Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 202 of 313
Found at i:62037131 original size:3 final size:3
Alignment explanation
Indices: 62037123--62037160 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
62037113 GTAATTCTCA
62037123 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62037161 AAGTCATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62049256 original size:13 final size:13
Alignment explanation
Indices: 62049238--62049263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62049228 TACAGCAAAA
62049238 CATAATTTAAAGG
1 CATAATTTAAAGG
62049251 CATAATTTAAAGG
1 CATAATTTAAAGG
62049264 TTAATTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
CATAATTTAAAGG
Found at i:62050123 original size:20 final size:21
Alignment explanation
Indices: 62050098--62050136 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62050088 GGTGGTCTGG
*
62050098 AGTTGG-TGTTGTAACATCCA
1 AGTTGGATGTTGCAACATCCA
62050118 AGTTGGATGTTGCAACATC
1 AGTTGGATGTTGCAACATC
62050137 GAGGGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
AGTTGGATGTTGCAACATCCA
Found at i:62054146 original size:12 final size:13
Alignment explanation
Indices: 62054124--62054152 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
62054114 ACTTCTTCTC
62054124 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
62054137 CTTTTC-TTCTTT
1 CTTTTCTTTCTTT
62054149 CTTT
1 CTTT
62054153 AACTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:62054221 original size:3 final size:3
Alignment explanation
Indices: 62054213--62054269 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
62054203 TTTTACTTTC
62054213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62054261 TAT TAT TAT
1 TAT TAT TAT
62054270 ATAATGCATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62056458 original size:61 final size:57
Alignment explanation
Indices: 62056342--62056466 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 57
62056332 TTCTATGACT
**
62056342 CATATATATATATATGTATCTATATATATACTTTTTATATTTTATGATAGTTACATA
1 CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
* * *
62056399 CGTATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTACATA
1 CATATATATATATATGTAT-C-TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TACATA
62056460 CATATAT
1 CATATAT
62056467 TTTTTTATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 16 0.29
58 5 0.09
59 11 0.20
60 3 0.05
61 21 0.38
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (57 bp):
CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
Found at i:62060387 original size:27 final size:27
Alignment explanation
Indices: 62060329--62060388 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
62060319 CATTGAAAGC
* * *
62060329 ACCTTTGTGGAGCAATATGAAAGGAAT
1 ACCTTTGTGGAGCAATATAAAAGAAAA
* * *
62060356 GCCTTTGTGGTGCCATATAAAAGAAAA
1 ACCTTTGTGGAGCAATATAAAAGAAAA
62060383 ACCTTT
1 ACCTTT
62060389 ATGGCAAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
ACCTTTGTGGAGCAATATAAAAGAAAA
Found at i:62061750 original size:18 final size:17
Alignment explanation
Indices: 62061723--62061756 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62061713 AAATATTATA
62061723 AATATATTTATATATTTC
1 AATATATTTATA-ATTTC
*
62061741 AATATTTTTATAATTT
1 AATATATTTATAATTT
62061757 TTAAGTTAAA
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATATATTTATAATTTC
Found at i:62061939 original size:20 final size:20
Alignment explanation
Indices: 62061916--62061953 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62061906 ATAATATATG
*
62061916 ATAATTTATAATAAATATCT
1 ATAATCTATAATAAATATCT
*
62061936 ATAATCTATAATATATAT
1 ATAATCTATAATAAATAT
62061954 AAAAGCACGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATCTATAATAAATATCT
Found at i:62064674 original size:7 final size:7
Alignment explanation
Indices: 62064662--62064692 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
62064652 AAAAAATTAA
*
62064662 ATCTTTT
1 ATCTTTC
62064669 ATCTTTC
1 ATCTTTC
62064676 ATCTTTC
1 ATCTTTC
62064683 ATCTTTC
1 ATCTTTC
62064690 ATC
1 ATC
62064693 CTTCTTCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (7 bp):
ATCTTTC
Found at i:62077305 original size:16 final size:15
Alignment explanation
Indices: 62077284--62077313 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62077274 CAAATAAATA
62077284 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
62077300 TATTATTTTATATT
1 TATTATTTTATATT
62077314 ATTTTAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:62077534 original size:319 final size:318
Alignment explanation
Indices: 62077047--62077821 Score: 1299
Period size: 321 Copynumber: 2.4 Consensus size: 318
62077037 GCAAGTTGAA
* *
62077047 AAAAAAGTTAGTAAAACACTATTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
* *
62077112 ACTTTAAAAAAATATCATAATTTCTAATTTTATGATTTTACATTATTTTAGTGCATTATGTTTGA
66 ACTTT-AAAAAA-ATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGA
*
62077177 AATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTG-CCTT
129 AATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTT
*
62077241 TGCTCGTATTATTTTCCCGAATTTTATTACTTCCAA-ATAAATATATTATTTTCATATTTTATTA
194 TGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCATATTTTATTA
62077305 TTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
259 TTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
**
62077365 AAAAAAGTTAGTAAGCGTTCAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTT
1 AAAAAAGTTAGTAA---AACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTT
62077430 ATTACTTTAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG
63 ATTACTTTAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG
*
62077495 AAATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCTTGCCCT
128 AAATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCT
*
62077560 TTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTATT
193 TTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCATATTTTATT
62077625 ATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
258 ATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
* * * * * *
62077686 AAAAAAGTTAGTAAAACACTC-TTACTTCGACTATTTGTT--TGTTTTTTTCTCCGTATTTTATT
1 AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
* *
62077748 AATTTAAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
66 ACTTTAAAA-AAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
62077813 ATTTATTAA
130 ATTTATTAA
62077822 ATATACCATT
Statistics
Matches: 431, Mismatches: 20, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
315 28 0.06
316 63 0.15
317 16 0.04
318 18 0.04
319 108 0.25
320 46 0.11
321 152 0.35
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (318 bp):
AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
ACTTTAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
TTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTG
CTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCATATTTTATTATT
TTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:62078223 original size:5 final size:5
Alignment explanation
Indices: 62078213--62078272 Score: 61
Period size: 5 Copynumber: 12.4 Consensus size: 5
62078203 TTTCTTCTTC
* * * *
62078213 TCCTT TCCTT TTCTT TCC-T TCTTT TCCTT T-CTT TCCTC TCCTC TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
*
62078261 TCCTT TTCTT TC
1 TCCTT TCCTT TC
62078273 TTCTTCTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCCTT
Found at i:62078230 original size:10 final size:10
Alignment explanation
Indices: 62078215--62078283 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
62078205 TCTTCTTCTC
62078215 CTTTCCTTTT
1 CTTTCCTTTT
*
62078225 CTTTCCTTCT
1 CTTTCCTTTT
62078235 -TTTCC-TTT
1 CTTTCCTTTT
62078243 CTTTCCTCTCCTCT
1 CTTTCCT-T--T-T
62078257 CCTTTCCTTTT
1 -CTTTCCTTTT
62078268 CTTT-CTTCTT
1 CTTTCCTT-TT
62078278 CTTTCC
1 CTTTCC
62078284 CTCTCTTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
8 2 0.04
9 13 0.27
10 19 0.40
11 3 0.06
12 1 0.02
13 1 0.02
14 2 0.04
15 7 0.15
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:62079558 original size:16 final size:19
Alignment explanation
Indices: 62079510--62079569 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
62079500 TTTAGTCATA
62079510 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
62079530 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
62079548 TAATAAATTATTTAATAT-T
1 TAATAAATTA-TTAATATAT
62079567 TAA
1 TAA
62079570 AATTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 8 0.23
19 5 0.14
20 6 0.17
21 4 0.11
22 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:62081217 original size:21 final size:21
Alignment explanation
Indices: 62081193--62081244 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
62081183 AGAGCTTAGA
*
62081193 TCGTGTGGCTCAGGGAGATGG
1 TCGTGTGGCTCAGGGACATGG
**
62081214 TCGTGACGCTCAGGGACATGG
1 TCGTGTGGCTCAGGGACATGG
62081235 TCGTGTGGCT
1 TCGTGTGGCT
62081245 ACCCCACATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.19, G:0.42, T:0.25
Consensus pattern (21 bp):
TCGTGTGGCTCAGGGACATGG
Found at i:62083968 original size:21 final size:21
Alignment explanation
Indices: 62083944--62084079 Score: 107
Period size: 21 Copynumber: 6.5 Consensus size: 21
62083934 TGTGTTTGAT
*
62083944 TTCAGTTTAGCTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
* *
62083965 TTCAG-TTAACTCATATGAGT
1 TTCAGTTTAACTCTTATGAGC
* * *
62083985 TTCAGTTTAACCCTTCT-AGGT
1 TTCAGTTTAACTCTTATGA-GC
* * *
62084006 TTCAGTTTAGCTCTTTTGAAC
1 TTCAGTTTAACTCTTATGAGC
* *
62084027 TTCAGTTTAACCCTTAT-AGGT
1 TTCAGTTTAACTCTTATGA-GC
* *
62084048 TTCCGTTCAACTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
*
62084069 TTCCGTTTAAC
1 TTCAGTTTAAC
62084080 CTTTACGGGT
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
20 19 0.21
21 68 0.76
22 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (21 bp):
TTCAGTTTAACTCTTATGAGC
Found at i:62083983 original size:20 final size:20
Alignment explanation
Indices: 62083944--62083991 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62083934 TGTGTTTGAT
* *
62083944 TTCAGTTTAGCTCTTATGAGC
1 TTCAG-TTAACTCATATGAGC
*
62083965 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGC
62083985 TTCAGTT
1 TTCAGTT
62083992 TAACCCTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGC
Found at i:62084034 original size:42 final size:42
Alignment explanation
Indices: 62083965--62084080 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
62083955 TCTTATGAGC
* ** *
62083965 TTCAGTT-AACTCATATGAGTTTCAGTTTAACCCTTCTAGGT
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
* * *
62084006 TTCAGTTTAGCTCTTTTGAACTTCAGTTTAACCCTTATAGGT
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
* * *
62084048 TTCCGTTCAACTCTTATGAGCTTCCGTTTAACC
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACC
62084081 TTTACGGGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 7 0.11
42 55 0.89
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
Found at i:62084091 original size:42 final size:40
Alignment explanation
Indices: 62083972--62084093 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 40
62083962 AGCTTCAGTT
* * * *
62083972 AACTCATATGAGTTTCAGTTTAACCCTTCTAGGTTTCAGTTT
1 AACTCTTATGAGCTTCAGTTTAA-CCTT-TAGGTTTCCGTTC
* * *
62084014 AGCTCTTTTGAACTTCAGTTTAACCCTTATAGGTTTCCGTTC
1 AACTCTTATGAGCTTCAGTTTAA-CCTT-TAGGTTTCCGTTC
*
62084056 AACTCTTATGAGCTTCCGTTTAACCTTTACGGGTTTCC
1 AACTCTTATGAGCTTCAGTTTAACCTTTA--GGTTTCC
62084094 ATTTAGCACT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.03
41 4 0.06
42 60 0.91
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (40 bp):
AACTCTTATGAGCTTCAGTTTAACCTTTAGGTTTCCGTTC
Found at i:62091221 original size:21 final size:21
Alignment explanation
Indices: 62091177--62091279 Score: 100
Period size: 21 Copynumber: 5.0 Consensus size: 21
62091167 TATATGCTGT
* *
62091177 GTTTCAG-TTAACTCATATGA
1 GTTTCAGTTTAACTCTTATGG
* *
62091197 GTTTCAGTTTAACCCTTCTGG
1 GTTTCAGTTTAACTCTTATGG
* * *
62091218 GTTTCAGTTTAGCTCTTTTGA
1 GTTTCAGTTTAACTCTTATGG
*
62091239 GCTTCAGTTTAACTCTTATGG
1 GTTTCAGTTTAACTCTTATGG
* * *
62091260 GTTTCCGTTCAGCTCTTATG
1 GTTTCAGTTTAACTCTTATG
62091280 AGCTTCTATT
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
20 7 0.11
21 59 0.89
ACGTcount: A:0.17, C:0.19, G:0.18, T:0.45
Consensus pattern (21 bp):
GTTTCAGTTTAACTCTTATGG
Found at i:62091249 original size:42 final size:42
Alignment explanation
Indices: 62091177--62091285 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
62091167 TATATGCTGT
* * * *
62091177 GTTTCAG-TTAACTCATATGAGTTTCAGTTTAACCCTTCTGG
1 GTTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGG
* *
62091218 GTTTCAGTTTAGCTCTTTTGAGCTTCAGTTTAACTCTTATGG
1 GTTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGG
* *
62091260 GTTTCCGTTCAGCTCTTATGAGCTTC
1 GTTTCAGTTTAGCTCTTATGAGCTTC
62091286 TATTCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 7 0.12
42 51 0.88
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.44
Consensus pattern (42 bp):
GTTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGG
Found at i:62091471 original size:43 final size:43
Alignment explanation
Indices: 62091408--62091676 Score: 387
Period size: 43 Copynumber: 6.3 Consensus size: 43
62091398 TTATAGAAAT
* *
62091408 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
62091451 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
62091494 AAACGCCGCTAATGGCCATGTTCTTTAGCGGTGCTTTTCTCGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
** * *
62091537 AAATACCGCTAAAGGCCATGTTCTTTAGCGGCTCTTTTCCCGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* *
62091580 AAACGCCACTAAATGCCATGTTCTTTAGCGGCGCTTTT-CCGAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCG-C
* * *
62091623 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
62091666 AAACGCCGCTA
1 AAACGCCGCTA
62091677 TTGTTTGGTG
Statistics
Matches: 200, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 3 0.01
43 195 0.98
44 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:62092232 original size:25 final size:26
Alignment explanation
Indices: 62092181--62092242 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
62092171 TTTTACAATG
* *
62092181 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
62092207 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
62092232 ATTAAGTTATG
1 ATTAAGTTATG
62092243 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:62092246 original size:17 final size:17
Alignment explanation
Indices: 62092181--62092252 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
62092171 TTTTACAATG
* *
62092181 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
62092198 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
62092215 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
62092232 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
62092249 ATTA
1 ATTA
62092253 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:62092367 original size:17 final size:18
Alignment explanation
Indices: 62092345--62092411 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 18
62092335 ATATATTTTA
62092345 AAATTAT-TAAGTTATGT
1 AAATTATGTAAGTTATGT
* *
62092362 AAATTATGTGAGTTGT-T
1 AAATTATGTAAGTTATGT
*
62092379 AAGTTAT-TAAGTTATGT
1 AAATTATGTAAGTTATGT
*
62092396 AAGTTATGTAAGTTAT
1 AAATTATGTAAGTTAT
62092412 TATGTGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.14
17 22 0.52
18 14 0.33
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (18 bp):
AAATTATGTAAGTTATGT
Found at i:62092368 original size:9 final size:9
Alignment explanation
Indices: 62092348--62092411 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
62092338 TATTTTAAAA
62092348 TTAT-TAAG
1 TTATGTAAG
*
62092356 TTATGTAAA
1 TTATGTAAG
*
62092365 TTATGTGAG
1 TTATGTAAG
*
62092374 TTGT-TAAG
1 TTATGTAAG
62092382 TTAT-TAAG
1 TTATGTAAG
62092390 TTATGTAAG
1 TTATGTAAG
62092399 TTATGTAAG
1 TTATGTAAG
62092408 TTAT
1 TTAT
62092412 TATGTGAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
8 18 0.38
9 30 0.62
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:62092407 original size:26 final size:25
Alignment explanation
Indices: 62092348--62092440 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 25
62092338 TATTTTAAAA
*
62092348 TTATTAAGTTATGTAAATTATGTGAG
1 TTATTAAGTTAT-TAAATTATGTAAG
* *
62092374 TTGTTAAGTTATTAAGTTATGTAAG
1 TTATTAAGTTATTAAATTATGTAAG
*
62092399 TTATGTAAGTTATTATGTGAATTATATAAG
1 TTAT-TAAGTTATTA----AATTATGTAAG
*
62092429 CTATTAAGTTAT
1 TTATTAAGTTAT
62092441 ATGGTATGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
25 14 0.25
26 21 0.38
29 8 0.15
30 12 0.22
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (25 bp):
TTATTAAGTTATTAAATTATGTAAG
Found at i:62092416 original size:21 final size:21
Alignment explanation
Indices: 62092390--62092434 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
62092380 AGTTATTAAG
* *
62092390 TTATGT-AAGTTATGTAAGTTA
1 TTATGTGAA-TTATATAAGCTA
62092411 TTATGTGAATTATATAAGCTA
1 TTATGTGAATTATATAAGCTA
62092432 TTA
1 TTA
62092435 AGTTATATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (21 bp):
TTATGTGAATTATATAAGCTA
Found at i:62094348 original size:31 final size:31
Alignment explanation
Indices: 62094305--62094364 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
62094295 ACAGCCGCCC
*
62094305 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
62094336 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
62094365 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:62096688 original size:75 final size:74
Alignment explanation
Indices: 62096591--62096857 Score: 193
Period size: 75 Copynumber: 3.4 Consensus size: 74
62096581 TTAAGAATTT
* *
62096591 TTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCTCAGACAAAACGACACCGTTTTACGAAAACTG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGC-CAGCCAAAACGACACCGTTTTACGAAAACTG
62096656 AGAACAGAAC
65 AGAACAGAAC
** *
62096666 TTTGCGGCGTTTTTTCCTTAGCGCCGTAAAACCCATTAAATTCACAGCCAAAAACTG-CACCGTT
1 TTTGCGGCGTTTTTTCAGTAGCGCC-----A--C--T-AATGC-CAGCC-AAAAC-GACACCGTT
**** * ** *
62096730 TT--GTCTTCATTATTA-AGAATTT
53 TTACGAAAAC-TGAGAACAGAA--C
62096752 TTTGCGGCGTTTTTT-AGTAGCGCCACTAATGCCTAGCCAAAACGACACCGTTTTACGAAAACTG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGCC-AGCCAAAACGACACCGTTTTACGAAAACTG
62096816 AGAACAGAAC
65 AGAACAGAAC
** *
62096826 TTTGCGGCGTTTTTTCCTTAGCGCCGCTAATG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATG
62096858 ACCACCTTTA
Statistics
Matches: 143, Mismatches: 28, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
73 1 0.01
74 30 0.21
75 46 0.32
76 7 0.05
78 1 0.01
80 2 0.01
82 1 0.01
84 7 0.05
85 18 0.13
86 29 0.20
87 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (74 bp):
TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGCCAGCCAAAACGACACCGTTTTACGAAAACTGA
GAACAGAAC
Found at i:62096843 original size:160 final size:160
Alignment explanation
Indices: 62096343--62096852 Score: 878
Period size: 160 Copynumber: 3.2 Consensus size: 160
62096333 TAATGACCAC
* *
62096343 CTTTAGCGGCATTTTTCCCCTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGT
1 CTTT-GCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGT
* * *
62096408 TTTGTCTTCATTATTAAGAATTTTTTGCGGCATTTTTTAGTAGCGCCACTAATGCCCAGGCAAAA
65 TTTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCTAGACAAAA
62096473 CGACACCGTTTTACGAAAACTGAGAACAGAA
130 CGACACCGTTTTACGAAAACTGAGAACAGAA
* * *
62096504 CTTTGTGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAATTGCACTGTT
1 CTTTGCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
62096569 TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATG-CTCAGACAAA
66 TTGTCTTCATTATTAAGAATTTTTTGCGGCG-TTTTTTAGTAGCGCCACTAATGCCT-AGACAAA
62096633 ACGACACCGTTTTACGAAAACTGAGAACAGAA
129 ACGACACCGTTTTACGAAAACTGAGAACAGAA
* *
62096665 CTTTGCGGCGTTTTTTCCTTAGCGCCGTAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
1 CTTTGCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
*
62096730 TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCTAGCCAAAAC
66 TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCTAGACAAAAC
62096795 GACACCGTTTTACGAAAACTGAGAACAGAA
131 GACACCGTTTTACGAAAACTGAGAACAGAA
*
62096825 CTTTGCGGCGTTTTTTCCTTAGCGCCGC
1 CTTTGCGGCGTTTTTCCCTTAGCGCCGC
62096853 TAATGACCAC
Statistics
Matches: 331, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
160 174 0.53
161 157 0.47
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (160 bp):
CTTTGCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCTAGACAAAAC
GACACCGTTTTACGAAAACTGAGAACAGAA
Found at i:62097173 original size:19 final size:19
Alignment explanation
Indices: 62097151--62097193 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
62097141 TTTTATTTTT
*
62097151 ATTTTTTATAATTTTTAAA
1 ATTTTTTACAATTTTTAAA
*
62097170 ATTTTTTACAATTTTTACA
1 ATTTTTTACAATTTTTAAA
62097189 ATTTT
1 ATTTT
62097194 AAATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTACAATTTTTAAA
Found at i:62097173 original size:30 final size:30
Alignment explanation
Indices: 62097116--62097174 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
62097106 AATTTTAGTG
* *
62097116 TTTTTATTTCTTTTTAATTTTTTAATTTTA
1 TTTTTATTTCTTTATAATTTTTAAATTTTA
62097146 TTTTTATTT-TTTATAATTTTTAAAATTTT
1 TTTTTATTTCTTTATAATTTTT-AAATTTT
62097175 TTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTTATTTCTTTATAATTTTTAAATTTTA
Found at i:62097184 original size:9 final size:9
Alignment explanation
Indices: 62097153--62097193 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
62097143 TTATTTTTAT
*
62097153 TTTTTATAA
1 TTTTTACAA
*
62097162 TTTTTAAAA
1 TTTTTACAA
62097171 TTTTTTACAA
1 -TTTTTACAA
62097181 TTTTTACAA
1 TTTTTACAA
62097190 TTTT
1 TTTT
62097194 AAATTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTACAA
Found at i:62097605 original size:88 final size:89
Alignment explanation
Indices: 62097290--62097607 Score: 332
Period size: 90 Copynumber: 3.7 Consensus size: 89
62097280 TATAAAGAAC
** * * * *
62097290 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAA-C----CCTAA-CCTG-A
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
* * *
62097348 CCCCAAATCCCTAACCCCTAAACT
66 TCCCTAACCCCTAACCCCTAAACT
* * * * * **
62097372 TTATTTAATATATAAATTAAAAAGCACTAATTAATCTAACCCCTAAACCCTAAACCTAACCCCAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCAT-AACCCAATCCTGA
* *
62097437 AGCACTAACCCCTAACCCCTAAACT
65 ATCCCTAACCCCTAACCCCTAAACT
* * *
62097462 TTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
*
62097527 TCCCTAACCCCTAACTCCTAAA-T
66 TCCCTAACCCCTAACCCCTAAACT
*
62097550 CTTATTTAATATAT-AATTAAAATACACTAATTAATCTAAACCCTAAACTC-TAACCCAA
1 -TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC-CATAACCCAA
62097608 CATCAAATTT
Statistics
Matches: 198, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
82 42 0.21
83 1 0.01
88 44 0.22
89 45 0.23
90 66 0.33
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (89 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
TCCCTAACCCCTAACCCCTAAACT
Found at i:62097627 original size:88 final size:89
Alignment explanation
Indices: 62097446--62097642 Score: 213
Period size: 88 Copynumber: 2.2 Consensus size: 89
62097436 AAGCACTAAC
* * * *
62097446 CCCTAACCCCTAAA-CTTTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCTAAAC
1 CCCTAACTCCTAAATC-TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC
* * * *
62097510 CATAACCCAATCCTGAATCCCTAAC
65 CATAACCCAATCATAAATCCATAAA
*
62097535 CCCTAACTCCTAAATCTTATTTAATATAT-AATTAAAATACACTAATTAATCTAAACCCTAAACT
1 CCCTAACTCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC-
**
62097599 C-TAACCCAA-CATCAAATTTATAAA
65 CATAACCCAATCAT-AAATCCATAAA
* *
62097623 CCCTAAATCCCTAACTCTTA
1 CCCTAACT-CCTAAATCTTA
62097643 ACATCTAACC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.02
88 51 0.56
89 37 0.41
90 1 0.01
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (89 bp):
CCCTAACTCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
ATAACCCAATCATAAATCCATAAA
Found at i:62097685 original size:14 final size:14
Alignment explanation
Indices: 62097621--62097697 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
62097611 CAAATTTATA
* *
62097621 AACCCTAAATCCCT
1 AACCCTTAACCCCT
* **
62097635 AACTCTTAACATCT
1 AACCCTTAACCCCT
*
62097649 AACCCCTAA--CCT
1 AACCCTTAACCCCT
* *
62097661 CACCCCTAACCCCT
1 AACCCTTAACCCCT
*
62097675 AACCCTTAACCCAT
1 AACCCTTAACCCCT
*
62097689 AAACCTTAA
1 AACCCTTAA
62097698 ATCACATTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
12 10 0.21
14 38 0.79
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:62098505 original size:114 final size:114
Alignment explanation
Indices: 62098301--62098735 Score: 710
Period size: 114 Copynumber: 3.8 Consensus size: 114
62098291 TTTTAAATCT
*
62098301 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
*
62098366 TTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * *
62098415 CTGAGCATCAGCGACGCTTACTTAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
62098480 TTGGGCATAGGTATTTTTACAGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* *
62098529 CTGAGCATCAGCGGCGCTTACTGAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
62098594 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCTGCTAAAGAC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * * * *
62098643 CTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAAATCCCCGAAAGCTCCGAAAACGGCGCCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
*
62098708 TTGGGCTTAGGTA-TTTTGCGGCGCTTTC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTC
62098736 TGGAAAACAC
Statistics
Matches: 297, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
113 15 0.05
114 282 0.95
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (114 bp):
CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
Found at i:62103563 original size:46 final size:46
Alignment explanation
Indices: 62103496--62103583 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
62103486 AAAAGTGTAC
* * *
62103496 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAACCCAATACAGTGA-CAGAATCAGAAATAGAATACA
*
62103542 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAA
62103584 ATGCAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAATACA
Found at i:62103786 original size:22 final size:22
Alignment explanation
Indices: 62103734--62103807 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
62103724 CAGCAAAGCT
* *
62103734 GCCAGTAACCAGAATGGCTA-AGA
1 GCCA-TAAACAGAATAGCTACA-A
* * *
62103757 GCCGTAAACAGGATAGCTATAA
1 GCCATAAACAGAATAGCTACAA
* *
62103779 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATAGCTACAA
62103801 GCCATAA
1 GCCATAA
62103808 GTACAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (22 bp):
GCCATAAACAGAATAGCTACAA
Found at i:62103867 original size:32 final size:31
Alignment explanation
Indices: 62103797--62103908 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 31
62103787 CAGAATGGCT
* * **
62103797 ACAAGCCATAAGTA-CAGTAATATGATTGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
*
62103827 ACAAAACCATCAGTAGCAGTGATATGACCGGTAC
1 AC-AAACCATCAGTAGCAGTAATATGACC-G-AC
* * *
62103861 AC-AACCATCAATAACGGTAATATGACCGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
62103891 ACAAAGCCATCAGTAGCA
1 ACAAA-CCATCAGTAGCA
62103909 TCGCAGCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
30 6 0.09
31 13 0.20
32 40 0.62
33 1 0.02
34 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (31 bp):
ACAAACCATCAGTAGCAGTAATATGACCGAC
Found at i:62104117 original size:24 final size:24
Alignment explanation
Indices: 62104081--62104158 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
62104071 GCTTAGAAGT
*
62104081 AGTCATACAAATCACAGATAAATC
1 AGTCATACAAATCACAGACAAATC
*
62104105 AGTCATACCAATCACAGACAAATC
1 AGTCATACAAATCACAGACAAATC
** * *
62104129 AGTCATTTACATCACGGACAAATC
1 AGTCATACAAATCACAGACAAATC
*
62104153 AATCAT
1 AGTCAT
62104159 TTACACTCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATC
Found at i:62104159 original size:24 final size:24
Alignment explanation
Indices: 62104115--62104163 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
62104105 AGTCATACCA
*
62104115 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
62104139 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
62104163 A
1 A
62104164 CTCGAGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:62104236 original size:27 final size:27
Alignment explanation
Indices: 62104199--62104430 Score: 148
Period size: 27 Copynumber: 8.6 Consensus size: 27
62104189 CCTCATGAGA
** *
62104199 ATTACGGTCATTTTACTTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
** *
62104226 ATTTTGGTCATTTAACCCTATAAGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* *
62104253 ATTACGGTCATTTTACCCTA-CAGAGGC
1 ATTACGGTCATTTTACCCTATAAG-GGT
* **
62104280 ATTACGGTCATTTTATCCTATGGGGAGT
1 ATTACGGTCATTTTACCCTATAAGG-GT
* * * *
62104308 -TTTCGATTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* *** *
62104334 ATTACGGTTATTTTACCCTACGGGGGC
1 ATTACGGTCATTTTACCCTATAAGGGT
* * **
62104361 ATTGCAGAT-ATTTTACCCTATGGGGGGT
1 ATTAC-GGTCATTTTACCCTAT-AAGGGT
* **
62104389 TTTTTGGTCATTTTACCCTAT-AGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
*
62104415 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
62104431 AAATATTGGG
Statistics
Matches: 160, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
26 20 0.12
27 117 0.73
28 23 0.14
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAAGGGT
Found at i:62104287 original size:81 final size:80
Alignment explanation
Indices: 62104199--62104430 Score: 256
Period size: 81 Copynumber: 2.9 Consensus size: 80
62104189 CCTCATGAGA
* *
62104199 ATTACGGTCATTTTACTTTATAGGGGTATTTTGGTCATTTAACCCTATAAGGGTATTACGGTCAT
1 ATTACGGTCATTTTACTCTAT-GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTCAT
62104264 TTTACCCTACAGAGGC
65 TTTACCCTACAGAGGC
* * * *
62104280 ATTACGGTCATTTTA-TCCTATGGGG-AGTTTTCGATTATTTTACCCTATAGGGGTATTACGGTT
1 ATTACGGTCATTTTACT-CTATGGGGTA-TTTT-GGTCATTTTACCCTATAAGGGTATTACGGTC
* *
62104343 ATTTTACCCTACGGGGGC
63 ATTTTACCCTACAGAGGC
* * * * *
62104361 ATTGCAGAT-ATTTTACCCTATGGGGGGTTTTTTGGTCATTTTACCCTAT-AGGGTATTACGATC
1 ATTAC-GGTCATTTTACTCTAT--GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTC
62104424 ATTTTAC
63 ATTTTAC
62104431 AAATATTGGG
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
79 1 0.01
80 9 0.07
81 92 0.73
82 16 0.13
83 8 0.06
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (80 bp):
ATTACGGTCATTTTACTCTATGGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTCATT
TTACCCTACAGAGGC
Found at i:62104300 original size:54 final size:55
Alignment explanation
Indices: 62104199--62104430 Score: 170
Period size: 54 Copynumber: 4.3 Consensus size: 55
62104189 CCTCATGAGA
** ** *
62104199 ATTACGGTCATTTTACTTTATAGGGGTATTTTGGTCATTTAACCCTATAAGG-GT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * **
62104253 ATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTATCCTATGGGGAGT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * ** * *
62104308 -TTTCGATTATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTA-CGGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * **
62104361 ATTGCAGAT-ATTTTACCCTATGGGGGGTTTTTTGGTCATTTTACCCTAT-AGG-GT
1 ATTAC-GGTCATTTTACCCTAT-AGGGGTATTACGGTCATTTTACCCTATAAGGAGT
*
62104415 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
62104431 AAATATTGGG
Statistics
Matches: 141, Mismatches: 31, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
53 7 0.05
54 106 0.75
55 28 0.20
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (55 bp):
ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
Found at i:62104680 original size:17 final size:18
Alignment explanation
Indices: 62104658--62104693 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62104648 TTTACCCGTG
*
62104658 TGGGCCCATA-AGCCTAT
1 TGGGCCCACACAGCCTAT
62104675 TGGGCCCACACAGCCTAT
1 TGGGCCCACACAGCCTAT
62104693 T
1 T
62104694 TCGACCTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (18 bp):
TGGGCCCACACAGCCTAT
Found at i:62109072 original size:34 final size:34
Alignment explanation
Indices: 62109034--62109107 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
62109024 GCCATTTGCC
62109034 ACTGTTACCG-TAATGGGCTAAGGCCCACACTGAT
1 ACTGTTACCGTTAA-GGGCTAAGGCCCACACTGAT
* * * *
62109068 ACTGTTACTGTTAAGGGCTCAGGCCTAGACTGAT
1 ACTGTTACCGTTAAGGGCTAAGGCCCACACTGAT
*
62109102 TCTGTT
1 ACTGTT
62109108 TATTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (34 bp):
ACTGTTACCGTTAAGGGCTAAGGCCCACACTGAT
Found at i:62110180 original size:22 final size:24
Alignment explanation
Indices: 62110146--62110193 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
62110136 TGTGAAACTG
*
62110146 TTATAAAATAAAAAT-AA-TATTT
1 TTATAAAACAAAAATAAAGTATTT
*
62110168 TTATTAAACAAAAATAAAGTATTT
1 TTATAAAACAAAAATAAAGTATTT
62110192 TT
1 TT
62110194 TTTCCGCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 2 0.09
24 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TTATAAAACAAAAATAAAGTATTT
Found at i:62116087 original size:66 final size:66
Alignment explanation
Indices: 62116006--62116158 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 66
62115996 GTTATACCAA
* * * * *
62116006 TGAGGCACTAGGTGTCAAACTATGTGATAAGCA-TTCGACGCAACTATTTGCTTCGGATTTATCT
1 TGAGGCATTGGGTGTCAAACTATGTGATAAG-AGTTCGACGCAACTATTTACTTCGAATTTATCC
*
62116070 GG
65 GC
* * *
62116072 TGAGGCTTTGGGTGTCAAACTATTTGATAAGAGTTCGATGCAACTATTTACTTCGAATTTATCCG
1 TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTACTTCGAATTTATCCG
62116137 C
66 C
*
62116138 TGAGGCATTGGGTGCCAAACT
1 TGAGGCATTGGGTGTCAAACT
62116159 GGTGTATTGG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 74 0.99
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (66 bp):
TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTACTTCGAATTTATCCG
C
Found at i:62116391 original size:11 final size:10
Alignment explanation
Indices: 62116371--62116406 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
62116361 TCTATTTGTG
62116371 AAATGTAAAAA
1 AAAT-TAAAAA
62116382 AAATTAAAAA
1 AAATTAAAAA
62116392 AAATTGAAAAA
1 AAATT-AAAAA
62116403 AAAT
1 AAAT
62116407 CCGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:62119234 original size:34 final size:35
Alignment explanation
Indices: 62119194--62119274 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
62119184 TCTGATATGG
62119194 TATGACATTTTGATATG-A-TATATGTTTCTGAAAA
1 TATGACATTTTGATATGTAGTATATGTTT-TGAAAA
* *
62119228 TATGACATTAT-A-ATGTAGTATATGTTTTGGAAA
1 TATGACATTTTGATATGTAGTATATGTTTTGAAAA
62119261 TATGACATTTTGAT
1 TATGACATTTTGAT
62119275 CTGACATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 3 0.08
33 17 0.43
34 20 0.50
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (35 bp):
TATGACATTTTGATATGTAGTATATGTTTTGAAAA
Found at i:62123507 original size:21 final size:20
Alignment explanation
Indices: 62123483--62123526 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
62123473 TATTTTTATC
62123483 ATTTTAATCA-AAATTTTATTT
1 ATTTTAAT-ATAAA-TTTATTT
*
62123504 ATTTTTATATAAATTTATTT
1 ATTTTAATATAAATTTATTT
62123524 ATT
1 ATT
62123527 ACATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATATAAATTTATTT
Found at i:62127583 original size:21 final size:21
Alignment explanation
Indices: 62127554--62127610 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
62127544 TATTTTCGTT
62127554 TTTTCATATATAATT-TATTTA
1 TTTT-ATATATAATTATATTTA
**
62127575 CTTTTATAT-TCTTTATATTTA
1 -TTTTATATATAATTATATTTA
62127596 TTTTATGATATAATT
1 TTTTAT-ATATAATT
62127611 CGGCATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 9 0.32
21 12 0.43
22 7 0.25
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATATATAATTATATTTA
Found at i:62127895 original size:23 final size:22
Alignment explanation
Indices: 62127842--62127884 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62127832 AAAATATATT
*
62127842 AAATAT-ATATTTTTATTTTTA
1 AAATATAATAGTTTTATTTTTA
*
62127863 AAATATAATAGTTTTAGTTTTA
1 AAATATAATAGTTTTATTTTTA
62127885 TACAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
AAATATAATAGTTTTATTTTTA
Found at i:62128382 original size:16 final size:16
Alignment explanation
Indices: 62128361--62128400 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
62128351 TAATTTGATG
*
62128361 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
62128377 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
62128393 GTTTTAAT
1 ATTTTAAT
62128401 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:62128401 original size:22 final size:23
Alignment explanation
Indices: 62128374--62128435 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
62128364 TTACTAACAA
* *
62128374 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
62128396 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
62128419 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
62128436 CGGGCTGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:62141300 original size:6 final size:6
Alignment explanation
Indices: 62141289--62141333 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
62141279 AAAACAAACA
* *
62141289 AAAAAG AAAAAG AAAAAG --AAGG AAAAAG GAAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
62141334 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 3 0.09
5 5 0.15
6 25 0.76
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:62141330 original size:17 final size:17
Alignment explanation
Indices: 62141290--62141335 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
62141280 AAACAAACAA
*
62141290 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGGAAAAG
*
62141307 -AAGGAAAAAGGAAAAG
1 AAAAGAAAAAGGAAAAG
62141323 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
62141336 GAGGCCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGGAAAAG
Found at i:62141331 original size:16 final size:15
Alignment explanation
Indices: 62141288--62141333 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
62141278 AAAAACAAAC
62141288 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
*
62141303 AAAGAAGGAAAAAGGAA
1 AAA-AAAGAAAAA-GAA
62141320 AAGAAAAGAAAAAG
1 AA-AAAAGAAAAAG
62141334 GAGAGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 13 0.50
18 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:62141805 original size:108 final size:106
Alignment explanation
Indices: 62141597--62141815 Score: 296
Period size: 108 Copynumber: 2.0 Consensus size: 106
62141587 GGGCACCTCA
* * ** * *
62141597 TTTCATCTTATTCATTTTGTATCTTAGCAAATTTGCTATCTTGATTATTTATTTATTTCGAGCTT
1 TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
*
62141662 TGTTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
66 TGCTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
* *
62141703 TTTCATCTTATTCATTTTGAATCTTAGCAAAATTCGCTATCCCGATTAATTTGTTTGTTTAGAGC
1 TTTCATCTTATTCATTTTGAATCTTAGC-AAATTCGCTATCCCGATT-ATTTATTTATTTAGAGC
* * *
62141768 TCTGCTCTTAATAAAATTTCATCTT-TCCCATTGTGATAATCTT
64 TCTGCTCTCAATAAAATTTCATCTTAT-CCATTATGATAATCCT
62141811 TTTCA
1 TTTCA
62141816 AGAATTTTCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
106 27 0.28
107 16 0.16
108 55 0.56
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (106 bp):
TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
TGCTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
Found at i:62142817 original size:45 final size:45
Alignment explanation
Indices: 62142723--62142817 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
62142713 TTGTATCTTC
* **
62142723 CTGTATTGGCAGCGAAGTAGAACGAAGTTAGCAAGTCTTGTCTTA
1 CTGTATTGGCAGCGAAGTAGAACGAAGATAGCAAGTCTTACCTTA
* * *
62142768 CTGTATTGGCAGTGAAGTAG-ACTGAAGATGGC-AGATCTTACCTTT
1 CTGTATTGGCAGCGAAGTAGAAC-GAAGATAGCAAG-TCTTACCTTA
62142813 CTGTA
1 CTGTA
62142818 CTGGAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
CTGTATTGGCAGCGAAGTAGAACGAAGATAGCAAGTCTTACCTTA
Found at i:62142964 original size:89 final size:89
Alignment explanation
Indices: 62142791--62143071 Score: 395
Period size: 89 Copynumber: 3.2 Consensus size: 89
62142781 GAAGTAGACT
* * * * * *
62142791 GAAGATGGCAGATCTTACCTTTCTGTACTGGAAATGAAGCAGATTAG-AAG-CACTAGCCTTATC
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGA-TCGTAAGCCACTAGCCTTATC
*
62142854 TCCCTGAGCAGTAGTGGAGTAGGTC
65 TCCCTGAGCAGCAGTGGAGTAGGTC
*
62142879 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGTAAGCCACTAGCCTTATCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
*
62142944 CCCTGAGCAGCAATGGAGTAGGTC
66 CCCTGAGCAGCAGTGGAGTAGGTC
* * * *
62142968 GAAGATTGTAGATCTTGCCTTCCTATACTGGCAATGAAGCAAATCGTAAGCCACCAGCCTTGTCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
* * *
62143033 CCCTGAGCAACAGTAGAGTAGGTT
66 CCCTGAGCAGCAGTGGAGTAGGTC
62143057 GAAGATTGTAGATCT
1 GAAGATTGTAGATCT
62143072 CATCTTCCTA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 40 0.23
89 131 0.76
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
CCCTGAGCAGCAGTGGAGTAGGTC
Found at i:62143523 original size:130 final size:130
Alignment explanation
Indices: 62143286--62144025 Score: 1112
Period size: 130 Copynumber: 5.7 Consensus size: 130
62143276 AGATTGTAGA
*
62143286 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
62143351 GTAGAA-CGGATTAAAAACCATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
66 GT-GAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
62143415 G
130 G
* * * ** * * **
62143416 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
62143481 GTGAAGCGGATTAAAAACCACTGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
62143546 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * *
62143611 GTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
62143676 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
62143741 GTGGAA-CGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
66 GT-GAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
62143805 G
130 G
* * * * ** * *
62143806 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * * *
62143871 GTGGAGCGGATTAAAAA-CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
* *
62143935 TCTTATCTCCCTGAAGTTGCAATGGATCAGA-AAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAA-AAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
62143999 AGTGGAGCGGATT-AAAACCACAAATCT
65 AGTGAAGCGGATTAAAAACCACAGATCT
62144026 CATCCCCATG
Statistics
Matches: 549, Mismatches: 56, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
128 5 0.01
129 121 0.22
130 421 0.77
131 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
Found at i:62143881 original size:390 final size:389
Alignment explanation
Indices: 62143286--62144015 Score: 1309
Period size: 390 Copynumber: 1.9 Consensus size: 389
62143276 AGATTGTAGA
*
62143286 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
62143351 GTAGAACGGATTAAAAACCATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
66 GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
* *
62143416 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTATA
131 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
* *
62143481 GTGAAGCGGATTAAAAACCACTGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCCAG
196 GTGAAGCGGATTAAAAA-CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAG
*
62143546 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAA-AAGAAACCAATCCTATCTCCCTGAAGTTGC
260 TCTTATCTCCCTGAAGTTGCAATGGAGCAGA-AAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
62143610 AGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCA
324 AGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCA
62143675 G
389 G
62143676 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * *
62143741 GTGGAACGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
66 GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
*
62143806 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTACA
131 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
* *
62143871 GTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAGT
196 GTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAGT
*
62143936 CTTATCTCCCTGAAGTTGCAATGGATCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
261 CTTATCTCCCTGAAGTTGCAATGGAGCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
62144001 TGGAGCGGATTAAAA
326 TGGAGCGGATTAAAA
62144016 CCACAAATCT
Statistics
Matches: 325, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
388 2 0.01
389 120 0.37
390 203 0.62
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (389 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
GTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAGT
CTTATCTCCCTGAAGTTGCAATGGAGCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCAG
Found at i:62146261 original size:21 final size:21
Alignment explanation
Indices: 62146228--62146267 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62146218 TAATTCATTT
* * *
62146228 ATTCGCTTTCATATCATTGGC
1 ATTCACTTGCATAACATTGGC
62146249 ATTCACTTGCATAACATTG
1 ATTCACTTGCATAACATTG
62146268 TATTCGTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTCACTTGCATAACATTGGC
Found at i:62151026 original size:29 final size:29
Alignment explanation
Indices: 62150971--62151028 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
62150961 TGTCTTTGAA
* * *
62150971 AATATTTACAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGACACACCAAATTTT
62151000 AATATTTACAAAAAGATCA-ACCAAATTTT
1 AATATTTACAAAAAGA-CACACCAAATTTT
62151029 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGACACACCAAATTTT
Found at i:62153608 original size:40 final size:39
Alignment explanation
Indices: 62153510--62153772 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
62153500 TCCTCGTTCA
* * * *
62153510 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
62153549 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
62153588 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
62153628 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
62153668 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
62153708 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
62153749 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62153773 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:62153732 original size:120 final size:119
Alignment explanation
Indices: 62153510--62153772 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
62153500 TCCTCGTTCA
* * *
62153510 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
62153575 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
62153628 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
62153693 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
62153749 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62153773 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:62153781 original size:41 final size:41
Alignment explanation
Indices: 62153704--62153781 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62153694 TTTGTATCTC
* * *
62153704 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62153745 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62153782 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62163613 original size:91 final size:91
Alignment explanation
Indices: 62163299--62163603 Score: 501
Period size: 91 Copynumber: 3.4 Consensus size: 91
62163289 TGATTTTAGT
* *
62163299 AAATTCATAT-A-AAAATATTATTTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 AAATTCATATAAGAAAAT-TTA-TTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTAT
62163362 ATTTAATAATAATTATTTTAAATTATAC
64 ATTTAATAATAATTATTTTAAATTATAC
62163390 AAATTCATATAAGAAAATTTATTA-TCAAGAATTTTATGAAATTA-ATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
62163453 TTTAATAATATTTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
**
62163480 AAATTCATATAAGAAAATTTATTAGTAAGAGCTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
62163545 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
*
62163571 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT
62163604 ATTTTAAATT
Statistics
Matches: 201, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
90 85 0.42
91 107 0.53
92 4 0.02
93 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:62163645 original size:16 final size:16
Alignment explanation
Indices: 62163611--62163664 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
62163601 ATTATTTTAA
62163611 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA--ATAT
62163628 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
62163644 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
62163658 ATTTTAA
1 ATTTTAA
62163665 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:62163675 original size:59 final size:57
Alignment explanation
Indices: 62163596--62163785 Score: 169
Period size: 59 Copynumber: 3.3 Consensus size: 57
62163586 AATTTATTAG
62163596 TAATAATTATTTT--A-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTTAAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
* * * * *
62163650 TAATAATTATTTTAAATTATATTTTA-TAGTATCATATATTATGATTTTAGTAAAT-TCATATAA
1 TAATAATTATTTTAAA-GA-ATTTTATTA-AATCATATATT-TTA-ATTA--AAATAT-ATTTAA
* *
62163713 GAAT-ATTGATTATT-AAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATT-ATT-TTAAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
*
62163770 TAATAATTATGTTAAA
1 TAATAATTATTTTAAA
62163786 ATATGATTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 31
0.71 0.09 0.21
Matches are distributed among these distances:
54 13 0.12
56 3 0.03
57 16 0.15
58 7 0.07
59 19 0.18
60 4 0.04
61 18 0.17
62 7 0.07
63 17 0.16
64 2 0.02
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (57 bp):
TAATAATTATTTTAAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
Found at i:62163759 original size:18 final size:17
Alignment explanation
Indices: 62163731--62163765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62163721 ATTATTAAGA
*
62163731 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62163748 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62163766 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62163779 original size:54 final size:54
Alignment explanation
Indices: 62163596--62163805 Score: 163
Period size: 55 Copynumber: 3.6 Consensus size: 54
62163586 AATTTATTAG
* *
62163596 TAATAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
* * * * * *
62163650 TAATAATTATTTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT-TCATATAA
1 TAATAATTATTTAAAATT-T-TATTA-A--ATTATATATT-TTA-ATTA--AAATAT-ATTTAA
*
62163713 GAAT-ATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATT-A-T-TTAA-AATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
* * *
62163770 TAATAATTATGTTAAAATATGATTAAATTATTTATT
1 TAATAATTAT-TTAAAATTTTATTAAATTATATATT
62163806 ATTGATATTA
Statistics
Matches: 124, Mismatches: 16, Indels: 31
0.73 0.09 0.18
Matches are distributed among these distances:
54 18 0.15
55 19 0.15
56 9 0.07
57 14 0.11
58 4 0.03
59 13 0.10
60 4 0.03
61 12 0.10
62 4 0.03
63 14 0.11
64 5 0.04
65 4 0.03
66 4 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (54 bp):
TAATAATTATTTAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
Found at i:62163985 original size:44 final size:46
Alignment explanation
Indices: 62163922--62164017 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 46
62163912 CTATTACACC
* *
62163922 TCCATTCCATTCAACCAAACACAAGAA-TA-CTATTACACCTCTAT
1 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACACCTCTAT
*
62163966 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACGCCTCTAT
1 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACACCTCTAT
62164012 TCCATT
1 TCCATT
62164018 ACACCTCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 25 0.53
45 2 0.04
46 20 0.43
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.29
Consensus pattern (46 bp):
TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACACCTCTAT
Found at i:62164024 original size:16 final size:16
Alignment explanation
Indices: 62163999--62164036 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62163989 AGAATTACCT
* *
62163999 ATTACGCCTCTATTCC
1 ATTACACCTCTATCCC
62164015 ATTACACCTCTATCCC
1 ATTACACCTCTATCCC
62164031 ATTACA
1 ATTACA
62164037 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATCCC
Found at i:62169146 original size:21 final size:21
Alignment explanation
Indices: 62169107--62169146 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62169097 TTGTTTCTAA
*
62169107 AGAAAAATCCAGTTTCACAGC
1 AGAAAAATCCAGTTCCACAGC
62169128 AGAAAAAT-CAGTGTCCACA
1 AGAAAAATCCAGT-TCCACA
62169147 ACCATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (21 bp):
AGAAAAATCCAGTTCCACAGC
Found at i:62169806 original size:65 final size:65
Alignment explanation
Indices: 62169728--62169869 Score: 171
Period size: 65 Copynumber: 2.2 Consensus size: 65
62169718 ATTGAAAATG
** *
62169728 AGCTACCGGTAATATAGATGAGCCACCAGAA-ATGCAGATAAACTGCCAATAACAATTTGCAGAA
1 AGCTACCAATAATATAGACGAGCCACCA-AATATGCAGATAAACTGCCAATAACAATTTGCAGAA
62169792 A
65 A
* * * * * **
62169793 AGCTACCAATAATATGGACGAGCCTCTAAATATGCAGATAAACTGCCAATTACAATTTGCGGTCA
1 AGCTACCAATAATATAGACGAGCCACCAAATATGCAGATAAACTGCCAATAACAATTTGCAGAAA
62169858 A-CTACCAATAAT
1 AGCTACCAATAAT
62169870 GCAGACAAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
64 13 0.20
65 53 0.80
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (65 bp):
AGCTACCAATAATATAGACGAGCCACCAAATATGCAGATAAACTGCCAATAACAATTTGCAGAAA
Found at i:62171069 original size:25 final size:25
Alignment explanation
Indices: 62171039--62171120 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
62171029 CTGTAATTGA
*
62171039 TAAGCTCATATGAGCTGAATAACGG
1 TAAGCTCATACGAGCTGAATAACGG
*
62171064 TAAGCTCATACGA-CTTGAATAACAG
1 TAAGCTCATACGAGC-TGAATAACGG
* * *
62171089 TAAGCTTATACGAGTTGAATATCGG
1 TAAGCTCATACGAGCTGAATAACGG
62171114 TAAGCTC
1 TAAGCTC
62171121 TCTCGAGCTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAACGG
Found at i:62178341 original size:20 final size:20
Alignment explanation
Indices: 62178299--62178345 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
62178289 TTTTCTACCT
* * *
62178299 AAAAAACATGAGGGAGTACA
1 AAAAAATATGAGGAAATACA
*
62178319 AAAAAATATGAGGAAATATA
1 AAAAAATATGAGGAAATACA
62178339 AAAAAAT
1 AAAAAAT
62178346 TGTGAGAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATATGAGGAAATACA
Found at i:62178382 original size:19 final size:19
Alignment explanation
Indices: 62178298--62178385 Score: 54
Period size: 19 Copynumber: 4.5 Consensus size: 19
62178288 GTTTTCTACC
* **
62178298 TAAAAAACATGAGGGAGTA
1 TAAAAAAAATGAGAAAGTA
*
62178317 CAAAAAAATATGAGGAAA-TA
1 TAAAAAAA-ATGA-GAAAGTA
* * *
62178337 TAAAAAAATTGTGAGAATGTGC
1 TAAAAAAA--ATGAGAAAGT-A
62178359 T-AAAAAAATGAGAAAGTA
1 TAAAAAAAATGAGAAAGTA
62178377 TAAAAAAAA
1 TAAAAAAAA
62178386 GTAAAAGAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
18 1 0.02
19 21 0.40
20 16 0.31
21 13 0.25
22 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.18, T:0.18
Consensus pattern (19 bp):
TAAAAAAAATGAGAAAGTA
Found at i:62183808 original size:44 final size:44
Alignment explanation
Indices: 62183745--62183833 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
62183735 GCCAGAAAGT
62183745 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
*
62183789 AAACATATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
62183833 A
1 A
62183834 GTTTTAAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.15
Consensus pattern (44 bp):
AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
Found at i:62190095 original size:30 final size:31
Alignment explanation
Indices: 62190041--62190159 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 31
62190031 CATTAAAATT
*
62190041 GTTAATTAAACTTAAATTTAATTAAACTTAG
1 GTTAATTAAAGTTAAATTTAATTAAACTTAG
*** *
62190072 GTTAATT-AAGTT-AATTCTAATTAATTAAAAAA
1 GTTAATTAAAGTTAAATT-TAATTAA--ACTTAG
** *
62190104 ACTAATTAAAATATAAATTTAATTAAACTTAG
1 GTTAATTAAAGT-TAAATTTAATTAAACTTAG
62190136 GTTAATT-AAGTT-AATTCTAATTAA
1 GTTAATTAAAGTTAAATT-TAATTAA
62190160 TTAAAAAAAC
Statistics
Matches: 66, Mismatches: 15, Indels: 15
0.69 0.16 0.16
Matches are distributed among these distances:
29 8 0.12
30 19 0.29
31 10 0.15
32 14 0.21
33 3 0.05
34 8 0.12
35 4 0.06
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (31 bp):
GTTAATTAAAGTTAAATTTAATTAAACTTAG
Found at i:62190131 original size:64 final size:64
Alignment explanation
Indices: 62190043--62190182 Score: 264
Period size: 64 Copynumber: 2.2 Consensus size: 64
62190033 TTAAAATTGT
*
62190043 TAATTAAACT-TAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
1 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
62190106 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
1 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
62190170 TAATTAAAATATA
1 TAATTAAAATATA
62190183 TAAACAAATA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 9 0.12
64 66 0.88
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (64 bp):
TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
Found at i:62190331 original size:24 final size:25
Alignment explanation
Indices: 62190304--62190354 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
62190294 GGTGAGTTCG
62190304 ATTTAGTCTTTTT-TTATAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
*
62190328 ATTTAGTCTTTTTCTTGTAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
62190353 AT
1 AT
62190355 GTTTTTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
ATTTAGTCTTTTTCTTATAATTTTT
Found at i:62199113 original size:39 final size:39
Alignment explanation
Indices: 62199073--62199210 Score: 231
Period size: 39 Copynumber: 3.5 Consensus size: 39
62199063 ATTCATTTTT
* * * *
62199073 AAGCATATATCGCATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
62199112 AAGCATGTATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
62199151 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
62199190 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
62199211 AAAACATGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:62199142 original size:17 final size:17
Alignment explanation
Indices: 62199120--62199181 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
62199110 TTAAGCATGT
62199120 ATCACAATACTCATATA
1 ATCACAATACTCATATA
*
62199137 ATCAC-ATAACATTCAAGCATA
1 ATCACAAT-AC--TC-A-TATA
62199158 TATCACAATACTCATATA
1 -ATCACAATACTCATATA
62199176 ATCACA
1 ATCACA
62199182 TAACATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 13 0.36
18 3 0.08
19 3 0.08
20 3 0.08
21 3 0.08
22 7 0.19
23 2 0.06
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (17 bp):
ATCACAATACTCATATA
Found at i:62202397 original size:20 final size:20
Alignment explanation
Indices: 62202369--62202409 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62202359 TTACTATTTG
* *
62202369 AATCGATTCTTTTTTGTTTA
1 AATCAATTCTTTGTTGTTTA
62202389 AATCAATTCTTTGTTGTTTA
1 AATCAATTCTTTGTTGTTTA
62202409 A
1 A
62202410 CTCGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
AATCAATTCTTTGTTGTTTA
Found at i:62205452 original size:18 final size:18
Alignment explanation
Indices: 62205429--62205465 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
62205419 ATTGAATAGT
*
62205429 CAAAATAAGTACATGTGA
1 CAAAATAAGTAAATGTGA
62205447 CAAAATAAGTAAATGTGA
1 CAAAATAAGTAAATGTGA
62205465 C
1 C
62205466 GAGTGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (18 bp):
CAAAATAAGTAAATGTGA
Found at i:62206827 original size:13 final size:13
Alignment explanation
Indices: 62206809--62206836 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62206799 CCAAGATGGC
62206809 TAGTTAGAATAGT
1 TAGTTAGAATAGT
62206822 TAGTTAGAATAGT
1 TAGTTAGAATAGT
62206835 TA
1 TA
62206837 ACAGTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TAGTTAGAATAGT
Found at i:62214877 original size:16 final size:16
Alignment explanation
Indices: 62214856--62214922 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
62214846 TTTGATTTGC
*
62214856 TGTAATGGAATAAATG
1 TGTAATAGAATAAATG
62214872 TGTAATAGAATAAATACG
1 TGTAATAGAATAAAT--G
* * *
62214890 TAATGAATGGAATAAAGG
1 T-GT-AATAGAATAAATG
62214908 TGTAATAGAATAAAT
1 TGTAATAGAATAAAT
62214923 ACGTAATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
16 24 0.60
17 1 0.03
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.28
Consensus pattern (16 bp):
TGTAATAGAATAAATG
Found at i:62214900 original size:36 final size:36
Alignment explanation
Indices: 62214859--62214932 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
62214849 GATTTGCTGT
*
62214859 AATGGAATAAATGTGTAATAGAATAAATACGTAATG
1 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
62214895 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
1 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
62214931 AA
1 AA
62214933 ATAGAGGCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (36 bp):
AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
Found at i:62215243 original size:59 final size:59
Alignment explanation
Indices: 62215167--62215355 Score: 222
Period size: 59 Copynumber: 3.2 Consensus size: 59
62215157 TTAAAATCAT
62215167 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
* * * * * * ** * *
62215226 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
62215287 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
62215346 AATATATAAT
1 AATATATAAT
62215356 TCACCTCACG
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 3 0.03
59 45 0.44
60 16 0.16
61 35 0.34
62 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (59 bp):
AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
Found at i:62219882 original size:64 final size:64
Alignment explanation
Indices: 62219814--62220044 Score: 453
Period size: 64 Copynumber: 3.6 Consensus size: 64
62219804 TGCTTCTATT
62219814 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
62219878 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
62219942 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
62220006 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGCTTTA
1 TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTA
62220045 GATTGACGAG
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 166 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (64 bp):
TTTCTTTCTTTGTTTTCTGTAACAGACCCAGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
Found at i:62222439 original size:18 final size:17
Alignment explanation
Indices: 62222411--62222445 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62222401 ATTATTAAGA
*
62222411 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62222428 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62222446 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62222450 original size:120 final size:120
Alignment explanation
Indices: 62222304--62222702 Score: 782
Period size: 120 Copynumber: 3.3 Consensus size: 120
62222294 TAATTGAAAA
*
62222304 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
62222368 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
62222423 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
62222488 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
62222543 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
62222608 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
62222663 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
62222703 TAAATATGAT
Statistics
Matches: 278, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
119 10 0.04
120 268 0.96
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:62222559 original size:18 final size:17
Alignment explanation
Indices: 62222531--62222565 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62222521 ATTATTAAGA
*
62222531 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62222548 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62222566 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62222679 original size:18 final size:17
Alignment explanation
Indices: 62222651--62222685 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62222641 ATTATTAAGA
*
62222651 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62222668 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62222686 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62222942 original size:16 final size:16
Alignment explanation
Indices: 62222921--62222989 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
62222911 GATTAGCTAT
62222921 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62222937 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
62222954 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
62222970 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
62222986 TACA
1 TACA
62222990 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:62222963 original size:33 final size:32
Alignment explanation
Indices: 62222921--62222989 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
62222911 GATTAGCTAT
62222921 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
62222954 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
62222986 TACA
1 TACA
62222990 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:62225464 original size:18 final size:18
Alignment explanation
Indices: 62225424--62225466 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
62225414 TTAATACTTG
62225424 ATTTA-TTATTTTAATTT
1 ATTTATTTATTTTAATTT
*
62225441 AGTTATTTATTTTAATTGT
1 ATTTATTTATTTTAATT-T
62225460 -TTTATTT
1 ATTTATTT
62225467 GACTTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTATTTATTTTAATTT
Found at i:62227609 original size:120 final size:119
Alignment explanation
Indices: 62227465--62227706 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 119
62227455 AAGAAAAAGA
*
62227465 TGAAAAAAGAAAAGAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
*
62227530 AAACATAATCCTAATGTAATTAGGGGGGAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTA-GGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
62227585 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
62227650 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
62227704 TGA
1 TGA
62227707 TAATTTGCCC
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 34 0.28
120 86 0.72
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.19
Consensus pattern (119 bp):
TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
Found at i:62228808 original size:34 final size:33
Alignment explanation
Indices: 62228770--62228907 Score: 102
Period size: 34 Copynumber: 4.0 Consensus size: 33
62228760 TAAGAATTTT
62228770 AAAAAATAAATTAGGGTTTAGAGTTTTTTTTAAAA
1 AAAAAATAAATTAGGGTTTAGAG-TTTTTTT-AAA
* * * ** **
62228805 AAAATTAATTATATTAGGTTTTTG-GGGTTTAAAATA
1 AAAA--AA-TAAATTAGGGTTTAGAGTTTTTTTAA-A
62228841 AAAAAATTAAATTAGGGTTTAGAGTTTTTTTAAA
1 AAAAAA-TAAATTAGGGTTTAGAGTTTTTTTAAA
* *
62228875 AATTAATTAAATTAGGGTTT--AGTTTTTTTAAA
1 AA-AAAATAAATTAGGGTTTAGAGTTTTTTTAAA
62228907 A
1 A
62228908 TAATTTTGTG
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
32 13 0.16
34 31 0.38
35 14 0.17
36 8 0.10
37 3 0.04
38 12 0.15
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (33 bp):
AAAAAATAAATTAGGGTTTAGAGTTTTTTTAAA
Found at i:62228899 original size:32 final size:33
Alignment explanation
Indices: 62228845--62228907 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
62228835 AAAATAAAAA
62228845 AATTAAATTAGGGTTTAGAGTTTTTTTAAAAATT
1 AATTAAATTAGGGTTTA-AGTTTTTTTAAAAATT
62228879 AATTAAATTAGGGTTT-AGTTTTTTTAAAA
1 AATTAAATTAGGGTTTAAGTTTTTTTAAAA
62228908 TAATTTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAAGTTTTTTTAAAAATT
Found at i:62228912 original size:30 final size:31
Alignment explanation
Indices: 62228839--62228912 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 31
62228829 GGGTTTAAAA
*
62228839 TAAAAAAATTAAATTAGGGTTTAGAGTTTTTT
1 TAAAATAATTAAATTAGGGTTTA-AGTTTTTT
62228871 TAAAAATTAATTAAATTAGGGTTT-AGTTTTTT
1 T-AAAA-TAATTAAATTAGGGTTTAAGTTTTTT
62228903 TAAAATAATT
1 TAAAATAATT
62228913 TTGTGTTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 5 0.13
31 4 0.10
32 10 0.26
33 4 0.10
34 16 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (31 bp):
TAAAATAATTAAATTAGGGTTTAAGTTTTTT
Found at i:62229034 original size:12 final size:12
Alignment explanation
Indices: 62229017--62229043 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62229007 ACAGTTCTGA
62229017 AAAGATAATGTC
1 AAAGATAATGTC
62229029 AAAGATAATGTC
1 AAAGATAATGTC
62229041 AAA
1 AAA
62229044 ATAGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (12 bp):
AAAGATAATGTC
Found at i:62229159 original size:24 final size:23
Alignment explanation
Indices: 62229103--62229159 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
62229093 AAGAACTTCT
62229103 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
*
62229126 ATTTACTATT-CAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
62229151 ACTTTTATT
1 A-TTTTATT
62229160 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 9 0.31
25 13 0.45
26 3 0.10
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:62241186 original size:12 final size:11
Alignment explanation
Indices: 62241148--62241191 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
62241138 AACAAATTCG
62241148 AAAATAATATT
1 AAAATAATATT
**
62241159 AAGCTGAATATT
1 AAAAT-AATATT
62241171 AAAATAATATT
1 AAAATAATATT
62241182 AAAAATAATA
1 -AAAATAATA
62241192 ATTTGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:62241203 original size:98 final size:98
Alignment explanation
Indices: 62241079--62241486 Score: 816
Period size: 98 Copynumber: 4.2 Consensus size: 98
62241069 AATTTAAAAC
62241079 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
1 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
62241144 TTCGAAAATAATATTAAGCTGAATATTAAAATA
66 TTCGAAAATAATATTAAGCTGAATATTAAAATA
62241177 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
1 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
62241242 TTCGAAAATAATATTAAGCTGAATATTAAAATA
66 TTCGAAAATAATATTAAGCTGAATATTAAAATA
62241275 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
1 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
62241340 TTCGAAAATAATATTAAGCTGAATATTAAAATA
66 TTCGAAAATAATATTAAGCTGAATATTAAAATA
62241373 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
1 ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
62241438 TTCGAAAATAATATTAAGCTGAATATTAAAATA
66 TTCGAAAATAATATTAAGCTGAATATTAAAATA
62241471 ATATTAAAAATAATAA
1 ATATTAAAAATAATAA
62241487 ATATAAAAAA
Statistics
Matches: 310, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 310 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (98 bp):
ATATTAAAAATAATAATTTGAAAGAATTTAGGTATTATTTCTAAAAATATATACTAAAAAACAAA
TTCGAAAATAATATTAAGCTGAATATTAAAATA
Found at i:62241284 original size:12 final size:11
Alignment explanation
Indices: 62241246--62241289 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
62241236 AACAAATTCG
62241246 AAAATAATATT
1 AAAATAATATT
**
62241257 AAGCTGAATATT
1 AAAAT-AATATT
62241269 AAAATAATATT
1 AAAATAATATT
62241280 AAAAATAATA
1 -AAAATAATA
62241290 ATTTGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:62241382 original size:12 final size:11
Alignment explanation
Indices: 62241344--62241387 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
62241334 AACAAATTCG
62241344 AAAATAATATT
1 AAAATAATATT
**
62241355 AAGCTGAATATT
1 AAAAT-AATATT
62241367 AAAATAATATT
1 AAAATAATATT
62241378 AAAAATAATA
1 -AAAATAATA
62241388 ATTTGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:62241480 original size:12 final size:11
Alignment explanation
Indices: 62241442--62241485 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
62241432 AACAAATTCG
62241442 AAAATAATATT
1 AAAATAATATT
**
62241453 AAGCTGAATATT
1 AAAAT-AATATT
62241465 AAAATAATATT
1 AAAATAATATT
62241476 AAAAATAATA
1 -AAAATAATA
62241486 AATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:62241617 original size:21 final size:18
Alignment explanation
Indices: 62241591--62241634 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
62241581 ATCGAAGCTT
62241591 AAATAAAATTAGAATAGAAGA
1 AAATAAAATTA-AATA-AA-A
*
62241612 AAATAAGATTAAATAAAA
1 AAATAAAATTAAATAAAA
62241630 AAATA
1 AAATA
62241635 CAATGAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 4 0.18
21 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
AAATAAAATTAAATAAAA
Found at i:62244127 original size:108 final size:109
Alignment explanation
Indices: 62244015--62244269 Score: 282
Period size: 108 Copynumber: 2.3 Consensus size: 109
62244005 TTGAACAATT
* * *
62244015 AATTGTATAATTCAATT-GATTACGTTCGTAATTAGAGAT-AAGCATAAACGAGTAATGTCATTA
1 AATTGTATAATTC-ATTCGATCACGTTCATAATTAAAG-TCAAGCATAAACGAGTAATGTCATTA
* *
62244078 CATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTATTTATC
64 CATTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * ** ** *
62244123 AATTGTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTTACGAGTAATGTCATTATA
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
** * *
62244188 TTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACC
66 TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * * * *
62244232 AATTGTATAATTCCTCCAATTACGTTCATAATAAAAGT
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGT
62244270 TGCGCGTTGA
Statistics
Matches: 122, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
107 4 0.03
108 59 0.48
109 59 0.48
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (109 bp):
AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
Found at i:62244259 original size:109 final size:108
Alignment explanation
Indices: 62244062--62244269 Score: 290
Period size: 109 Copynumber: 1.9 Consensus size: 108
62244052 ATAAGCATAA
* *
62244062 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTATTTATCAATT
1 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
* * * *
62244127 GTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTT
66 GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
* ** * *
62244170 ACGAGTAATGTCATTATATTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACCAAT
1 ACGAGTAATGTCATTACATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTACTTACCAAT
* *
62244235 TGTATAATTCCTCCAATTACGTTCATAATAAAAGT
65 TGTATAATTCATCCAATCACGTTCATAATAAAAGT
62244270 TGCGCGTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 27 0.31
109 59 0.69
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (108 bp):
ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
Found at i:62246201 original size:51 final size:51
Alignment explanation
Indices: 62246144--62246480 Score: 426
Period size: 51 Copynumber: 6.6 Consensus size: 51
62246134 CATATAATAT
* * * *
62246144 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * *
62246195 TATACATAATCAGTACGTACACACTTTGCATAGACAGTTCACACATAGAAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* *
62246246 TTTACATAATCAGTACGCTCACACTTTGCATAGATAGTTCACACATA-AAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * *
62246296 CTTTACATAATCAGTTCGCACGCACTTTGCATGGATAGTTCACACATA-AAA
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * * * *
62246347 CTTTACAAAATCATTATGCACACACTTTGCATGGACAATTCACACATAGAAC
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * *
62246399 TTTACATAATCAGTATGCACATACTTTGCATAGACAGTTCACACATAGGAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
*
62246450 TTTACATAATCAATACGCACACACTTTGCAT
1 TTTACATAATCAGTACGCACACACTTTGCAT
62246481 TGATAGTTAT
Statistics
Matches: 251, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
50 2 0.01
51 247 0.98
52 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (51 bp):
TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
Found at i:62246405 original size:153 final size:153
Alignment explanation
Indices: 62246144--62246488 Score: 476
Period size: 153 Copynumber: 2.3 Consensus size: 153
62246134 CATATAATAT
* * * * *
62246144 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAATATACATAATCAGT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
* * *
62246209 ACGTACACACTTTGCATAGACAGTTCACACATAGAACTTTACATAATCAGTACGCTCACACTTTG
66 ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
*
62246274 CATAGATAGTTCACACATAAAAC
131 CATAGACAGTTCACACATAAAAC
* * * * * *
62246297 TTTACATAATCAGTTCGCACGCACTTTGCATGGATAGTTCACACATA-AAACTTTACAAAATCAT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAA-TATACAAAATCAG
* * * *
62246361 TATGCACACACTTTGCATGGACAATTCACACATAGAACTTTACATAATCAGTATGCACATACTTT
65 TACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTT
**
62246426 GCATAGACAGTTCACACATAGGAC
130 GCATAGACAGTTCACACATAAAAC
*
62246450 TTTACATAATCAATACGCACACACTTTGCATTGATAGTT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTT
62246489 ATGTTGGATC
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
152 3 0.02
153 163 0.98
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (153 bp):
TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
CATAGACAGTTCACACATAAAAC
Found at i:62246470 original size:27 final size:26
Alignment explanation
Indices: 62246389--62246470 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
62246379 GGACAATTCA
*
62246389 CACATAGAACTTTACATAATCAGTATG
1 CACATAG-ACTTTACATAATCAGTACG
* * *
62246416 CACAT--ACTTTGCATAGA-CAGTTCA
1 CACATAGACTTTACATA-ATCAGTACG
*
62246440 CACATAGGACTTTACATAATCAATACG
1 CACATA-GACTTTACATAATCAGTACG
62246467 CACA
1 CACA
62246471 CACTTTGCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
24 18 0.43
25 1 0.02
26 1 0.02
27 22 0.52
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (26 bp):
CACATAGACTTTACATAATCAGTACG
Done.