Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 91 of 295
Found at i:28827116 original size:37 final size:37
Alignment explanation
Indices: 28827053--28827198 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
28827043 AGCTCAGACG
* * *
28827053 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
28827090 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
28827127 TACTCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
28827164 TAATCTCCACTCGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
28827199 ATATATTTCC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:28827413 original size:47 final size:47
Alignment explanation
Indices: 28827361--28827459 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
28827351 TTTCACACTA
** * * *
28827361 GCCATTCGGTTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTACCACACATATGCATGCTCACATTCACCACATTG
* * * *
28827408 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCATATTG
1 GCCATTCGGCCTTACCACACATATGCATGCTCACATTCACCACATTG
28827455 GCCAT
1 GCCAT
28827460 GCATGTTCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTACCACACATATGCATGCTCACATTCACCACATTG
Found at i:28827462 original size:28 final size:28
Alignment explanation
Indices: 28827430--28827487 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
28827420 TATCACACAT
*
28827430 ATGCATGCTCACGTTCATCATATTGGCC
1 ATGCATGCTCACGTTCATCATATAGGCC
*
28827458 ATGCATGTTCACGTTCATCATATAGGCC
1 ATGCATGCTCACGTTCATCATATAGGCC
28827486 AT
1 AT
28827488 TCGGCCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (28 bp):
ATGCATGCTCACGTTCATCATATAGGCC
Found at i:28827486 original size:75 final size:75
Alignment explanation
Indices: 28827383--28827534 Score: 223
Period size: 75 Copynumber: 2.0 Consensus size: 75
28827373 TACCACATAT
* *
28827383 ATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCAT
1 ATGCATGTTCACATTCACCACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCAT
*
28827448 CATATTGGCC
66 CACATTGGCC
* * * * * *
28827458 ATGCATGTTCACGTTCATCATATAGGCCATTCGGCCTTATCACATATATGCATGTTCATGTTCAT
1 ATGCATGTTCACATTCACCACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCAT
28827523 CACATTGGCC
66 CACATTGGCC
28827533 AT
1 AT
28827535 TCGGCCTTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (75 bp):
ATGCATGTTCACATTCACCACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCAT
CACATTGGCC
Found at i:28827512 original size:47 final size:47
Alignment explanation
Indices: 28827458--28827668 Score: 341
Period size: 47 Copynumber: 4.5 Consensus size: 47
28827448 CATATTGGCC
* * *
28827458 ATGCATGTTCACGTTCATCATATAGGCCATTCGGCCTTATCACATAT
1 ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
**
28827505 ATGCATGTTCATGTTCATCACATTGGCCATTCGGCCTTATCACATAT
1 ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
*
28827552 ATGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATAT
1 ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
28827599 ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
1 ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
* **
28827646 ATACACATTCACATTCATCACAT
1 ATGCATGTTCACATTCATCACAT
28827669 AAAATCCTAA
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
Found at i:28827549 original size:22 final size:21
Alignment explanation
Indices: 28827521--28827643 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 21
28827511 GTTCATGTTC
28827521 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGG-CATTCGGCCTT
* * *
28827543 ATCACATATATGCATGTTC-ACATT
1 ATCACAT-T-GGCA--TTCGGCCTT
28827567 CATCACATTGGTCATTCGGCCTT
1 -ATCACATTGG-CATTCGGCCTT
* * *
28827590 ATCACATATATGCATGTTC-ACATT
1 ATCACAT-T-GGCA--TTCGGCCTT
28827614 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGG-CATTCGGCCTT
28827637 ATCACAT
1 ATCACAT
28827644 ATATACACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 27 0.36
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (21 bp):
ATCACATTGGCATTCGGCCTT
Found at i:28831362 original size:16 final size:17
Alignment explanation
Indices: 28831341--28831374 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
28831331 TTACCATGCA
28831341 TATAACAT-TTAAATGT
1 TATAACATATTAAATGT
28831357 TATAACATAATTAAATGT
1 TATAACAT-ATTAAATGT
28831375 AAATTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAACATATTAAATGT
Found at i:28832356 original size:12 final size:12
Alignment explanation
Indices: 28832339--28832364 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28832329 AATGTTGTTT
28832339 ACCTAACATCAA
1 ACCTAACATCAA
28832351 ACCTAACATCAA
1 ACCTAACATCAA
28832363 AC
1 AC
28832365 ATACATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (12 bp):
ACCTAACATCAA
Found at i:28835571 original size:29 final size:29
Alignment explanation
Indices: 28835515--28835571 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
28835505 AAATACCGAA
*
28835515 ACGTTGGTATTTTGTAAACTCGCGAGCGC
1 ACGTTGGTATTTTGTAAACTCGCAAGCGC
*
28835544 ACGTTGGTATTTTGTAAACTTGCAAGCG
1 ACGTTGGTATTTTGTAAACTCGCAAGCG
28835572 TGCGAGCGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (29 bp):
ACGTTGGTATTTTGTAAACTCGCAAGCGC
Found at i:28843376 original size:27 final size:27
Alignment explanation
Indices: 28843346--28843548 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
28843336 ATATTGAGTC
* * * *
28843346 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
28843373 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28843400 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
28843428 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
28843455 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
28843482 CGCACACTTAGTGCAAC-TAGTC-AAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28843507 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28843534 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28843549 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
25 17 0.11
26 9 0.06
27 103 0.67
28 24 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:28851234 original size:27 final size:27
Alignment explanation
Indices: 28851204--28851408 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
28851194 ATATTGAGTC
* * * *
28851204 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
28851231 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAGTCAAAT
28851258 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
28851286 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
28851313 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
28851340 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28851367 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28851394 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28851409 GTACAATTTA
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 131 0.83
28 25 0.16
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:28856138 original size:31 final size:31
Alignment explanation
Indices: 28856100--28856171 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
28856090 TCATAAAGTG
28856100 TCACACGCCCGTGTAGGTGGGCCGTGTGGAC
1 TCACACGCCCGTGTAGGTGGGCCGTGTGGAC
*
28856131 TCACACGCCCGTGTAGTTGGGCCGTGTGGAC
1 TCACACGCCCGTGTAGGTGGGCCGTGTGGAC
*
28856162 TCACATGCCC
1 TCACACGCCC
28856172 ATGCCCTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.14, C:0.32, G:0.33, T:0.21
Consensus pattern (31 bp):
TCACACGCCCGTGTAGGTGGGCCGTGTGGAC
Found at i:28869662 original size:14 final size:14
Alignment explanation
Indices: 28869643--28869669 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28869633 ACTTTTCAAG
28869643 TTAAAACCTTTTTC
1 TTAAAACCTTTTTC
28869657 TTAAAACCTTTTT
1 TTAAAACCTTTTT
28869670 TTGGTATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAAAACCTTTTTC
Found at i:28881837 original size:12 final size:12
Alignment explanation
Indices: 28881820--28881847 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
28881810 AGTAAAAATT
28881820 ATTTAATATAAA
1 ATTTAATATAAA
28881832 ATTTAATATAAA
1 ATTTAATATAAA
28881844 ATTT
1 ATTT
28881848 TATTTGACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTAATATAAA
Found at i:28883619 original size:18 final size:17
Alignment explanation
Indices: 28883596--28883629 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
28883586 TTAAATATTA
28883596 TTTTAATCTCTTACAAAC
1 TTTTAATCTCTT-CAAAC
*
28883614 TTTTAATTTCTTCAAA
1 TTTTAATCTCTTCAAA
28883630 AAAACCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAATCTCTTCAAAC
Found at i:28885301 original size:25 final size:25
Alignment explanation
Indices: 28885273--28885330 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
28885263 AATTTTTAAA
28885273 TTAAAA-AATAAATAAATAAAATT-TT
1 TTAAAATAA-AAATAAA-AAAATTATT
*
28885298 TTAAAATAAAAATATAAAAATTATT
1 TTAAAATAAAAATAAAAAAATTATT
*
28885323 TTTAAATA
1 TTAAAATA
28885331 CACAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 6 0.21
25 21 0.72
26 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TTAAAATAAAAATAAAAAAATTATT
Found at i:28885307 original size:23 final size:25
Alignment explanation
Indices: 28885277--28885330 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
28885267 TTTAAATTAA
28885277 AAAATAAATAA-AT-AAAATT-TTTT
1 AAAATAAA-AATATAAAAATTATTTT
28885300 AAAATAAAAATATAAAAATTATTTT
1 AAAATAAAAATATAAAAATTATTTT
*
28885325 TAAATA
1 AAAATA
28885331 CACAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 10 0.37
24 6 0.22
25 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AAAATAAAAATATAAAAATTATTTT
Found at i:28885975 original size:150 final size:150
Alignment explanation
Indices: 28885695--28885994 Score: 528
Period size: 150 Copynumber: 2.0 Consensus size: 150
28885685 TTGGTTGATT
* *
28885695 CATGAACTAATATAAGTTAAATTAAAAAATCGATGAATTGTTTTTCTAATATTTTTTTATAATTT
1 CATGAACTAATATAAGCTAAATTAAAAAATCGATGAATTATTTTTCTAATATTTTTTTATAATTT
* * *
28885760 ATTTAATTGAATTATTTAAACTGAAAAATTAATAACTTGATTTATTTCATCACCATTGTTAGTTA
66 ATTTAATTGAATTATCTAAACTGAAAAAATAATAACTTGATTTATTTCATCACCAATGTTAGTTA
28885825 GTTGAGAGAATAATGTCATC
131 GTTGAGAGAATAATGTCATC
*
28885845 CATGAACTAATATGAGCTAAATTAAAAAATCGATGAATTATTTTTCTAATATTTTTTTATAATTT
1 CATGAACTAATATAAGCTAAATTAAAAAATCGATGAATTATTTTTCTAATATTTTTTTATAATTT
* *
28885910 ATTTAATTGAATTATCTAAACTGAAAAAATAATAACTTGATTTATTTCATCACTAATGTTGGTTA
66 ATTTAATTGAATTATCTAAACTGAAAAAATAATAACTTGATTTATTTCATCACCAATGTTAGTTA
28885975 GTTGAGAGAATAATGTCATC
131 GTTGAGAGAATAATGTCATC
28885995 AATAGTGTGC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (150 bp):
CATGAACTAATATAAGCTAAATTAAAAAATCGATGAATTATTTTTCTAATATTTTTTTATAATTT
ATTTAATTGAATTATCTAAACTGAAAAAATAATAACTTGATTTATTTCATCACCAATGTTAGTTA
GTTGAGAGAATAATGTCATC
Found at i:28890207 original size:91 final size:94
Alignment explanation
Indices: 28890052--28890278 Score: 228
Period size: 91 Copynumber: 2.4 Consensus size: 94
28890042 GTTATGTACG
* * * * ** *
28890052 ATCCCATGTAAGACCATATTTGGGACATGGCTTTGGCATCGATATGCAATTTCGTGTAAGACCAT
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCAT
28890117 AG-CTGGG-C-T-ATCGGCATCGACATGTA
66 -GTCTGGGACATAATCGGCATCGACATGTA
* * * * *
28890143 ATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATTGACCTACGATCCCATGTAAGACCAT
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCAT
* * *
28890208 GTCTGGGACATGACATTGGCATCGATATGTG
66 GTCTGGGACAT-A-ATCGGCATCGACATGTA
* * * *
28890239 ATCCCATGTAAGACCATATTTGAGATATGGAATTGGCATC
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
28890279 CTACCATGTA
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
90 1 0.01
91 58 0.54
92 1 0.01
93 1 0.01
96 47 0.44
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (94 bp):
ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCAT
GTCTGGGACATAATCGGCATCGACATGTA
Found at i:28890274 original size:48 final size:48
Alignment explanation
Indices: 28890051--28890278 Score: 182
Period size: 48 Copynumber: 4.9 Consensus size: 48
28890041 GGTTATGTAC
* * ** * *
28890051 GATCCCATGTAAGACCATATTTGGGACATGGCTTTGGCATCGATATGC
1 GATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGACATGT
* ** * *
28890099 AATTTCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCATCGACATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGAATTGGCATCGACATGT
* * * * * **
28890142 AATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATTGACCTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGACATGT
*
28890190 GATCCCATGTAAGACCATGTCTGGGACAT-GACATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGA-ATTGGCATCGACATGT
* * * *
28890238 GATCCCATGTAAGACCATATTTGAGATATGGAATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATC
28890279 CTACCATGTA
Statistics
Matches: 140, Mismatches: 31, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 101 0.72
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGACATGT
Found at i:28905170 original size:48 final size:48
Alignment explanation
Indices: 28905100--28905812 Score: 1148
Period size: 48 Copynumber: 14.9 Consensus size: 48
28905090 TATATATGTG
*
28905100 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * * *
28905148 TGTGGTAAAGCCAAATGACTAATGTGAAATACATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
**
28905196 TGTGGTAAAGCCGAATGGCTAAAGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * *
28905244 TGTGATAAAGACGAATGGCTAATGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
* *
28905292 TGTGATAAAGACGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
28905340 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
28905388 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28905436 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28905484 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28905532 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28905580 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
28905628 TGTGGTAAAGACC-AATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAG-CCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28905676 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28905724 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * *
28905772 TGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAT
28905813 GTGTGTATAT
Statistics
Matches: 637, Mismatches: 22, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 3 0.00
48 631 0.99
49 3 0.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:28905356 original size:28 final size:28
Alignment explanation
Indices: 28905324--28905404 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
28905314 TGTGAAATAT
28905324 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
28905352 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
28905372 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
28905400 GAATG
1 GAATG
28905405 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:28907316 original size:40 final size:40
Alignment explanation
Indices: 28907268--28907621 Score: 546
Period size: 40 Copynumber: 8.8 Consensus size: 40
28907258 AGTTATGTAG
28907268 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* * *
28907308 CTGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
28907348 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
*
28907388 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* *
28907428 CCGGGCTAAGTCCTGAAGAGCATTCGTGTTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
** * *
28907468 CCGGGCTAAGTCCTAAAGAGCATTCGTGCTGATGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* * *
28907508 CCGGGCTAAGTCCCAAAGAGAATTCGTGTTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* *
28907548 TCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
* * *
28907588 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
28907622 ATGTGCATTC
Statistics
Matches: 285, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
Found at i:28911951 original size:40 final size:40
Alignment explanation
Indices: 28911896--28912113 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
28911886 TGGATGATAA
* * *
28911896 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
28911936 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28911976 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28912016 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
28912056 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
28912096 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28912114 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:28913534 original size:48 final size:48
Alignment explanation
Indices: 28913458--28914590 Score: 1943
Period size: 48 Copynumber: 23.6 Consensus size: 48
28913448 GGGGTGTTAC
* *
28913458 ATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
**
28913506 ATGTGGTAAAGCCGAATGGCTAACGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
* * *
28913554 ATGAGATAAAGCCGAATGGCTAATGTGAAATATGA-ATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTAT
28913602 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTAT
*
28913650 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
*
28913698 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
*
28913746 ATGTGGTAAAGCCGAATGACTAGTGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
*
28913794 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
* *
28913842 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
* * *
28913890 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGGAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
*
28913938 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28913986 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914034 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914082 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914130 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
* *
28914178 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914226 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTAT
28914274 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTAT
* * *
28914322 GTATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
* * *
28914370 GTGTGGTAAAGCCGAATGGCCAATGTGAAATATATATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
*
28914418 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914466 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTAT
*
28914514 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
28914562 ATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATGTGGTAAAGCCGAATGGCTAGTGTGAA
28914591 TATGTAGGAG
Statistics
Matches: 1042, Mismatches: 37, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
47 1 0.00
48 1039 1.00
49 2 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTAT
Found at i:28913619 original size:28 final size:28
Alignment explanation
Indices: 28913587--28913667 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
28913577 TGTGAAATAT
28913587 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
28913615 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
28913635 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
28913663 GAATG
1 GAATG
28913668 GCTAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:28916148 original size:40 final size:40
Alignment explanation
Indices: 28916095--28916533 Score: 725
Period size: 40 Copynumber: 11.0 Consensus size: 40
28916085 TTGAGAGTTA
* *
28916095 TATAGCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916135 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916175 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916215 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916255 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916295 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916335 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28916375 TATATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28916415 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28916455 TATATACGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28916495 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
28916534 ATGTGCATTC
Statistics
Matches: 370, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 370 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:28919079 original size:48 final size:48
Alignment explanation
Indices: 28919017--28920257 Score: 2118
Period size: 48 Copynumber: 25.9 Consensus size: 48
28919007 TATATATGTG
*
28919017 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919065 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919113 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTAGA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28919161 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919209 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
28919257 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919305 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGAAATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28919353 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919401 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28919449 TGTGGTAAAGCTGAATGGCTAATGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
28919497 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28919545 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919593 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919641 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919689 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28919737 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28919785 TCTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919833 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28919881 TGTGGTAAAGCCGAATGGCAAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
28919929 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
28919977 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28920025 TGTGGTAAAGCCGAATGGCCAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28920073 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28920121 TGTGGTAGAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
28920169 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
28920217 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAT
28920258 GTGTGTATAT
Statistics
Matches: 1142, Mismatches: 41, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
47 2 0.00
48 1136 0.99
49 4 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:28919513 original size:28 final size:28
Alignment explanation
Indices: 28919481--28919561 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
28919471 TGTGAAATAT
28919481 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
28919509 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
28919529 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
28919557 GAATG
1 GAATG
28919562 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:28919945 original size:28 final size:28
Alignment explanation
Indices: 28919913--28919993 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
28919903 TGTGAAATAT
28919913 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
28919941 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
28919961 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
28919989 GAATG
1 GAATG
28919994 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:28927543 original size:28 final size:27
Alignment explanation
Indices: 28927473--28927616 Score: 201
Period size: 28 Copynumber: 5.4 Consensus size: 27
28927463 GATATGGAAT
*
28927473 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
28927500 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
28927525 TGTGCAAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
28927553 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
28927580 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
28927604 TGGTGCTAAGTGA
1 T-GTGCTAAGTGA
28927617 GAAATTTCCC
Statistics
Matches: 106, Mismatches: 3, Indels: 15
0.85 0.02 0.12
Matches are distributed among these distances:
24 44 0.42
25 3 0.03
27 3 0.03
28 56 0.53
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:28927610 original size:52 final size:54
Alignment explanation
Indices: 28927474--28927616 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 54
28927464 ATATGGAATT
*
28927474 GTGCTAAGTGAAATAAGACCATGGCA--T-CTAAGTGAAATAAGTCCATGGCAA
1 GTGCTAAGTGAAATAAGTCCATGGCATGTGCTAAGTGAAATAAGTCCATGGCAA
*
28927525 TGTGCAAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGTCCATGGC-A
1 -GTGCTAAGTGAAATAAGTCCATGGC-ATGTGCTAAGTGAAATAAGTCCATGGCAA
28927580 -T-CTAAGTGAAATAAGTCCATGGCATGGTGCTAAGTGA
1 GTGCTAAGTGAAATAAGTCCATGGCAT-GTGCTAAGTGA
28927617 GAAATTTCCC
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
51 2 0.02
52 55 0.66
53 2 0.02
55 2 0.02
56 22 0.27
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (54 bp):
GTGCTAAGTGAAATAAGTCCATGGCATGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:28927695 original size:51 final size:51
Alignment explanation
Indices: 28927640--28927736 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
28927630 TGAACCTTAG
*
28927640 GAATAAAATAACTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGA
1 GAATAAAATAACTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACTTTGA
**
28927691 GAATAAAATAGGTTTGGCTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAACTTTGGCTACAAGGGTGGTACTATGTGAAGGCCAC
28927737 CGTGTATCCG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (51 bp):
GAATAAAATAACTTTGGCTACAAGGGTGGTACTATGTGAAGGCCACTTTGA
Found at i:28930414 original size:28 final size:27
Alignment explanation
Indices: 28930337--28930461 Score: 163
Period size: 24 Copynumber: 4.7 Consensus size: 27
28930327 ATTCTAAAGT
28930337 CCATGGCAATGTGCTAAGTGAAATAAGA
1 CCATGGC-ATGTGCTAAGTGAAATAAGA
28930365 CCATGGCA--T-CTAAGTGAAATAAGA
1 CCATGGCATGTGCTAAGTGAAATAAGA
*
28930389 CCATGGCAATGTGCTAAGTGAAATAAGT
1 CCATGGC-ATGTGCTAAGTGAAATAAGA
*
28930417 CCATGGCA--T-CTAAGTGAAATAAGT
1 CCATGGCATGTGCTAAGTGAAATAAGA
28930441 CCATGGCATGGTGCTAAGTGA
1 CCATGGCAT-GTGCTAAGTGA
28930462 GAAATTTTCC
Statistics
Matches: 88, Mismatches: 1, Indels: 16
0.84 0.01 0.15
Matches are distributed among these distances:
24 45 0.51
25 3 0.03
27 4 0.05
28 36 0.41
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (27 bp):
CCATGGCATGTGCTAAGTGAAATAAGA
Found at i:28930415 original size:52 final size:52
Alignment explanation
Indices: 28930337--28930461 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
28930327 ATTCTAAAGT
28930337 CCATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGA
1 CCATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGA
* *
28930389 CCATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGT
1 CCATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGA
28930441 CCATGGC-ATGGTGCTAAGTGA
1 CCATGGCAAT-GTGCTAAGTGA
28930462 GAAATTTTCC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
51 2 0.03
52 68 0.97
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
CCATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGA
Found at i:28930540 original size:51 final size:51
Alignment explanation
Indices: 28930485--28930581 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
28930475 TGAACCTTAG
* *
28930485 GAATAAAATAACTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGA
1 GAATAAAATAACTTTCG-CTACAAGGGTGGTACTATGTGAAGGCCACTTTGA
** *
28930536 GAATAAAATAGGTTTCGCTACAAGGGTGGTGCTATGTGAAGGCCAC
1 GAATAAAATAACTTTCGCTACAAGGGTGGTACTATGTGAAGGCCAC
28930582 CGTGTATCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (51 bp):
GAATAAAATAACTTTCGCTACAAGGGTGGTACTATGTGAAGGCCACTTTGA
Found at i:28931808 original size:28 final size:28
Alignment explanation
Indices: 28931768--28931823 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
28931758 GCCTAAGATG
28931768 GTCCAGAAATGTGTATTAATTCATAATT
1 GTCCAGAAATGTGTATTAATTCATAATT
28931796 GTCCAGAAATGTGTATTAATTCATAATT
1 GTCCAGAAATGTGTATTAATTCATAATT
28931824 TAATTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
GTCCAGAAATGTGTATTAATTCATAATT
Found at i:28945327 original size:24 final size:21
Alignment explanation
Indices: 28945300--28945345 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 21
28945290 TGATAAACCT
28945300 TAATATATATAATTATATTTATTA
1 TAATATATAT-ATTA-ATTT-TTA
*
28945324 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
28945345 T
1 T
28945346 CAACTTAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 4 0.19
23 4 0.19
24 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:28951861 original size:22 final size:22
Alignment explanation
Indices: 28951835--28951877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
28951825 GAATTGGGAA
*
28951835 GAATAAAGA-AAATAGAAAAAAT
1 GAATAAA-ACAAACAGAAAAAAT
28951857 GAATAAAACAAACAGAAAAAA
1 GAATAAAACAAACAGAAAAAA
28951878 AGGTCTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.74, C:0.05, G:0.12, T:0.09
Consensus pattern (22 bp):
GAATAAAACAAACAGAAAAAAT
Found at i:28962586 original size:42 final size:42
Alignment explanation
Indices: 28962539--28962660 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
28962529 ACTAAGACTA
*
28962539 ACGTGTAAGACCATATGTGGGATATGGCATTGATATGAGACTT
1 ACGTGTAAGACCATATGTGGGATATGGCATTGATACGAGA-TT
* * *
28962582 -CGTGTAAGACCATA-GCTTGGCTATTGGCATCGATACGAGATT
1 ACGTGTAAGACCATATG-TGGGATA-TGGCATTGATACGAGATT
* * * *
28962624 ACATGTAAGACCATATCTGGGATATGACATTGGTACG
1 ACGTGTAAGACCATATGTGGGATATGGCATTGATACG
28962661 GTACTGTGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.02
42 31 0.48
43 32 0.50
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
ACGTGTAAGACCATATGTGGGATATGGCATTGATACGAGATT
Found at i:28965219 original size:46 final size:46
Alignment explanation
Indices: 28965152--28965325 Score: 294
Period size: 46 Copynumber: 3.8 Consensus size: 46
28965142 TGTAACCCGC
*
28965152 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
28965198 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
28965244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
28965290 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
28965326 ATGCTCAACC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:28971228 original size:7 final size:7
Alignment explanation
Indices: 28971216--28971242 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
28971206 CCCCTACAAA
28971216 TTTATTC
1 TTTATTC
28971223 TTTATTC
1 TTTATTC
28971230 TTTATTC
1 TTTATTC
28971237 TTTATT
1 TTTATT
28971243 GTGATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTC
Found at i:28972955 original size:26 final size:26
Alignment explanation
Indices: 28972901--28972971 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
28972891 CATACCTTAG
* * *
28972901 CTCTTATGAGCATCCC-ATTACATGG
1 CTCTTATGAGCTTCCCGATTACAAGA
28972926 CTCTTCATGAGCTTCCCGATTA-AAGA
1 CTCTT-ATGAGCTTCCCGATTACAAGA
*
28972952 CTCTTTGTGAGCTTCCCGAT
1 CTC-TTATGAGCTTCCCGAT
28972972 AATGGCTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 5 0.13
26 28 0.72
27 6 0.15
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (26 bp):
CTCTTATGAGCTTCCCGATTACAAGA
Found at i:28973015 original size:25 final size:24
Alignment explanation
Indices: 28972960--28973017 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
28972950 GACTCTTTGT
*
28972960 GAGCTTCCCGATAATGGCTCACTT
1 GAGCTTCCCGATAATGGCTCACTA
* *
28972984 GAACTTCTCGATATATGGCT-ATCTA
1 GAGCTTCCCGATA-ATGGCTCA-CTA
28973009 GAGCTTCCC
1 GAGCTTCCC
28973018 ATTAATGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCACTA
Found at i:28973083 original size:23 final size:23
Alignment explanation
Indices: 28973057--28973112 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 23
28973047 GGCTCGCACT
*
28973057 AGCTTCCTAACATGGCTCTCATG
1 AGCTTCCTAACATGGCTCACATG
*
28973080 AGCTTCCTGTTACATGGCTCACATG
1 AGCTTCC--TAACATGGCTCACATG
28973105 AGCTTCCT
1 AGCTTCCT
28973113 GATTATGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 8 0.28
25 21 0.72
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCTTCCTAACATGGCTCACATG
Found at i:28973098 original size:25 final size:25
Alignment explanation
Indices: 28973066--28973113 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
28973056 TAGCTTCCTA
*
28973066 ACATGGCTCTCATGAGCTTCCTGTT
1 ACATGGCTCACATGAGCTTCCTGTT
28973091 ACATGGCTCACATGAGCTTCCTG
1 ACATGGCTCACATGAGCTTCCTG
28973114 ATTATGTGCT
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:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (25 bp):
ACATGGCTCACATGAGCTTCCTGTT
Found at i:28977564 original size:33 final size:35
Alignment explanation
Indices: 28977512--28977601 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 35
28977502 TTGCATACTA
*
28977512 TACT-AAAGTGGGCTAAGG-CCAGACTGCCACTGT
1 TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGG
* * *
28977545 TACTGAAA-TGGGCTCAGGCCCAGACTTCTACTGG
1 TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGG
* *
28977579 TACTGAAAGAGGGGCTAAAGCCC
1 TACTGAAAG-TGGGCTAAGGCCC
28977602 CTAACTGGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
33 13 0.28
34 23 0.50
36 10 0.22
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (35 bp):
TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGG
Found at i:28989903 original size:16 final size:16
Alignment explanation
Indices: 28989882--28989914 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28989872 TTTTTATTTT
28989882 TAGATTCCTTAATGAG
1 TAGATTCCTTAATGAG
28989898 TAGATTCCTTAATGAG
1 TAGATTCCTTAATGAG
28989914 T
1 T
28989915 CTACTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (16 bp):
TAGATTCCTTAATGAG
Found at i:28996478 original size:54 final size:54
Alignment explanation
Indices: 28996398--28996592 Score: 182
Period size: 54 Copynumber: 3.6 Consensus size: 54
28996388 AGGATACCAA
* * * *
28996398 GTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGAAATCAT
* * * * *
28996452 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC-A--AAATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAGGAAAT--CAT
* * * * * * *
28996506 GTAAGACCATACCAAGGCATGGTAATGGTGAGTTC-ATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGAAATCAT
*
28996559 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
28996593 TAAAAAGAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
52 11 0.10
53 35 0.32
54 52 0.47
55 13 0.12
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (54 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGAAATCAT
Found at i:28997892 original size:27 final size:27
Alignment explanation
Indices: 28997862--28997923 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
28997852 GAAAACAATC
* * *
28997862 ATTTTACCCTATAGGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
*
28997889 ATTTTACACTACAAGGGTATTTTAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
28997916 ATTTTACA
1 ATTTTACA
28997924 AATCGGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:29001900 original size:47 final size:48
Alignment explanation
Indices: 29001767--29001905 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
29001757 TACCACGGTT
* * * *
29001767 ATACGTGTAACATGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* *
29001815 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* * * *
29001863 ATTCAT-TAACGTGGTGCTAAGTGGATATAACATGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
29001906 GTAACGTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 32 0.41
48 47 0.59
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
Found at i:29001938 original size:38 final size:38
Alignment explanation
Indices: 29001869--29001945 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
29001859 ATCGATTCAT
* * *
29001869 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATG
1 TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
** *
29001907 TAACGTGGTGCTAAATGGATACGCCACGGTTACACATG
1 TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
29001945 T
1 T
29001946 TAATTTGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (38 bp):
TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
Found at i:29005217 original size:16 final size:17
Alignment explanation
Indices: 29005192--29005228 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
29005182 GTGAAACTGT
29005192 AAAGGCTGAAAAGCC-G
1 AAAGGCTGAAAAGCCGG
*
29005208 AAAGGTTGAAAAGCCGG
1 AAAGGCTGAAAAGCCGG
29005225 AAAG
1 AAAG
29005229 TGGGTTGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.46, C:0.14, G:0.32, T:0.08
Consensus pattern (17 bp):
AAAGGCTGAAAAGCCGG
Found at i:29005654 original size:27 final size:27
Alignment explanation
Indices: 29005616--29005757 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
29005606 TTATTTACTT
29005616 GTAAAATGACCGAAATACCCCTATAGG
1 GTAAAATGACCGAAATACCCCTATAGG
*
29005643 GTAAAATGACCGAAATACCCTTATAGG
1 GTAAAATGACCGAAATACCCCTATAGG
*
29005670 GTAAAATGACCAAAATA-CCCTCATAGG
1 GTAAAATGACCGAAATACCCCT-ATAGG
* *
29005697 GTAAAATGA-CGAAAATACCCCTGTAAG
1 GTAAAATGACCG-AAATACCCCTATAGG
* * * *
29005724 GTAAAATGACTGGAATACCCCTGTAAG
1 GTAAAATGACCGAAATACCCCTATAGG
29005751 GTAAAAT
1 GTAAAAT
29005758 AACCTTTTTG
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.04
27 94 0.91
28 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCTATAGG
Found at i:29005782 original size:27 final size:27
Alignment explanation
Indices: 29005750--29005966 Score: 219
Period size: 27 Copynumber: 8.0 Consensus size: 27
29005740 ACCCCTGTAA
* *
29005750 GGTAAAATAACCTTTTTGCCCTTATGT
1 GGTAAAATGACATTTTTGCCCTTATGT
* *
29005777 GTTAAAATGACGATTTTT-CCTTTATGT
1 GGTAAAATGAC-ATTTTTGCCCTTATGT
* * *
29005804 GATAAAATGACAGTTTTGCTCTTATGT
1 GGTAAAATGACATTTTTGCCCTTATGT
29005831 GGTAAAATGAC-TGTTTTGCCCTTATGT
1 GGTAAAATGACAT-TTTTGCCCTTATGT
* *
29005858 GTTAAAATGACAGTTTTGCCCTTATGT
1 GGTAAAATGACATTTTTGCCCTTATGT
* *
29005885 GGTAAAATGACGATTTTT-CTCTTATGA
1 GGTAAAATGAC-ATTTTTGCCCTTATGT
*
29005912 GGTAAAATGAC-TGTTTTGCCCTTATAT
1 GGTAAAATGACAT-TTTTGCCCTTATGT
** *
29005939 GGTAGGATGAC-TATTTTGCCCCTATGT
1 GGTAAAATGACAT-TTTTGCCCTTATGT
29005966 G
1 G
29005967 ATGTATATTT
Statistics
Matches: 158, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 9 0.06
27 138 0.87
28 10 0.06
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTAAAATGACATTTTTGCCCTTATGT
Found at i:29005810 original size:54 final size:54
Alignment explanation
Indices: 29005763--29005942 Score: 247
Period size: 54 Copynumber: 3.3 Consensus size: 54
29005753 AAAATAACCT
*
29005763 TTTTGCCCTTATGTGTTAAAATGACGATTTTTCCTTTATGTGATAAAATGACAG
1 TTTTGCCCTTATGTGGTAAAATGACGATTTTTCCTTTATGTGATAAAATGACAG
* * * *
29005817 TTTTGCTCTTATGTGGTAAAATGACTG-TTTTGCCCTTATGTGTTAAAATGACAG
1 TTTTGCCCTTATGTGGTAAAATGAC-GATTTTTCCTTTATGTGATAAAATGACAG
* * *
29005871 TTTTGCCCTTATGTGGTAAAATGACGATTTTT-CTCTTATGAGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTAAAATGACGATTTTTCCT-TTATGTGATAAAATGACAG
*
29005925 TTTTGCCCTTATATGGTA
1 TTTTGCCCTTATGTGGTA
29005943 GGATGACTAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.02
54 108 0.97
55 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (54 bp):
TTTTGCCCTTATGTGGTAAAATGACGATTTTTCCTTTATGTGATAAAATGACAG
Found at i:29005810 original size:81 final size:81
Alignment explanation
Indices: 29005725--29005895 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 81
29005715 CCCTGTAAGG
* *
29005725 TAAAATGACTGGAATACCCCTGTAAGGTAAAATAACCT-TTTTGCCCTTATGTGTTAAAATGAC-
1 TAAAATGACAGGAATACCCCTATAAGGTAAAATAA-CTGTTTTGCCCTTATGTGTTAAAATGACA
* *
29005788 GATTTTTCCTTTATGTGA
65 G-TTTTGCCCTTATGTGA
*** * * * ** *
29005806 TAAAATGACAGTTTTGCTCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACAG
1 TAAAATGACAGGAATACCCCTATAAGGTAAAATAACTGTTTTGCCCTTATGTGTTAAAATGACAG
*
29005871 TTTTGCCCTTATGTGG
66 TTTTGCCCTTATGTGA
29005887 TAAAATGAC
1 TAAAATGAC
29005896 GATTTTTCTC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
80 2 0.03
81 71 0.96
82 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (81 bp):
TAAAATGACAGGAATACCCCTATAAGGTAAAATAACTGTTTTGCCCTTATGTGTTAAAATGACAG
TTTTGCCCTTATGTGA
Found at i:29005907 original size:81 final size:81
Alignment explanation
Indices: 29005749--29005968 Score: 284
Period size: 81 Copynumber: 2.7 Consensus size: 81
29005739 TACCCCTGTA
* * *
29005749 AGGTAAAATAACCT-TTTTGCCCTTATGTGTTAAAATGACGATTTTTCCTTTATGTGATAAAATG
1 AGGTAAAATGA-CTGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGTGATAAAATG
29005813 ACAGTTTTGCTCTTATG
65 ACAGTTTTGCTCTTATG
* *
29005830 TGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGAC-AGTTTTGCCCTTATGTGGTAAAATG
1 AGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACGA-TTTTGCCCTTATGTGATAAAATG
*
29005894 AC-GATTTTTCTCTTATG
65 ACAG-TTTTGCTCTTATG
* * ** * *
29005911 AGGTAAAATGACTGTTTTGCCCTTATATGGTAGGATGACTATTTTGCCCCTATGTGAT
1 AGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGTGAT
29005969 GTATATTTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
80 4 0.03
81 117 0.96
82 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGTGATAAAATGA
CAGTTTTGCTCTTATG
Found at i:29010813 original size:30 final size:31
Alignment explanation
Indices: 29010779--29010840 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
29010769 TTCCTGAGCC
29010779 TAGGGGC-AAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAAGTGTAAATATGCAAAAGTT
* * *
29010809 TAGGGGCAAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAAGTGTAAATATGCAAAAGTT
29010840 T
1 T
29010841 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.29
Consensus pattern (31 bp):
TAGGGGCAAAAAGTGTAAATATGCAAAAGTT
Found at i:29011772 original size:50 final size:49
Alignment explanation
Indices: 29011652--29011840 Score: 252
Period size: 50 Copynumber: 3.8 Consensus size: 49
29011642 CTAGGTTGCA
* * * * *
29011652 TGTGTTGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
*
29011703 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
29011753 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
29011802 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29011841 GTTTGGCTAC
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
49 41 0.33
50 48 0.39
51 35 0.28
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:29017034 original size:47 final size:47
Alignment explanation
Indices: 29016829--29017133 Score: 297
Period size: 47 Copynumber: 6.4 Consensus size: 47
29016819 GGATAAGTTA
* *
29016829 CCGATGCCATGTCCAAGACATGGTCTTACACTGGCTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGC-ATCATCATCGAGG
* * *
29016878 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTAT-ATACG-TG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGC-ATC--ATCAT-CGAGG
* * *
29016928 CTGATGCATGTCCCAGACAT-GTCTTACACTAGCA-CAAC-TCTTA-G
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCATCATCATC-GAGG
* *
29016972 CCGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGC-ATCATCATCGAGG
* * *
29017019 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCATC-TCTACG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCA-TCATCATCGAGG
* *
29017065 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-ATTGTGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCA-TCATCATCGAGG
29017113 CCGATGCATGTCCCAGACATG
1 CCGATGCATGTCCCAGACATG
29017134 TTTTATATCG
Statistics
Matches: 219, Mismatches: 21, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.00
44 33 0.15
45 1 0.00
46 16 0.07
47 69 0.32
48 39 0.18
49 48 0.22
50 8 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCATCATCATCGAGG
Found at i:29017116 original size:141 final size:141
Alignment explanation
Indices: 29016829--29017132 Score: 404
Period size: 141 Copynumber: 2.1 Consensus size: 141
29016819 GGATAAGTTA
* *
29016829 CCGATGCCATGTCCAAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCA
1 CCGATG-CATGTCCCAGACATCGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCA
* * *
29016894 AACATGGTCTTACACTAGCTCTCGTATATACGTGCTGATGCATGTCCCAGACATGTCTTACACTA
65 AACATGGTCTTACACTAGCACTCATATATACG-GCCGATGCATGTCCCAGACATGTCTTACACTA
29016959 GCACAACTCTTAG
129 GCACAACTCTTAG
*
29016972 CCGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATG-CATGTCCCAG
1 CCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAA
* * *
29017035 ACAT-GTCTTACACTGGCACTCATCTCTAC-GCCGATGCCATGTCCCAGACATGGTCTTACACTA
66 ACATGGTCTTACACTAGCACTCATATATACGGCCGATG-CATGTCCCAGACAT-GTCTTACACTA
*
29017098 GCACTCATA-T-TGTGG
129 GCA--CA-ACTCT-TAG
29017113 CCGATGCATGTCCCAGACAT
1 CCGATGCATGTCCCAGACAT
29017133 GTTTTATATC
Statistics
Matches: 144, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
137 6 0.04
138 14 0.10
139 34 0.24
140 14 0.10
141 57 0.40
142 13 0.09
143 6 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (141 bp):
CCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCACTCATATATACGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
ACAACTCTTAG
Found at i:29017125 original size:94 final size:92
Alignment explanation
Indices: 29016829--29017134 Score: 361
Period size: 94 Copynumber: 3.2 Consensus size: 92
29016819 GGATAAGTTA
* *
29016829 CCGATGCCATGTCCAAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCTA-GCCGATGCCATGTCCCA
* *
29016894 AACATGGTCTTACACTAGCTCTCGTATATACGT-G
61 GACATGGTCTTACACTAGCACTC--ATAT-CGTGG
* * *
29016928 CTGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCCGATG-CATGTCCCAGACA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTC-TAGCCGATGCCATGTCCCAGACA
* * *
29016991 -CGTCTTACACTGGCTA-TCATCATCGAGG
65 TGGTCTTACACTAGC-ACTCAT-ATCGTGG
29017019 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTA-GCCGATGCCATGTCCCAGAC
*
29017084 ATGGTCTTACACTAGCACTCATATTGTGG
64 ATGGTCTTACACTAGCACTCATATCGTGG
29017113 CCGATGCATGTCCCAGACATGT
1 CCGATGCATGTCCCAGACATGT
29017135 TTTATATCGG
Statistics
Matches: 180, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
90 4 0.02
91 35 0.19
92 16 0.09
93 24 0.13
94 50 0.28
95 20 0.11
96 1 0.01
97 12 0.07
98 13 0.07
99 5 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCACTCATATCGTGG
Found at i:29023076 original size:47 final size:45
Alignment explanation
Indices: 29022879--29023147 Score: 167
Period size: 47 Copynumber: 5.7 Consensus size: 45
29022869 TAAGTTGCCA
*
29022879 ATGCCATGTCCCAGACATGATCTTACACTAGCTCTCGTATATGCGTGCTG
1 ATGCCATGTCCCAGACATG-TCTTACACTAGCACTCGTATA----TGCTG
*
29022929 ATGCCATGTCCCAGACATGGTCTTACATTAGCACAACTC-T-TA-GCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAG--C-ACTCGTATATGCTG
* * * *
29022975 ATG-CATGTCCCAGACATGTCTTACACTGGCTA-TCACTATCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGC-ACTC-GTAT--ATGCTG
* *
29023022 ATG-CATGTCCCAGACATGTCTTACGCTAGCACTCGTCTCAATGAC-G
1 ATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTAT--ATG-CTG
* * * ** *
29023068 ATGCCATGTCCCAAACATGGTCTTACCCTGGCTGTCATAATATGGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCACTCGT-ATAT-GCTG
* *
29023116 GTG-CATGTCCCTGACATGTCTTACACTAGCAC
1 ATGCCATGTCCCAGACATGTCTTACACTAGCAC
29023148 ACACAAGTGA
Statistics
Matches: 176, Mismatches: 26, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 1 0.01
44 11 0.06
45 14 0.08
46 29 0.16
47 62 0.35
48 18 0.10
49 1 0.01
50 28 0.16
51 3 0.02
52 2 0.01
53 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTATATGCTG
Found at i:29023077 original size:94 final size:91
Alignment explanation
Indices: 29022879--29023148 Score: 255
Period size: 94 Copynumber: 2.9 Consensus size: 91
29022869 TAAGTTGCCA
* * *
29022879 ATGCCATGTCCCAGACATGATCTTACACTAGCTCTCGTATATGCG-TGCTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATG-TCTTACACTGGCTATC--ATAT-CGAGGCTGATG-CATGTCCCAG
* *
29022943 ACATGGTCTTACATTAGCACAACTCTTAGCTG
61 ACAT-GTCTTACACTAGCACAACTCTAAGCTG
*
29022975 ATG-CATGTCCCAGACATGTCTTACACTGGCTATCACTATCGAGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTATCA-TATCGAGGCTGATGCATGTCCCAGACAT
* *
29023039 GTCTTACGCTAGCAC-TCGTCTCAATGAC-G
65 GTCTTACACTAGCACAAC-TCT-AA-G-CTG
* * * * *
29023068 ATGCCATGTCCCAAACATGGTCTTACCCTGGCTGTCATAAT--ATGGCTGGTGCATGTCCCTGAC
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCAT-ATCGA-GGCTGATGCATGTCCCAGAC
29023131 ATGTCTTACACTAGCACA
63 ATGTCTTACACTAGCACA
29023149 CACAAGTGAC
Statistics
Matches: 148, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
90 1 0.01
91 16 0.11
92 18 0.12
93 15 0.10
94 62 0.42
95 33 0.22
96 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTATCATATCGAGGCTGATGCATGTCCCAGACATG
TCTTACACTAGCACAACTCTAAGCTG
Found at i:29036012 original size:47 final size:48
Alignment explanation
Indices: 29035921--29036189 Score: 186
Period size: 46 Copynumber: 5.8 Consensus size: 48
29035911 TGGGTAAGGT
* * * *
29035921 GCCGATGCCATGTCCCAGACACGGTCCTACCCTGGCTCAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGAA
* *
29035968 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAA
* * * *
29036016 GCCGATG-CATGTCCCAAAC-TTGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CATCTCGAA
* * *
29036062 GCCGAAG-CATGTCCCTGACAT-GTCTTACACT-AC-ATTCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTA-TCATCTCGAA
* * * * * * * **
29036106 TACTGATGCCATGTCCCGGACATGGCCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-CTCGAA
* *
29036155 GCCGAT-ACATGTCTCAGACAT-GTCTTACACTGACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT
29036190 CATGTAAGTG
Statistics
Matches: 173, Mismatches: 36, Indels: 27
0.73 0.15 0.11
Matches are distributed among these distances:
44 1 0.01
45 11 0.06
46 75 0.43
47 70 0.40
48 15 0.09
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAA
Found at i:29039342 original size:93 final size:93
Alignment explanation
Indices: 29039234--29039405 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
29039224 GCCCATAAGT
* *
29039234 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29039299 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
29039327 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29039392 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
29039406 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29039398 original size:46 final size:46
Alignment explanation
Indices: 29039226--29039401 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
29039216 TGTAACCCGC
* * *
29039226 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
29039272 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
29039318 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
29039365 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29039402 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:29046359 original size:47 final size:47
Alignment explanation
Indices: 29046287--29046550 Score: 177
Period size: 47 Copynumber: 5.6 Consensus size: 47
29046277 GTAAGGTGCT
* * *
29046287 GATGCCATGTCCCAAACACGGTCTTACACTGGCTCACATCTC-AAGTA
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCGAAGCA
* * *
29046334 GATGCCTTGTCCCAGACATGATCTTACACTGACT-ATCATCTCGTAACCA
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTCG-AAGCA
* * * * *
29046383 -ATG-CAAGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAAGCA
* * ***
29046428 GATG-CATGTCCCAGACATGTCTTACACTAGCACTTGTCTC-AATGCTA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAA-GC-A
* * * * ** *
29046475 -ATGCCATGTCCCGGACATGGCCTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCGAAGCA
*
29046522 GATG-CATGTCCCAAACATGTCTTACACTG
1 GATGCCATGTCCCAGACATGTCTTACACTG
29046551 ACTTACATAA
Statistics
Matches: 170, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
45 3 0.02
46 68 0.40
47 73 0.43
48 22 0.13
49 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAAGCA
Found at i:29046467 original size:46 final size:45
Alignment explanation
Indices: 29046341--29046554 Score: 164
Period size: 46 Copynumber: 4.6 Consensus size: 45
29046331 GTAGATGCCT
*
29046341 TGTCCCAGACATGATCTTACACTGACTATCATCTCGTA-ACCAATGCA
1 TGTCCCAGACATG-TCTTACACTGACT-TCATCTCG-AGGCCAATGCA
* * * *
29046388 AGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGACTT-CATCTCGAGGCCAATGCA
* * * *
29046434 TGTCCCAGACATGTCTTACACTAGCACTT-GTCTCAATGCTAATGCCA
1 TGTCCCAGACATGTCTTACACT-G-ACTTCATCTCGAGGCCAATG-CA
* * * * * **
29046481 TGTCCCGGACATGGCCTTACACTGGCTCTCATAAT-GTGGCTGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACT-TCAT-CTCGAGGCCAATGCA
*
29046528 TGTCCCAAACATGTCTTACACTGACTT
1 TGTCCCAGACATGTCTTACACTGACTT
29046555 ACATAAGTGA
Statistics
Matches: 134, Mismatches: 24, Indels: 20
0.75 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 71 0.53
47 40 0.30
48 19 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTTCATCTCGAGGCCAATGCA
Found at i:29052772 original size:25 final size:25
Alignment explanation
Indices: 29052744--29052791 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
29052734 AAAGAGATAC
29052744 GGAATAAGAATCAAATCCGGTGTAG
1 GGAATAAGAATCAAATCCGGTGTAG
29052769 GGAATAAGAATCAAATCCGGTGT
1 GGAATAAGAATCAAATCCGGTGT
29052792 TTTTTTGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (25 bp):
GGAATAAGAATCAAATCCGGTGTAG
Found at i:29056888 original size:22 final size:19
Alignment explanation
Indices: 29056849--29056890 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
29056839 TGCAAAGTTG
29056849 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
29056868 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
29056890 A
1 A
29056891 AAGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:29062813 original size:13 final size:13
Alignment explanation
Indices: 29062795--29062819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29062785 ACTTTTATAT
29062795 TTATGATATAACC
1 TTATGATATAACC
29062808 TTATGATATAAC
1 TTATGATATAAC
29062820 AACCAATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TTATGATATAACC
Found at i:29062918 original size:133 final size:133
Alignment explanation
Indices: 29062680--29062920 Score: 482
Period size: 133 Copynumber: 1.8 Consensus size: 133
29062670 ACATATACAT
29062680 ATATAACAACCAATTCAATGCATATTATCCAAGCCAATTGCAAGAATTATGTGTGATATATTATC
1 ATATAACAACCAATTCAATGCATATTATCCAAGCCAATTGCAAGAATTATGTGTGATATATTATC
29062745 ACATACGTTCATGTATTTCCAAACTTACCTTATTATCAAAACTTTTATATTTATGATATAACCTT
66 ACATACGTTCATGTATTTCCAAACTTACCTTATTATCAAAACTTTTATATTTATGATATAACCTT
29062810 ATG
131 ATG
29062813 ATATAACAACCAATTCAATGCATATTATCCAAGCCAATTGCAAGAATTATGTGTGATATATTATC
1 ATATAACAACCAATTCAATGCATATTATCCAAGCCAATTGCAAGAATTATGTGTGATATATTATC
29062878 ACATACGTTCATGTATTTCCAAACTTACCTTATTATCAAAACT
66 ACATACGTTCATGTATTTCCAAACTTACCTTATTATCAAAACT
29062921 CAACCATATT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 108 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (133 bp):
ATATAACAACCAATTCAATGCATATTATCCAAGCCAATTGCAAGAATTATGTGTGATATATTATC
ACATACGTTCATGTATTTCCAAACTTACCTTATTATCAAAACTTTTATATTTATGATATAACCTT
ATG
Found at i:29087986 original size:39 final size:42
Alignment explanation
Indices: 29087875--29087986 Score: 149
Period size: 44 Copynumber: 2.7 Consensus size: 42
29087865 TGTTTAGCTG
*
29087875 AAGCTATAACGATATCGCACACTTAGTGCCATCACATTAAACCA
1 AAGCTATATCGATATCGCACACTTAGTG-CA-CACATTAAACCA
*
29087919 AAGCTATCTCGATATCGCACACTTAGTGC-CACA-TAAACCA
1 AAGCTATATCGATATCGCACACTTAGTGCACACATTAAACCA
* *
29087959 AAGCTATATCAAT-TCGCACACTAAGTGC
1 AAGCTATATCGATATCGCACACTTAGTGC
29087987 TATGTATAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 14 0.22
40 18 0.29
41 4 0.06
43 1 0.02
44 26 0.41
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (42 bp):
AAGCTATATCGATATCGCACACTTAGTGCACACATTAAACCA
Found at i:29090709 original size:13 final size:13
Alignment explanation
Indices: 29090691--29090717 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29090681 AAGAATGGAA
29090691 AATGTGGGCTGTT
1 AATGTGGGCTGTT
29090704 AATGTGGGCTGTT
1 AATGTGGGCTGTT
29090717 A
1 A
29090718 TAAGCATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (13 bp):
AATGTGGGCTGTT
Found at i:29091219 original size:42 final size:41
Alignment explanation
Indices: 29091160--29091278 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 41
29091150 TTAAGGTTAC
*
29091160 TGAGA-TTACGTGTAAGACCATATATGGGATATGGAATCGATA
1 TGAGACTT-CGTGTAAGACCATAT-TTGGATATGGAATCGATA
* *
29091202 TGAGACTTCGTGTAAGACCATAGTTTGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATA-TTTGGATA-TGGAATCGATA
* *
29091245 CGAGATCAT-GTGTAAGACCATATCTTGGATATGG
1 TGAGA-CTTCGTGTAAGACCATAT-TTGGATATGG
29091279 CATTGGTACA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
42 28 0.42
43 36 0.55
44 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (41 bp):
TGAGACTTCGTGTAAGACCATATTTGGATATGGAATCGATA
Found at i:29100544 original size:39 final size:39
Alignment explanation
Indices: 29100372--29100622 Score: 242
Period size: 39 Copynumber: 6.6 Consensus size: 39
29100362 CAACACAAAT
* *
29100372 CCTTCGGGACTTAAGCCCGTATATAACACCAGCACGAATAA
1 CCTTCGGGACTT-AGCCCGGATATAACACCAGCACGAAT-G
* *
29100413 CC-TCGGG---TAG-CCGGAT-T-A-ACCA-CAAGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
29100443 CCATTCCGGGAC-TAGCTCGG--ATAACACCAGCACGAATG
1 CC-TT-CGGGACTTAGCCCGGATATAACACCAGCACGAATG
* *
29100481 CC-TCGGGAATTCAG-CCGAATATAACACCAGCACGAATG
1 CCTTCGGGACTT-AGCCCGGATATAACACCAGCACGAATG
*
29100519 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
* * * *
29100558 CTTTCAGGACTTAGCTCGCATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
29100597 CCTTTCGGGACTTAGCCCGGATATAA
1 CC-TTCGGGACTTAGCCCGGATATAA
29100623 ATCTCACCAC
Statistics
Matches: 173, Mismatches: 20, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
30 3 0.02
31 6 0.03
32 5 0.03
33 5 0.03
34 1 0.01
35 14 0.08
36 10 0.06
37 7 0.04
38 30 0.17
39 65 0.38
40 25 0.14
41 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
Found at i:29108524 original size:39 final size:39
Alignment explanation
Indices: 29108465--29108722 Score: 369
Period size: 39 Copynumber: 6.6 Consensus size: 39
29108455 AACACAAATT
*
29108465 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
29108504 CCTTCGGGACTTAGCTCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
29108543 CCTTCGGGAATTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
29108582 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
* * * *
29108621 CTTTCAGGACTTAGCTCGCATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
29108660 CCTTCGGGACTTAGCCCGGATATAA-ATCTCA-CAC-AAGG
1 CCTTCGGGACTTAGCCCGGATATAACA-C-CAGCACGAATG
* * *
29108698 CCTGCGGGTCTTAGCCCGGTTATAA
1 CCTTCGGGACTTAGCCCGGATATAA
29108723 TCCTCAATTA
Statistics
Matches: 198, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 26 0.13
39 170 0.86
40 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
Found at i:29117819 original size:55 final size:54
Alignment explanation
Indices: 29117732--29117888 Score: 185
Period size: 55 Copynumber: 2.9 Consensus size: 54
29117722 ATTAGGGTTT
* *
29117732 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC-
1 AAGGA-ACCATGTAAGACCATGTCAAGACATGGCAATTGGTAA-GTTTCTAAGGCA
* * *
29117787 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCA
1 AAGG-AACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGGCA
**
29117843 AAGGTCCCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC
1 AAGGAACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC
29117889 AAAAGGATAC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
53 4 0.05
54 7 0.08
55 70 0.80
56 6 0.07
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGAACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGCA
Found at i:29118053 original size:23 final size:24
Alignment explanation
Indices: 29118002--29118063 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
29117992 AAGGTAAGGT
29118002 AAGGTAAGACGAGTTATACTAAAA
1 AAGGTAAGACGAGTTATACTAAAA
29118026 AAGGTAAGACGAGTTATACT-AAA
1 AAGGTAAGACGAGTTATACTAAAA
*
29118049 AAGGTAAGACAAGTT
1 AAGGTAAGACGAGTT
29118064 CATGCTAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACGAGTTATACTAAAA
Found at i:29123234 original size:563 final size:563
Alignment explanation
Indices: 29122155--29123274 Score: 1900
Period size: 562 Copynumber: 2.0 Consensus size: 563
29122145 AAACCTTTGT
* * ** *
29122155 TTTAGTAAAAATTCGTGTTTTTAGCTAGTCGTCCTAATAAATTATTAAATGAAAAATCCAAATTC
1 TTTAGTAAAAATCCATGTTTTTAGCTAGTCGTCCTAATAAATTATTAAACAAAAAATCCAAATCC
*
29122220 CAAAATTTAAGTCAACAGTACGGAGAGTCCAATTAATACAAAACTCTTAGAAATAAACCTTGAAT
66 CAAAATTTAAATCAACAGTACGGAGAGTCCAATTAATACAAAACTCTTAGAAATAAACCTTGAAT
* * * *
29122285 AATAAAACCTTTAATTAAAATCAGTTTGTAGACTAATGGTCATCGCAAGACTCCGCTGCACCGAT
131 AATAAAACCTTTAATTAAAATCAATTCGTAGACTAATGGTCATCGCAAGACTCCACTACACCGAT
* *
29122350 CCGCCTAAGTCTGTGGATTACCTGTACAAAGTAGACAAACAAAAGTGGGTTTACGAAAACTCAGT
196 CCGCCTAAGTCTGTGGATTACCTGTACAAAATAGACAAACAAAAGTGAGTTTACGAAAACTCAGT
* * *
29122415 GTGTAACCCAACAGAAATTGACGTGCAAAACATATAGTATCTCATATACAGTCAAATGCAGATTC
261 GTGTAACCCAACAGAAATTGACGCGAAAAACATACAGTATCTCATATACAGTCAAATGCAGATTC
** * *
29122480 AAACTTATGTCCATTTCAGATACAGCTAACAGAAACAGTTATGCAAATACACAGAACAAATACAG
326 AAACTTATGTCCATTTCAGATACAAATAAAAAAAACAGTTATGCAAATACACAGAACAAATACAG
*
29122545 TGAGTCCTACCCCCATCCTCTACACACCATCTCCGTCTATCCCATCACACCATGTGGGGTTAAAA
391 TGAGTCCTACCCCCATCCTCTACACACCATCTCCGTCCATCCCATCACACCATGTGGGGTTAAAA
* **
29122610 ACACCCACCCATCCTTACACACCACATAGTGTCGATGTGACACATATCAGATAATGTGTAGCCTA
456 ACACCCACCCATCCTTACACACCACATAGTGTCCATACGACACATATCAGATAATGTGTAGCCTA
* *
29122675 GTTGCCAGATGATAGGCGATGATCACCATAAAAAACAGTACGG
521 GCTGCCAGATGATAGGCAATGATCACCATAAAAAACAGTACGG
29122718 TTTAGTAAAAA-CCATGTTTTTAGCTAGTCGTCCTAATAAATTATTAAACAAAAAATCCAAATCC
1 TTTAGTAAAAATCCATGTTTTTAGCTAGTCGTCCTAATAAATTATTAAACAAAAAATCCAAATCC
29122782 CAAAATTTAAATCAACAGTACGGAGAGTCCAATTAATACAAAACTCTTAGAAATAAACCTTGAAT
66 CAAAATTTAAATCAACAGTACGGAGAGTCCAATTAATACAAAACTCTTAGAAATAAACCTTGAAT
* *
29122847 AATAAAACCTTTAATTAAAATCAATTCGTAGACTAATGGTCATCGTAAGACTCTACTACACCGAT
131 AATAAAACCTTTAATTAAAATCAATTCGTAGACTAATGGTCATCGCAAGACTCCACTACACCGAT
29122912 CCGCCTAAGTCTGTGGATTACCTGTACAAAATAGACAAACAAAAGTGAGTTTACGAAAACTCAGT
196 CCGCCTAAGTCTGTGGATTACCTGTACAAAATAGACAAACAAAAGTGAGTTTACGAAAACTCAGT
* *
29122977 GTGTAACCCAACAGAAATTGACGCGAAAAACATACAGTAATCTCATATACAGTCAGATGTAGATT
261 GTGTAACCCAACAGAAATTGACGCGAAAAACATACAGT-ATCTCATATACAGTCAAATGCAGATT
* * *
29123042 CAGACTTATGTCCATTTCAGATACAAATAAAAAAAATAGTTATGCAAATATACAGAACAAATACA
325 CAAACTTATGTCCATTTCAGATACAAATAAAAAAAACAGTTATGCAAATACACAGAACAAATACA
*
29123107 GTGAGTCCTACCTCCATCCTCTACACACCATCTCCGTCCATCCCATCACACCATGTGGGGTTAAA
390 GTGAGTCCTACCCCCATCCTCTACACACCATCTCCGTCCATCCCATCACACCATGTGGGGTTAAA
*
29123172 AACACCCACCCATCTTTACACACCACATAGTGTCCATACGACACATATCAGATAATGTGTAGCCT
455 AACACCCACCCATCCTTACACACCACATAGTGTCCATACGACACATATCAGATAATGTGTAGCCT
* *
29123237 AGCTGCCAGATGATAGGTAATGATCACCATACAAAACA
520 AGCTGCCAGATGATAGGCAATGATCACCATAAAAAACA
29123275 CTTCCTCCTT
Statistics
Matches: 520, Mismatches: 36, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
562 269 0.52
563 251 0.48
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (563 bp):
TTTAGTAAAAATCCATGTTTTTAGCTAGTCGTCCTAATAAATTATTAAACAAAAAATCCAAATCC
CAAAATTTAAATCAACAGTACGGAGAGTCCAATTAATACAAAACTCTTAGAAATAAACCTTGAAT
AATAAAACCTTTAATTAAAATCAATTCGTAGACTAATGGTCATCGCAAGACTCCACTACACCGAT
CCGCCTAAGTCTGTGGATTACCTGTACAAAATAGACAAACAAAAGTGAGTTTACGAAAACTCAGT
GTGTAACCCAACAGAAATTGACGCGAAAAACATACAGTATCTCATATACAGTCAAATGCAGATTC
AAACTTATGTCCATTTCAGATACAAATAAAAAAAACAGTTATGCAAATACACAGAACAAATACAG
TGAGTCCTACCCCCATCCTCTACACACCATCTCCGTCCATCCCATCACACCATGTGGGGTTAAAA
ACACCCACCCATCCTTACACACCACATAGTGTCCATACGACACATATCAGATAATGTGTAGCCTA
GCTGCCAGATGATAGGCAATGATCACCATAAAAAACAGTACGG
Found at i:29127911 original size:50 final size:49
Alignment explanation
Indices: 29127808--29128082 Score: 231
Period size: 48 Copynumber: 5.7 Consensus size: 49
29127798 GGACATGTGT
* * *
29127808 GCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
* * * * *
29127854 GCCAGTGTAAGACTATCTCTGGGATATGGCATCGGCCTCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-ATATGAGA
* * ** * * *
29127904 GCTAGTGTAAGACCATGTTTAGGACATGGCATTAGCAC-CAACAGATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGA-ATATGAGA
* *
29127954 GCCAGTGTAAGACCATGT-TGGGACATGGC-TCAGCCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-ATATGAGA
* * * * *
29128002 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTG-ATGTGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
* * * *
29128050 GCCAATGTAAGACCATGTCCGAGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
29128083 AGCATCTTAC
Statistics
Matches: 183, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
46 11 0.06
47 13 0.07
48 72 0.39
49 22 0.12
50 64 0.35
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
Found at i:29128008 original size:98 final size:100
Alignment explanation
Indices: 29127852--29128085 Score: 271
Period size: 98 Copynumber: 2.4 Consensus size: 100
29127842 CACATTATGA
* * *
29127852 GAGCCAGTGTAAGACTATCTCTGGGATATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATCTCTGGGACATGGCATCAGCCTCGAGATATGAAAGCTAGTGTAAGAC
*
29127917 CATGTTTAGGACATGGCATTAGCACCAACAGATGT
66 CATGTCTAGGACATGGCATTAGCACCAACAGATGT
* * * *
29127952 GAGCCAGTGTAAGACCATGT-TGGGACATGGC-TCAGCCTCGATATATGAGAGTTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATCTCTGGGACATGGCATCAGCCTCGAGATATGAAAGCTAGTGTAAGAC
* * ***
29128015 CATGTCTGGGACATGGCA-TCG-ACCTTGATG-TGT
66 CATGTCTAGGACATGGCATTAGCACCAACA-GATGT
* * * *
29128048 GAGCCAATGTAAGACCATGTCCGAGACATGGCATCAGC
1 GAGCCAGTGTAAGACCATCTCTGGGACATGGCATCAGC
29128086 ATCTTACCCT
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
96 26 0.23
97 12 0.10
98 49 0.43
99 10 0.09
100 18 0.16
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (100 bp):
GAGCCAGTGTAAGACCATCTCTGGGACATGGCATCAGCCTCGAGATATGAAAGCTAGTGTAAGAC
CATGTCTAGGACATGGCATTAGCACCAACAGATGT
Found at i:29130952 original size:57 final size:57
Alignment explanation
Indices: 29130888--29130998 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
29130878 ACGATAATTT
*
29130888 TCCTGAAATGAATGATATGATTATGATGGTGTCGTTATGATGATGAAAGTTATGCCC
1 TCCTGAAATGAATGACATGATTATGATGGTGTCGTTATGATGATGAAAGTTATGCCC
*
29130945 TCCTGAAATGAATGACATGATTGTGATGGTGTCGTTATGATGATGAAAGTTATG
1 TCCTGAAATGAATGACATGATTATGATGGTGTCGTTATGATGATGAAAGTTATG
29130999 TCTTATGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (57 bp):
TCCTGAAATGAATGACATGATTATGATGGTGTCGTTATGATGATGAAAGTTATGCCC
Found at i:29134651 original size:50 final size:49
Alignment explanation
Indices: 29134492--29134816 Score: 322
Period size: 50 Copynumber: 6.7 Consensus size: 49
29134482 CATGTGTGCT
* * * *
29134492 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCGC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAATATGAGAGCC
* * * * * * *
29134538 AGTGTAATACCATGTCTAGAACATGGCATAGGCAT-TAAGATGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAATATGAGAGCC
* * *
29134586 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATATGAAAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC-AAATATGAGAGCC
* * *
29134636 AGTGTAAGACCATGTCTAGGACATGGCATTGACATCAACA-AGTGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAA-ATA-TGAGAGCC
*
29134686 AGTGTAAGACCATGTCT-GTGACATGGCATCAGCCTCAATATATGAGAGCC
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCAA-ATATGAGAGCC
* * * ** * *
29134736 AGTGTAAGACCATATCTGGGACATGGCATCGACCT-TGATGTGTGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAATATGAGAGCC
*
29134784 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
29134817 ATCTTACCCT
Statistics
Matches: 231, Mismatches: 38, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
46 8 0.03
47 12 0.05
48 86 0.37
49 3 0.01
50 120 0.52
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAATATGAGAGCC
Found at i:29134709 original size:100 final size:97
Alignment explanation
Indices: 29134492--29134816 Score: 363
Period size: 100 Copynumber: 3.3 Consensus size: 97
29134482 CATGTGTGCT
* * *
29134492 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCGCATTAT-AAGAGCCAGTGTAATACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAA-AGCCAGTGTAAGACCATGTC
* * * * *
29134554 TAGAACATGGCATAGGCATTAAGA-TGAGAGCT
65 TAGGACATGGCATAGACATCAAAAGTGAGAGCC
* *
29134586 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-ATATGAAAGCCAGTGTAAGACCATGT
*
29134651 CTAGGACATGGCATTGACATCAACAAGTGAGAGCC
64 CTAGGACATGGCATAGACATCAA-AAGTGAGAGCC
* * * *
29134686 AGTGTAAGACCATGTCTGTGACATGGCATCAGCCTCAATATATGAGAGCCAGTGTAAGACCATAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-ATATGAAAGCCAGTGTAAGACCATGT
* * * ** * *
29134751 CTGGGACATGGCATCGACCT-TGATGTGTGAGCC
64 CTAGGACATGGCATAGACATCAAAAGTGAGAGCC
29134784 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
29134817 ATCTTACCCT
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
94 9 0.05
95 13 0.07
96 10 0.05
97 1 0.01
98 79 0.40
99 3 0.02
100 81 0.41
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAAAGCCAGTGTAAGACCATGTCT
AGGACATGGCATAGACATCAAAAGTGAGAGCC
Found at i:29139097 original size:30 final size:30
Alignment explanation
Indices: 29139062--29139138 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
29139052 TAGGCACTTC
* *
29139062 CACACGTGTGATCCACAAGTCC-GTGTGTGA
1 CACACGGGTGATCCACAAG-CCTGTGCGTGA
*
29139092 CACACGGGTGATCGACAAGCCTGTGCGTGA
1 CACACGGGTGATCCACAAGCCTGTGCGTGA
29139122 CACACGGGTAGA-CCACA
1 CACACGGGT-GATCCACA
29139139 CACCCGTGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 37 0.90
31 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTGATCCACAAGCCTGTGCGTGA
Found at i:29140312 original size:17 final size:18
Alignment explanation
Indices: 29140280--29140314 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29140270 TTGCAATTTA
29140280 ATTTTGTTTTTATTTACT
1 ATTTTGTTTTTATTTACT
*
29140298 ATTTT-TTTTTCTTTACT
1 ATTTTGTTTTTATTTACT
29140315 TTTGGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTTGTTTTTATTTACT
Found at i:29150612 original size:39 final size:39
Alignment explanation
Indices: 29150558--29150633 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
29150548 GCCTGCCCAC
29150558 ACGGGCATGTGACTCTCCAAATCAAGAAAATTTTCTAAG
1 ACGGGCATGTGACTCTCCAAATCAAGAAAATTTTCTAAG
29150597 ACGGGCATGTGACTCTCCAAATCAAGAAAATTTTCTA
1 ACGGGCATGTGACTCTCCAAATCAAGAAAATTTTCTA
29150634 GGTCTTCCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (39 bp):
ACGGGCATGTGACTCTCCAAATCAAGAAAATTTTCTAAG
Found at i:29153191 original size:43 final size:42
Alignment explanation
Indices: 29153144--29153279 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 42
29153134 TCCCAGACGT
* *
29153144 GGTCTTACATGTAATTCAGTATCGATGCCTCTATCCCAAACAA
1 GGTCTTACACGTAATTCAG-ATCGATGCCTATATCCCAAACAA
* * * * * *
29153187 GGTCTTACACGAAATT-AGATACGATTCCAATGTCCCAGACAT
1 GGTCTTACACGTAATTCAGAT-CGATGCCTATATCCCAAACAA
* * * *
29153229 GGTCTTACACGTAAATCTCAAATCAAGGCCTGTATCCCAAACAA
1 GGTCTTACACGT-AAT-TCAGATCGATGCCTATATCCCAAACAA
29153273 GGTCTTA
1 GGTCTTA
29153280 GACGATATCT
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.39
43 17 0.24
44 21 0.30
45 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATTCAGATCGATGCCTATATCCCAAACAA
Found at i:29156836 original size:116 final size:117
Alignment explanation
Indices: 29156632--29156984 Score: 422
Period size: 116 Copynumber: 3.0 Consensus size: 117
29156622 TGGGTGCATT
* * * *
29156632 TTACTTTGGACGTTCCGATGAGGCATTAGGTGTCAAATGATTACTTCGACTATGTGCTGATGAGT
1 TTACTTTAGACGTTCCGATGAGGCACTAGGTGTCAAATGATTACTTCGACTACGTGTTGATGAGT
* * **
29156697 GTTGGACATAATTTTTACTTCAGTCAATTGATGAGCGTTGGG-TGAAACTAA
66 GTTGGACACAATTTTTACTTCAGTCAACTGATGAGCGTTGGGCACAAACTAA
* * * * *
29156748 TTACTTTAGACGTTCCAATGACGCACTGGGTGTCTAATGATTACTTCAACTACGTGTTGATGAGT
1 TTACTTTAGACGTTCCGATGAGGCACTAGGTGTCAAATGATTACTTCGACTACGTGTTGATGAGT
* *
29156813 ATTGGACACAATTTTTACTTCAGTCAACTGATGAGTGTTGGGCACAAACTAA
66 GTTGGACACAATTTTTACTTCAGTCAACTGATGAGCGTTGGGCACAAACTAA
* ** ** * *
29156865 TTAC-TTCGAACGTTTTGATGAGGCACTAGGTACCAAATGAATACTTCGACTACGTGTCGATGAG
1 TTACTTTAG-ACGTTCCGATGAGGCACTAGGTGTCAAATGATTACTTCGACTACGTGTTGATGAG
* * * * * *
29156929 TGTTGGGCACAATTTTTACTTCGGTCATACAGATGAGCGTAGGGCGCAATCTAA
65 TGTTGGACACAATTTTTACTTCAGTCA-ACTGATGAGCGTTGGGCACAAACTAA
29156983 TT
1 TT
29156985 TTCTTCTAAA
Statistics
Matches: 199, Mismatches: 35, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
116 97 0.49
117 79 0.40
118 23 0.12
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (117 bp):
TTACTTTAGACGTTCCGATGAGGCACTAGGTGTCAAATGATTACTTCGACTACGTGTTGATGAGT
GTTGGACACAATTTTTACTTCAGTCAACTGATGAGCGTTGGGCACAAACTAA
Found at i:29160600 original size:20 final size:20
Alignment explanation
Indices: 29160575--29160649 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
29160565 CTAGGAAATA
29160575 TGTGATCTGAACTCATGAGT
1 TGTGATCTGAACTCATGAGT
* ** *
29160595 TGTGATTTGAGTTCATGATAT
1 TGTGATCTGAACTCATGA-GT
29160616 ATGTGACATCTGAACTCATTGAGT
1 -TGTG--ATCTGAACTCA-TGAGT
*
29160640 TGTGGTCTGA
1 TGTGATCTGA
29160650 GTTCATGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
20 15 0.37
21 6 0.15
22 4 0.10
23 4 0.10
24 9 0.22
25 3 0.07
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (20 bp):
TGTGATCTGAACTCATGAGT
Found at i:29160651 original size:45 final size:44
Alignment explanation
Indices: 29160572--29160668 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 44
29160562 TCACTAGGAA
*
29160572 ATATGTG--ATCTGAACTCATGAGTTGTGATTTGAGTTCATGAT
1 ATATGTGACATCTGAACTCATGAGTTGTGATCTGAGTTCATGAT
*
29160614 ATATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTCA-TGAGTTGTGATCTGAGTTCATGAT
29160659 ATATGTGACA
1 ATATGTGACA
29160669 CATGTTTTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
42 7 0.14
44 11 0.22
45 32 0.64
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (44 bp):
ATATGTGACATCTGAACTCATGAGTTGTGATCTGAGTTCATGAT
Found at i:29165798 original size:42 final size:43
Alignment explanation
Indices: 29165729--29165812 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
29165719 TCTTACATGT
*
29165729 AATCAAATATCGATGCCACTGTCCCAGATAGGGTCTTACACAA
1 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
*
29165772 AATCAAATA-CGATGCCGA-TGTCCCAGACATGGTCTTACACA
1 AATCAAATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACA
29165813 TAACTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 28 0.74
43 10 0.26
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
Found at i:29173321 original size:43 final size:42
Alignment explanation
Indices: 29173255--29173413 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
29173245 AACTCGTATA
* *
29173255 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATAAAATAT-G
* * **
29173298 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATAAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATAAAATATG
* *
29173340 ATGCTAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AA--TAAAATATG
* * *
29173384 ATGCCAATGTACGAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
29173414 AAATCATATA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 27 0.28
43 37 0.38
44 28 0.29
45 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATAAAATATG
Found at i:29184529 original size:34 final size:35
Alignment explanation
Indices: 29184485--29184554 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
29184475 TTTAAGGCTG
*
29184485 CTTTTGGAATAAAAAAA-TTACACTATT-AGTGTAC
1 CTTTTAGAATAAAAAAAGTTACACTATTGA-TGTAC
29184519 CTTTTAGAATAAAAAAAGTTACACTATTGATGTAC
1 CTTTTAGAATAAAAAAAGTTACACTATTGATGTAC
29184554 C
1 C
29184555 AAATACTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 16 0.48
35 16 0.48
36 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (35 bp):
CTTTTAGAATAAAAAAAGTTACACTATTGATGTAC
Found at i:29190823 original size:49 final size:49
Alignment explanation
Indices: 29190715--29190843 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
29190705 ATCAAAGTCG
* * *
29190715 ATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATATATCGAGGCCA
** * * *
29190764 ATGCTGTGTCCCAAATAGGTCTTACACTAACTCTCATTTATC-AGTGTCA
1 ATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATATATCGAG-GCCA
** *
29190813 ATGCCATGTCCCGGACATGTCTTACACTAAC
1 ATGCCATGTCCCAAACAGGTCTTACACTAAC
29190844 ACACAACAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
48 2 0.03
49 63 0.97
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATATATCGAGGCCA
Found at i:29190962 original size:46 final size:46
Alignment explanation
Indices: 29190861--29190987 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 46
29190851 AAGCTGACGC
* * * *
29190861 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATA
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCTGATA
* *
29190909 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAG-TCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCT-GATA
*
29190955 CATGTCCCA-AGCATGTCTTACACTGGCTCTCAT
1 CATGTCCCAGA-CATGTCTTACACTAGCTCTCAT
29190988 AATGTGGCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 40 0.57
47 2 0.03
48 26 0.37
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCTGATA
Found at i:29194755 original size:28 final size:27
Alignment explanation
Indices: 29194692--29194843 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
29194682 ATATTAAGTC
* * *
29194692 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
29194719 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
29194747 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
29194774 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
29194802 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
29194829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29194844 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:29194776 original size:55 final size:55
Alignment explanation
Indices: 29194692--29194843 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
29194682 ATATTAAGTC
* * *
29194692 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
29194747 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
29194802 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
29194844 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:29202757 original size:28 final size:27
Alignment explanation
Indices: 29202694--29202845 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
29202684 ATATTAAGTC
* * *
29202694 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
29202721 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
29202749 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
29202776 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
29202804 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
29202831 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29202846 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:29202778 original size:55 final size:55
Alignment explanation
Indices: 29202694--29202845 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
29202684 ATATTAAGTC
* * *
29202694 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
29202749 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
29202804 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
29202846 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:29204756 original size:43 final size:43
Alignment explanation
Indices: 29204709--29204863 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
29204699 TCCCATATAT
* * * *
29204709 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAC
* * * *
29204752 GGTCTTACACATAATCGA-TTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATC-ACATATCGATGCCAATGTCCCAGACAC
* ** *
29204795 GGTCTTATACGTAATCACA-ATAAAATGACAATGTCCCAGACAC
1 GGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGACAC
* *
29204838 GGTCTTACATGTAATCACATCTCGAT
1 GGTCTTACACGTAATCACATATCGAT
29204864 AACCTAATGC
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.02
43 84 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAC
Found at i:29213318 original size:29 final size:29
Alignment explanation
Indices: 29213285--29213351 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
29213275 GTGGGATCTT
29213285 CTTCTTCATCAAGGTCCTCCTATTCCTCA
1 CTTCTTCATCAAGGTCCTCCTATTCCTCA
*
29213314 CTTCTTCATCAAGGTCCTCCTTTTCCTCA
1 CTTCTTCATCAAGGTCCTCCTATTCCTCA
29213343 CTTACTTCA
1 CTT-CTTCA
29213352 ACTCGTTGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.16, C:0.37, G:0.06, T:0.40
Consensus pattern (29 bp):
CTTCTTCATCAAGGTCCTCCTATTCCTCA
Found at i:29214910 original size:22 final size:22
Alignment explanation
Indices: 29214874--29214928 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
29214864 AATTCTATGC
29214874 TAAATTGATAA-AGAT-TAATATA
1 TAAATT-ATAATAGATATAAT-TA
29214896 TAAATTATAATAGATATAATTA
1 TAAATTATAATAGATATAATTA
*
29214918 TATATTA-AATA
1 TAAATTATAATA
29214929 TTATCATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.27
22 18 0.60
23 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTATAATAGATATAATTA
Found at i:29230190 original size:32 final size:32
Alignment explanation
Indices: 29230154--29230225 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
29230144 ACTATGTTTT
* *
29230154 CTAAGATTGATTTGAGGTCTGGTTATTATCAA
1 CTAAGAGTGATTTGAGGTCTGGTTACTATCAA
*
29230186 CTAAGAGTGATTTGAGGTCTGGTTACTATCAG
1 CTAAGAGTGATTTGAGGTCTGGTTACTATCAA
29230218 CTAAGAGT
1 CTAAGAGT
29230226 TAAAGAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (32 bp):
CTAAGAGTGATTTGAGGTCTGGTTACTATCAA
Found at i:29233954 original size:48 final size:46
Alignment explanation
Indices: 29233865--29233986 Score: 160
Period size: 47 Copynumber: 2.6 Consensus size: 46
29233855 ATTGTAAGCT
29233865 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTACGAGAGCC
* *
29233911 AGTGTAAGACCATGT-TCGGGACATGGCATCGG-CATTGAG-ACGAGAGCT
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGGCCA--CAGTACGAGAGCC
29233959 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
29233987 AGCTACGAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
46 15 0.22
47 26 0.38
48 25 0.37
49 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTACGAGAGCC
Found at i:29238657 original size:55 final size:55
Alignment explanation
Indices: 29238536--29238657 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 55
29238526 CTGCCGAAAC
* * *
29238536 AACACGGGCGTGCGACACGCCCGTGCATTGAAACCGTGGCCAAACCTGTCAAATT
1 AACACGGGCGTGCGACACGCCCGTGCATAGAAACCATGGCCAAACCTATCAAATT
* * * *
29238591 AACACGAGCGTGCGACACGCCCGTGTCA-AGCAAA-CATGGTCGAACCTATTAAATT
1 AACACGGGCGTGCGACACGCCCGTG-CATAG-AAACCATGGCCAAACCTATCAAATT
* *
29238646 ACCATGGGCGTG
1 AACACGGGCGTG
29238658 GGACTACATA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
55 50 0.91
56 5 0.09
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCGTGCATAGAAACCATGGCCAAACCTATCAAATT
Found at i:29241316 original size:28 final size:28
Alignment explanation
Indices: 29241276--29241331 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
29241266 GACTCACACG
* * *
29241276 GGTAGAAGACACGGCCGTGCCATTCTAA
1 GGTAGAACACACGCCCGTACCATTCTAA
29241304 GGTAGAACACACGCCCGTACCATTCTAA
1 GGTAGAACACACGCCCGTACCATTCTAA
29241332 CAGGTTCGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (28 bp):
GGTAGAACACACGCCCGTACCATTCTAA
Found at i:29244002 original size:19 final size:18
Alignment explanation
Indices: 29243980--29244016 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
29243970 TGTGGACACA
29243980 TGACACGCCCGTGTTCCCC
1 TGACACGCCCGTG-TCCCC
*
29243999 TGACACGCTCGTGTCCCC
1 TGACACGCCCGTGTCCCC
29244017 AAGCTGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.11, C:0.46, G:0.22, T:0.22
Consensus pattern (18 bp):
TGACACGCCCGTGTCCCC
Found at i:29245368 original size:48 final size:48
Alignment explanation
Indices: 29245283--29245503 Score: 241
Period size: 48 Copynumber: 4.6 Consensus size: 48
29245273 TAAAGTACGA
* * *
29245283 ATGCCATGTCCCTGACATGGTCTTACA-T-GAATCCATATGTCATTC-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CATATATCA-TCACCG
* * * * * *
29245331 ATGCCATGTTCTAGACATGGTCTTACACTAGCACATATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
29245379 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
* * * * * * *
29245427 ATTCCATGTCCCAAACATGGTCTTATACTGGTACATATCTCATATACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCAT-CACCG
29245476 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
29245504 GAAATCTCAT
Statistics
Matches: 146, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 114 0.78
49 29 0.20
50 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
Found at i:29255750 original size:67 final size:67
Alignment explanation
Indices: 29255671--29255806 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
29255661 GTCCTATGAA
*
29255671 ACGAGGACTCAACTTGCCTTTCCTACCGAATCTCCAAACCTTTCTCCATAAGGATACTTTCAAAA
1 ACGAGGACTCAACTTGCCTTTCCTACCAAATCTCCAAACCTTTCTCCATAAGGATACTTTCAAAA
29255736 AT
66 AT
** **
29255738 ACGAGGACTCAACTTGCCTTTCCTACCAAATCTTTAAACCTTTCTCCATGGGGATACTTTCAAAA
1 ACGAGGACTCAACTTGCCTTTCCTACCAAATCTCCAAACCTTTCTCCATAAGGATACTTTCAAAA
29255803 AT
66 AT
29255805 AC
1 AC
29255807 TTTATCTCCC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (67 bp):
ACGAGGACTCAACTTGCCTTTCCTACCAAATCTCCAAACCTTTCTCCATAAGGATACTTTCAAAA
AT
Found at i:29262817 original size:40 final size:40
Alignment explanation
Indices: 29262773--29262917 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
29262763 GCTCCTCGTT
*
29262773 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
29262813 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
29262853 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
29262894 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
29262918 ACATCATTCA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.04
40 72 0.81
41 13 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:29268000 original size:11 final size:11
Alignment explanation
Indices: 29267984--29268055 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
29267974 CATGATAGGT
29267984 ATGATATGCAC
1 ATGATATGCAC
*
29267995 ATGATATG--T
1 ATGATATGCAC
29268004 ATGATATGCAC
1 ATGATATGCAC
* *
29268015 ATGACATG--T
1 ATGATATGCAC
29268024 ATGATATGCAC
1 ATGATATGCAC
*
29268035 ATGATATG--T
1 ATGATATGCAC
29268044 ATGATATGCAC
1 ATGATATGCAC
29268055 A
1 A
29268056 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29268007 original size:9 final size:9
Alignment explanation
Indices: 29267975--29268051 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
29267965 TTTGATAAAC
*
29267975 ATGATAGGT
1 ATGATATGT
*
29267984 ATGATATGCAC
1 ATGATATG--T
29267995 ATGATATGT
1 ATGATATGT
*
29268004 ATGATATGCAC
1 ATGATATG--T
*
29268015 ATGACATGT
1 ATGATATGT
*
29268024 ATGATATGCAC
1 ATGATATG--T
29268035 ATGATATGT
1 ATGATATGT
29268044 ATGATATG
1 ATGATATG
29268052 CACACGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:29268063 original size:20 final size:20
Alignment explanation
Indices: 29267973--29268055 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
29267963 ATTTTGATAA
*
29267973 ACATGATAGGTATGATATGC
1 ACATGATATGTATGATATGC
29267993 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29268013 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29268033 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29268053 ACA
1 ACA
29268056 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29268176 original size:24 final size:25
Alignment explanation
Indices: 29268110--29268204 Score: 135
Period size: 23 Copynumber: 3.9 Consensus size: 25
29268100 GAGGAAGTGC
29268110 AAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTA
29268134 -AAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
29268158 AAAAGGGCTT-TGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
* *
29268182 AAAAAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCC-CCAGTTAT
29268205 ATGATTACGC
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
23 24 0.37
24 24 0.37
25 17 0.26
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:29268200 original size:25 final size:24
Alignment explanation
Indices: 29268122--29268204 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
29268112 AAGGGCTTAT
* *
29268122 GCCCCAGTTATT--AAAGGGCTTAT
1 GCCCCAGTTATTAAAAAAGGC-TAG
* **
29268145 GCCCCAGTTATTAAAAAGGGCTTT
1 GCCCCAGTTATTAAAAAAGGCTAG
29268169 GCCCCAGTTATTAAAAAAGGCTAG
1 GCCCCAGTTATTAAAAAAGGCTAG
29268193 GCCTCCAGTTAT
1 GCC-CCAGTTAT
29268205 ATGATTACGC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 12 0.23
24 26 0.49
25 15 0.28
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
GCCCCAGTTATTAAAAAAGGCTAG
Found at i:29268433 original size:30 final size:31
Alignment explanation
Indices: 29268397--29268459 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
29268387 CCGTTTACGT
29268397 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29268427 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29268458 AA
1 AA
29268460 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Done.