:0.54, G:0.21, T:0.15
Consensus pattern (17 bp):
CAGCCGCCACCTTCGCT
Found at i:2893 original size:27 final size:28
Alignment explanation
Indices: 2850--2912 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
2840 AGAAGAAGGC
2850 AACAGAGAAAAACGAGAGCAAGAGACGG
1 AACAGAGAAAAACGAGAGCAAGAGACGG
* *
2878 AACAGAGAAACA-GAGAGCAAGAGATGG
1 AACAGAGAAAAACGAGAGCAAGAGACGG
2905 AACAGAGA
1 AACAGAGA
2913 GAGGGCAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.54, C:0.13, G:0.32, T:0.02
Consensus pattern (28 bp):
AACAGAGAAAAACGAGAGCAAGAGACGG
Found at i:11876 original size:10 final size:9
Alignment explanation
Indices: 11853--11902 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
11843 AGGGCTGGAA
11853 ACCGGTTTG
1 ACCGGTTTG
11862 ACCGGTTTCG
1 ACCGGTTT-G
11872 ACCGGTTTG
1 ACCGGTTTG
11881 AACCGGTTTG
1 -ACCGGTTTG
* *
11891 GCCGGTCTG
1 ACCGGTTTG
11900 ACC
1 ACC
11903 CGACCCGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 18 0.50
10 18 0.50
ACGTcount: A:0.12, C:0.28, G:0.32, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:11877 original size:19 final size:18
Alignment explanation
Indices: 11853--11902 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
11843 AGGGCTGGAA
11853 ACCGGTTTGACCGGTTTCG
1 ACCGGTTTGACCGGTTT-G
11872 ACCGGTTTGAACCGGTTTG
1 ACCGGTTTG-ACCGGTTTG
* *
11891 GCCGGTCTGACC
1 ACCGGTTTGACC
11903 CGACCCGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.11
19 17 0.61
20 8 0.29
ACGTcount: A:0.12, C:0.28, G:0.32, T:0.28
Consensus pattern (18 bp):
ACCGGTTTGACCGGTTTG
Found at i:11920 original size:17 final size:17
Alignment explanation
Indices: 11898--11936 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
11888 TTGGCCGGTC
11898 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
11915 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
11932 TGACC
1 TGACC
11937 GTTGACTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:11936 original size:7 final size:7
Alignment explanation
Indices: 11926--11969 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
11916 GACCCGACCC
11926 GACCGTT
1 GACCGTT
11933 GACCGTT
1 GACCGTT
*
11940 GACTGTT
1 GACCGTT
11947 GACCGTT
1 GACCGTT
*
11954 AACCG-T
1 GACCGTT
11960 GACCGTT
1 GACCGTT
11967 GAC
1 GAC
11970 TTCCTTTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:16863 original size:35 final size:35
Alignment explanation
Indices: 16824--16894 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
16814 TAAATATGAA
* * *
16824 AAAAATTAAATGGTAAGTATTGAATAAAAGTAAAT
1 AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
* *
16859 AAAAAGTAAATGGTAAGTGCTGAATGAAAGGAAAT
1 AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
16894 A
1 A
16895 TATAAAACGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.55, C:0.01, G:0.20, T:0.24
Consensus pattern (35 bp):
AAAAAGTAAATGGTAAGTACTGAATAAAAGGAAAT
Found at i:21521 original size:39 final size:38
Alignment explanation
Indices: 21456--21534 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
21446 TTAAAATTTT
*
21456 ATTTAGAATGTTATGGTGACAAAATTTAAGAAATTAGGA
1 ATTTAGAATGTTATGGCGACAAAATTTAAG-AATTAGGA
* *
21495 ATTTAGAATGTTA-GAGCG-CAATAATTTGAGAATTATGA
1 ATTTAGAATGTTATG-GCGACAA-AATTTAAGAATTAGGA
21533 AT
1 AT
21535 AAAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.37
39 22 0.63
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (38 bp):
ATTTAGAATGTTATGGCGACAAAATTTAAGAATTAGGA
Found at i:22885 original size:3 final size:3
Alignment explanation
Indices: 22879--22913 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
22869 TTAGAAAAAT
22879 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22914 TGATTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:26362 original size:24 final size:25
Alignment explanation
Indices: 26316--26379 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
26306 CTATGAAACA
*
26316 AAATAATTAAAAATAAACTTAATTG
1 AAATAATTAAAAATAAACATAATTG
* *
26341 AAATAATTAAAAA-AAAGATAA-TA
1 AAATAATTAAAAATAAACATAATTG
*
26364 AAAAACATTAAAAATA
1 AAATA-ATTAAAAATA
26380 TAAAATAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.15
24 14 0.42
25 14 0.42
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (25 bp):
AAATAATTAAAAATAAACATAATTG
Found at i:26389 original size:20 final size:21
Alignment explanation
Indices: 26352--26391 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26342 AATAATTAAA
26352 AAAAAGATAATAAAAAACATT
1 AAAAAGATAATAAAAAACATT
* *
26373 AAAAATATAA-AATAAACAT
1 AAAAAGATAATAAAAAACAT
26392 AAACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAAGATAATAAAAAACATT
Found at i:26551 original size:21 final size:21
Alignment explanation
Indices: 26501--26552 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
26491 CAAAATGCAA
*
26501 AAATTAAAA-TAATAGTAGCT
1 AAATTAAAATTAACAGTAGCT
*
26521 AAATCAAAAATTAACAGT-GACT
1 AAAT-TAAAATTAACAGTAG-CT
26543 AAATTAAAAT
1 AAATTAAAAT
26553 AAAACAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 12 0.46
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (21 bp):
AAATTAAAATTAACAGTAGCT
Found at i:28431 original size:48 final size:48
Alignment explanation
Indices: 28379--28559 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
28369 GGGGAAGAGT
28379 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
* * * * * *
28427 TGTTCCGCTTACTCTAAAGGGAATATCAAATATTTGAGAAGAA-AGACA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA-AAAAAGAGATA
* * *
28475 TGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACT-
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGA-TA
*
28523 TGTTCCACTTACTCTGACGGGAATATCAAATCTTGGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA
28560 TTTGCTTCAC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.02
48 109 0.95
49 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (48 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATA
Found at i:28481 original size:161 final size:163
Alignment explanation
Indices: 28148--28502 Score: 436
Period size: 161 Copynumber: 2.2 Consensus size: 163
28138 GAATATAGGA
28148 ATCTGTTCCGCTT-CTTCTGAAGGGAATATCAGATATGGAAAGAGATGTGATCCATTGAATTAGG
1 ATCTGTTCCGCTTAC-TCTGAAGGGAATATCAGATATGGAAAGAGATGTGATCCATTGAATTAGG
* * * * * * *
28212 GCAGATTTGTTCCGTTATCACTCAGGGAATATCAAACCTTGGAAAAGAGGGATTTGTTCCGCTTC
65 GAAGAGTTGTTCCCTTATCACTAAGGGAATATCAAACCTTGGAAAAAAGAGATATGTTCCGCTTC
* * * *
28277 TTCTAAAGGGAATATCAGATCTTAAAGGAGAGAG
130 TTCTAAAGGGAATATCAAATATTAAAGAAGAAAG
* ** * *
28311 ATCTGTTCCGTTTACTCTGAAGGGAATATCAGATAT-GAGGGA-AT-TGATCTATTGAATTGGGG
1 ATCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGAAAGAGATGTGATCCATTGAATTAGGG
* *
28373 AAGAGTTGTTCCACTTA-CTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGATATGTTCCGCTT
66 AAGAGTTGTTCC-CTTATCACT-AAGGGAATATCAAACCTTGGAAAAAAGAGATATGTTCCGCTT
**
28437 AC-TCTAAAGGGAATATCAAATATTTGAGAAGAAAG
129 -CTTCTAAAGGGAATATCAAATATTAAAGAAGAAAG
28472 A-CATGTTCCGCTTACTCTGAAGGGAATATCA
1 ATC-TGTTCCGCTTACTCTGAAGGGAATATCA
28503 AATCTTGGAG
Statistics
Matches: 166, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
160 30 0.18
161 97 0.58
162 5 0.03
163 33 0.20
164 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (163 bp):
ATCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGAAAGAGATGTGATCCATTGAATTAGGG
AAGAGTTGTTCCCTTATCACTAAGGGAATATCAAACCTTGGAAAAAAGAGATATGTTCCGCTTCT
TCTAAAGGGAATATCAAATATTAAAGAAGAAAG
Found at i:28520 original size:96 final size:96
Alignment explanation
Indices: 28379--28553 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
28369 GGGGAAGAGT
*
28379 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGA-TATGTTCCGCTTACTCTA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACT-TGTTCCACTTACTCTA
28443 AAGGGAATATCAAATATTTGAGAAGAAAGACA
65 AAGGGAATATCAAATATTTGAGAAGAAAGACA
* * * *
28475 TGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACTTGTTCCACTTACTCTGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACTTGTTCCACTTACTCTAA
*
28540 CGGGAATATCAAAT
66 AGGGAATATCAAAT
28554 CTTGGATTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
96 71 0.99
97 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (96 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACTTGTTCCACTTACTCTAA
AGGGAATATCAAATATTTGAGAAGAAAGACA
Found at i:28854 original size:37 final size:37
Alignment explanation
Indices: 28558--28849 Score: 494
Period size: 37 Copynumber: 7.9 Consensus size: 37
28548 TCAAATCTTG
* *
28558 GATTTGCTTCACTACTCTTTCGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
* *
28595 GATTTGCTTCACTACTCATTGGTGAAGGCTTAAAATG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
*
28632 GATTTGCTTCACTACTATTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
28669 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
28706 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
*
28743 GATTTGCTTCACTACTCTTTAGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
* * *
28780 GATTTGCTTCACTACTCTTTGGTGAAAGCTTAAGATG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
*
28817 GATTTGCTTCACTACTATTTGGTGAAGGCTTAA
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAA
28850 GATGGCCCAG
Statistics
Matches: 240, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 240 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (37 bp):
GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATT
Found at i:29223 original size:151 final size:150
Alignment explanation
Indices: 28892--29595 Score: 1066
Period size: 150 Copynumber: 4.7 Consensus size: 150
28882 AAGACTTATA
*
28892 ATGGCCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* * * * *
28957 AAAATTTCAAATCTCAGATTTAAATGAGAAACCTCTCTCATATTTTAATAGACATTTGAAAACAT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
* *
29022 CCTGCCCAAAGGACTTACGG
131 CCTGCCCAAAGGTCTTATGG
*
29042 GTGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* * * * * * *
29107 AAAATTTCAATTTTCAGATTTAATATGAGAAACCTTTCTTATATTTCAAAAGACATGTGAAAATA
66 AAAATTTCAAATTTCAAATTTGA-ATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACA
*
29172 TCCTACCCAAAGGTCTTATGG
130 TCCTGCCCAAAGGTCTTATGG
* * * *
29193 ATGGCCTGAAAGACTTATAATTTTTTGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
*
29258 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATA-TTTGATAGACATGTGAAAACAT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
29322 CAC-GCCCAAAGGTCTTATGG
131 C-CTGCCCAAAGGTCTTATGG
*
29342 ATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* *
29406 AAAA--T----TTTCAAATTTGAATGAGAAGCCTTTCTCATATTTTGATAGACATGTGAAAACAT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
*
29465 CCTGCCCAAAGCTCTTATGG
131 CCTGCCCAAAGGTCTTATGG
* *
29485 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
*
29550 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATTTTTT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTT
29596 CATTTATAAA
Statistics
Matches: 504, Mismatches: 39, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
142 31 0.06
143 100 0.20
144 4 0.01
146 2 0.00
148 4 0.01
149 94 0.19
150 136 0.27
151 133 0.26
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (150 bp):
ATGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
CCTGCCCAAAGGTCTTATGG
Found at i:29510 original size:143 final size:141
Alignment explanation
Indices: 29262--29563 Score: 509
Period size: 143 Copynumber: 2.1 Consensus size: 141
29252 TTTTCAAAAA
29262 TTTC-AAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTGATAGACATGTGAAAACATCACG
1 TTTCAAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTGATAGACATGTGAAAACATCACG
* *
29326 CCCAAAGGTCTTATGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAAGAAA
66 CCCAAAGCTCTTATGGATGGCCCGAAAGACGTATAAATTTTGGAAATATTTTACTAGGTAAGAAA
29391 CCTTTCTTACT
131 CCTTTCTTACT
*
29402 TTTCAAAATTTTCAAATTTGAATGAGAAGCCTTTCTCATATTTTGATAGACATGTGAAAACATC-
1 TTTCAAAA-TTTCAAATTTGAATGAGAAACCTTTCTCATA-TTTGATAGACATGTGAAAACATCA
* *
29466 CTGCCCAAAGCTCTTATGGATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAG
64 C-GCCCAAAGCTCTTATGGATGGCCCGAAAGACGTATAAATTTTGGAAATATTTTACTAGGTAAG
29531 AAACCTTTCTTACT
128 AAACCTTTCTTACT
29545 TTTCAAAAATTTCAAATTT
1 TTTC-AAAATTTCAAATTT
29564 CAAATTTGAA
Statistics
Matches: 152, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
140 4 0.03
141 3 0.02
142 31 0.20
143 110 0.72
144 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (141 bp):
TTTCAAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTGATAGACATGTGAAAACATCACG
CCCAAAGCTCTTATGGATGGCCCGAAAGACGTATAAATTTTGGAAATATTTTACTAGGTAAGAAA
CCTTTCTTACT
Found at i:29530 original size:292 final size:296
Alignment explanation
Indices: 28892--29595 Score: 1085
Period size: 292 Copynumber: 2.4 Consensus size: 296
28882 AAGACTTATA
* * *
28892 ATGGCCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
* * * * *
28957 AAAATTTCAAATCTCAGATTTAAATGAGAAACCTCTCTCATATTTTAATAGACATTTGAAAACAT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
* *
29022 CCTGCCCAAAGGACTTACGGGTGGCCCGAAGGACTTATAAATTTTGGAAATATTTTACTAGGTAA
131 CCTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAA
* *
29087 GAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAATATGAGAAACCTTTCTTATATT
196 GAAACCTTTCTTACTTTTC--AAA--T-AATTTTCAAATTTAATATGAGAAACCTTTCTCATATT
* *
29152 TCAAAAGACATGTGAAAATATCCTACCCAAAGGTCTTATGG
256 TCAAAAGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
* *
29193 ATGGCCTGAAAGACTTATAATTTTTTGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
*
29258 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATA-TTTGATAGACATGTGAAAACAT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
* *
29322 CAC-GCCCAAAGGTCTTATGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTA
131 C-CTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTA
* * **
29386 AGAAACCTTTCTTACTTTTC-AA-AATTTTCAAATTTGA-ATGAGAAGCCTTTCTCATATTTTGA
195 AGAAACCTTTCTTACTTTTCAAATAATTTTCAAATTTAATATGAGAAACCTTTCTCATATTTCAA
* *
29448 TAGACATGTGAAAACATCCTGCCCAAAGCTCTTATGG
260 AAGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
29485 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
1 ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
*
29550 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATTTTTT
66 AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTT
29596 CATTTATAAA
Statistics
Matches: 373, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
292 158 0.42
293 16 0.04
297 2 0.01
300 98 0.26
301 99 0.27
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (296 bp):
ATGGCCCGAAAGACTTATAATTTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
AAAATTTCAAATTTCAAATTTGAATGAGAAACCTTTCTCATATTTTAATAGACATGTGAAAACAT
CCTGCCCAAAGGACTTACGGATGGCCCGAAGGACGTATAAATTTTGGAAATATTTTACTAGGTAA
GAAACCTTTCTTACTTTTCAAATAATTTTCAAATTTAATATGAGAAACCTTTCTCATATTTCAAA
AGACATGTGAAAACATCCTACCCAAAGCTCTTATGG
Found at i:36921 original size:2 final size:2
Alignment explanation
Indices: 36914--36972 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
36904 ATCTTTGTAA
36914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36956 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
36973 AAAAATAGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38241 original size:32 final size:32
Alignment explanation
Indices: 38200--38276 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
38190 GCCAATTTGG
*
38200 AGCCGTCAAATTTCTGTTTGAAAATATGATAT
1 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
38232 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
1 AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
38264 AGCCGTCAAATTT
1 AGCCGTCAAATTT
38277 ATGTGAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AGCCGTCAAATTTCTGTTTGAAAAGATGATAT
Found at i:39511 original size:29 final size:29
Alignment explanation
Indices: 39469--39524 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
39459 TAAAAATGTA
39469 ATTTTCCAGAAAAATGATCGATCCCTTGC
1 ATTTTCCAGAAAAATGATCGATCCCTTGC
*
39498 ATTTTTCAGAAAAATGATCGATCCCTT
1 ATTTTCCAGAAAAATGATCGATCCCTT
39525 TTTGTGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (29 bp):
ATTTTCCAGAAAAATGATCGATCCCTTGC
Found at i:42453 original size:23 final size:23
Alignment explanation
Indices: 42418--42481 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
42408 CAGCTTTTAT
*
42418 AAATGCACGGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
42441 AATTGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
42464 AAATGCACCGTAGTGCCA
1 AAATGCACCGAAGTGCCA
42482 TATAAGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:49308 original size:23 final size:23
Alignment explanation
Indices: 49268--49336 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
49258 CACCGTAGCT
* *
49268 CGTATAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * **
49291 CGTAGAATTGCATCGAAGTACTG
1 CGTAGAAATGCACCGAAGTGCCA
*
49314 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
49337 TATAAGATGT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:50894 original size:21 final size:20
Alignment explanation
Indices: 50870--50928 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 20
50860 CAAGCTTTTC
50870 TAGCTCAATGGATCGATCCCT
1 TAGC-CAATGGATCGATCCCT
* *
50891 TAGCAAAAT-AATC-ATCCCT
1 TAGC-CAATGGATCGATCCCT
*
50910 TTGACCAATGGATCGATCC
1 TAG-CCAATGGATCGATCC
50929 ATTTGAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
19 11 0.38
20 7 0.24
21 11 0.38
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (20 bp):
TAGCCAATGGATCGATCCCT
Found at i:50940 original size:21 final size:20
Alignment explanation
Indices: 50880--50951 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
50870 TAGCTCAATG
* *
50880 GATCGATCCCTTAGCAAAAT
1 GATCGATCCCTTTGAAAAAT
* **
50900 AATC-ATCCCTTTGACCAAT
1 GATCGATCCCTTTGAAAAAT
*
50919 GGATCGATCCATTTGAAAAAT
1 -GATCGATCCCTTTGAAAAAT
*
50940 GACCGATCCCTT
1 GATCGATCCCTT
50952 GGATTCCAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 11 0.28
20 16 0.41
21 12 0.31
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
GATCGATCCCTTTGAAAAAT
Found at i:50999 original size:21 final size:21
Alignment explanation
Indices: 50970--51020 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
50960 ATAGGTTTGG
* *
50970 GATCAATCCCTCAAGGAAAAA
1 GATCGATCCCTCAACGAAAAA
** *
50991 GATCGATCCCTTGACGAAAAT
1 GATCGATCCCTCAACGAAAAA
51012 GATCGATCC
1 GATCGATCC
51021 ATTATCTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (21 bp):
GATCGATCCCTCAACGAAAAA
Found at i:51105 original size:21 final size:21
Alignment explanation
Indices: 51081--51127 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
51071 ACAAATTAAC
51081 CCCTTTCA-TAAAAGGATCGAT
1 CCCTTTCACT-AAAGGATCGAT
* *
51102 CCCTTTCACTTATGGATCGAT
1 CCCTTTCACTAAAGGATCGAT
51123 CCCTT
1 CCCTT
51128 ATGCATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (21 bp):
CCCTTTCACTAAAGGATCGAT
Found at i:52267 original size:76 final size:77
Alignment explanation
Indices: 52108--52317 Score: 273
Period size: 76 Copynumber: 2.8 Consensus size: 77
52098 CAAAGCCAAA
* * * **
52108 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
52172 TTTTGGCCCCGAG
65 TTTTGGCCCCGAG
* *
52185 ATTTCCAGAATGCTCGGAGGGAACTGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
**
52250 TTT-GTTCCGAG
66 TTTGGCCCCGAG
* * * *
52261 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
52318 TGTACAACGG
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
75 19 0.16
76 60 0.51
77 38 0.32
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.21
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:58079 original size:21 final size:21
Alignment explanation
Indices: 58053--58135 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
58043 TTTTGGTGCA
* *
58053 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCACT
* **
58074 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCACT
58095 GAAGGGGAACCGATTCCCCCCAC-
1 G-A-GGGAACCGA-TCCCCCCACT
* * *
58118 AAGGGAATCGATACCCCC
1 GAGGGAACCGATCCCCCC
58136 TGGGGTTCTG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 6 0.12
21 26 0.53
22 2 0.04
23 9 0.18
24 6 0.12
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCACT
Found at i:60373 original size:30 final size:30
Alignment explanation
Indices: 60339--60410 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
60329 GGAGAAGAAT
60339 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
60369 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
60399 AGAAGTGTTAAA
1 AG--GTGTTAAA
60411 GTAAGGGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
AGGTGTTAAATGTTTTACATAATAAATTGA
Found at i:60923 original size:74 final size:77
Alignment explanation
Indices: 60717--60924 Score: 273
Period size: 75 Copynumber: 2.8 Consensus size: 77
60707 CAAAACCAAA
* * **
60717 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGG
1 AATTCCAGAATGCTCAGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
60781 TTTTGGCCCCGAG
65 TTTTGGCCCCGAG
* * *
60794 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCAGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
60858 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * *
60869 AATTCCAGTATGCTC-GAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCAGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCCT
60925 TGTACAACGG
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
74 31 0.27
75 47 0.41
76 15 0.13
77 23 0.20
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCAGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:62130 original size:60 final size:60
Alignment explanation
Indices: 62018--62134 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
62008 TTTCAATTGA
* * * * * *
62018 TCCTTAAACTTTTAAATATTTTAATTTTATCCCTAAACTATGACTATAATTCTAAATTAG
1 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAACTATAATTCTAAATTAG
* *
62078 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAATTATAACCTA-GATTCTAAAT
1 TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAA-CTATAATTCTAAAT
62135 GAATCCCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 45 0.94
61 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (60 bp):
TCCTCAAACTTTTAAACATTTGAATTTCATCCATAAACTATAACTATAATTCTAAATTAG
Found at i:65858 original size:3 final size:3
Alignment explanation
Indices: 65850--65875 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65840 TCCCGTTTAA
65850 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
65876 ATACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:70011 original size:11 final size:11
Alignment explanation
Indices: 69995--70028 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
69985 CAACACCTTT
69995 CATTGCATTTA
1 CATTGCATTTA
**
70006 CATTGCATCCA
1 CATTGCATTTA
70017 CATTGCATTTA
1 CATTGCATTTA
70028 C
1 C
70029 TTATCGCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:73574 original size:20 final size:20
Alignment explanation
Indices: 73545--73582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73535 CAGAACCCCA
*
73545 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
73565 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
73583 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:73617 original size:20 final size:21
Alignment explanation
Indices: 73565--73625 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
73555 ATTCCCCTGT
73565 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
73588 GGGGGAATCGGTTCCCTC-AG
1 GGGGGAATCGGTTCCCTCAAA
* *
73608 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
73626 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:82026 original size:134 final size:134
Alignment explanation
Indices: 81867--83154 Score: 1290
Period size: 134 Copynumber: 9.6 Consensus size: 134
81857 ATGAATCAAA
* **
81867 CTCGATTCAATCTTCT-ATGAGTGACAGTGGAATGAATCAACGTCCCCTGATCTGATTTTTTCTC
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * *
81931 AAGAAGAATCTGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
65 AAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
81996 TCTGT
130 TCTGC
* * * ** * *
82001 CTCGATTCAATATTCTCAAAGTGACAGTGGAATGAATCAACTTCATCTGATCTGATTTTCCCACA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * ** * * *
82066 AGAAAAAGCGGGATAAATCCCCCTCTTTCAATATTTGATATTCCCCGAGTAATAGTGGAACAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
82131 CTAC
131 CTGC
* * * * * *
82135 CTCGATTAAATCTTCCTTA-AGTGACAATGGAATGGATCAA-TTCCCCCATATCTGATTTTCCCT
1 CTCGATTCAATCTT-CTCAGAGTGACAGTGGAATGAATCAACGT-CCCCAGATCTGATTTTCCCT
* * * *
82198 CAAGGAGAAGCAGAACAAATCCATCTCTTTCAAGATTTCATATTCCATGAGTAACAGTGGAACAA
64 CAAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
*
82263 GTATGC
129 GTCTGC
* * * ** * * * * *
82269 CTCGATTCAATCATCCCAAAGTGGTAGTGGAATGAATCAACGTCCCTAGATCTGATATTGCATCC
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * * * *
82334 AGAAGAAGTGGAACATATCCCTTTATTACAAGATTTGATATTCCTTGAGTAACAGTGGATCAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
82399 CTGC
131 CTGC
* * * * * * *
82403 CTCGATTCAATATT-TCCTGAGTGATAGTGGAATGGATCAA-ATCCCCCACATATGATTTTCCCT
1 CTCGATTCAATCTTCT-CAGAGTGACAGTGGAATGAATCAACGT-CCCCAGATCTGATTTTCCCT
* ** * *
82466 CAAGAATAAGCATAACAAATCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACACTGGAACAA
64 CAAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
82531 GTCTGC
129 GTCTGC
* * * * * * *
82537 CTTGATTCAATCTTC-CATGAGTGATAGTGGAATGGATCAACATCCTCAAATCT-AATTTCCCTC
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * * *
82600 AAGAATAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCATGAGTAACATTGGAACAAG
65 AAGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
82665 TCTGC
130 TCTGC
* * * * * *
82670 CTCGATTCAATCTTC-CATGAGTGACAGAGGAATGGATCAAC-TCCTCATATTTGATTTTCCCTT
1 CTCGATTCAATCTTCTCA-GAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * *
82733 AAGAAGAAGGGGAACAAATCTC-TCTCTTTCAA-AATTGATTTTCCTTGAGTAACAGTGGAACAA
65 AAGAAGAAGCGGAACAAATC-CATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
*
82796 GTCCGC
129 GTCTGC
* * * *
82802 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGGATCAACGTCCTCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * * *
82867 AGAAAAAGCAGAACAGATCCCTTTCTTTCAAGATTTGATATTCCCTAAGTGACAGTGGAACAAGT
66 AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
* *
82932 ATAC
131 CTGC
* * * *
82936 CTCGATTCAATCTTCTCTGAGTGATAGTGGAATGAATCAACTTCCCCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * *
83001 AGAATAAGGGGAGCATATCCA-CGTCTTTCAAGATTTGATATTCCCTAAGTAAAAGTGGAACAAG
66 AGAAGAAGCGGAACAAATCCATC-TCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
**
83065 TCTAT
130 TCTGC
* * * * * *
83070 CTCGATTCGATCTTCCCTGAG-CATCAGAGGAATGAATCAACGTCCCCAGATCTAATGTTT-CCT
1 CTCGATTCAATCTTCTCAGAGTGA-CAGTGGAATGAATCAACGTCCCCAGATCTGAT-TTTCCCT
* * *
83133 CAAGGAGAAGCGAAACAGATCC
64 CAAGAAGAAGCGGAACAAATCC
83155 CTCATCATAT
Statistics
Matches: 958, Mismatches: 177, Indels: 38
0.82 0.15 0.03
Matches are distributed among these distances:
132 79 0.08
133 198 0.21
134 671 0.70
135 10 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCTCAGAGTGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTGC
Found at i:83289 original size:3 final size:3
Alignment explanation
Indices: 83281--83309 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
83271 TCGTCTCATT
83281 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
83310 TTTAATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:83321 original size:13 final size:13
Alignment explanation
Indices: 83287--83324 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
83277 CATTTAATAA
*
83287 TAATAATAATA-A
1 TAATAATAATATT
83299 TAATAATAATATT
1 TAATAATAATATT
*
83312 TAATACTAATATT
1 TAATAATAATATT
83325 ATTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATAATATT
Found at i:83330 original size:19 final size:19
Alignment explanation
Indices: 83281--83322 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
83271 TCGTCTCATT
*
83281 TAATAATAATA-ATAATAA
1 TAATAATAATATTTAATAA
*
83299 TAATAATAATATTTAATAC
1 TAATAATAATATTTAATAA
83318 TAATA
1 TAATA
83323 TTATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAATAATATTTAATAA
Found at i:85892 original size:23 final size:23
Alignment explanation
Indices: 85866--85910 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85856 CTCGTATAAA
*
85866 TACACCGAAGTGCCACGTAGAAT
1 TACACCGAAGTACCACGTAGAAT
* *
85889 TACACCGTAGTACCGCGTAGAA
1 TACACCGAAGTACCACGTAGAA
85911 ATGCTCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
TACACCGAAGTACCACGTAGAAT
Found at i:86753 original size:33 final size:34
Alignment explanation
Indices: 86699--86762 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
86689 AGTTTTCTTC
*
86699 AATTCTCTATAAATCATATAACTCTA-ATACATT
1 AATTCTCTATAAATCATATAACACTATATACATT
* *
86732 AATTCTC-ATAATTGATCATAACACTATATAC
1 AATTCTCTATAAATCAT-ATAACACTATATAC
86763 TTATAACACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 7 0.27
33 15 0.58
34 4 0.15
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (34 bp):
AATTCTCTATAAATCATATAACACTATATACATT
Found at i:87661 original size:23 final size:23
Alignment explanation
Indices: 87631--87689 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
87621 CGTATAAATG
87631 CACCGAAGTGCCACATAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* *
87654 CACCGAAGTGCCGCGTAGAATTA
1 CACCGAAGTGCCACATAGAATTA
87677 CACCGAAGTGCCA
1 CACCGAAGTGCCA
87690 TATAAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:88481 original size:2 final size:2
Alignment explanation
Indices: 88468--88521 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
88458 TACACATTTC
* *
88468 AT AT AGT AT AT AT AT AT AT AA AT CT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88511 AT AT AT AT AT A
1 AT AT AT AT AT A
88522 ATCCATGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:89743 original size:162 final size:163
Alignment explanation
Indices: 89475--89800 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
89465 CCCGAAAATC
89475 ATCAACTCTTCATTCAATTCTTCTATTTTAAGCCCCTATCATGTCATTAAACTCAACTACCATTA
1 ATCAACTCTTCATTCAATTCTTCTATTTTAAGCCCCTATCATGTCATTAAACTCAACTACCATTA
89540 CTTAAACCAACTTGTATTAATATAAACCATCTCTATCTTCCATATTTCATCATGATTCTTAATTT
66 CTTAAACCAACTTGTATTAATATAAACCATCTCTATCTTCCATATTTCATCATGATTCTTAATTT
89605 TAAGAATCATACTAAACTTTCAACTTTGTCATT
131 TAAGAATCATACTAAACTTTCAACTTTGTCATT
89638 ATCAACTCTTCATTCAATTCTTCTA-TTTAAGCCCCTATCATGTCATTAAACTCAACTACCATTA
1 ATCAACTCTTCATTCAATTCTTCTATTTTAAGCCCCTATCATGTCATTAAACTCAACTACCATTA
89702 CTTAAACCAACTTGTATTAATATAAACCATCTCTATCTTCCATATTTCATCATGATTCTTAATTT
66 CTTAAACCAACTTGTATTAATATAAACCATCTCTATCTTCCATATTTCATCATGATTCTTAATTT
89767 TAAGAATCATACTAAACTTTCAACTTTGTCATT
131 TAAGAATCATACTAAACTTTCAACTTTGTCATT
89800 A
1 A
89801 ATCCTTTATA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 138 0.85
163 25 0.15
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (163 bp):
ATCAACTCTTCATTCAATTCTTCTATTTTAAGCCCCTATCATGTCATTAAACTCAACTACCATTA
CTTAAACCAACTTGTATTAATATAAACCATCTCTATCTTCCATATTTCATCATGATTCTTAATTT
TAAGAATCATACTAAACTTTCAACTTTGTCATT
Found at i:99333 original size:276 final size:275
Alignment explanation
Indices: 98778--99335 Score: 913
Period size: 276 Copynumber: 2.0 Consensus size: 275
98768 TAAATTACAC
* *
98778 ATTTGGTAGCTGAACTTTACTCTATCTCTTATTCCACTCATCGCACTTTCAGTTATTTTTTTTCA
1 ATTTGGTAGCTGAACTTTACTCTATCTCCTATTCCACTCATCGCAATTTCA--TATTTTTTTTCA
* **
98843 ATTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTTCGTCGTTAATCTTGTAACAACAT
64 ATTTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTCCGTCAATAATCTTGTAACAACAT
98908 TATGATGCGGATTAGATAAATAATTTTTTAATCGTTAAAAATAGTGTAAATAACACGTAAGAAAA
129 TATGATGCGGATTAGATAAATAATTTTTTAATCGTTAAAAATAGTGTAAATAACACGTAAGAAAA
* *
98973 AATAAAATTACTAAAAAATTAAGATAAATAAAATTACCCAATTGACTATTCGTTTAACTTTGATT
194 AATAAAATTACTAAAAAATTAAGATAAATAAAATTACCCAAATGACTATTCGTTTAACCTTGATT
99038 TACCTAAAGCACGGAGA
259 TACCTAAAGCACGGAGA
* * * * * *
99055 ATTTGGTAGCTGAATTTTACTCTCTCTCCTATTCTATTCATCGCAATTTCA-CTTTTTTTTCTAT
1 ATTTGGTAGCTGAACTTTACTCTATCTCCTATTCCACTCATCGCAATTTCATATTTTTTTTCAAT
*
99119 TTAATCACTGAAACCATATAGATTAATTTTTTTGGTCACTCCTTCAATAATCTTGTAACAACATT
66 TTAATCACTGAAACCATATAGATTAA-TTTTTTGGTCACTCCGTCAATAATCTTGTAACAACATT
* *
99184 ATGATGTGGATTAGATAAATGA-TTTTTAATCGTTAAAAATAGTGTAAATAACACGTAAGAAAAT
130 ATGATGCGGATTAGATAAATAATTTTTTAATCGTTAAAAATAGTGTAAATAACACGTAAG-AAA-
99248 AAATAAAATTACTAAAAAATTAAGATAAATAAAATTACCCAAATGACTATTCGTTTAACCTTGAT
193 AAATAAAATTACTAAAAAATTAAGATAAATAAAATTACCCAAATGACTATTCGTTTAACCTTGAT
99313 TTACCTAAAGCACGGAGA
258 TTACCTAAAGCACGGAGA
99331 ATTTG
1 ATTTG
99336 CTTCTCAAAA
Statistics
Matches: 262, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
274 74 0.28
275 57 0.22
276 86 0.33
277 45 0.17
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (275 bp):
ATTTGGTAGCTGAACTTTACTCTATCTCCTATTCCACTCATCGCAATTTCATATTTTTTTTCAAT
TTAATCACTGAAACCATATAGATTAATTTTTTGGTCACTCCGTCAATAATCTTGTAACAACATTA
TGATGCGGATTAGATAAATAATTTTTTAATCGTTAAAAATAGTGTAAATAACACGTAAGAAAAAA
TAAAATTACTAAAAAATTAAGATAAATAAAATTACCCAAATGACTATTCGTTTAACCTTGATTTA
CCTAAAGCACGGAGA
Found at i:100849 original size:141 final size:140
Alignment explanation
Indices: 100688--101038 Score: 544
Period size: 141 Copynumber: 2.5 Consensus size: 140
100678 CATTAACATC
*
100688 TCGATTATTCAATTCT-ATAATTGGTTAAAATAAATTAGGGTTAATATTAGAGCCTCCATTTTAT
1 TCGATTATTCAATT-TAATAATTGGTTAAAATAAATTAGGGTTAATATTAGAGCCTCCATTTTAG
100752 GTTTAATTTCACTTTAGTCCTCTAATTTATGGAG-TAATTTGAATTGGCTCTCGCATTAACATGC
65 GTTTAATTTCACTTTAGTCCTCTAATTTA-GGAGATAATTTGAATTGGCTCTCGCATTAACATGC
*
100816 TCGAGGGACCATT
129 CCGAGGGACCA-T
* * * *
100829 TCGATTATTCAATTTAATAATTGATTAAACTAAATTAGGGTTAATATTATAGCCTCCAATTTAGG
1 TCGATTATTCAATTTAATAATTGGTTAAAATAAATTAGGGTTAATATTAGAGCCTCCATTTTAGG
* *
100894 TTTAATTTCACTTTAGTCCTTTAATTTAGGGGATAATTTGAATTGGCTCTCGCATTAACATGCCC
66 TTTAATTTCACTTTAGTCCTCTAATTTAGGAGATAATTTGAATTGGCTCTCGCATTAACATGCCC
100959 GAGGGACCAT
131 GAGGGACCAT
* * * *
100969 TCGATTATTCTATTCAATAATTGGTTAAAATAAATTAGGATTAATATTAGAGTCTCCATTTTCAG
1 TCGATTATTCAATTTAATAATTGGTTAAAATAAATTAGGGTTAATATTAGAGCCTCCATTTT-AG
101034 GTTTA
65 GTTTA
101039 GTCCTCTATG
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
140 59 0.31
141 132 0.69
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (140 bp):
TCGATTATTCAATTTAATAATTGGTTAAAATAAATTAGGGTTAATATTAGAGCCTCCATTTTAGG
TTTAATTTCACTTTAGTCCTCTAATTTAGGAGATAATTTGAATTGGCTCTCGCATTAACATGCCC
GAGGGACCAT
Found at i:103614 original size:18 final size:19
Alignment explanation
Indices: 103591--103639 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
103581 GCTCATACAA
103591 TATCGATACTCA-AGGGAG
1 TATCGATACTCAGAGGGAG
* *
103609 TATCGATACCCATGATGGAG
1 TATCGATACTCA-GAGGGAG
103629 TATCGATACTC
1 TATCGATACTC
103640 CCAATAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (19 bp):
TATCGATACTCAGAGGGAG
Found at i:103716 original size:18 final size:19
Alignment explanation
Indices: 103690--103741 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
103680 AAGTAAAATT
*
103690 GTATTGATACTCATGG-GA
1 GTATCGATACTCATGGTGA
*
103708 GTATCGATACTGAGGATGGTGA
1 GTATCGATACT---CATGGTGA
103730 GTATCGATACTC
1 GTATCGATACTC
103742 CTAGAAGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (19 bp):
GTATCGATACTCATGGTGA
Found at i:111084 original size:23 final size:22
Alignment explanation
Indices: 111056--111127 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 22
111046 CACAGCAGAG
111056 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* *
111079 TGCATCGGTGCACCTT-AATGG-
1 TGCATCGATGCACATTCAA-GGA
*
111100 TGTATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
111122 TGCATC
1 TGCATC
111128 ACAGTGCATC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
21 15 0.38
22 9 0.22
23 16 0.40
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:118219 original size:20 final size:20
Alignment explanation
Indices: 118194--118231 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
118184 TTTGGTTCGC
*
118194 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
118214 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
118232 GGAATACGAT
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:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:118234 original size:18 final size:19
Alignment explanation
Indices: 118194--118237 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
118184 TTTGGTTCGC
*
118194 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
118214 GGAATAAAAGATTACCA-G
1 GGAATAAAAGATTACCAGG
118232 GGAATA
1 GGAATA
118238 CGATTACTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:122688 original size:26 final size:26
Alignment explanation
Indices: 122659--122746 Score: 167
Period size: 26 Copynumber: 3.4 Consensus size: 26
122649 AAAGTGGAGA
122659 GAGAAAGCTTAAGGGATTTATTAAAC
1 GAGAAAGCTTAAGGGATTTATTAAAC
122685 GAGAAAGCTTAAGGGATTTATTAAAC
1 GAGAAAGCTTAAGGGATTTATTAAAC
*
122711 GAGAAAGCTTAAGGGATTTGTTAAAC
1 GAGAAAGCTTAAGGGATTTATTAAAC
122737 GAGAAAGCTT
1 GAGAAAGCTT
122747 CAGATTTGGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (26 bp):
GAGAAAGCTTAAGGGATTTATTAAAC
Found at i:125432 original size:41 final size:41
Alignment explanation
Indices: 125376--125671 Score: 144
Period size: 41 Copynumber: 7.2 Consensus size: 41
125366 GCGTTTTTAT
* * *
125376 ACAAACGTCGTAATAGGGTCATCTCTAGTGGTGTTTTTTCA
1 ACAAACGACGCAATAGGGTCATCTATAGTGGTGTTTTTTCA
* * * * * *
125417 ACAAATGCCGCAATAGAGTAATACTTTAGTGATG-TTTTT-A
1 ACAAACGACGCAATAGGGTCAT-CTATAGTGGTGTTTTTTCA
* *
125457 TACAAACGACGCAATAGGGTTCATTTATAGTGG-CTTTTTTCA
1 -ACAAACGACGCAATAGGG-TCATCTATAGTGGTGTTTTTTCA
* * * * * **
125499 ACAAACGCCACAA-CGGAGT-AGTACTTTAGCGG-CCTTTTT-A
1 ACAAACGACGCAATAGG-GTCA-T-CTATAGTGGTGTTTTTTCA
* ** *
125539 TACAAACGTCGCAATAAAGTCATCTATAGTGGCGTTTTTTCA
1 -ACAAACGACGCAATAGGGTCATCTATAGTGGTGTTTTTTCA
* * * *
125581 ACAAACGTCGCAATAGAGT-AGTACTTTAGTAGTG-TTTTT-A
1 ACAAACGACGCAATAGGGTCA-T-CTATAGTGGTGTTTTTTCA
* * * *
125621 TATAAACGTCGCAATAGGGTTCATCTATAGTGGTTTGTTTTTCT
1 -ACAAACGACGCAATAGGG-TCATCTATAGTGGTGT-TTTTTCA
125665 ACAAACG
1 ACAAACG
125672 TCACGACAGA
Statistics
Matches: 192, Mismatches: 42, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
39 1 0.01
40 15 0.08
41 139 0.72
42 25 0.13
43 12 0.06
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (41 bp):
ACAAACGACGCAATAGGGTCATCTATAGTGGTGTTTTTTCA
Found at i:125636 original size:164 final size:166
Alignment explanation
Indices: 125357--125711 Score: 500
Period size: 164 Copynumber: 2.2 Consensus size: 166
125347 CAAAATTATA
* * * ** * *
125357 ACTTTAGCAGCGTTTTTATACAAACGTCGTAATAGGGTCATCTCTAGTGGTGTTTTTTCAACAAA
1 ACTTTAGCGGCATTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCGTTTTTTCAACAAA
* *
125422 TGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATTTATAG
66 CGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATCTATAG
*
125487 TGG-CT-TTTTTCAACAAACGCCACAACGGAGTAGT
131 TGGTCTGTTTTTCAACAAACGCCACAACAGAGTAGT
*
125521 ACTTTAGCGGCCTTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCGTTTTTTCAACAAA
1 ACTTTAGCGGCATTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCGTTTTTTCAACAAA
* * * *
125586 CGTCGCAATAGAGTAGTACTTTAGT-AGTGTTTTTATATAAACGTCGCAATAGGGTTCATCTATA
66 CGCCGCAATAGAGTAATACTTTAGTGA-TGTTTTTATACAAACGACGCAATAGGGTTCATCTATA
* * * * *
125650 GTGGTTTGTTTTTCTACAAACGTCACGACAGAGTATT
130 GTGGTCTGTTTTTCAACAAACGCCACAACAGAGTAGT
125687 ACTTTAGCGGCATTTTTATACAAAC
1 ACTTTAGCGGCATTTTTATACAAAC
125712 ACAGTAATAG
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
163 1 0.01
164 118 0.70
165 1 0.01
166 48 0.29
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (166 bp):
ACTTTAGCGGCATTTTTATACAAACGTCGCAATAAAGTCATCTATAGTGGCGTTTTTTCAACAAA
CGCCGCAATAGAGTAATACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATCTATAG
TGGTCTGTTTTTCAACAAACGCCACAACAGAGTAGT
Found at i:125746 original size:84 final size:83
Alignment explanation
Indices: 125357--125754 Score: 385
Period size: 82 Copynumber: 4.8 Consensus size: 83
125347 CAAAATTATA
* * * * *
125357 ACTTTAGCAGCGTTTTTATACAAACGTCGTAATAGGG-TCATCTCTAGTGG-TGTTTTTTCAACA
1 ACTTTAGCGGCATTTTTATACAAACGACGCAATAGGGTTCATCTATAGTGGCT-TTTTTTCAACA
* * * * *
125420 AATGCCGCAATAGAGTAAT
65 AACGTCACAACAGAGTAGT
* *** *
125439 ACTTTAGTGATGTTTTTATACAAACGACGCAATAGGGTTCATTTATAGTGGC-TTTTTTCAACAA
1 ACTTTAGCGGCATTTTTATACAAACGACGCAATAGGGTTCATCTATAGTGGCTTTTTTTCAACAA
* *
125503 ACGCCACAACGGAGTAGT
66 ACGTCACAACAGAGTAGT
* * ** *
125521 ACTTTAGCGGCCTTTTTATACAAACGTCGCAATAAAG-TCATCTATAGTGGCGTTTTTTCAACAA
1 ACTTTAGCGGCATTTTTATACAAACGACGCAATAGGGTTCATCTATAGTGGCTTTTTTTCAACAA
* *
125585 ACGTCGCAATAGAGTAGT
66 ACGTCACAACAGAGTAGT
** ** * * * *
125603 ACTTTAGTAGTGTTTTTATATAAACGTCGCAATAGGGTTCATCTATAGTGGTTTGTTTTTCTACA
1 ACTTTAGCGGCATTTTTATACAAACGACGCAATAGGGTTCATCTATAGTGGCTT-TTTTTCAACA
* *
125668 AACGTCACGACAGAGTATT
65 AACGTCACAACAGAGTAGT
* * *
125687 ACTTTAGCGGCATTTTTATACAAAC-ACAGTAATAGGGTTTATCTATAATGGCATTTTTTT-AAC
1 ACTTTAGCGGCATTTTTATACAAACGAC-GCAATAGGGTTCATCTATAGTGGC-TTTTTTTCAAC
125750 AAACG
64 AAACG
125755 GTGCTAAAAG
Statistics
Matches: 259, Mismatches: 50, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
81 13 0.05
82 142 0.55
83 33 0.13
84 69 0.27
85 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (83 bp):
ACTTTAGCGGCATTTTTATACAAACGACGCAATAGGGTTCATCTATAGTGGCTTTTTTTCAACAA
ACGTCACAACAGAGTAGT
Found at i:141891 original size:11 final size:11
Alignment explanation
Indices: 141875--141900 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
141865 CATCCTCCAA
141875 CTTCCATCCTT
1 CTTCCATCCTT
141886 CTTCCATCCTT
1 CTTCCATCCTT
141897 CTTC
1 CTTC
141901 TTAACTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (11 bp):
CTTCCATCCTT
Found at i:153154 original size:2 final size:2
Alignment explanation
Indices: 153147--153171 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
153137 AGAATATAGA
153147 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
153172 CACAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:155059 original size:16 final size:16
Alignment explanation
Indices: 155037--155075 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
155027 ATAAAAAAAG
*
155037 CATACATCAACATATA
1 CATACATCAACACATA
*
155053 TATACATCAACACATA
1 CATACATCAACACATA
155069 CATACAT
1 CATACAT
155076 GTTTCATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CATACATCAACACATA
Found at i:155539 original size:37 final size:37
Alignment explanation
Indices: 155498--155628 Score: 178
Period size: 37 Copynumber: 3.6 Consensus size: 37
155488 ACAAAGTGTC
*
155498 GTCTCGCTAT-AGACAAGTTTTCT-TAAAAACCAATTTT
1 GTCTCGCT-TGAGAC-AGTTTTCTCTAAAAACAAATTTT
*
155535 GTCTCGCTTTAGACAGTTTTCTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
* * *
155572 GTCTCGCTTGAGACA-ATTTCTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
155608 GTCTCGCTTGAGACAGTTTTC
1 GTCTCGCTTGAGACAGTTTTC
155629 CCTTGAGAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
36 42 0.49
37 43 0.51
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (37 bp):
GTCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTT
Found at i:155600 original size:36 final size:36
Alignment explanation
Indices: 155476--155622 Score: 154
Period size: 37 Copynumber: 4.0 Consensus size: 36
155466 CTTTGGGAGT
** *
155476 ATTTCTCTCGAAACAAAGTGTCGTCTCGCTAT-AGACA
1 ATTTCTCTAAAAACAAA-TTTCGTCTCGCT-TGAGACA
* * *
155513 AGTTT-TCTTAAAAACCAATTTTGTCTCGCTTTAGACA
1 A-TTTCTC-TAAAAACAAATTTCGTCTCGCTTGAGACA
* *
155550 GTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
1 -ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
*
155587 ATTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACA
1 ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
155623 GTTTTCCCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
36 34 0.36
37 48 0.51
38 12 0.13
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (36 bp):
ATTTCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
Found at i:155880 original size:98 final size:99
Alignment explanation
Indices: 155773--155960 Score: 247
Period size: 100 Copynumber: 1.9 Consensus size: 99
155763 CAAAACAAAT
* ** *
155773 TTCATCTCGCTTGAGATAA-TTCCATC-GGAACACAAATTTT-AAAGTTATTTTACTTGAAACAA
1 TTCATCTCGCTTGAGACAATTTCC-TCTAAAACACAAATTTTGAAA-TTATTTCACTTGAAACAA
* * *
155835 ACTTAATCTCACTTGAGGTTGTTTTTTCATAAACAG
64 AATTAATCTCACTTGAGATTATTTTTTCATAAACAG
* *
155871 TTCATCTCGCTTGATACAATTTCCTCTTAAAACACAAATTTTGAAATTGTTTCACTTGAAACAAA
1 TTCATCTCGCTTGAGACAATTTCCTC-TAAAACACAAATTTTGAAATTATTTCACTTGAAACAAA
155936 ATTAATCTCACTTGAGATTATTTTT
65 ATTAATCTCACTTGAGATTATTTTT
155961 CTAAAAACAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
98 19 0.25
99 4 0.05
100 51 0.66
101 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (99 bp):
TTCATCTCGCTTGAGACAATTTCCTCTAAAACACAAATTTTGAAATTATTTCACTTGAAACAAAA
TTAATCTCACTTGAGATTATTTTTTCATAAACAG
Found at i:156052 original size:66 final size:67
Alignment explanation
Indices: 155965--156339 Score: 429
Period size: 67 Copynumber: 5.6 Consensus size: 67
155955 ATTTTTCTAA
* * * * * *
155965 AAACAAA-CTTTGTCTCACTTGAGACAGTCTTC-CTT-AAGATATAATCTTTGAGTTTGTTTCCC
1 AAACAAAGTTTTGTCTCTCTTGAGACAGT-TTCTCTTGAAAAAAAAATCTTTGAGTCTGTTTCCC
156027 TTG
65 TTG
* * * * *
156030 AAACAATGCTTTGTCTCTCTTGAGACAGTTTTTCTT-AAAATAAAAATCTTTGAGTTTATTTCCC
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAA-AAAAATCTTTGAGTCTGTTTCCC
156094 TTG
65 TTG
* * *
156097 AAACAAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTGAAACAAAAAAAATATTTGAGTCTGTTTC
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG--A-AAAAAAAATCTTTGAGTCTGTTTC
156162 CCTTG
63 CCTTG
* * *
156167 AAAAAAAGTTTTGTCTCTCTTGAGACATTTTCTCTTGAAAAAAAAATCTTTGAGTATGTTTCCCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAAAATCTTTGAGTCTGTTTCCCT
156232 TG
66 TG
* * * * * *
156234 AAACGAAGTTTTGTCTCTCTTAAGACAATTTCTCTTGAAACAAAATTATTTGAGTCTGTTTCCCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAAAATCTTTGAGTCTGTTTCCCT
156299 TG
66 TG
* *
156301 AAACATA-TTTTGTCTCTCTTAAGACAGTTTC-CATTGAAA
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC-TTGAAA
156340 CAAATCCCTA
Statistics
Matches: 271, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
65 9 0.03
66 55 0.20
67 145 0.54
68 1 0.00
70 58 0.21
71 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (67 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAAAATCTTTGAGTCTGTTTCCCT
TG
Found at i:156180 original size:137 final size:135
Alignment explanation
Indices: 156011--156330 Score: 468
Period size: 137 Copynumber: 2.4 Consensus size: 135
156001 AGATATAATC
* * *
156011 TTTGAGTTTGTTTCCCTTGAAACAATGCTTTGTCTCTCTTGAGACAGTTTT-TCTT-AAAATAAA
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAA-AAA
* *
156074 AATCTTTGAGTTTATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGAAAATTTCTCTTGAAACA
65 AATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAAC-
156139 AAAAAAATA
129 --AAAAATA
*
156148 TTTGAGTCTGTTTCCCTTGAAAAAAAGTTTTGTCTCTCTTGAGACA-TTTTCTCTTGAAAAAAAA
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAAAAAA
* * *
156212 ATCTTTGAGTATGTTTCCCTTGAAACGAAGTTTTGTCTCTCTTAAGACAATTTCTCTTGAAACAA
66 ATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAACAA
*
156277 AATTA
131 AAATA
* *
156282 TTTGAGTCTGTTTCCCTTGAAACATA-TTTTGTCTCTCTTAAGACAGTTT
1 TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTT
156331 CCATTGAAAC
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
133 18 0.11
134 33 0.20
136 4 0.02
137 108 0.65
138 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (135 bp):
TTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAAAAAAA
ATCTTTGAGTATATTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGAAAATTTCTCTTGAAACAA
AAATA
Found at i:156626 original size:130 final size:131
Alignment explanation
Indices: 156343--156852 Score: 490
Period size: 131 Copynumber: 3.9 Consensus size: 131
156333 ATTGAAACAA
* *** * *
156343 ATCCCTAAAGATGGCCAA-CCGTCCTCATCACGTAGGAATTGTGTCATCCACTGACCATATCTCC
1 ATCCCTAAAGATGGCCAAGCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCC
** * * * *
156407 TCATCACGTAGGAGTTGCGTCAACTTTAGATAACCAAACTTCTTCATCACATAGGAACCATGTTA
66 TCATCACGTAGGAGCCGTGTCACCTTT-GATAACCAAACATCCTCATCACATAGGAACCATGTTA
156472 TC
130 TC
* * * * *
156474 ATCTCTAAAGATGGCC-ATCCATCCTCATCACGTAGGAATC-GTGTCATCCCCCAACCAGATCTC
1 ATCCCTAAAGATGGCCAAGCCATCCTCATCACGTAGGAA-CAATGTCATCCACCGACCAGATCTC
* ** *
156537 CTCATCACATAGGAGCCGTGTCACCTTTGATAACCAGTCGTCCTCATCACATAGGAACCATGTTA
65 CTCATCACGTAGGAGCCGTGTCACCTTTGATAACCAAACATCCTCATCACATAGGAACCATGTTA
156602 TC
130 TC
* * * * * * *
156604 ATCCCTAAAGATGGCCTA-CCATCATCATCACGTAAGAACTATATCATCCACCGACCAAACCTCC
1 ATCCCTAAAGATGGCCAAGCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCC
* * * * *** *
156668 TCATCACGTAAGAGCCGTGTCACCCCTAGATAACCAACCATCCTCATCGTGTAGGAACCTTGTTA
66 TCATCACGTAGGAGCCGTGTCA-CCTTTGATAACCAAACATCCTCATCACATAGGAACCATGTTA
156733 TC
130 TC
* * * * *
156735 ACCCTTCCTAAAGATGACCAAGACGTCCTCATCACGTATGAACAATGTCATCCACCGACCAGATC
1 A---TCCCTAAAGATGGCCAAGCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATC
** * * **
156800 TCCTCATCACGTACAAGCCGTGCCACCCTTAGACGACCAGAAC-TCCTCATCAC
63 TCCTCATCACGTAGGAGCCGTGTCA-CCTTTGATAACCA-AACATCCTCATCAC
156853 GTATGAGCCG
Statistics
Matches: 313, Mismatches: 56, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
129 1 0.00
130 107 0.34
131 113 0.36
134 14 0.04
135 76 0.24
136 2 0.01
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (131 bp):
ATCCCTAAAGATGGCCAAGCCATCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCC
TCATCACGTAGGAGCCGTGTCACCTTTGATAACCAAACATCCTCATCACATAGGAACCATGTTAT
C
Found at i:157045 original size:21 final size:22
Alignment explanation
Indices: 157016--157060 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
157006 TGTCCGGGTC
157016 TTAAAAA-T-TATTATTACTATT
1 TTAAAAATTATATTATTAC-ATT
*
157037 TTAACAATTATATTATTACATT
1 TTAAAAATTATATTATTACATT
157059 TT
1 TT
157061 GTAGGCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAAATTATATTATTACATT
Found at i:157873 original size:24 final size:25
Alignment explanation
Indices: 157825--157870 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
157815 TCCTCTCTCT
157825 AAAAATAATTTAAAAAAATGAAATG
1 AAAAATAATTTAAAAAAATGAAATG
*
157850 AAAATTAA-TTAAAAAAA-GAAA
1 AAAAATAATTTAAAAAAATGAAA
157871 ATGTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (25 bp):
AAAAATAATTTAAAAAAATGAAATG
Done.