Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 20
Found at i:2560336 original size:21 final size:21
Alignment explanation
Indices: 2560312--2560351 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2560302 TCTCATAATT
*
2560312 TTAATCATATATACCATTTCC
1 TTAAGCATATATACCATTTCC
* *
2560333 TTAAGCTTATATATCATTT
1 TTAAGCATATATACCATTT
2560352 AAGGTTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (21 bp):
TTAAGCATATATACCATTTCC
Found at i:2561540 original size:23 final size:23
Alignment explanation
Indices: 2561514--2561563 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
2561504 GCTTGGTATT
*
2561514 ATGGTAAATATCAAGTTTCATTA
1 ATGGTAAATATCAAGTTTCATGA
2561537 ATGGTAAATATCAAGTTTCATGA
1 ATGGTAAATATCAAGTTTCATGA
2561560 ATGG
1 ATGG
2561564 CAAAATGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (23 bp):
ATGGTAAATATCAAGTTTCATGA
Found at i:2565447 original size:20 final size:20
Alignment explanation
Indices: 2565401--2565447 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
2565391 TCAGACCATG
* *
2565401 AATTCCAAATATAAGAAAAT
1 AATTCTAAATATAAAAAAAT
*
2565421 AATTTCTAAATTTAAAAAAAT
1 AA-TTCTAAATATAAAAAAAT
2565442 AATTCT
1 AATTCT
2565448 TTTTTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTCTAAATATAAAAAAAT
Found at i:2568966 original size:2 final size:2
Alignment explanation
Indices: 2568959--2568983 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2568949 AAGGGGAGAT
2568959 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2568984 TTAAAAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2569202 original size:2 final size:2
Alignment explanation
Indices: 2569197--2569243 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2569187 AGCCTAAAAA
2569197 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
2569239 AT AT A
1 AT AT A
2569244 AGAAATTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2570043 original size:31 final size:31
Alignment explanation
Indices: 2570001--2570064 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
2569991 AATGCATAAA
* *
2570001 ATATGATCACTTTCGTTTTTATTTGATTAAG
1 ATATGACCACTTTCGTTTTTATTTAATTAAG
*
2570032 ATATGACCACTTTCTTTTTTATTTAATTAAG
1 ATATGACCACTTTCGTTTTTATTTAATTAAG
2570063 AT
1 AT
2570065 GTGATAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (31 bp):
ATATGACCACTTTCGTTTTTATTTAATTAAG
Found at i:2570229 original size:32 final size:31
Alignment explanation
Indices: 2570174--2570266 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 31
2570164 CAATTTAGTC
* *
2570174 ATATTTTTAAATAAATTTTAAAATTAAAATAT
1 ATATTTTTAAATAAA-TATAAAAATAAAATAT
2570206 ATATTTTTAAATGAAA-ATAAAAAT-AAA-AT
1 ATATTTTTAAAT-AAATATAAAAATAAAATAT
* *
2570235 AT-TTTTTAAATTAAGT-TAATAATAAAATAT
1 ATATTTTTAAA-TAAATATAAAAATAAAATAT
2570265 AT
1 AT
2570267 TTAATAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 16 0.31
29 8 0.15
30 7 0.13
31 6 0.12
32 12 0.23
33 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (31 bp):
ATATTTTTAAATAAATATAAAAATAAAATAT
Found at i:2574460 original size:17 final size:18
Alignment explanation
Indices: 2574422--2574460 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2574412 ACATTGTTGG
2574422 TTTGATGAAAAAAGCGAT
1 TTTGATGAAAAAAGCGAT
*
2574440 TTTGATGAAACAAGC-AT
1 TTTGATGAAAAAAGCGAT
2574457 TTTG
1 TTTG
2574461 TCGAGAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (18 bp):
TTTGATGAAAAAAGCGAT
Found at i:2575386 original size:18 final size:18
Alignment explanation
Indices: 2575360--2575405 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2575350 TTGTTCAAGG
2575360 ATAACTTAAAAC-AAATTA
1 ATAA-TTAAAACTAAATTA
* *
2575378 ATAATTTAAACTTAATTA
1 ATAATTAAAACTAAATTA
2575396 ATAATTAAAA
1 ATAATTAAAA
2575406 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATTAAAACTAAATTA
Found at i:2577708 original size:20 final size:20
Alignment explanation
Indices: 2577685--2577741 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2577675 CAATATCAGT
*
2577685 TGCTTGGTATTGAGACCGGA
1 TGCTCGGTATTGAGACCGGA
2577705 TGCTCGGTATTGAGACCGGA
1 TGCTCGGTATTGAGACCGGA
*
2577725 TGCTCGGTCTTGAGACC
1 TGCTCGGTATTGAGACC
2577742 ACTAGTCTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (20 bp):
TGCTCGGTATTGAGACCGGA
Found at i:2577787 original size:20 final size:20
Alignment explanation
Indices: 2577764--2577801 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2577754 ATCTAAGAAA
*
2577764 TGGTCTCCATACCGAAGGAC
1 TGGTATCCATACCGAAGGAC
2577784 TGGTATCCATACCGAAGG
1 TGGTATCCATACCGAAGG
2577802 CTTGATATCA
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:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (20 bp):
TGGTATCCATACCGAAGGAC
Found at i:2577810 original size:20 final size:20
Alignment explanation
Indices: 2577769--2577816 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2577759 AGAAATGGTC
*
2577769 TCCATACCGAAGGACTGGTA
1 TCCATACCGAAGGACTGATA
2577789 TCCATACCGAAGG-CTTGATA
1 TCCATACCGAAGGAC-TGATA
*
2577809 TCAATACC
1 TCCATACC
2577817 TAAAGTGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (20 bp):
TCCATACCGAAGGACTGATA
Found at i:2578410 original size:18 final size:17
Alignment explanation
Indices: 2578363--2578412 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
2578353 AATGATAACC
*
2578363 TAAACAAATTAATAATT
1 TAAACAAATTAAAAATT
*
2578380 TAAACTTAATTAAAAATT
1 TAAAC-AAATTAAAAATT
2578398 TAAACAAATTTAAAA
1 TAAACAAA-TTAAAA
2578413 GAAGTAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAACAAATTAAAAATT
Found at i:2581254 original size:21 final size:21
Alignment explanation
Indices: 2581230--2581269 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2581220 AATACTTTAT
2581230 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
2581251 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
2581270 AAATAGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:2585117 original size:23 final size:23
Alignment explanation
Indices: 2585087--2585139 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2585077 CACTAGTTAC
* **
2585087 TGCATCGATGTATCTGTTGAATG
1 TGCATCGATGCATCCATTGAATG
2585110 TGCATCGATGCATCCATTGAATG
1 TGCATCGATGCATCCATTGAATG
2585133 TGCATCG
1 TGCATCG
2585140 GTTGAATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (23 bp):
TGCATCGATGCATCCATTGAATG
Found at i:2585138 original size:15 final size:15
Alignment explanation
Indices: 2585118--2585153 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2585108 TGTGCATCGA
2585118 TGCATCCATTGAATG
1 TGCATCCATTGAATG
**
2585133 TGCATCGGTTGAATG
1 TGCATCCATTGAATG
2585148 TGCATC
1 TGCATC
2585154 GATTCACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (15 bp):
TGCATCCATTGAATG
Found at i:2585153 original size:38 final size:36
Alignment explanation
Indices: 2585102--2585172 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 36
2585092 CGATGTATCT
*
2585102 GTTGAATGTGCATCGATGCATCCATTGAATGTGCATCG
1 GTTGAATGTGCATCGATGCA-CCA-TGAAGGTGCATCG
*
2585140 GTTGAATGTGCATCGATTCACCATGAAGGTGCA
1 GTTGAATGTGCATCGATGCACCATGAAGGTGCA
2585173 CCGATGCACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 9 0.29
37 3 0.10
38 19 0.61
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (36 bp):
GTTGAATGTGCATCGATGCACCATGAAGGTGCATCG
Found at i:2585154 original size:15 final size:15
Alignment explanation
Indices: 2585126--2585154 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2585116 GATGCATCCA
2585126 TTGAATGTGCATCGG
1 TTGAATGTGCATCGG
2585141 TTGAATGTGCATCG
1 TTGAATGTGCATCG
2585155 ATTCACCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (15 bp):
TTGAATGTGCATCGG
Found at i:2591380 original size:20 final size:20
Alignment explanation
Indices: 2591332--2591381 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2591322 CGCTGGTCTT
*
2591332 TATACCGAAGGACTGGTCTC
1 TATACCGAAGGACTGGTATC
*
2591352 CATACCGAAGGACTGGTATC
1 TATACCGAAGGACTGGTATC
*
2591372 TATATCGAAG
1 TATACCGAAG
2591382 ATTTAGTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (20 bp):
TATACCGAAGGACTGGTATC
Found at i:2591957 original size:17 final size:17
Alignment explanation
Indices: 2591932--2591982 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
2591922 TTGATCAAGG
*
2591932 ATAACTTAAACAAATTA
1 ATAATTTAAACAAATTA
**
2591949 ATAATTTAAAGTTAATTA
1 ATAATTTAAA-CAAATTA
2591967 AT-ATTGTAAACAAATT
1 ATAATT-TAAACAAATT
2591983 TAAAAAAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:2592033 original size:27 final size:27
Alignment explanation
Indices: 2592003--2592063 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
2591993 TAATATTATT
*
2592003 TAAAAAA-GAAATCGAAGTTCGATTAAC
1 TAAAAAACAAAAT-GAAGTTCGATTAAC
* *
2592030 TAAAAAACAAAATGGAGTTTGATTAAC
1 TAAAAAACAAAATGAAGTTCGATTAAC
*
2592057 AAAAAAA
1 TAAAAAA
2592064 ATTCAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.21
Consensus pattern (27 bp):
TAAAAAACAAAATGAAGTTCGATTAAC
Found at i:2593187 original size:14 final size:15
Alignment explanation
Indices: 2593163--2593192 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2593153 AAATTTAAAT
2593163 ATTATAAATAAATAA
1 ATTATAAATAAATAA
2593178 ATTA-AAATAAATAA
1 ATTATAAATAAATAA
2593192 A
1 A
2593193 CATAGATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTATAAATAAATAA
Found at i:2594283 original size:18 final size:18
Alignment explanation
Indices: 2594248--2594295 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2594238 TATTGCTCAA
2594248 TAATAACTT-AAATAAAT
1 TAATAACTTAAAATAAAT
* *
2594265 TAATAATTTAAAATTAAT
1 TAATAACTTAAAATAAAT
2594283 TAATAACTTAAAA
1 TAATAACTTAAAA
2594296 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAACTTAAAATAAAT
Found at i:2597325 original size:23 final size:24
Alignment explanation
Indices: 2597294--2597342 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
2597284 TACAACAAAG
* *
2597294 AAATCGGAGTTTGATTAATTAAAA
1 AAATCGGAGTTCGATTAACTAAAA
2597318 AAAT-GGAGTTCGATTAACTAAAA
1 AAATCGGAGTTCGATTAACTAAAA
2597341 AA
1 AA
2597343 CTACAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (24 bp):
AAATCGGAGTTCGATTAACTAAAA
Found at i:2598485 original size:14 final size:17
Alignment explanation
Indices: 2598454--2598488 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2598444 AATCAAAATT
2598454 TAAATATTATAAATAAA
1 TAAATATTATAAATAAA
*
2598471 TAAATATATAAAAATAAA
1 TAAATAT-TATAAATAAA
2598489 CATAGGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAATATTATAAATAAA
Found at i:2603649 original size:4 final size:4
Alignment explanation
Indices: 2603640--2603767 Score: 73
Period size: 4 Copynumber: 31.0 Consensus size: 4
2603630 CATACCCCTT
* **
2603640 TAAA TAAA TAAA TAAA TAAA -ATA TTCA -AAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * * * * *
2603686 TAAT TTAT TCGAAA TAAG TGAA TAAA TAAA TAAA TAAA TTAC TCGAAA
1 TAAA TAAA T--AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T--AAA
*
2603734 TAAA TAAA -AAA TTCAAA GTAAG TAAA TAAA TAAA
1 TAAA TAAA TAAA -T-AAA -TAAA TAAA TAAA TAAA
2603768 AATTATCTCC
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
3 6 0.06
4 79 0.83
5 2 0.02
6 8 0.08
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:2603676 original size:30 final size:30
Alignment explanation
Indices: 2603640--2603745 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 30
2603630 CATACCCCTT
*
2603640 TAAATAAATAAATAAATAAAATATTCAAAA
1 TAAATAAATAAATAAATAAATTATTCAAAA
*
2603670 TAAATAAATAAATAAATAATTTATTCGAAATAA
1 TAAATAAATAAATAAATAAATTATTC--AA-AA
* * *
2603703 GTGAATAAATAAATAAATAAATTACTCGAAA
1 -TAAATAAATAAATAAATAAATTATTCAAAA
2603734 TAAATAAA-AAAT
1 TAAATAAATAAAT
2603746 TCAAAGTAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.06
30 31 0.48
31 2 0.03
32 3 0.05
33 2 0.03
34 23 0.35
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (30 bp):
TAAATAAATAAATAAATAAATTATTCAAAA
Found at i:2603683 original size:34 final size:34
Alignment explanation
Indices: 2603640--2603745 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 34
2603630 CATACCCCTT
*
2603640 TAAATAAATAAATAAATAAAATATTC---A-AAA
1 TAAATAAATAAATAAATAAATTATTCGAAATAAA
* *
2603670 TAAATAAATAAATAAATAATTTATTCGAAATAAG
1 TAAATAAATAAATAAATAAATTATTCGAAATAAA
* *
2603704 TGAATAAATAAATAAATAAATTACTCGAAATAAA
1 TAAATAAATAAATAAATAAATTATTCGAAATAAA
2603738 TAAA-AAAT
1 TAAATAAAT
2603746 TCAAAGTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
30 24 0.38
33 5 0.08
34 35 0.55
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (34 bp):
TAAATAAATAAATAAATAAATTATTCGAAATAAA
Found at i:2603769 original size:26 final size:25
Alignment explanation
Indices: 2603641--2603769 Score: 100
Period size: 26 Copynumber: 4.8 Consensus size: 25
2603631 ATACCCCTTT
* *
2603641 AAATAAATAAATAAATAAAATATTC
1 AAATAAGTAAATAAATAAAAAATTC
*
2603666 AAAATAAATAAATAAATAAATAATTTATTC
1 -AAATAAGTAAATAAATAAA-AA---ATTC
*
2603696 GAAATAAGTGAATAAATAAATAAA-T-
1 -AAATAAGTAAATAAATAAA-AAATTC
* *
2603721 AAATTACTCGAAATAAATAAAAAATTC
1 AAATAAGT--AAATAAATAAAAAATTC
2603748 AAAGTAAGTAAATAAATAAAAA
1 AAA-TAAGTAAATAAATAAAAA
2603770 TTATCTCCAG
Statistics
Matches: 85, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.07
25 3 0.04
26 44 0.52
27 5 0.06
28 3 0.04
30 24 0.28
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (25 bp):
AAATAAGTAAATAAATAAAAAATTC
Found at i:2617393 original size:3 final size:3
Alignment explanation
Indices: 2617385--2617411 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2617375 CCAAATAAAT
2617385 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
2617412 AAAAGTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2624438 original size:112 final size:112
Alignment explanation
Indices: 2624238--2624468 Score: 408
Period size: 112 Copynumber: 2.1 Consensus size: 112
2624228 ACCGAAGTGC
*
2624238 CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACTGT
1 CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCGT
*
2624303 TATGCATTAAGCAAAATCGATCGATAACTTTCATACACGAAGTATGT
66 TATGCATTAAGCAAAATCAATCGATAACTTTCATACACGAAGTATGT
* * *
2624350 CGAAATGGTAATTCACCTCATTATGAATACCATTGGTGGTACTTTTTATGCCGAAAATGCACCGT
1 CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCGT
*
2624415 TATGTATTAAGCAAAATCAATCGATAACTTTCATACACGAAGTATGT
66 TATGCATTAAGCAAAATCAATCGATAACTTTCATACACGAAGTATGT
2624462 CGAAATG
1 CGAAATG
2624469 CACCTATAAC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (112 bp):
CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCGT
TATGCATTAAGCAAAATCAATCGATAACTTTCATACACGAAGTATGT
Found at i:2625032 original size:22 final size:22
Alignment explanation
Indices: 2624992--2625034 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2624982 TCGGTACCCC
*
2624992 TACTATGGTATCAACACTTCTA
1 TACTATGGTACCAACACTTCTA
* *
2625014 TACTATGGTACCGATACTTCT
1 TACTATGGTACCAACACTTCT
2625035 TTCAGTATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (22 bp):
TACTATGGTACCAACACTTCTA
Found at i:2632348 original size:23 final size:22
Alignment explanation
Indices: 2632293--2632337 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2632283 AATTTGAAAA
2632293 TTAACATTTTTTTTTCGAAAATT
1 TTAA-ATTTTTTTTTCGAAAATT
* *
2632316 TTAAAATTTTTTTTGGAAAATT
1 TTAAATTTTTTTTTCGAAAATT
2632338 CTTATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (22 bp):
TTAAATTTTTTTTTCGAAAATT
Found at i:2632717 original size:21 final size:21
Alignment explanation
Indices: 2632691--2632751 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
2632681 CAGAACCCCA
*
2632691 GGGGGGTATCGATTCCCCTGT
1 GGGGGGGATCGATTCCCCTGT
2632712 GGGGGGGATCGATTCCCCTGT
1 GGGGGGGATCGATTCCCCTGT
*
2632733 GGGGGGGATCGGTTCCCCT
1 GGGGGGGATCGATTCCCCT
2632752 TCAAAGGGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.08, C:0.25, G:0.43, T:0.25
Consensus pattern (21 bp):
GGGGGGGATCGATTCCCCTGT
Found at i:2632760 original size:23 final size:21
Alignment explanation
Indices: 2632690--2632792 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
2632680 ACAGAACCCC
* **
2632690 AGGGGGGTATCGATTCCCCTGT
1 AGGGGGG-ATCGGTTCCCCTCA
* * **
2632712 GGGGGGGATCGATTCCCCTGT
1 AGGGGGGATCGGTTCCCCTCA
*
2632733 GGGGGGGATCGGTTCCCCTTCAA
1 AGGGGGGATCGGTTCCCC-TC-A
*
2632756 AGGGGGAATCGGTT-CCCTCA
1 AGGGGGGATCGGTTCCCCTCA
* *
2632776 TGGGGGGATCGATTCCC
1 AGGGGGGATCGGTTCCC
2632793 TCTGCACCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
20 12 0.17
21 35 0.51
22 10 0.14
23 12 0.17
ACGTcount: A:0.14, C:0.24, G:0.39, T:0.23
Consensus pattern (21 bp):
AGGGGGGATCGGTTCCCCTCA
Found at i:2632786 original size:20 final size:21
Alignment explanation
Indices: 2632734--2632794 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
2632724 TTCCCCTGTG
2632734 GGGGGGATCGGTTCCCCTTCAAA
1 GGGGGGATCGGTT-CCC-TCAAA
* *
2632757 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
2632777 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
2632795 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 12 0.35
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:2638185 original size:111 final size:111
Alignment explanation
Indices: 2637949--2638186 Score: 370
Period size: 111 Copynumber: 2.1 Consensus size: 111
2637939 TGTACCGAAG
*
2637949 TGTCGAAATGGTAATTCACCTTATTATGAAAACCATGGGTGGCACCTTTTATGCCGAAAATACAC
1 TGTCGAAATGGTAATTCACCTCATTATGAAAACCATGGGTGGCACCTTTTATGCCGAAAATACAC
* *
2638014 CGTTATGCATTAAAAAAATTAATCGATAACTTTCATACACAAAGTA
66 CGTTATGCATTAAAAAAATCAATCGACAACTTTCATACACAAAGTA
* * * *
2638060 TGTTGAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCATCTTTTATGCCGAAAATGCAC
1 TGTCGAAATGGTAATTCACCTCATTATGAAAACCATGGGTGGCACCTTTTATGCCGAAAATACAC
* * *
2638125 CGTTATGCATTAAGCAAAATCAATCGACAACTTTCATACACGACGTA
66 CGTTATGCATTAA-AAAAATCAATCGACAACTTTCATACACAAAGTA
2638172 TGTCGAAAT-GTAATT
1 TGTCGAAATGGTAATT
2638187 ATAACTCTCA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
111 79 0.69
112 36 0.31
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (111 bp):
TGTCGAAATGGTAATTCACCTCATTATGAAAACCATGGGTGGCACCTTTTATGCCGAAAATACAC
CGTTATGCATTAAAAAAATCAATCGACAACTTTCATACACAAAGTA
Found at i:2638574 original size:14 final size:14
Alignment explanation
Indices: 2638555--2638587 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2638545 TCTACACAAG
2638555 CATCCATTATTACA
1 CATCCATTATTACA
2638569 CATCCATTATTACA
1 CATCCATTATTACA
2638583 CATCC
1 CATCC
2638588 CATACAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
CATCCATTATTACA
Found at i:2641021 original size:16 final size:16
Alignment explanation
Indices: 2641000--2641030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2640990 TAAATAGGGA
*
2641000 AAAATGAAGAAAAATG
1 AAAATGAAAAAAAATG
2641016 AAAATGAAAAAAAAT
1 AAAATGAAAAAAAAT
2641031 AGAAGAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
AAAATGAAAAAAAATG
Found at i:2641054 original size:27 final size:26
Alignment explanation
Indices: 2640999--2641068 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 26
2640989 CTAAATAGGG
*
2640999 AAAAAT-GAAGAAAAATGAAAATGAAA
1 AAAAATAGAAGAAAAA-GAAAATAAAA
2641025 AAAAATAGAAG-AAAAGAAAAATAAATA
1 AAAAATAGAAGAAAAAG-AAAATAAA-A
*
2641052 AAAAATAAGAATAAAAA
1 AAAAAT-AGAAGAAAAA
2641069 AAGGAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 1 0.03
26 17 0.46
27 11 0.30
28 4 0.11
29 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (26 bp):
AAAAATAGAAGAAAAAGAAAATAAAA
Found at i:2641056 original size:17 final size:16
Alignment explanation
Indices: 2641006--2641070 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
2640996 GGGAAAAATG
**
2641006 AAGAAAAATGAAAATGA
1 AAGAAAAAT-AAAAAAA
* *
2641023 AA-AAAAATAGAAGAA
1 AAGAAAAATAAAAAAA
2641038 AAGAAAAATAAATAAAA
1 AAGAAAAATAAA-AAAA
* *
2641055 AATAAGAATAAAAAAA
1 AAGAAAAATAAAAAAA
2641071 GGAAGAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.15
16 18 0.46
17 15 0.38
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAGAAAAATAAAAAAA
Found at i:2643640 original size:18 final size:16
Alignment explanation
Indices: 2643613--2643665 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
2643603 AATAAGGGGT
2643613 TCATAATGAGAAGAAC
1 TCATAATGAGAAGAAC
*
2643629 TCATCCAATGAGGAAGAAGT
1 TCAT--AATGA-GAAGAA-C
2643649 TCATAATGAGAAGAAC
1 TCATAATGAGAAGAAC
2643665 T
1 T
2643666 TGTTCGACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 5 0.16
17 6 0.19
18 10 0.32
19 6 0.19
20 4 0.13
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (16 bp):
TCATAATGAGAAGAAC
Found at i:2643670 original size:20 final size:19
Alignment explanation
Indices: 2643611--2643670 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 19
2643601 CAAATAAGGG
2643611 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
** *
2643630 CATC-CAATGAGGAAGAA--
1 GTTCATAATGA-GAAGAACT
2643647 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
2643667 GTTC
1 GTTC
2643671 GACCTTTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
17 8 0.27
18 10 0.33
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:2643855 original size:117 final size:115
Alignment explanation
Indices: 2643611--2643923 Score: 382
Period size: 117 Copynumber: 2.7 Consensus size: 115
2643601 CAAATAAGGG
* *
2643611 GTTCATAATGAGAAGAACTCATCCAATGA-G-GAAGAAGTTCATAATGAGAAGAACTTGTTCGAC
1 GTTCATAATGAGAAGAACTCATCCGATGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * * *** ** *
2643674 CTT-TTACTCAAATCCATCACAAAAAGAGGTGGATCGTTATTTTTTATAGAGA
66 CTTGTT--T-GATTCCAGCACAAAAAGAGGTGGATCAACATTTTCCACAGAGA
* *
2643726 GTTCATAATGAGAAGAACTCATCCGATGAGGTAGAATAAGTTCATAATGAGAAGAACTTATTCAA
1 GTTCATAATGAGAAGAACTCATCCGATGAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* *
2643791 CCTTGGTTTGATTCCAGCACAGAAAGAGGTGGATCAACA-TTTCCAGCGGAGA
65 CCTT-GTTTGATTCCAGCACAAAAAGAGGTGGATCAACATTTTCCA-CAGAGA
2643843 GTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCCGATGA-GGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
*
2643908 CCTTAGCTTGATTCCA
65 CCTT-GTTTGATTCCA
2643924 TCGCATAAGG
Statistics
Matches: 172, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
115 28 0.16
116 5 0.03
117 101 0.59
118 36 0.21
120 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (115 bp):
GTTCATAATGAGAAGAACTCATCCGATGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
CTTGTTTGATTCCAGCACAAAAAGAGGTGGATCAACATTTTCCACAGAGA
Found at i:2644032 original size:42 final size:42
Alignment explanation
Indices: 2643963--2644114 Score: 236
Period size: 42 Copynumber: 3.7 Consensus size: 42
2643953 TTGGCTTATT
* *
2643963 CATCGCATAAGGAGTTGGATCAACATCATCATTTTGCTCGTC
1 CATCACATAAGGAGTTGGATCAACATCATCATTTCGCTCGTC
* *
2644005 CATCACATAAGGAGTTGGATCAGCATCATCATTTCGCTCATC
1 CATCACATAAGGAGTTGGATCAACATCATCATTTCGCTCGTC
* *
2644047 CATCACATAAGGAGTTGGATCAACATCA-C-CTTGGCTCGTC
1 CATCACATAAGGAGTTGGATCAACATCATCATTTCGCTCGTC
2644087 CATCACATAAGGAGTTGGATCAACATCA
1 CATCACATAAGGAGTTGGATCAACATCA
2644115 CCTTAGGTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.35
41 1 0.01
42 65 0.64
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
CATCACATAAGGAGTTGGATCAACATCATCATTTCGCTCGTC
Found at i:2644073 original size:23 final size:23
Alignment explanation
Indices: 2644047--2644115 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
2644037 TTCGCTCATC
2644047 CATCACATAAGGAGTTGGATCAA
1 CATCACATAAGGAGTTGGATCAA
* * * *
2644070 CATCACCT--TG-GCTCG-TC--
1 CATCACATAAGGAGTTGGATCAA
2644087 CATCACATAAGGAGTTGGATCAA
1 CATCACATAAGGAGTTGGATCAA
2644110 CATCAC
1 CATCAC
2644116 CTTAGGTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 7 0.22
19 3 0.09
20 6 0.19
21 3 0.09
23 13 0.41
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CATCACATAAGGAGTTGGATCAA
Found at i:2644100 original size:40 final size:40
Alignment explanation
Indices: 2643920--2644118 Score: 218
Period size: 42 Copynumber: 4.8 Consensus size: 40
2643910 TTAGCTTGAT
* * ** * *
2643920 TCCATCGCATAAGGAGTTGGAACAACGCCGAACTTGGCTTA
1 TCCATCACATAAGGAGTTGGATCAACATC-ACCTTGGCTCA
* * * * *
2643961 TTCATCGCATAAGGAGTTGGATCAACATCATCATTTTGCTCG
1 TCCATCACATAAGGAGTTGGATCAACATCA-C-CTTGGCTCA
* * *
2644003 TCCATCACATAAGGAGTTGGATCAGCATCATCATTTCGCTCA
1 TCCATCACATAAGGAGTTGGATCAACATCA-C-CTTGGCTCA
*
2644045 TCCATCACATAAGGAGTTGGATCAACATCACCTTGGCTCG
1 TCCATCACATAAGGAGTTGGATCAACATCACCTTGGCTCA
2644085 TCCATCACATAAGGAGTTGGATCAACATCACCTT
1 TCCATCACATAAGGAGTTGGATCAACATCACCTT
2644119 AGGTAAACGT
Statistics
Matches: 138, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 41 0.30
41 26 0.19
42 71 0.51
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
TCCATCACATAAGGAGTTGGATCAACATCACCTTGGCTCA
Found at i:2644387 original size:3 final size:3
Alignment explanation
Indices: 2644381--2644439 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
2644371 TTTATCCTAA
*
2644381 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2644429 AAT AAC AAT AA
1 AAT AAT AAT AA
2644440 AAAGAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2645815 original size:13 final size:13
Alignment explanation
Indices: 2645797--2645822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2645787 TTGTAGTTTT
2645797 TTTATTTAAATTA
1 TTTATTTAAATTA
2645810 TTTATTTAAATTA
1 TTTATTTAAATTA
2645823 GGTTATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTTAAATTA
Found at i:2652613 original size:27 final size:26
Alignment explanation
Indices: 2652569--2652630 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
2652559 TTTTAATTCC
*
2652569 AATAAAAGAGCTATTAAATCCCTTTT
1 AATAAAAGAGCTAATAAATCCCTTTT
* *
2652595 AAATAAAAGAGGTAATAAATCTCTTTT
1 -AATAAAAGAGCTAATAAATCCCTTTT
2652622 AATAAAAGA
1 AATAAAAGA
2652631 AATAAATCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (26 bp):
AATAAAAGAGCTAATAAATCCCTTTT
Found at i:2652638 original size:23 final size:25
Alignment explanation
Indices: 2652569--2652639 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
2652559 TTTTAATTCC
* *
2652569 AATAAAAGAGCTATTAAATCCCTTTTA
1 AATAAAAGAG--AATAAATCTCTTTTA
2652596 AATAAAAGAGGTAATAAATCTCTTTT-
1 AATAAAAGA-G-AATAAATCTCTTTTA
2652622 AATAAAAGA-AATAAATCT
1 AATAAAAGAGAATAAATCT
2652640 ATTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.22
26 9 0.22
27 22 0.54
28 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (25 bp):
AATAAAAGAGAATAAATCTCTTTTA
Found at i:2666573 original size:19 final size:19
Alignment explanation
Indices: 2666545--2666585 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2666535 AAGGCCAATT
*
2666545 GAGCAGATGAGAACGTGAG
1 GAGCAAATGAGAACGTGAG
*
2666564 GAGCAAATGAGATCGTGAG
1 GAGCAAATGAGAACGTGAG
2666583 GAG
1 GAG
2666586 TAGATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.41, T:0.12
Consensus pattern (19 bp):
GAGCAAATGAGAACGTGAG
Found at i:2667772 original size:21 final size:19
Alignment explanation
Indices: 2667744--2667789 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2667734 TCATTGAATC
2667744 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
2667764 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
2667783 ACTTAGT
1 A-TTAGT
2667790 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:2671758 original size:18 final size:18
Alignment explanation
Indices: 2671723--2671759 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2671713 TAGAACATAA
**
2671723 ACTTAATTAAATGTTAAG
1 ACTTAATTAAATACTAAG
2671741 ACTTAATTAAATACTAAG
1 ACTTAATTAAATACTAAG
2671759 A
1 A
2671760 TGTTTGGTGT
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:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (18 bp):
ACTTAATTAAATACTAAG
Found at i:2673862 original size:2 final size:2
Alignment explanation
Indices: 2673855--2673887 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2673845 TAAAATTGTC
2673855 AT AT AT AT -T 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
2673888 TTCGAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2674927 original size:2 final size:2
Alignment explanation
Indices: 2674920--2674955 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2674910 ATTAATGATA
2674920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2674956 ATCTTAAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2679490 original size:25 final size:25
Alignment explanation
Indices: 2679452--2679499 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
2679442 TAAATGCATG
2679452 TGAACTAGAGATCATGTGGTTAGTT
1 TGAACTAGAGATCATGTGGTTAGTT
*
2679477 TGAACTAGATATCATGTGGTTAG
1 TGAACTAGAGATCATGTGGTTAG
2679500 GGTTTTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (25 bp):
TGAACTAGAGATCATGTGGTTAGTT
Found at i:2688884 original size:11 final size:10
Alignment explanation
Indices: 2688838--2688880 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
2688828 AATGAAAAAG
2688838 AAAAAA-AAC
1 AAAAAAGAAC
2688847 -AAAAA-AAC
1 AAAAAAGAAC
*
2688855 AGAAAAGAAC
1 AAAAAAGAAC
2688865 AAAAAAGAAC
1 AAAAAAGAAC
2688875 AAAAAA
1 AAAAAA
2688881 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 8 0.27
9 4 0.13
10 18 0.60
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:2688886 original size:25 final size:25
Alignment explanation
Indices: 2688824--2688888 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
2688814 CCTGAAGATG
* *
2688824 AAAAAATGAAA-AAGAAAAAAAACA
1 AAAAAAAGAAAGAACAAAAAAAACA
2688848 AAAAAACAGAAAAGAACAAAAAAGAAC-
1 AAAAAA-AG-AAAGAACAAAAAA-AACA
2688875 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
2688889 AATGAGGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 6 0.17
25 7 0.20
26 5 0.14
27 14 0.40
28 3 0.09
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.02
Consensus pattern (25 bp):
AAAAAAAGAAAGAACAAAAAAAACA
Found at i:2688890 original size:10 final size:11
Alignment explanation
Indices: 2688847--2688890 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
2688837 GAAAAAAAAC
2688847 AAAAA-AACAG
1 AAAAAGAACAG
2688857 -AAAAGAACA-
1 AAAAAGAACAG
*
2688866 AAAAAGAACAA
1 AAAAAGAACAG
2688877 AAAAAGAA-AG
1 AAAAAGAACAG
2688887 AAAA
1 AAAA
2688891 TGAGGGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 4 0.13
10 18 0.60
11 8 0.27
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAGAACAG
Found at i:2690309 original size:51 final size:51
Alignment explanation
Indices: 2690179--2690607 Score: 522
Period size: 51 Copynumber: 8.3 Consensus size: 51
2690169 AGAAGAGGAA
* * *
2690179 GAAGATATTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * *
2690230 GAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGGGGACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
2690284 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
2690335 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * *
2690386 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* *
2690440 AAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *** *
2690491 AAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAATAAGCGAGCCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
2690542 GAAGATTTTCGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
2690593 GAAGATTGTTCGAGT
1 GAAGA-TGTTCGAGT
2690608 CTTATACTCT
Statistics
Matches: 334, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.00
51 231 0.69
52 9 0.03
54 92 0.28
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (51 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:2690473 original size:156 final size:156
Alignment explanation
Indices: 2690179--2690607 Score: 609
Period size: 156 Copynumber: 2.8 Consensus size: 156
2690169 AGAAGAGGAA
*
2690179 GAAGATATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
1 GAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * *
2690244 AGTTCTATACTCCCTAGAGAAAGAGGGAGGGGACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
66 AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGAGTTCCATACTCCC
2690309 TAGAGAAAGAGGGAGCGAACCCGTGT
131 TAGAGAAAGAGGGAGCGAACCCGTGT
* *
2690335 GAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCG
1 GAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* *
2690400 AGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTAAAGATTTTCGAGTTCCATACTCC
66 AGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGAGTTCCATACTCC
*
2690464 CTAGAGAAAGAGGGAGCGAACCCGTTT
130 CTAGAGAAAGAGGGAGCGAACCCGTGT
* * * *** * *
2690491 AAAGATT-TTCGAGTTCCATACTCCCT-AGAGAAAGAATAAGCGAGCCCGTTT---GAAGATTTT
1 GAAG-TTATTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* *
2690551 CGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCGTTTGAAGATTGTTCGAGT
64 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATT-TTCGAGT
2690608 CTTATACTCT
Statistics
Matches: 245, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
153 50 0.20
154 8 0.03
155 2 0.01
156 183 0.75
157 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (156 bp):
GAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTTCGAGTTCCATACTCCC
TAGAGAAAGAGGGAGCGAACCCGTGT
Found at i:2690582 original size:207 final size:209
Alignment explanation
Indices: 2690176--2690634 Score: 646
Period size: 207 Copynumber: 2.2 Consensus size: 209
2690166 CAGAGAAGAG
*
2690176 GAAGAAGATATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
1 GAAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGT
* * * *
2690241 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGGGGACCCGTTTGAAGATGTTCGAGTTCCATACT
65 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACT
* * * * *
2690306 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAG
130 CCCTAGAGAAAGAAGAAGCGAACCCGTGTGAAGTTATTCGAGTTCCATACTCCCTGAAGAAAGAG
2690371 GGAGCGAACCCGTTT
195 GGAGCGAACCCGTTT
* *
2690386 GAAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT-A-AAGATTTT
1 GAAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTT
*
2690449 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATTTTCGAGTTCCATACTC
66 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTC
* * * *
2690514 CCTAGAGAAAGAATAAGCGAGCCCGTTTGAAGATT-TTCGAGTTCCATACTCCCT-AGAGAAATA
131 CCTAGAGAAAGAAGAAGCGAACCCGTGTGAAG-TTATTCGAGTTCCATACTCCCTGA-AGAAAGA
2690577 GGGAGCGAACCCGTTT
194 GGGAGCGAACCCGTTT
* *
2690593 GAAG-A-TTGTTCGAG-TCTTATAC-TCTCTGAAGAAATAGGGAGC
1 GAAGAAGATGTTCGAGTTC-TATACTTC-CTGAAGAAAGAGGGAGC
2690635 AGACATGATT
Statistics
Matches: 225, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
204 4 0.02
205 28 0.12
206 2 0.01
207 136 0.60
208 3 0.01
210 52 0.23
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (209 bp):
GAAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTT
CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTC
CCTAGAGAAAGAAGAAGCGAACCCGTGTGAAGTTATTCGAGTTCCATACTCCCTGAAGAAAGAGG
GAGCGAACCCGTTT
Found at i:2690670 original size:55 final size:55
Alignment explanation
Indices: 2690591--2690705 Score: 185
Period size: 55 Copynumber: 2.1 Consensus size: 55
2690581 GCGAACCCGT
* * * *
2690591 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACATGATTG
1 TTGAAGACTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
*
2690646 TTGAAGACTGTTCGAGTCTCATACTCTCTGAAGGAATAGAGAGCAGACATGATGG
1 TTGAAGACTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
2690701 TTGAA
1 TTGAA
2690706 AAATTGTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (55 bp):
TTGAAGACTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
Found at i:2694674 original size:17 final size:18
Alignment explanation
Indices: 2694654--2694688 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2694644 TTTATATAAA
2694654 AATATT-TTTAAAAAATT
1 AATATTATTTAAAAAATT
2694671 AATATTAATTTAAAAAAT
1 AATATT-ATTTAAAAAAT
2694689 GTTAAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTATTTAAAAAATT
Found at i:2694930 original size:11 final size:11
Alignment explanation
Indices: 2694914--2694951 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
2694904 AACTGATTTA
2694914 CTAACTAATTG
1 CTAACTAATTG
*
2694925 CTAACTAACTG
1 CTAACTAATTG
2694936 CTAACTAATTG
1 CTAACTAATTG
*
2694947 TTAAC
1 CTAAC
2694952 AACTAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (11 bp):
CTAACTAATTG
Found at i:2694939 original size:22 final size:21
Alignment explanation
Indices: 2694914--2694955 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
2694904 AACTGATTTA
2694914 CTAACTAATTGCTAACTAACTG
1 CTAACTAATTGCTAAC-AACTG
*
2694936 CTAACTAATTGTTAACAACT
1 CTAACTAATTGCTAACAACT
2694956 AACAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (21 bp):
CTAACTAATTGCTAACAACTG
Found at i:2700905 original size:17 final size:17
Alignment explanation
Indices: 2700883--2700937 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
2700873 ATCGTTGTAT
2700883 TACTTATAATAATAATA
1 TACTTATAATAATAATA
2700900 TACTTATAATATTATAATA
1 TACTTATAATA--ATAATA
*
2700919 TA-ATATATATAATAATA
1 TACTTATA-ATAATAATA
2700936 TA
1 TA
2700938 ATAATTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 19 0.56
18 4 0.12
19 11 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
TACTTATAATAATAATA
Found at i:2700929 original size:22 final size:23
Alignment explanation
Indices: 2700886--2700940 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
2700876 GTTGTATTAC
2700886 TTATAATAATAATATACTTATAATA
1 TTATAAT-ATAATATAC-TATAATA
2700911 TTATAATATAATATA-TATAATA
1 TTATAATATAATATACTATAATA
*
2700933 ATATAATA
1 TTATAATA
2700941 ATTATTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 14 0.48
24 8 0.28
25 7 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATAATATAATATACTATAATA
Found at i:2700949 original size:22 final size:22
Alignment explanation
Indices: 2700891--2700949 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
2700881 ATTACTTATA
* *
2700891 ATAATAATATACT-TATAATATT
1 ATAATAAT-TATTATATAATAAT
*
2700913 ATAAT-ATAATATATATAATAAT
1 ATAATAATTAT-TATATAATAAT
2700935 ATAATAATTATTATA
1 ATAATAATTATTATA
2700950 AAAAATCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 3 0.10
22 22 0.73
23 4 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATAATTATTATATAATAAT
Found at i:2700950 original size:17 final size:17
Alignment explanation
Indices: 2700905--2700950 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2700895 TAATATACTT
2700905 ATAA-TATTATAATATA
1 ATAATTATTATAATATA
*
2700921 AT-ATATATAATAATATA
1 ATAAT-TATTATAATATA
2700938 ATAATTATTATAA
1 ATAATTATTATAA
2700951 AAAATCAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 2 0.08
17 20 0.80
18 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATTATTATAATATA
Found at i:2702118 original size:22 final size:22
Alignment explanation
Indices: 2702090--2702135 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2702080 AAAGCTTTCG
2702090 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
2702112 TCTTTGAAAATAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
2702134 TC
1 TC
2702136 CTTGTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:2706660 original size:24 final size:24
Alignment explanation
Indices: 2706630--2706713 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
2706620 GTAAACAGAG
2706630 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* *
2706654 ATATCAGATATCAGAACAGAA-TC
1 ATATCAGAAATCAAAACAGAATTC
* *
2706677 TAGATCAG-AATCATAACAGAATTC
1 -ATATCAGAAATCAAAACAGAATTC
2706701 A-ATTCAGAAATCA
1 ATA-TCAGAAATCA
2706714 GATAAAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 18 0.35
24 32 0.63
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.23
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:2709093 original size:8 final size:8
Alignment explanation
Indices: 2709060--2709124 Score: 58
Period size: 8 Copynumber: 7.5 Consensus size: 8
2709050 TCAAAGTTTT
2709060 GGTCAACAG
1 GGTCAAC-G
2709069 TGGTCAACG
1 -GGTCAACG
2709078 ACGGTCAACG
1 --GGTCAACG
2709088 GGTCAACG
1 GGTCAACG
**
2709096 GGTCGGTCG
1 GGTC-AACG
2709105 GGTCAACG
1 GGTCAACG
*
2709113 GGTAAACG
1 GGTCAACG
2709121 GGTC
1 GGTC
2709125 GGGTCGGGTC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
8 24 0.52
9 7 0.15
10 15 0.33
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2709111 original size:25 final size:26
Alignment explanation
Indices: 2709080--2709134 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
2709070 GGTCAACGAC
*
2709080 GGTCAACGGGTCAACGGGTC-GGTCG
1 GGTCAACGGGTAAACGGGTCGGGTCG
2709105 GGTCAACGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTAAACGGGTCGGGTCG
2709131 GGTC
1 GGTC
2709135 GGGTCGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.45, T:0.16
Consensus pattern (26 bp):
GGTCAACGGGTAAACGGGTCGGGTCG
Found at i:2709127 original size:5 final size:5
Alignment explanation
Indices: 2709119--2709143 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2709109 AACGGGTAAA
2709119 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
2709144 TGTGACGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:2709174 original size:21 final size:21
Alignment explanation
Indices: 2709149--2709198 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2709139 CGGGTTGTGA
*
2709149 CGGTCGAATGGGTTACAAAAC
1 CGGTCAAATGGGTTACAAAAC
2709170 CGGTCAAATGGGTTACAAAAC
1 CGGTCAAATGGGTTACAAAAC
2709191 CGGTCAAA
1 CGGTCAAA
2709199 CCGGACATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (21 bp):
CGGTCAAATGGGTTACAAAAC
Found at i:2714259 original size:3 final size:3
Alignment explanation
Indices: 2714253--2714322 Score: 69
Period size: 3 Copynumber: 24.7 Consensus size: 3
2714243 TGTATTATTT
* * *
2714253 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA CTG ATA AT- ATT ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2714298 ATA AT- ATA TATA ATA AT- ATA ATA AT
1 ATA ATA ATA -ATA ATA ATA ATA ATA AT
2714323 TATTATAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
2 10 0.18
3 43 0.77
4 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:2714267 original size:9 final size:9
Alignment explanation
Indices: 2714253--2714322 Score: 69
Period size: 8 Copynumber: 8.2 Consensus size: 9
2714243 TGTATTATTT
2714253 ATAATAATA
1 ATAATAATA
2714262 ATAATAATA
1 ATAATAATA
2714271 ATAATAAT-
1 ATAATAATA
* *
2714279 ATACTGATA
1 ATAATAATA
*
2714288 AT-ATTATA
1 ATAATAATA
2714296 AT-ATAAT-
1 ATAATAATA
2714303 ATATATAATA
1 ATA-ATAATA
2714313 AT-ATAATA
1 ATAATAATA
2714321 AT
1 AT
2714323 TATTATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
7 2 0.04
8 24 0.46
9 24 0.46
10 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (9 bp):
ATAATAATA
Found at i:2714318 original size:17 final size:17
Alignment explanation
Indices: 2714252--2714320 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 17
2714242 TTGTATTATT
2714252 TATAATAATAATAATA-A
1 TATAATAAT-ATAATATA
*
2714269 TAATAATAATATACTGATAA
1 T-ATAATAATATAAT-AT-A
*
2714289 TATTATAATATAATATA
1 TATAATAATATAATATA
2714306 TATAATAATATAATA
1 TATAATAATATAATA
2714321 ATTATTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 20 0.45
18 11 0.25
19 11 0.25
20 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
TATAATAATATAATATA
Found at i:2714330 original size:17 final size:17
Alignment explanation
Indices: 2714251--2714330 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 17
2714241 ATTGTATTAT
2714251 TTATAATAATAATAATAA
1 TTATAATAAT-ATAATAA
*
2714269 TAATAATAATATACTGATAA
1 TTATAATAATATA---ATAA
*
2714289 -TATTATAATATAAT-A
1 TTATAATAATATAATAA
2714304 TATATAATAATATAATAA
1 T-TATAATAATATAATAA
*
2714322 TTATTATAA
1 TTATAATAA
2714331 AAACTCGAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 23 0.45
18 11 0.22
19 10 0.20
20 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TTATAATAATATAATAA
Found at i:2719461 original size:25 final size:25
Alignment explanation
Indices: 2719431--2719504 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
2719421 AAAACCATAA
2719431 GCTACCAAAAGACATAGAAAAACAT
1 GCTACCAAAAGACATAGAAAAACAT
*
2719456 GCTACCAAAAGATATAGAAAAACAT
1 GCTACCAAAAGACATAGAAAAACAT
* * *
2719481 ACCA-CAAAAG-CATAGATAAACAT
1 GCTACCAAAAGACATAGAAAAACAT
2719504 G
1 G
2719505 TCATAAAGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.26
24 6 0.14
25 26 0.60
ACGTcount: A:0.55, C:0.19, G:0.12, T:0.14
Consensus pattern (25 bp):
GCTACCAAAAGACATAGAAAAACAT
Found at i:2720444 original size:22 final size:22
Alignment explanation
Indices: 2720419--2720463 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2720409 GATCTTGTAA
*
2720419 AAATTCTTAAAAAGAGTCCCTT
1 AAATTCTTAAAAAGAGACCCTT
2720441 AAATTCTTAAAAAGAGACCCTT
1 AAATTCTTAAAAAGAGACCCTT
2720463 A
1 A
2720464 GTAAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATTCTTAAAAAGAGACCCTT
Found at i:2727628 original size:107 final size:106
Alignment explanation
Indices: 2727510--2729032 Score: 2580
Period size: 107 Copynumber: 14.3 Consensus size: 106
2727500 TCACTTTCTC
* * ** *
2727510 TTTCTTTAGGGAGTAGAACTCGAACATTCTTCTTCCTACGGGCTCTCTCTCTCTTTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGG-TC-CGCTCTCTTTTCTTCAGGG
2727575 AGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2727617 TTTCTTCAGGGAGTAGAACTCAAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-TTTTCTTCAGGGA
2727682 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2727724 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTTTCTATTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGGA
*
2727789 GTAAGAACTCGAACAATAATCTTCCTACGGGTTCGCTCTCTA
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2727831 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-TTTTCTTCAGGGA
*
2727896 GTAAGAACTCGAACAATAATCTTTCTACGGGTCCGCTCTCTA
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2727938 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGGA
2728003 GT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2728044 TTTCTTCAGGGAGTAAGAACTTGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGG
* *
2728109 AGT-AGAACTCGAACAATAATCTTCATACGGGTCCGCTCTCTT
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728151 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGG
2728216 AGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728258 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-TTTTCTTCAGGGA
2728323 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2728364 TTTCCTTCAAGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTT-CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGG
2728429 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728472 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-TTTTCTTCAGGGA
2728537 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2728579 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCTGCTCTCTATTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGGA
*
2728644 GT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
65 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * *
2728685 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCTTACGGGTCTGCTCTCTTTTCCTTCAAGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTT-CTTCAGGG
*
2728750 AGT-AGAACTCGAACAATAATCTTCCTACAGGTCCGCTCTCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728792 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-TTTTCTTCAGGG
2728857 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2728900 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCACGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCTTCAGGG
* *
2728965 AGT-AGAACTCGAACAATAATCTTCCTACTGGT-C-CTCCCTA
64 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2729005 TTTCTTCAGGGAGTAGAACACGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
2729033 CTTCTTTTGC
Statistics
Matches: 1363, Mismatches: 35, Indels: 39
0.95 0.02 0.03
Matches are distributed among these distances:
104 13 0.01
105 26 0.02
106 183 0.13
107 1029 0.75
108 112 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (106 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCTTCAGGGAG
TAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
Found at i:2727992 original size:267 final size:267
Alignment explanation
Indices: 2727510--2729032 Score: 2659
Period size: 267 Copynumber: 5.7 Consensus size: 267
2727500 TCACTTTCTC
* * ** *
2727510 TTTCTTTAGGGAGT-AGAACTCGAACATTCTTCTTCCTACGGGCTCTCTCTCTCT-TTTCTTCAG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGG-TC-CGCTCTCTATTTCTTCAG
2727573 GGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGT-AGAACT
64 GGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACT
* *
2727637 CAAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAAT
129 CGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAAT
2727702 CTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGT
193 CTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGT
*
2727767 CCGCTTTCTA
258 CCGCTCTCTA
*
2727777 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTTCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
*
2727842 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCG
66 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCG
*
2727907 AACAATAATCTTTCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
131 AACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
2727972 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
196 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
2728037 CTCTCTA
261 CTCTCTA
*
2728044 TTTCTTCAGGGAGTAAGAACTTGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
* *
2728109 AGTAGAACTCGAACAATAATCTTCATACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCG
66 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCG
2728174 AACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
131 AACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
2728239 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
196 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
*
2728304 CTCTCTT
261 CTCTCTA
*
2728311 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCCTTCAAG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT-CTTCAGG
2728375 GAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTC
65 GAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTC
2728440 GAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCT
130 GAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCT
*
2728505 TCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTC
195 TCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTC
2728570 CGCTCTCTA
259 CGCTCTCTA
*
2728579 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCTGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
*
2728643 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCG
66 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCG
* * *
2728708 AACAATAATCTTCTTACGGGTCTGCTCTCT-TTTCCTTCAAGGAGTAGAACTCGAACAATAATCT
131 AACAATAATCTTCCTACGGGTCCGCTCTCTATTT-CTTCAGGGAGTAGAACTCGAACAATAATCT
*
2728772 TCCTACAGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTC
195 TCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTC
*
2728837 CGCTCTCTT
259 CGCTCTCTA
2728846 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
*
2728911 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCACGGAGT-AGAACTC
66 AGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTC
* * *
2728975 GAACAATAATCTTCCTACTGGT-C-CTCCCTATTTCTTCAGGGAGTAGAACACGAACAAT
130 GAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAAT
2729033 CTTCTTTTGC
Statistics
Matches: 1206, Mismatches: 40, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
266 41 0.03
267 905 0.75
268 209 0.17
269 51 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (267 bp):
TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGG
AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCG
AACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
CTCTCTA
Found at i:2728206 original size:374 final size:374
Alignment explanation
Indices: 2727510--2729032 Score: 2700
Period size: 374 Copynumber: 4.1 Consensus size: 374
2727500 TCACTTTCTC
* * ** *
2727510 TTTCTTTAGGGAGTAGAACTCGAACATTCTTCTTCCTACGGG-CTCTCTCTCTCTTTTCTTCAGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCT-TTTTCTTCAGG
*
2727574 GAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT-CTTCAGGGAGTAGAACT
64 GAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCCTTCAAGGAGTAGAACT
* *
2727637 CAAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAAT
128 CGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAAT
2727702 CTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGT
193 CTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGT
* *
2727767 CCGCTTTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTTCGCTCTCTAT
258 CCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTAT
*
2727832 TTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
323 TTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* *
2727884 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTTCTACGGGTCCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGG
*
2727949 AGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT-CTTCAGGGAGTAGAACTC
65 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTCCTTCAAGGAGTAGAACTC
*
2728012 GAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTTGAACAATAATC
129 GAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATC
*
2728077 TTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCATACGGGTC
194 TTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC
*
2728142 CGCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATT
259 CGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATT
2728207 TCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
324 TCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728258 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
2728323 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCCTTCAAGGAGTAGAACTCGA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCCTTCAAGGAGTAGAACTCGA
2728388 ACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTT
131 ACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTT
2728453 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
196 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
*
2728518 CTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTC
261 CTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTC
*
2728583 TTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCTGCTCTCTA
326 TTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
2728632 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
* *
2728697 GTAAGAACTCGAACAATAATCTTCTTACGGGTCTGCTCTCTTTTCCTTCAAGGAGTAGAACTCGA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCCTTCAAGGAGTAGAACTCGA
*
2728762 ACAATAATCTTCCTACAGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTT
131 ACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTT
*
2728827 CCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
196 CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCC
2728892 GCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT
260 GCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT
* * *
2728957 CTTCACGGAGTAGAACTCGAACAATAATCTTCCTACTGGT-C-CTCCCTA
325 CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
2729005 TTTCTTCAGGGAGTAGAACACGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
2729033 CTTCTTTTGC
Statistics
Matches: 1113, Mismatches: 31, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
373 87 0.08
374 861 0.77
375 164 0.15
376 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (374 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCCTTCAAGGAGTAGAACTCGA
ACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTT
CCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCG
CTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTC
TTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
Found at i:2730402 original size:9 final size:9
Alignment explanation
Indices: 2730390--2730472 Score: 86
Period size: 9 Copynumber: 9.7 Consensus size: 9
2730380 TGTTTTTTGT
2730390 TTTTTTTCA
1 TTTTTTTCA
2730399 TTTTTTTCA
1 TTTTTTTCA
*
2730408 TTTTTTCCA
1 TTTTTTTCA
*
2730417 TTTTCATT--
1 TTTT-TTTCA
2730425 TTTTTTTCA
1 TTTTTTTCA
*
2730434 TTTTTTTTA
1 TTTTTTTCA
2730443 TTTTTTTCA
1 TTTTTTTCA
*
2730452 --CTTTTCA
1 TTTTTTTCA
2730459 TTTTTTTC-
1 TTTTTTTCA
2730467 TTTTTT
1 TTTTTT
2730473 CATCTTCAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
7 8 0.13
8 10 0.16
9 42 0.69
10 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:2730434 original size:35 final size:36
Alignment explanation
Indices: 2730389--2730465 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
2730379 TTGTTTTTTG
2730389 TTTTTTTTCATTTTTTTCATTTTTTCCA-TTTTCAT
1 TTTTTTTTCATTTTTTTCATTTTTTCCACTTTTCAT
* *
2730424 TTTTTTTTCATTTTTTTTATTTTTTTCACTTTTCAT
1 TTTTTTTTCATTTTTTTCATTTTTTCCACTTTTCAT
2730460 TTTTTT
1 TTTTTT
2730466 CTTTTTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 26 0.67
36 13 0.33
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTTTTCATTTTTTTCATTTTTTCCACTTTTCAT
Found at i:2730439 original size:36 final size:35
Alignment explanation
Indices: 2730389--2730465 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 35
2730379 TTGTTTTTTG
2730389 TTTTTTTTCATTTTTTTCATTTTTTCCA-TTTTCAT
1 TTTTTTTTCATTTTTTT-ATTTTTTCCACTTTTCAT
*
2730424 TTTTTTTTCATTTTTTTTATTTTTTTCACTTTTCAT
1 TTTTTTTTCA-TTTTTTTATTTTTTCCACTTTTCAT
2730460 TTTTTT
1 TTTTTT
2730466 CTTTTTTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 19 0.49
36 20 0.51
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTTTTTCATTTTTTTATTTTTTCCACTTTTCAT
Found at i:2736845 original size:21 final size:21
Alignment explanation
Indices: 2736801--2736895 Score: 122
Period size: 21 Copynumber: 4.6 Consensus size: 21
2736791 CATGTGATGT
* *
2736801 GGTCTTCTCGTCTTTACG-AA
1 GGTCTTCTCGTCTTGATGAAA
2736821 GGTCTTCTCGTCGTT-ATGAAA
1 GGTCTTCTCGTC-TTGATGAAA
*
2736842 GGTCTTCTCGTCTTGATGAAT
1 GGTCTTCTCGTCTTGATGAAA
*
2736863 GGTCTTCTCGTCTTGATGAAT
1 GGTCTTCTCGTCTTGATGAAA
*
2736884 GCTCTTCTCGTC
1 GGTCTTCTCGTC
2736896 CTTGGTACAA
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
20 16 0.23
21 53 0.77
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.41
Consensus pattern (21 bp):
GGTCTTCTCGTCTTGATGAAA
Found at i:2737928 original size:66 final size:66
Alignment explanation
Indices: 2737822--2737954 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
2737812 ATCCAAGAGA
2737822 AACAATAGACTAAAGTGAAAGTCAGAAAACTGAAAACATGTAGATCACACATTAGTACAACTATT
1 AACAATAGACTAAAGTGAAAGTCAGAAAACTGAAAACATGTAGATCACACATTAGTACAACTATT
2737887 T
66 T
2737888 AACAATAGACTAAAGTGAAAGTCAGAAAACTGAAAACATGTAGATCACACATTAGTACAACTATT
1 AACAATAGACTAAAGTGAAAGTCAGAAAACTGAAAACATGTAGATCACACATTAGTACAACTATT
2737953 T
66 T
2737954 A
1 A
2737955 CTCATTAACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (66 bp):
AACAATAGACTAAAGTGAAAGTCAGAAAACTGAAAACATGTAGATCACACATTAGTACAACTATT
T
Found at i:2742355 original size:11 final size:10
Alignment explanation
Indices: 2742339--2742417 Score: 61
Period size: 12 Copynumber: 7.1 Consensus size: 10
2742329 TCTGAAACAG
2742339 AAATAAAATA
1 AAATAAAATA
*
2742349 TAAATAATATA
1 -AAATAAAATA
2742360 AAAT-AAATA
1 AAATAAAATA
2742369 ATAATAATAATA
1 A-AATAA-AATA
2742381 ATAATAATAATA
1 A-AATAA-AATA
2742393 ATAATAATAATA
1 A-AATAA-AATA
2742405 ATAATAATAATA
1 A-AATAA-AATA
2742417 A
1 A
2742418 CGGTCTCCGG
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
9 5 0.08
10 7 0.11
11 10 0.16
12 41 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATAAAATA
Found at i:2742371 original size:3 final size:3
Alignment explanation
Indices: 2742351--2742417 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
2742341 ATAAAATATA
2742351 AAT AAT -AT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2742395 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
2742418 CGGTCTCCGG
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2745884 original size:2 final size:2
Alignment explanation
Indices: 2745877--2745925 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2745867 TCGTCCACGC
2745877 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
2745919 AT AT AT A
1 AT AT AT A
2745926 GAATAATCTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2746451 original size:21 final size:24
Alignment explanation
Indices: 2746407--2746455 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
2746397 TATTTATATT
2746407 ATTATTATTATTATAATAATAATA
1 ATTATTATTATTATAATAATAATA
2746431 ATTATTATTATTA-AA-AA-AATA
1 ATTATTATTATTATAATAATAATA
2746452 ATTA
1 ATTA
2746456 CAAGCCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 2 0.08
24 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTATTATTATTATAATAATAATA
Found at i:2748185 original size:23 final size:24
Alignment explanation
Indices: 2748153--2748209 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
2748143 CATTTTCTGA
*
2748153 TATTTCTAAA-TAAATAAATATTT
1 TATTTATAAAGTAAATAAATATTT
*
2748176 TATTTATAAATGTATATAAATATTT
1 TATTTATAAA-GTAAATAAATATTT
2748201 T-TTTCATAA
1 TATTT-ATAA
2748210 TTATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 3 0.10
25 17 0.59
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTTATAAAGTAAATAAATATTT
Found at i:2749411 original size:15 final size:15
Alignment explanation
Indices: 2749393--2749445 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
2749383 TAATATATTT
2749393 GATCATAAAGCTAAA
1 GATCATAAAGCTAAA
2749408 GATCATAAAGCTAAA
1 GATCATAAAGCTAAA
2749423 GATCATAAAGCTAAA
1 GATCATAAAGCTAAA
2749438 GATCATAA
1 GATCATAA
2749446 TTGAATAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (15 bp):
GATCATAAAGCTAAA
Found at i:2750417 original size:32 final size:31
Alignment explanation
Indices: 2750367--2750427 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
2750357 TTCAGTTCAT
2750367 GTCATTTCAGTTTAGATTTAATTCGGGTCGG
1 GTCATTTCAGTTTAGATTTAATTCGGGTCGG
* *
2750398 GTCATTTCGAGTTTTGATTTTATTCGGGTC
1 GTCATTTC-AGTTTAGATTTAATTCGGGTC
2750428 TATAGCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.16, C:0.13, G:0.25, T:0.46
Consensus pattern (31 bp):
GTCATTTCAGTTTAGATTTAATTCGGGTCGG
Found at i:2750466 original size:64 final size:64
Alignment explanation
Indices: 2750389--2750512 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 64
2750379 TAGATTTAAT
* *
2750389 TCGGGTCGGGTCATTTCGAGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTTGGGTTCGGG
1 TCGGGTCGAGTCATTTCGAGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTTCGGG
* * * *
2750453 TCGGGTCGAGTCATTTCGGGTTTTGGTTTTATTCGGGTCTATAGTAAGTCGGGTCGGGTT
1 TCGGGTCGAGTCATTTCGAGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTT
2750513 TATATCGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.13, C:0.14, G:0.35, T:0.39
Consensus pattern (64 bp):
TCGGGTCGAGTCATTTCGAGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTTCGGG
Found at i:2750533 original size:64 final size:64
Alignment explanation
Indices: 2750389--2750538 Score: 167
Period size: 64 Copynumber: 2.3 Consensus size: 64
2750379 TAGATTTAAT
* * * * * *
2750389 TCGGGTCGGGTCATTTCGAGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTTGGGTTCGGG
1 TCGGATCGAGTCATTTCGGGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTTCAGA
* * * * * *
2750453 TCGGGTCGAGTCATTTCGGGTTTTGGTTTTATTCGGGTCTATAGTAAGTCGGGTCGGGTTTATA
1 TCGGATCGAGTCATTTCGGGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTTCAGA
*
2750517 TCGGATCG-GATGATTTCGGGTT
1 TCGGATCGAG-TCATTTCGGGTT
2750539 AGATCAAATC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 1 0.01
64 72 0.99
ACGTcount: A:0.14, C:0.13, G:0.34, T:0.39
Consensus pattern (64 bp):
TCGGATCGAGTCATTTCGGGTTTTGATTTTATTCGGGTCTATAGCAAGTCAGGTCGGGTTCAGA
Found at i:2751265 original size:59 final size:57
Alignment explanation
Indices: 2751191--2751331 Score: 185
Period size: 57 Copynumber: 2.4 Consensus size: 57
2751181 ATCATATGTT
* *
2751191 CCTAAACTATGACTCTCATTTTAAGTTAGTCCTTAAACTTTT-AATATTCCAATTTAATC
1 CCTAAACTATGACTCTCATTCTAA---AGTCCTTAAAATTTTGAATATTCCAATTTAATC
* **
2751250 CTTAAACTATGACTCTCATTCTAAAGTCCTTAAAATTTTGAATATTTGAATTTAATC
1 CCTAAACTATGACTCTCATTCTAAAGTCCTTAAAATTTTGAATATTCCAATTTAATC
* *
2751307 CCCAAACTATGAATCTCATTCTAAA
1 CCTAAACTATGACTCTCATTCTAAA
2751332 TTGATACCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 14 0.19
57 37 0.51
59 22 0.30
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.40
Consensus pattern (57 bp):
CCTAAACTATGACTCTCATTCTAAAGTCCTTAAAATTTTGAATATTCCAATTTAATC
Found at i:2751847 original size:16 final size:16
Alignment explanation
Indices: 2751826--2751886 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
2751816 ATAAATTGAA
2751826 TTCAGGTTACTTTCGG
1 TTCAGGTTACTTTCGG
* *
2751842 TTCAGGTTATTTTCAG
1 TTCAGGTTACTTTCGG
* *
2751858 TT-TGGTTGCTTTCGG
1 TTCAGGTTACTTTCGG
* *
2751873 TTCAAGTTGCTTTC
1 TTCAGGTTACTTTC
2751887 AGTTGGCTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.49
Consensus pattern (16 bp):
TTCAGGTTACTTTCGG
Found at i:2751870 original size:31 final size:31
Alignment explanation
Indices: 2751830--2751890 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2751820 ATTGAATTCA
* *
2751830 GGTTACTTTCGGTTCAGGTTATTTTCAGTTT
1 GGTTACTTTCGGTTCAAGTTACTTTCAGTTT
* *
2751861 GGTTGCTTTCGGTTCAAGTTGCTTTCAGTT
1 GGTTACTTTCGGTTCAAGTTACTTTCAGTT
2751891 GGCTAAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (31 bp):
GGTTACTTTCGGTTCAAGTTACTTTCAGTTT
Found at i:2757687 original size:21 final size:20
Alignment explanation
Indices: 2757619--2757691 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
2757609 TAAGCTTTCA
* *
2757619 AGTATCGATACTCAAAGGG-G
1 AGTATCGATACTC-ATGGGTC
*
2757639 AGTATCGATACTCCTGGGTC
1 AGTATCGATACTCATGGGTC
* * *
2757659 AATATCGATACTGATGGGTTT
1 AGTATCGATACTCATGGG-TC
2757680 AGTATCGATACT
1 AGTATCGATACT
2757692 ATCATAGTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
19 3 0.07
20 28 0.65
21 12 0.28
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (20 bp):
AGTATCGATACTCATGGGTC
Found at i:2758988 original size:26 final size:26
Alignment explanation
Indices: 2758952--2759010 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
2758942 GAAAATGTTT
2758952 TTCGGCTAAGTGTATCAGCTACAACA
1 TTCGGCTAAGTGTATCAGCTACAACA
2758978 TTCGGCTAAGTGTATCAGCTACAACA
1 TTCGGCTAAGTGTATCAGCTACAACA
*
2759004 TTAGGCT
1 TTCGGCT
2759011 TAACAAGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (26 bp):
TTCGGCTAAGTGTATCAGCTACAACA
Found at i:2762707 original size:55 final size:55
Alignment explanation
Indices: 2762640--2763094 Score: 551
Period size: 55 Copynumber: 8.3 Consensus size: 55
2762630 TTCTTTGAGG
*
2762640 TGCACACGTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
** * ** ** *
2762695 TGCACACTTAGTGAAGATACGATATTTCATAAACATATTATGAATTATGTGG-GT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
*
2762749 TGCACACTTAGTGCCGATACGGTCGTTCGTAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* * * * * ** *
2762804 TGTATACGTAGTGCCAATACGGTCATTCCCAAACATATTATGAATTCCATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* **
2762859 TGCACACTTAGTGCTGATACGGTCGTTCATAAACATATTATGAATT-TATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* * *
2762913 TGCACACTTAGTGCCAATACGGTCGTTCATAAACAGATTATGAATTCCGTGG-GT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
** ** * * ***
2762967 TGCACACTTAGTGCCGATAAAGTCGTTCATAAATGTAATACGAATTTTATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* *
2763022 TGCACACTTAGTGCCGATAAGGTCGTTCATAAACATATTATGAATTCTGTGAG--T
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTG-GTTT
2763076 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
2763095 GTACACTTAG
Statistics
Matches: 336, Mismatches: 60, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
54 157 0.47
55 178 0.53
56 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
Found at i:2762816 original size:109 final size:109
Alignment explanation
Indices: 2762640--2763094 Score: 549
Period size: 109 Copynumber: 4.2 Consensus size: 109
2762630 TTCTTTGAGG
* *
2762640 TGCACACGTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTTTGCACACTTA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTTTGCACACTTA
* * *
2762705 GTG-AAGATACGATATTTCATAAACATATTATGAATTATGTGGGT
66 GTGCCA-ATACGGTAGTTCATAAACATATTATGAATTATGTGGGT
* * * * *
2762749 TGCACACTTAGTGCCGATACGGTCGTTCGTAAACATATTATGAATTCCGTGGTTTTGTATACGTA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTTTGCACACTTA
** **
2762814 GTGCCAATACGGTCA-TTCCCAAACATATTATGAATTCCATG-GTTT
66 GTGCCAATACGGT-AGTTCATAAACATATTATGAATT--ATGTGGGT
* *
2762859 TGCACACTTAGTGCTGATACGGTCGTTCATAAACATATTATGAATT-TATGGTTTTGCACACTTA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTTTGCACACTTA
* * **
2762923 GTGCCAATACGGTCGTTCATAAACAGATTATGAATTCCGTGGGT
66 GTGCCAATACGGTAGTTCATAAACATATTATGAATTATGTGGGT
** ** * * **
2762967 TGCACACTTAGTGCCGATAAAGTCGTTCATAAATGTAATACGAATTTTATGGTTTTGCACACTTA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTTTGCACACTTA
* * * * *
2763032 GTGCCGATAAGGTCGTTCATAAACATATTATGAATTCTGTGAGT
66 GTGCCAATACGGTAGTTCATAAACATATTATGAATTATGTGGGT
2763076 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
2763095 GTACACTTAG
Statistics
Matches: 301, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.00
108 41 0.14
109 208 0.69
110 48 0.16
111 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (109 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTTTGCACACTTA
GTGCCAATACGGTAGTTCATAAACATATTATGAATTATGTGGGT
Found at i:2772216 original size:28 final size:28
Alignment explanation
Indices: 2772175--2772241 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
2772165 TTTATGAAAA
2772175 CATCGAATGCATTTGATGCACCAGCCAAG
1 CATCG-ATGCATTTGATGCACCAGCCAAG
* *
2772204 CATCGATGCATTTGATGCACCTGCCATG
1 CATCGATGCATTTGATGCACCAGCCAAG
*
2772232 CGTCGATGCA
1 CATCGATGCA
2772242 CTCAGGCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (28 bp):
CATCGATGCATTTGATGCACCAGCCAAG
Found at i:2778162 original size:23 final size:23
Alignment explanation
Indices: 2778091--2778171 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
2778081 ACACTTAACA
* *
2778091 GTGCATTGATGCATCCCTTTGAAT
1 GTGCATCGATGCATACC-TTGAAT
* * *
2778115 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCATACCTTGAAT
*
2778136 GTGCACCGATGCATACCTTGAAT
1 GTGCATCGATGCATACCTTGAAT
2778159 GTGCATCGATGCA
1 GTGCATCGATGCA
2778172 CACTGCCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 13 0.29
22 3 0.07
23 20 0.44
24 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCATACCTTGAAT
Found at i:2780750 original size:65 final size:63
Alignment explanation
Indices: 2780681--2780840 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 63
2780671 GAATAAATGG
*
2780681 AACATCGAATGCATTTCATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG
2780744 AA
63 -A
* * *
2780746 AACATCGAATGCATTTGATGCATCAATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGA
* * *
2780810 AACATTGAATGCATTTTATGAATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
2780841 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 28 0.33
65 50 0.60
66 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:2788124 original size:166 final size:161
Alignment explanation
Indices: 2787816--2788160 Score: 439
Period size: 166 Copynumber: 2.1 Consensus size: 161
2787806 AATCGCCATG
*
2787816 GAAGAGTAGTGGAATCAAATTCGAATCTGATCTTCACGGAAGAGTAGTGAAACAGATTATTCTCA
1 GAAGAGTAGTGGAATCAAATTCGAATATGATCTTCACGGAAGAGTAGTGAAACAGA-TATTCTC-
* *
2787881 AGTTAATCAAGCATTCACAAAAGAGTAGTGAAATAATGCAAAACAAGCCTTCACAAAAAGAGTAG
64 A-TTAATCAAGCATTCACAAAAGAGTAGTGAAACAATACAAAACAAGCCTTCACAAAAAGAGTAG
*
2787946 TGAAACAAGATCAGATCAAAAGTCCGATCTCCAC
128 AGAAACAAGATCAGATCAAAAGTCCGATCTCCAC
*
2787980 TGAAGAGTAGTGGAATCAATTCAACTTCGAATATGATTTTCACGGAAGAGTAGTGAAACA-A-AT
1 -GAAGAGTAGTGGAATC-A---AA-TTCGAATATGATCTTCACGGAAGAGTAGTGAAACAGATAT
* * *
2788043 TCTTC-TTAATCAAGGC-TTCACAAAAAGAGTAGTGAAGCAATACAAATCAAGCCTTCACAAAAG
60 TC-TCATTAATCAA-GCATTCAC-AAAAGAGTAGTGAAACAATACAAAACAAGCCTTCACAAAAA
* *
2788106 GAGTAGAGAAGA-AAGATCAGATCAAAAGTTCGATCTCTAC
122 GAGTAGAGAA-ACAAGATCAGATCAAAAGTCCGATCTCCAC
2788146 GAAAGAGTAGTGGAA
1 G-AAGAGTAGTGGAA
2788161 CGAATTTTTT
Statistics
Matches: 160, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
165 30 0.19
166 87 0.54
167 5 0.03
168 2 0.01
169 3 0.02
170 33 0.21
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (161 bp):
GAAGAGTAGTGGAATCAAATTCGAATATGATCTTCACGGAAGAGTAGTGAAACAGATATTCTCAT
TAATCAAGCATTCACAAAAGAGTAGTGAAACAATACAAAACAAGCCTTCACAAAAAGAGTAGAGA
AACAAGATCAGATCAAAAGTCCGATCTCCAC
Found at i:2788293 original size:4 final size:4
Alignment explanation
Indices: 2788284--2788309 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2788274 CGTCTGAGTC
2788284 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2788310 ATTATACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2794782 original size:12 final size:13
Alignment explanation
Indices: 2794751--2794788 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
2794741 TTTGTTTCTA
*
2794751 TTCATAAAACATT
1 TTCATTAAACATT
*
2794764 TTAATTAAA-ATT
1 TTCATTAAACATT
2794776 TTCATTAAACATT
1 TTCATTAAACATT
2794789 AGTATAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATTAAACATT
Found at i:2795170 original size:55 final size:54
Alignment explanation
Indices: 2795098--2795414 Score: 289
Period size: 55 Copynumber: 5.8 Consensus size: 54
2795088 CAATACGGTT
* * * * * *
2795098 GTTCATAATCATCTTATGAATTCCGTGCTTTTACACACTTACTGTAGATGCAGTC
1 GTTCATAAACATATTATGAATTCCGTG-TTTTGCACACTTAGTGTCGATACAGTC
* ** * * * *
2795153 ATTCATAAACATATTATGAATTTTGTGATTTTGCAAACTTAGTGTCGAAATAGTT
1 GTTCATAAACATATTATGAATTCCGTG-TTTTGCACACTTAGTGTCGATACAGTC
* ** * *
2795208 GTTTATAAACATATTATGAATTTGGTGGTTTTGCACACTTAGAGTCGATACGGTC
1 GTTCATAAACATATTATGAATTCCGT-GTTTTGCACACTTAGTGTCGATACAGTC
* ** * **
2795263 GTTCATAAACATATTATGAATTCTGTGGGTTGCACACCTAGTG-CTGATATGGTC
1 GTTCATAAACATATTATGAATTCCGTGTTTTGCACACTTAGTGTC-GATACAGTC
2795317 GTTCATAAACATATTATGAATTCTC-TAGTTTTGCACACTTAGTGTCGATA-AGGTC
1 GTTCATAAACATATTATGAATTC-CGT-GTTTTGCACACTTAGTGTCGATACA-GTC
* * * **
2795372 ATTCATAAGCATATTATGAATTTCGTGGGTTGCACACTTAGTG
1 GTTCATAAACATATTATGAATTCCGTGTTTTGCACACTTAGTG
2795415 CAAAAGTAAA
Statistics
Matches: 214, Mismatches: 41, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.00
54 61 0.29
55 150 0.70
56 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
GTTCATAAACATATTATGAATTCCGTGTTTTGCACACTTAGTGTCGATACAGTC
Found at i:2795348 original size:109 final size:109
Alignment explanation
Indices: 2795150--2795415 Score: 340
Period size: 109 Copynumber: 2.4 Consensus size: 109
2795140 TGTAGATGCA
** * * *
2795150 GTCATTCATAAACATATTATGAATTTTGTGATTTTGCAAACTTAGTG-TCGAAATAGTTGTTTAT
1 GTCATTCATAAACATATTATGAA-TTTGTG-GGTTGCACACTTAGTGCTCGAAATAGTCGTTCAT
* * *
2795214 AAACATATTATGAATTTGGTGGTTTTGCACACTTAGAGTCGATACG
64 AAACATATTATGAATTTGCTAGTTTTGCACACTTAGAGTCGATAAG
* * * *
2795260 GTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACCTAGTGCT-GATATGGTCGTTCATA
1 GTCATTCATAAACATATTATGAATT-TGTGGGTTGCACACTTAGTGCTCGAAATAGTCGTTCATA
*
2795324 AACATATTATGAATTCT-CTAGTTTTGCACACTTAGTGTCGATAAG
65 AACATATTATGAATT-TGCTAGTTTTGCACACTTAGAGTCGATAAG
*
2795369 GTCATTCATAAGCATATTATGAATTTCGTGGGTTGCACACTTAGTGC
1 GTCATTCATAAACATATTATGAATTT-GTGGGTTGCACACTTAGTGC
2795416 AAAAGTAAAC
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
108 1 0.01
109 107 0.79
110 28 0.21
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (109 bp):
GTCATTCATAAACATATTATGAATTTGTGGGTTGCACACTTAGTGCTCGAAATAGTCGTTCATAA
ACATATTATGAATTTGCTAGTTTTGCACACTTAGAGTCGATAAG
Found at i:2802393 original size:17 final size:17
Alignment explanation
Indices: 2802371--2802408 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2802361 CGGGAAGTGA
*
2802371 GTGAGTGAGTTTTTGGT
1 GTGAGTGAGTTTTGGGT
2802388 GTGAGTGAGTTTTGGGT
1 GTGAGTGAGTTTTGGGT
2802405 GTGA
1 GTGA
2802409 ATTCATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (17 bp):
GTGAGTGAGTTTTGGGT
Found at i:2804961 original size:47 final size:46
Alignment explanation
Indices: 2804835--2804961 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 46
2804825 CGGAATATGT
* * * *
2804835 CATGAACAGATGCATAAAGACATGAAAGTATGACATAACTAAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAG-ATGCCATAACTAAAAATG
* **
2804882 CATGAAGGGATAAATTAAGGCATGAAAGGATGCCATAACTAAAAATG
1 CATGAACGGATGCATTAAGGCATGAAA-GATGCCATAACTAAAAATG
2804929 CATGAACGGATGCATTAAGGCATGAAATGATGC
1 CATGAACGGATGCATTAAGGCATGAAA-GATGC
2804962 TATGATAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 67 0.99
48 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.20
Consensus pattern (46 bp):
CATGAACGGATGCATTAAGGCATGAAAGATGCCATAACTAAAAATG
Found at i:2809924 original size:95 final size:94
Alignment explanation
Indices: 2809760--2809931 Score: 229
Period size: 95 Copynumber: 1.8 Consensus size: 94
2809750 CATAATGTTA
* ** *
2809760 AAATGGTATCGATACTGAAAGGAGTATCGATACCATAGTATAGTAGTATCGATACTGAGAGAAGG
1 AAATGGTATCGATACTGAAAGGAGTATCGATACCATAGTATAGAAGTATCGATACCAAGAGAAGA
2809825 GTATCGATACTATGCAACAAAAAATATAG
66 GTATCGATACTATGCAACAAAAAATATAG
* * * * * *
2809854 AAATGGTATCGATATTGAAAGGGGGTATTGGTACTATAGTATAGAAGTATCGATACCAAG-GTAG
1 AAATGGTATCGATACTGAAA-GGAGTATCGATACCATAGTATAGAAGTATCGATACCAAGAGAAG
2809918 TAGTATCGATACTA
65 -AGTATCGATACTA
2809932 ATGAGCTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
94 22 0.33
95 44 0.67
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (94 bp):
AAATGGTATCGATACTGAAAGGAGTATCGATACCATAGTATAGAAGTATCGATACCAAGAGAAGA
GTATCGATACTATGCAACAAAAAATATAG
Found at i:2810104 original size:27 final size:26
Alignment explanation
Indices: 2810066--2810372 Score: 194
Period size: 27 Copynumber: 12.5 Consensus size: 26
2810056 ATGCATTAAG
* *
2810066 GCATGAAAGGATACCATAACTAAAAGT
1 GCATGAACGGATGCCATAACTAAAA-T
2810093 GCATGAACGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACTAAAAT
2810119 GCATGAACGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACTAAAAT
* *
2810145 GCATGAACGAATG-CAT---T--AAG
1 GCATGAACGGATGCCATAACTAAAAT
*** *
2810165 GCATGAAATAATGCCATAATTAAAAAT
1 GCATGAACGGATGCCATAACT-AAAAT
2810192 GCATGAACGGATGCCATAACTAAAAAT
1 GCATGAACGGATGCCATAACT-AAAAT
* * * *
2810219 ACATGAACGAATG---T-A-T-TAAG
1 GCATGAACGGATGCCATAACTAAAAT
** *
2810239 GCATGAAATGATACCATAACTAAAAAT
1 GCATGAACGGATGCCATAACT-AAAAT
* *
2810266 GCATAAACGGATG-CAT---T--AAG
1 GCATGAACGGATGCCATAACTAAAAT
**
2810286 GCATGAAATGATGCCATAACTAAAAAT
1 GCATGAACGGATGCCATAACT-AAAAT
*
2810313 GCATGAACGGATG-CAT---T--AAG
1 GCATGAACGGATGCCATAACTAAAAT
* *
2810333 GCATGAAAGGATGCCACAACTAAAAAT
1 GCATGAACGGATGCCATAACT-AAAAT
2810360 GCATGAACGGATG
1 GCATGAACGGATG
2810373 TATTAAGGCA
Statistics
Matches: 214, Mismatches: 38, Indels: 56
0.69 0.12 0.18
Matches are distributed among these distances:
20 49 0.23
21 8 0.04
22 2 0.01
23 4 0.02
24 5 0.02
25 4 0.02
26 45 0.21
27 97 0.45
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (26 bp):
GCATGAACGGATGCCATAACTAAAAT
Found at i:2810243 original size:47 final size:47
Alignment explanation
Indices: 2810192--2810393 Score: 305
Period size: 47 Copynumber: 4.3 Consensus size: 47
2810182 AATTAAAAAT
* * * *
2810192 GCATGAACGGATGCCATAACTAAAAATACATGAACGAATGTATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* * *
2810239 GCATGAAATGATACCATAACTAAAAATGCATAAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
2810286 GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
2810333 GCATGAAAGGATGCCACAACTAAAAATGCATGAACGGATGTATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
2810380 GCATGAACGGATGC
1 GCATGAAAGGATGC
2810394 ATTAAGGCAT
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.20
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
Done.