Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 86 of 161
Found at i:27183036 original size:20 final size:20
Alignment explanation
Indices: 27182998--27183036 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27182988 ATTCTACTAC
*
27182998 TAAATTTCTTTTTTTAAAAT
1 TAAATTTCTTTTTTAAAAAT
27183018 TAAATTTCTTTTTTAAAAA
1 TAAATTTCTTTTTTAAAAA
27183037 CTCGATAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATTTCTTTTTTAAAAAT
Found at i:27190201 original size:13 final size:13
Alignment explanation
Indices: 27190183--27190224 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
27190173 TAATTAAGAG
27190183 TTAAATTAATTTA
1 TTAAATTAATTTA
*
27190196 TTAAATTAATTGA
1 TTAAATTAATTTA
*
27190209 TTAAATAATATTTA
1 TTAAATTA-ATTTA
27190223 TT
1 TT
27190225 TTGAGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TTAAATTAATTTA
Found at i:27195153 original size:40 final size:40
Alignment explanation
Indices: 27195098--27195450 Score: 580
Period size: 40 Copynumber: 8.8 Consensus size: 40
27195088 GAGCATTGGA
27195098 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
27195138 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
27195178 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
27195218 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
27195258 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
27195298 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
27195338 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
27195378 ATATATCCGGGCTAAGACCCGAAGGCAATTATACAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
27195418 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
27195451 TTTGCGGCTG
Statistics
Matches: 291, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 291 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:27205159 original size:40 final size:40
Alignment explanation
Indices: 27205115--27205378 Score: 388
Period size: 40 Copynumber: 6.6 Consensus size: 40
27205105 AAGTGAATAT
* * * * **
27205115 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
27205155 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
27205195 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
27205235 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
27205275 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
27205315 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
27205354 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
27205379 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 35 0.17
40 176 0.83
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:27205213 original size:80 final size:80
Alignment explanation
Indices: 27205076--27205378 Score: 389
Period size: 80 Copynumber: 3.8 Consensus size: 80
27205066 TTGAATGCTG
* * * * * * *
27205076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
* * **
27205138 TTTGTGCGAGATACTAAA
63 TTCGTGCGAGTTGTTAAA
27205156 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
27205221 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
27205236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
27205301 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * ** * * *
27205316 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
27205379 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 34 0.17
80 160 0.79
81 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:27205289 original size:120 final size:119
Alignment explanation
Indices: 27205076--27205378 Score: 396
Period size: 120 Copynumber: 2.5 Consensus size: 119
27205066 TTGAATGCTG
* * * * * *
27205076 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
*
27205139 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
63 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
27205196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTC
* **
27205261 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * * * *
27205316 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATT
27205379 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
119 34 0.21
120 122 0.75
121 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:27208068 original size:37 final size:37
Alignment explanation
Indices: 27208025--27208138 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
27208015 CCACTGGATA
*
27208025 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
27208062 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
* * *
27208099 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTGGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
27208136 ATG
1 ATG
27208139 ACAGGTAGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.28
Consensus pattern (37 bp):
ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
Found at i:27208153 original size:37 final size:37
Alignment explanation
Indices: 27208025--27208156 Score: 169
Period size: 37 Copynumber: 3.6 Consensus size: 37
27208015 CCACTGGATA
*
27208025 ATGCCATATA-GTCGAGTCTGGCGGACCTCCTTAGATC
1 ATGCCATATAGGT-GAGTCTGGTGGACCTCCTTAGATC
27208062 ATGCCATATA-GTCGAGTCTGGTGGACCTCCTTAGATC
1 ATGCCATATAGGT-GAGTCTGGTGGACCTCCTTAGATC
* * *
27208099 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTGGATC
1 ATGCCATATAGGTGAGTCTGGTGGACCTCCTTAGATC
* **
27208136 ATGACAGGTAGGTGAGTCTGG
1 ATGCCATATAGGTGAGTCTGG
27208157 CAAATCACCC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 84 0.99
38 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.27
Consensus pattern (37 bp):
ATGCCATATAGGTGAGTCTGGTGGACCTCCTTAGATC
Found at i:27208171 original size:74 final size:74
Alignment explanation
Indices: 27208025--27208179 Score: 177
Period size: 74 Copynumber: 2.1 Consensus size: 74
27208015 CCACTGGATA
* * * * *** *
27208025 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATCATGCCATATAGTCGAGTCTGGTGGACCT
1 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATAGTCGAGTCTGGCAAACCA
*
27208090 CCTTAGATC
66 CCCTAGATC
* * * *
27208099 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTGGATCATGACAGGTAGGT-GAGTCTGGCAAATC
1 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATA-GTCGAGTCTGGCAAACC
27208163 ACCCTAGATC
65 ACCCTAGATC
27208173 ATGCCAT
1 ATGCCAT
27208180 GGCCATGGAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 65 0.97
75 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (74 bp):
ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATAGTCGAGTCTGGCAAACCA
CCCTAGATC
Found at i:27215516 original size:45 final size:45
Alignment explanation
Indices: 27215452--27215540 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
27215442 AACAGATACT
* *
27215452 TGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
27215497 TGGTGGAATCAGCAGATAGCAACCACCTTACTAATCAATGATGT
1 TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
27215541 TCGATTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:27215645 original size:51 final size:49
Alignment explanation
Indices: 27215551--27215736 Score: 183
Period size: 51 Copynumber: 3.7 Consensus size: 49
27215541 TCGATTCACA
** * ** * *
27215551 TAGTAGCCTGTACATTGTACTACACGTGTGACCATTATCATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA--AACATCCGGTACACG
* * *
27215602 TAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCAAAC-ATCCGGTACACG
* ** * * *
27215653 TAATAGCCTACACATAGTACTACACTTGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAAACA-TCCGGTACACG
27215703 TAGTAGCCTACACATAGTACTACACACGTGACCA
1 TAGTAGCCTACACATAGTACTACACACGTGACCA
27215737 TCACCTTCAC
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 43 0.40
51 62 0.57
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCAAACATCCGGTACACG
Found at i:27225455 original size:34 final size:31
Alignment explanation
Indices: 27225412--27225477 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 31
27225402 ATTATCACTA
*
27225412 TAATGGGCTAAGGCCCACATTGATACTGATACTG
1 TAATGGGCTAAGGCCCA-ACTGA-ACTGA-ACTG
27225446 TAATGGGCTAAGGCCCAACTGAACTGAACTG
1 TAATGGGCTAAGGCCCAACTGAACTGAACTG
27225477 T
1 T
27225478 TATTGAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 5 0.16
32 5 0.16
33 4 0.13
34 17 0.55
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (31 bp):
TAATGGGCTAAGGCCCAACTGAACTGAACTG
Found at i:27228703 original size:50 final size:50
Alignment explanation
Indices: 27228586--27229025 Score: 326
Period size: 50 Copynumber: 8.6 Consensus size: 50
27228576 ACAGGTGAAA
* ** * * * *
27228586 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGT-ATTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * ** * *
27228635 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* ** * * * * *
27228685 GCCATGTCCTAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * *
27228735 GTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAAT
** * * * *
27228791 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * * * ** * *
27228840 GCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
** ** * *
27228890 GCCATGTCCCAGACATTATCTTACGGGGGACCTCTTATCTCAGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * *
27228940 GTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAAT
*
27228996 GCCATGTCCCAGACATAGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
27229026 TCTTATTCCC
Statistics
Matches: 299, Mismatches: 78, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
49 71 0.24
50 150 0.50
53 5 0.02
56 73 0.24
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
Found at i:27228754 original size:100 final size:100
Alignment explanation
Indices: 27228628--27228978 Score: 368
Period size: 100 Copynumber: 3.5 Consensus size: 100
27228618 TTTCCTGTAT
* * **
27228628 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
* *
27228693 CTAGACATGGTCTTACGGGGGACCACTTATCTCGG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
* * * ** *
27228728 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCCATGC
** * *
27228793 CATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTAC
60 CATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTC-G--G
* * * * **
27228833 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
** *
27228898 CCAGACATTATCTTACGGGGGACCTCTTATCTCAG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
27228933 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
27228979 ACCTCAATAA
Statistics
Matches: 197, Mismatches: 41, Indels: 26
0.75 0.16 0.10
Matches are distributed among these distances:
99 32 0.16
100 78 0.40
101 4 0.02
102 5 0.03
103 6 0.03
104 3 0.02
105 36 0.18
106 33 0.17
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
Found at i:27228938 original size:205 final size:205
Alignment explanation
Indices: 27228586--27229026 Score: 765
Period size: 205 Copynumber: 2.2 Consensus size: 205
27228576 ACAGGTGAAA
* * *
27228586 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGTATTGCCAATGCCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
* * *
27228651 GGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* *
27228716 CACTTATCTCGGTGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
27228781 TAATGCCAAT
196 TAATGCCAAT
27228791 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
*
27228856 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATTATCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* * *
27228921 CTCTTATCTCAGTGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
27228986 TAATGCCAAT
196 TAATGCCAAT
*
27228996 GCCATGTCCCAGACATAGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT
27229027 CTTATTCCCT
Statistics
Matches: 223, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 223 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (205 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
TAATGCCAAT
Found at i:27235455 original size:19 final size:18
Alignment explanation
Indices: 27235431--27235480 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
27235421 TTGGGCTAGA
*
27235431 ATGGGCCAAAATGGACTGT
1 ATGGGCC-AAACGGACTGT
* *
27235450 ATGGGCCCAACGGGCTGT
1 ATGGGCCAAACGGACTGT
*
27235468 ATGGGCCCAACGG
1 ATGGGCCAAACGG
27235481 GCTTATGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (18 bp):
ATGGGCCAAACGGACTGT
Found at i:27235469 original size:18 final size:18
Alignment explanation
Indices: 27235446--27235488 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
27235436 CCAAAATGGA
27235446 CTGTATGGGCCCAACGGG
1 CTGTATGGGCCCAACGGG
27235464 CTGTATGGGCCCAACGGG
1 CTGTATGGGCCCAACGGG
27235482 CT-TATGG
1 CTGTATGG
27235489 ACCCCACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (18 bp):
CTGTATGGGCCCAACGGG
Found at i:27235494 original size:18 final size:18
Alignment explanation
Indices: 27235446--27235494 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
27235436 CCAAAATGGA
*
27235446 CTGTATGGGCCCAACGGG
1 CTGTATGGCCCCAACGGG
*
27235464 CTGTATGGGCCCAACGGG
1 CTGTATGGCCCCAACGGG
27235482 CT-TATGGACCCCA
1 CTGTATGG-CCCCA
27235495 CACAGGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (18 bp):
CTGTATGGCCCCAACGGG
Found at i:27241190 original size:44 final size:44
Alignment explanation
Indices: 27241127--27241484 Score: 278
Period size: 44 Copynumber: 8.0 Consensus size: 44
27241117 CGGTTTTAGT
* *
27241127 CTGCTCCACTACAACTTCAGAGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
*
27241171 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * *
27241215 CTGCTCTATTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * ** ** *
27241259 CTACTCCACTGTAACATCAGGGAGATAAGGTTTGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTTCA-A-C
* * * * * * *
27241306 TAATTCGACCTACTGCAATTTCAGAGG-TATAAGA-TT-CATCGTTTTAATC
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGACTTGTATC--TTCAA-C
* * * *
27241355 C-GCTCCACTACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* **
27241398 CTGCTCCATTGCAACTTCAAAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* * *
27241442 CTGCTCCACTGTAACTTCAGTGAGATAAGACTTGTAGCTTCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA
27241485 ATTGTTTTAC
Statistics
Matches: 249, Mismatches: 50, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
43 3 0.01
44 202 0.81
45 9 0.04
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 6 0.02
51 15 0.06
52 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:27241613 original size:44 final size:44
Alignment explanation
Indices: 27241565--27241862 Score: 172
Period size: 44 Copynumber: 6.9 Consensus size: 44
27241555 GATCCATCAT
* *
27241565 TTCAATCCGCTTCACTGCAACTTCAGGAAGATAGGATTGGTTTC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
* * * * * *
27241609 TTCAATCTGCTCCGCTGCAACTTTAAGG-AGATAAAACTGG---A
1 TTCAATCCGCTCCACTGCAAC-TTCAGGAAGATAAGATTGGTTTC
* * * * * * *
27241650 TGCGATCTGATCTACTGCAACTTCAGAGAA-ATAAGATCT-ATTTT
1 TTCAATCCGCTCCACTGCAACTTCAG-GAAGATAAGAT-TGGTTTC
* * *
27241694 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
** * * *
27241738 TTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTTGC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
* * *
27241782 GATC--TGCGCT--ACTGCAACTTCA-GAGAGATAAGATCTGTGGTT-
1 -TTCAATCCGCTCCACTGCAACTTCAGGA-AGATAAGAT-TG-GTTTC
* * * *
27241824 TT-AATCCGCTCCACTACAACTTTAGGGAGATAGGATTGG
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGG
27241863 CTTCATTGAT
Statistics
Matches: 188, Mismatches: 48, Indels: 38
0.69 0.18 0.14
Matches are distributed among these distances:
40 6 0.03
41 43 0.23
42 10 0.05
43 11 0.06
44 110 0.59
45 8 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
Found at i:27241643 original size:129 final size:129
Alignment explanation
Indices: 27241521--27241862 Score: 454
Period size: 129 Copynumber: 2.7 Consensus size: 129
27241511 TAAAATCCGG
* * * * *
27241521 TGCGGTCTACTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTCAATCCGCTTCACTGCAAC
1 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
* *
27241586 TTCAGGAAGATAGGATTGGTTTCTTCAATCTGCTCCGCTGCAACTTTAAGG-AGATAAAACTGGA
66 TTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAAC-TTAAGGAAGATAAAACTGGA
* **
27241650 TGCGATCTGA-TCTACTGCAACTTCAGAGAAATAAGATCTATTTTTTTAATCCGCTCCACTGCAA
1 TGCGATCT-ACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAA
** * * *
27241714 CTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGT
65 CTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAAACTGGA
* * * ** *
27241779 TGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAAC
1 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
*
27241844 TTTAGGGAGATAGGATTGG
66 TTCAGGGAGATAGGATTGG
27241863 CTTCATTGAT
Statistics
Matches: 187, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
128 5 0.03
129 181 0.97
130 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
TTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAAACTGGA
Found at i:27241931 original size:45 final size:45
Alignment explanation
Indices: 27241872--27242124 Score: 334
Period size: 45 Copynumber: 5.7 Consensus size: 45
27241862 GCTTCATTGA
* *
27241872 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * *
27241917 TATGCTTCGTTGTCAGTACAGGAAGGCAAGGTC-GGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
27241960 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * *
27242006 TCTGCTCCGCTGTCAGTATAGGAAGGTAAG-GCTGGTATCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* **
27242049 ATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
*
27242095 TCTGCTCCGCTGTCAGTACAGGAAGGCAAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG
27242125 GCTGGTGTCT
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.01
44 76 0.42
45 102 0.56
46 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
Found at i:27242021 original size:89 final size:89
Alignment explanation
Indices: 27241870--27242134 Score: 424
Period size: 89 Copynumber: 3.0 Consensus size: 89
27241860 TGGCTTCATT
* * * *
27241870 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGTTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
27241935 CAGGAAGGCAAGG-TCGGTGTCTTC
66 CAGGAAGGCAAGGCT-GGTGTCTTC
*
27241959 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAGTCTGCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
* * *
27242024 TAGGAAGGTAAGGCTGGTATCTTC
66 CAGGAAGGCAAGGCTGGTGTCTTC
* *
27242048 GATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
27242113 CAGGAAGGCAAGGCTGGTGTCT
66 CAGGAAGGCAAGGCTGGTGTCT
27242135 ATTTTTATGC
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
89 160 0.99
90 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (89 bp):
GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
CAGGAAGGCAAGGCTGGTGTCTTC
Found at i:27243006 original size:19 final size:20
Alignment explanation
Indices: 27242970--27243015 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
27242960 TAATTTACCC
* *
27242970 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTGTTAATTTAAT
27242990 ATTTTT-TTGTTAATTTAAT
1 ATTTTTATTGTTAATTTAAT
27243009 -TTTTTAT
1 ATTTTTAT
27243016 ATTCTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTTATTGTTAATTTAAT
Found at i:27245848 original size:18 final size:18
Alignment explanation
Indices: 27245825--27245861 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27245815 AAATATAGTA
27245825 TTTTATTTTTAGTTTTAG
1 TTTTATTTTTAGTTTTAG
*
27245843 TTTTATTTTTATTTTTAG
1 TTTTATTTTTAGTTTTAG
27245861 T
1 T
27245862 ACTTTAAAAA
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTAGTTTTAG
Found at i:27247078 original size:27 final size:27
Alignment explanation
Indices: 27247047--27247138 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
27247037 CATCCTATTA
* *
27247047 GCCTTTATGGCATACTTTGAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
27247074 GCCTTTGCGGCGTACTCTAAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
27247101 GCGTTTTTGGCGTACTTTGAAAAGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
27247128 GCCTTTGTGGC
1 GCCTTTGTGGC
27247139 TTATCCTGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTTTGAAAGGAAT
Found at i:27251042 original size:21 final size:22
Alignment explanation
Indices: 27251000--27251044 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27250990 TTATGTTTAG
27251000 AAATTGAAAACTTTTAATATAA
1 AAATTGAAAACTTTTAATATAA
27251022 AAATTGAAAA-TTTTGAA-ATAA
1 AAATTGAAAACTTTT-AATATAA
27251043 AA
1 AA
27251045 TCAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATTGAAAACTTTTAATATAA
Found at i:27251099 original size:17 final size:18
Alignment explanation
Indices: 27251079--27251118 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27251069 AATTTAATGC
* *
27251079 AAAAAA-TATTAAATTTT
1 AAAAAATTATGAAAATTT
27251096 AAAAAATTATGAAAATTT
1 AAAAAATTATGAAAATTT
27251114 AAAAA
1 AAAAA
27251119 TACTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAAATTATGAAAATTT
Found at i:27251127 original size:17 final size:16
Alignment explanation
Indices: 27251080--27251134 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
27251070 ATTTAATGCA
*
27251080 AAAAATATTAAATTTT
1 AAAAATATTAAAATTT
*
27251096 AAAAAATTATGAAAATTT
1 -AAAAA-TATTAAAATTT
*
27251114 AAAAATACTTAAAAGTT
1 AAAAATA-TTAAAATTT
27251131 AAAA
1 AAAA
27251135 GAAAAACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAAATATTAAAATTT
Found at i:27253239 original size:28 final size:28
Alignment explanation
Indices: 27253199--27253255 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
27253189 ACTAATCATC
*
27253199 ACTCTTAATTTTCTCTAATTATAGTTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
27253227 ACTCTTAATTTTCTCTAATTATAGCTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
27253255 A
1 A
27253256 AAAATGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
ACTCTTAATTTTCTCTAATTATAGCTGG
Found at i:27255560 original size:24 final size:24
Alignment explanation
Indices: 27255533--27255579 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27255523 AAATCAATTA
*
27255533 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
27255557 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
27255580 AATAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:27257488 original size:44 final size:43
Alignment explanation
Indices: 27257425--27257739 Score: 231
Period size: 44 Copynumber: 7.0 Consensus size: 43
27257415 CAGTTTTAGT
27257425 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAAC
*
27257469 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTATCTTCAAC
* * ** *
27257513 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTGGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTCA-A-C
* * * * * * * *
27257560 TAATTCGACCTACTGTAATTTCAGAGG-TATAAGATT-CATCGTTTTAATC
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGATTGTATC--TTCAA-C
* * * * *
27257609 C-ACTCCACTGCAACTTCAGGGAGATAGGATAAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTATCTTCAAC
* * *
27257652 CTGCTCCATTGCAACTTTAGAGAGATAAGATTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAAC
* * *
27257696 CTGCTCCACTGCAACTTCAGTGAGATAGGACTTGTAGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAAC
27257740 TTGTTTTACT
Statistics
Matches: 210, Mismatches: 43, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
43 6 0.03
44 159 0.76
45 10 0.05
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 4 0.02
51 17 0.08
52 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAAC
Found at i:27257935 original size:41 final size:41
Alignment explanation
Indices: 27257867--27258025 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 41
27257857 GGTTTCTTCA
* * *
27257867 ATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTGGATGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
* *** ***
27257908 ATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAG----ATTGGATGCG
* * * * *
27257953 ATCCGCTCCACTGCAACTTTAGGGA-ATAAGACTGGATGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
27257993 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
27258026 CTGTGGTTTT
Statistics
Matches: 86, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
40 24 0.28
41 33 0.38
44 5 0.06
45 24 0.28
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
Found at i:27257982 original size:85 final size:85
Alignment explanation
Indices: 27257877--27258072 Score: 322
Period size: 85 Copynumber: 2.3 Consensus size: 85
27257867 ATCTGCTCTG
*
27257877 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTTCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
* **
27257942 TATTTTTTTTAATCCGCTCCA
66 T-GTGGTTTTAATCCGCTCCA
*
27257963 CTGCAACTTTAGGGA-ATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
27258027 TGTGGTTTTAATCCGCTCCA
66 TGTGGTTTTAATCCGCTCCA
*
27258047 CTGCAACTTTAGGGAGATAGGATTGG
1 CTGCAACTTTAGGGAGATAAGATTGG
27258073 CTTCTTTGAT
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 31 0.30
85 56 0.55
86 15 0.15
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (85 bp):
CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
TGTGGTTTTAATCCGCTCCA
Found at i:27258051 original size:129 final size:127
Alignment explanation
Indices: 27257788--27258065 Score: 290
Period size: 129 Copynumber: 2.2 Consensus size: 127
27257778 GGTCTACTCT
* *
27257788 ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAG
1 ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAA
* * * * * * * ** *
27257853 GATTGGTTTCTTCAATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTGGATGCGATCTTCTCT
66 GACTGG--TATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCAATCCGCTCC
* * * * *
27257917 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTAATCCGCTCCACTGCAACTTTAGGGA-ATA
1 ACTGCAACTTTAGAGAGATAAGATCCA-TTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATA
* * **
27257981 AGACTGG-ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
65 AGACTGGTATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA--T-TGGATGCAATCCGCTC
27258045 C
127 C
*
27258046 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGAGAGATA
27258066 GGATTGGCTT
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
126 31 0.25
128 1 0.01
129 61 0.50
130 29 0.24
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (127 bp):
ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAA
GACTGGTATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCAATCCGCTCC
Found at i:27258065 original size:44 final size:43
Alignment explanation
Indices: 27257788--27258065 Score: 176
Period size: 44 Copynumber: 6.5 Consensus size: 43
27257778 GGTCTACTCT
* * *
27257788 ACTGCAACTTTAGAGAGATAAGATCCATT-ATTTTAATCCGCTTC
1 ACTGCAACTTTAGGGAGATAAGAT-C-TTGGTTTTAATCCGCTCC
* * * * *
27257832 ACTGCAACTTCAGGAAGATAGGA--TTGGTTTCTTCAATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGG-TT-TT-AATCCGCTCC
* * *** ** *
27257876 GCTGCAACTTTAGGGAGATAAGA--TTGGATGCGATCTTCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* * **
27257917 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATC--TTGGTTTTAATCCGCTCC
* *** * *
27257962 ACTGCAACTTTAGGGA-ATAAGA-C-TGGATGCGATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* *
27258002 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATCT-TGGTTTTAATCCGCTCC
27258046 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGGGAGATA
27258066 GGATTGGCTT
Statistics
Matches: 173, Mismatches: 49, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
40 25 0.14
41 34 0.20
42 3 0.02
43 4 0.02
44 84 0.49
45 23 0.13
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
Found at i:27258183 original size:44 final size:45
Alignment explanation
Indices: 27258075--27258480 Score: 479
Period size: 45 Copynumber: 9.1 Consensus size: 45
27258065 AGGATTGGCT
* * * *
27258075 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * *
27258120 TCTTC-AGTATGCTTCGCTGTCAGTATAGGAAGGCAAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
27258164 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
27258209 TCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAG-GCTAG-TA
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCT-GCTA
*
27258253 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * * *
27258298 TCTTC-AGTCTGCTCCGCTGTCAATACAGGAAGGCAAG-GTTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* *
27258342 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * * * *
27258387 TTTTC-AGTCTGCTTCACTATCAGTACAAGAAGGCAAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
27258431 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
27258476 TCTTC
1 TCTTC
27258481 ACTAATCTGT
Statistics
Matches: 302, Mismatches: 45, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
44 149 0.49
45 153 0.51
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
Found at i:27258231 original size:89 final size:89
Alignment explanation
Indices: 27258075--27258481 Score: 670
Period size: 89 Copynumber: 4.6 Consensus size: 89
27258065 AGGATTGGCT
* * * * *
27258075 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
27258140 CAGTATAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
27258164 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
27258229 CAGTACAGGAAGGCAAGGCTAGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
27258253 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
27258318 CAATACAGGAAGGCAAGGTTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* * * * *
27258342 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTATTTTCAGTCTGCTTCACTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
27258407 CAGTACAAGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
27258431 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
27258482 CTAATCTGTT
Statistics
Matches: 296, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 296 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:27258785 original size:24 final size:24
Alignment explanation
Indices: 27258758--27258811 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
27258748 TTGCCCCCAA
27258758 TGTAATCTTCAAAGTTCAATCCAC
1 TGTAATCTTCAAAGTTCAATCCAC
* *
27258782 TGTAATCTTCAAGGTTCAGTCCAC
1 TGTAATCTTCAAAGTTCAATCCAC
27258806 TGTAAT
1 TGTAAT
27258812 TTTGGTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (24 bp):
TGTAATCTTCAAAGTTCAATCCAC
Found at i:27259728 original size:11 final size:10
Alignment explanation
Indices: 27259712--27259746 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
27259702 TTCATGCTTC
27259712 TTTTCTTTTCT
1 TTTTCTTTT-T
27259723 TTTTCTTTTT
1 TTTTCTTTTT
*
27259733 GTTTCTTTTT
1 TTTTCTTTTT
27259743 TTTT
1 TTTT
27259747 TCAAGTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:27259730 original size:16 final size:17
Alignment explanation
Indices: 27259709--27259748 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
27259699 TTTTTCATGC
27259709 TTCTTTTCT-TTTCTTT
1 TTCTTTTCTGTTTCTTT
27259725 TTCTTTT-TGTTTCTTT
1 TTCTTTTCTGTTTCTTT
*
27259741 TTTTTTTC
1 TTCTTTTC
27259749 AAGTTAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTCTTTTCTGTTTCTTT
Found at i:27262018 original size:40 final size:40
Alignment explanation
Indices: 27261935--27262157 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
27261925 TTGAATGCTG
* * * * * *
27261935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
27261975 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
27262015 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
27262055 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27262095 TCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
27262134 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27262158 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:27262177 original size:79 final size:80
Alignment explanation
Indices: 27262010--27262192 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
27262000 GTGCGAGATA
* * *
27262010 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
27262075 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
27262090 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
27262154 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
27262169 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
27262193 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:27268032 original size:87 final size:87
Alignment explanation
Indices: 27267896--27268140 Score: 228
Period size: 87 Copynumber: 2.8 Consensus size: 87
27267886 CTTCGGTCTA
* ** * * *
27267896 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACCTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAACCTCAGAGAGA
* *
27267959 TAAGGTCCTTT-ATTTTAATCCG
66 TAAGAT-CTTTGACTTTAATCCG
* * * * *
27267981 CTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAACCTCAGAGAGA
* *
27268046 TAAGATCTTTGGCTTTAATCTG
66 TAAGATCTTTGACTTTAATCCG
* * * * * *
27268068 CTCCACTGTAACCTCTGGGAGATAAGAT-TTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAACCTCAGGGAGATAGGATAGTG----TCTTCGATCTACTCCGCTGTAACCTCAGA
27268132 GAGATAAGA
62 GAGATAAGA
27268141 CCTCATGCGA
Statistics
Matches: 129, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
85 24 0.19
86 8 0.06
87 63 0.49
90 34 0.26
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAACCTCAGAGAGA
TAAGATCTTTGACTTTAATCCG
Found at i:27268167 original size:174 final size:174
Alignment explanation
Indices: 27267987--27268655 Score: 738
Period size: 174 Copynumber: 3.9 Consensus size: 174
27267977 TCCGCTCCAT
* * * * ** * * *
27267987 TGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAG
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGG
* * * * * *
27268050 ATCTTTGGCTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTAC
65 AT-TCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGC
* *
27268115 TCCACTGTAACCTCAGGGAGATAAGACCTCATGCGATCTACTCTGC
129 TCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
* * * *
27268161 TGTAACTTTAGAGAGATAAGATCCTTTATTTTAATTCGCTCCA-TGTAACTTCAGGGAGATAGGA
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA
** * * * * * * *
27268225 TAGTGTCTTCAATCTGTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCC
66 TTCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTC
* *
27268290 CACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTAC
131 CACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
*
27268334 TGTAACTTCAGAGAGATAAGAT-CTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 TGTAACTTCAGAGAGATAAGATACTTT-ACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
* * *
27268398 ATAGTCT--CTTCGATTTGCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTG
65 AT--TCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
* * *
27268461 CTCCACTATAATCTCAGGGAGATAAGACCTAATGCGATCTACTCTAT
128 CTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
* *
27268508 TGTAACTTCAGAGAGAAAAGAT-C----CTTTAATCCACTCCACTGTAA-TCTCAGGGAGATAGG
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGG
* * * * **
27268567 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTG
65 ATT-CTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTG
27268629 CTCCACTGTAACCTCAGGGAGATAAGA
128 CTCCACTGTAACCTCAGGGAGATAAGA
27268656 TCTGAAATTC
Statistics
Matches: 425, Mismatches: 59, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
167 2 0.00
168 36 0.08
169 34 0.08
170 36 0.08
172 4 0.01
173 127 0.30
174 175 0.41
175 10 0.02
176 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (174 bp):
TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA
TTCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTC
CACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
Found at i:27268295 original size:173 final size:174
Alignment explanation
Indices: 27268062--27268655 Score: 780
Period size: 174 Copynumber: 3.5 Consensus size: 174
27268052 CTTTGGCTTT
* * * * *
27268062 AATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
* * *
27268127 TCAGGGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
27268192 TAATTCGCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTC
131 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
* * * * * *
27268235 AATCTGTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
*
27268300 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTAATT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT-ATT
*
27268364 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTC
130 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
* * * *
27268409 GATTTGCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
* *
27268474 TCAGGGAGATAAGACCTAATGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-----TT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
* *
27268534 TAATCCACTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTC
131 TAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGT-GTCTTC
* * * ** *
27268579 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTGCTCCACTGTAAT
27268641 CTCAGGGAGATAAGA
65 CTCAGGGAGATAAGA
27268656 TCTGAAATTC
Statistics
Matches: 372, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
167 1 0.00
168 34 0.09
169 33 0.09
170 39 0.10
172 4 0.01
173 122 0.33
174 138 0.37
175 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
Found at i:27268383 original size:217 final size:214
Alignment explanation
Indices: 27267840--27268395 Score: 553
Period size: 218 Copynumber: 2.6 Consensus size: 214
27267830 GATTAGTTAT
* * * * * * *
27267840 CTTTAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGT
* * * * ** * *
27267905 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGGTCCTTT
63 AACCTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTT
* *
27267970 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA
128 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAA
27268035 TCTCAGGGAGATAAGATCTTTGG
193 TCTCAGGGAGATAAGATCTTT-G
* * ** * *
27268058 CTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGT
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGT
* * * * ** *
27268123 AACCTCAGGGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTT
63 AACCTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTT
* * * *
27268188 ATTTTAATTCGCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGTTTCACTGTTA
128 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAA
27268252 TCTCAGGGAGATAAGATCTGAAATT-
193 TCTCAGGGAGATAAGATCT----TTG
* ** * *
27268277 TTTTGGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTG-A-TGCGATCTACTCTACTGTAAC
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAAC
* * ** * *
27268340 TTCAGAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
66 CTCAGAGAGATAAGA-C-CTAA-TGCAATCCACTCCACTGTAACTTCAGAGAGATA
27268396 GGATAGTCTC
Statistics
Matches: 292, Mismatches: 39, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
214 31 0.11
215 1 0.00
216 2 0.01
217 87 0.30
218 136 0.47
219 33 0.11
221 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (214 bp):
CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAAC
CTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATT
TTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAATCT
CAGGGAGATAAGATCTTTG
Found at i:27268647 original size:214 final size:214
Alignment explanation
Indices: 27268366--27268878 Score: 705
Period size: 214 Copynumber: 2.4 Consensus size: 214
27268356 CTTTAATTTT
* * * * * *
27268366 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATAGTCT--CTTCGATTTGCTCCACTGTAATC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACC
* * *
27268428 TCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAGGGAGATAAGACCTAA
64 TCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTAA
*
27268493 TGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-TTTAATCCACTCCACTGTAA-TCTC
129 TGCGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCCTTTTAATCCACTCCACTGTAACT-TC
27268556 AGGGAGATAGGATTACTAG-CTTC
193 AGGGAGATAGGA-TACT-GTCTTC
*
27268579 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
* *
27268644 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
66 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTAATG
* * * *
27268709 CGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
131 CGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCC----TTTTAATCCACTCCACTGTAACTT
*
27268774 CAGGGAGATAGGATAGTGTCTTC
192 CAGGGAGATAGGATACTGTCTTC
* * *
27268797 GATCTGCTCCACTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
*
27268862 AGGGAGATAAGACCTGA
66 AGGGAGATAAGATCTGA
27268879 TGCGATCTAC
Statistics
Matches: 267, Mismatches: 23, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
212 3 0.01
213 29 0.11
214 116 0.43
217 1 0.00
218 84 0.31
219 33 0.12
220 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (214 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTAATG
CGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCCTTTTAATCCACTCCACTGTAACTTCAGG
GAGATAGGATACTGTCTTC
Found at i:27268677 original size:347 final size:341
Alignment explanation
Indices: 27268066--27268701 Score: 803
Period size: 347 Copynumber: 1.8 Consensus size: 341
27268056 GGCTTTAATC
* * *
27268066 TGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACCTCAG
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAG
* * * *
27268131 GGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAAT
66 GGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCC----TTTTAAT
* * * * * *
27268196 TCGCTCCATGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGTTTCACTGTTATCTCAGGGA
127 CCACTCCATGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTGCTCCACTGTAATCTCAGGGA
** *** *
27268261 GATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATC
192 GATAAGATCT--AATGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
* *
27268326 TACTCTACTGTAACTTCAGAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGG
255 TACTCCACTGTAACCTCAGAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGG
27268391 AGATAGGATAGTCTCTTCGATT
320 AGATAGGATAGTCTCTTCGATT
* * * *
27268413 TGCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAG
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAG
*
27268478 GGAGATAAGACCTAATGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-TTTAATCCAC
66 GGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCCTTTTAATCCAC
*
27268542 TCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAGGGA
131 TCCA-TGTAACT-TCAGGGAGATAGGA-TACT-GTCTTCAATCTGCTCCACTGTAATCTCAGGGA
* * * *
27268605 GATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
192 GATAAGATCTAAT-GCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGC
* *
27268669 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA
251 GATCTACTCCACTGTAACCTCAGAGAGATAAGA
27268702 CCTGATGCGA
Statistics
Matches: 246, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
341 1 0.00
342 47 0.19
343 19 0.08
344 40 0.16
345 1 0.00
347 138 0.56
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (341 bp):
TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAG
GGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGAAAAGATCCTTTTAATCCAC
TCCATGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTGCTCCACTGTAATCTCAGGGAGATA
AGATCTAATGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCC
ACTGTAACCTCAGAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
GATAGTCTCTTCGATT
Found at i:27268800 original size:87 final size:87
Alignment explanation
Indices: 27268709--27268984 Score: 326
Period size: 87 Copynumber: 3.2 Consensus size: 87
27268699 AGACCTGATG
*
27268709 CGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
1 CGATCTACTCCGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
27268774 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
* * * * * *** * * *
27268796 CGATCTGCTCCACTATAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTACTCCACTGTAAC
1 CGATCTACTCCGCTGTAACT-TTAGAGAGATAAGATCCT-TTATTTTAATCCACTCTACTGTAAC
* * ** * *
27268859 CTCAGGGAGATAAGA-CCTG-ATG
64 TTCAGGGAGATAGGATAGTGTCTT
*
27268881 CGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
1 CGATCTACTCCGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
27268946 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
*
27268968 CGATCTGCTCCGCTGTA
1 CGATCTACTCCGCTGTA
27268985 CTCTCAGGGC
Statistics
Matches: 145, Mismatches: 38, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
85 60 0.41
86 10 0.07
87 75 0.52
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTT
CAGGGAGATAGGATAGTGTCTT
Found at i:27268912 original size:172 final size:171
Alignment explanation
Indices: 27268619--27269006 Score: 641
Period size: 172 Copynumber: 2.2 Consensus size: 171
27268609 AGATCTCTGG
* * * * **
27268619 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTGCTTCAATCTACTCCACTGT
27268684 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTT
63 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTT
27268749 ATTTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT
128 ATTTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT
*
27268793 CTTCGATCTGCTCCACTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAA
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT-GCTTCAATCTACTCCACTGTAA
27268858 CCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTAT
65 CCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTAT
27268923 TTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT
130 TTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT
* * * *
27268965 CTTCGATCTGCTCCGCTGTACTCTCAGGGCGATAAGCTCTCT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
27269007 AATTCTTCAG
Statistics
Matches: 201, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
171 1 0.00
172 163 0.81
174 37 0.18
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (171 bp):
CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGCTTCAATCTACTCCACTGTAAC
CTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATT
TTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT
Found at i:27268940 original size:85 final size:85
Alignment explanation
Indices: 27268674--27268955 Score: 334
Period size: 85 Copynumber: 3.3 Consensus size: 85
27268664 TCTTCGGTCT
27268674 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGAT
1 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGAT
27268739 AAGATCCTTTATTTTAATCC
66 AAGATCCTTTATTTTAATCC
* * * ** * * * ** * * *
27268759 ACTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTATAA-TCTCAGGGA
1 ACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACT-TTAGAGA
*** * *
27268823 GATAAGAT-CTCTGGCTTCAATCT
63 GATAAGATCCT-TTATTTTAATCC
27268846 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGAT
1 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGAT
27268911 AAGATCCTTTATTTTAATCC
66 AAGATCCTTTATTTTAATCC
* *
27268931 ACTCTACTGTAACTTCAGGGAGATA
1 ACTCCACTGTAACCTCAGGGAGATA
27268956 GGATAGTGTC
Statistics
Matches: 153, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
85 83 0.54
86 10 0.07
87 60 0.39
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (85 bp):
ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGAT
AAGATCCTTTATTTTAATCC
Found at i:27268954 original size:44 final size:44
Alignment explanation
Indices: 27267892--27268955 Score: 279
Period size: 44 Copynumber: 24.6 Consensus size: 44
27267882 AATTCTTCGG
* * * * *
27267892 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * * *
27267933 TCTACTCTGCTGTAACCTCAGAGAGATAAGGTCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
** * * * ** * *
27267977 TCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* ** * *
27268020 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTTTGGCTTTAA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCTTT-ACTTCAA
* * * * * **
27268064 TCTGCTCCACTGTAACCTCTGGGAGATAAGAT--TTGAAATTCTTCGG
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTT----TACTTCAA
* * * * *
27268110 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TCA-TGCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * *
27268151 TCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * ** *
27268195 T-T-CGCTCCATGTAACTTCAGGGAGATAGGATAGTGT-CTTCAA
1 TCTACTCTAC-TGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * ***
27268237 TCT-GTTTCACTGTTA-TCTCAGGGAGATAAGAT-CTGAAATT-TTTTGG
1 TCTACTCT-ACTGTAACT-TCAGGGAGATAAGATCCT----TTACTTCAA
* * * * * *
27268283 TCTGCCCCACTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TGCGA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCTTTACTTCAA
* * *
27268324 TCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTAATTTTAA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTT-ACTTCAA
** * * ** * *
27268368 TCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTCT-CTTCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * **
27268411 TTTGCTCCACTGTAA-TCTCAGGGAGATGAGAT-CTGAAATT-CTTCGG
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCT----TTACTTCAA
* * * * * *
27268457 TCTGCTCCACTATAA-TCTCAGGGAGATAAGA-CC--TAATGCGA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCTTTACTTCAA
* * *
27268498 TCTACTCTATTGTAACTTCAGAGAGAAAAGATCC--T--TT-AA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * *
27268537 TCCACTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTAGCTTCAA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCT-TTA-CTTCAA
* ** **
27268581 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCT-TTACTTCAA
* * * **
27268625 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATT-CTTCGG
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCT----TTACTTCAA
* * * * *
27268671 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * *
27268712 TCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * ** * *
27268756 TCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * **
27268799 TCTGCTCCACTATAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAA
1 TCTACTCTACTGTAACT-TCAGGGAGATAAGATCCT-TTACTTCAA
* * * * *
27268843 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
* * * * *
27268884 TCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
*
27268928 TCCACTCTACTGTAACTTCAGGGAGATA
1 TCTACTCTACTGTAACTTCAGGGAGATA
27268956 GGATAGTGTC
Statistics
Matches: 760, Mismatches: 195, Indels: 133
0.70 0.18 0.12
Matches are distributed among these distances:
38 1 0.00
39 25 0.03
40 3 0.00
41 170 0.22
42 34 0.04
43 141 0.19
44 249 0.33
45 3 0.00
46 132 0.17
47 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTACTCTACTGTAACTTCAGGGAGATAAGATCCTTTACTTCAA
Found at i:27270259 original size:7 final size:7
Alignment explanation
Indices: 27270247--27270294 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
27270237 TTAGCCTCTC
27270247 CATTTTT
1 CATTTTT
27270254 CATTTTT
1 CATTTTT
*
27270261 CATTCTT
1 CATTTTT
27270268 -ATTTTT
1 CATTTTT
27270274 CATTTTTT
1 CA-TTTTT
*
27270282 CA-TTCT
1 CATTTTT
27270288 CATTTTT
1 CATTTTT
27270295 TTTACTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.29
7 17 0.50
8 7 0.21
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:27270273 original size:21 final size:21
Alignment explanation
Indices: 27270247--27270294 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
27270237 TTAGCCTCTC
27270247 CATTTTTCA-TTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
*
27270267 TATTTTTCATTTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
27270288 CATTTTT
1 CATTTTT
27270295 TTTACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTTTCATTCT
Found at i:27271205 original size:18 final size:18
Alignment explanation
Indices: 27271184--27271236 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
27271174 TTAATTTTTC
27271184 TTTTTCTTCTTTTTTGAT
1 TTTTTCTTCTTTTTTGAT
*
27271202 TTTTT-TTCTGCTTTTGAT
1 TTTTTCTTCT-TTTTTGAT
27271220 TTTGATTCTTCTTTTTT
1 TTT--TTCTTCTTTTTT
27271237 CTTTTCCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
20 6 0.21
21 4 0.14
ACGTcount: A:0.06, C:0.11, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTGAT
Found at i:27271222 original size:53 final size:53
Alignment explanation
Indices: 27271160--27271262 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 53
27271150 CTTCTATTTT
*
27271160 CTTTTATTTTGATT-TTAATTTTTCTTTTTCTTC-TTTTTTGATTTTTTTTCTG
1 CTTTTATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTG-TTTTTTTTCTG
**
27271212 CTTTTGATTTTGATTCTTCTTTTTTCTTTTCCTTCTTTTTTTGTTTTTTTT
1 CTTTT-ATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTGTTTTTTTT
27271263 ATGGAATCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 5 0.11
53 9 0.20
54 24 0.53
55 7 0.16
ACGTcount: A:0.07, C:0.12, G:0.06, T:0.76
Consensus pattern (53 bp):
CTTTTATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTGTTTTTTTTCTG
Found at i:27271252 original size:47 final size:45
Alignment explanation
Indices: 27271141--27271262 Score: 104
Period size: 47 Copynumber: 2.6 Consensus size: 45
27271131 TTTTTCTTCC
* *
27271141 TTTCTTTTTCTTCTATTTTCTTTTATTTTGATTTTAATTTTTCTTTT
1 TTTC-TTTTCTTCT-TTTTTTTTTATTTTGATTTTAATTCTTCTTTT
* ** *
27271188 TCTTCTTTT-TTGATTTTTTTTCTGCTTTTGATTTTGATTCTTC-TTT
1 T-TTCTTTTCTT-CTTTTTTTT-TTATTTTGATTTTAATTCTTCTTTT
*
27271234 TTTCTTTTCCTTCTTTTTTTGTTTTTTTT
1 TTTCTTTT-CTTCTTTTTTT-TTTATTTT
27271263 ATGGAATCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
45 7 0.12
46 24 0.40
47 26 0.43
48 3 0.05
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (45 bp):
TTTCTTTTCTTCTTTTTTTTTTATTTTGATTTTAATTCTTCTTTT
Found at i:27271259 original size:18 final size:17
Alignment explanation
Indices: 27271178--27271259 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
27271168 TTGATTTTAA
*
27271178 TTTTTCTTTTTCTTC-T
1 TTTTTGTTTTTCTTCTT
* *
27271194 TTTTTGATTTTTTTTCTG
1 TTTTTG-TTTTTCTTCTT
*
27271212 CTTTTGATTTTGATTCTTC-T
1 TTTTTG--TTT--TTCTTCTT
* *
27271232 TTTTTCTTTTCCTTCTT
1 TTTTTGTTTTTCTTCTT
27271249 TTTTTGTTTTT
1 TTTTTGTTTTT
27271260 TTTATGGAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
16 10 0.21
17 18 0.38
18 8 0.17
19 3 0.06
20 4 0.08
21 5 0.10
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTGTTTTTCTTCTT
Found at i:27275638 original size:114 final size:109
Alignment explanation
Indices: 27275372--27275674 Score: 405
Period size: 114 Copynumber: 2.8 Consensus size: 109
27275362 ATATGTGGCA
* * * * *
27275372 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * * *
27275434 CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * *
27275478 ATTTGTTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTCCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
27275543 CAAAACATTGCCTTAATTTTCAAAATTTTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTT-ATTTT-AAAA--TTTTTAAAAGGATATTAAGCC
27275591 ATTTGGTTGAACGAGAAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
* *
27275656 GCAAAATATTGCCTCATTT
65 GCAAAACATTGCCTTATTT
27275675 AGAAAAATTT
Statistics
Matches: 173, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
106 13 0.08
108 26 0.15
109 31 0.18
110 5 0.03
111 3 0.02
113 35 0.20
114 60 0.35
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:27276938 original size:17 final size:17
Alignment explanation
Indices: 27276916--27276955 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27276906 GACGTGCGGC
*
27276916 GCGGCGTCAGAACGGTG
1 GCGGCGACAGAACGGTG
*
27276933 GCGGCGACAGAATGGTG
1 GCGGCGACAGAACGGTG
27276950 GCGGCG
1 GCGGCG
27276956 CCGGGCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.50, T:0.10
Consensus pattern (17 bp):
GCGGCGACAGAACGGTG
Found at i:27279634 original size:48 final size:48
Alignment explanation
Indices: 27279573--27279770 Score: 216
Period size: 48 Copynumber: 4.1 Consensus size: 48
27279563 CTACTATGTG
* *
27279573 CACCGATATTCTGTTATGACATAAGGGTGGCACGGACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * *
27279621 CACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTGTGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * * *
27279669 CACCAATAACCTATTAAGATACAAGGGTGGTACGAACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * * *
27279717 CACTGAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
27279765 CACCGA
1 CACCGA
27279771 GAAATCTATT
Statistics
Matches: 123, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
Found at i:27279759 original size:96 final size:96
Alignment explanation
Indices: 27279595--27279768 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
27279585 GTTATGACAT
* * *
27279595 AAGGGTGGCACGGACTATGTGCAGGCCACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTG
1 AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
27279660 TGTGCAGGCCACCAATAACCTATTAAGATAC
66 TGTGCAGGCCACCAATAACCTATTAAGATAC
* * ** *
27279691 AAGGGTGGTACGAACTATGTGCAGGCCACTGAG-AATCTGTTATTACACAAAGGTGGTACGGACT
1 AAGGGTGGCACGAACTATGTGCAGGCCACCG-GTAATCTGTTACGACACAAAGGTGGCACGGACT
*
27279755 GTGTGTAGGCCACC
65 GTGTGCAGGCCACC
27279769 GAGAAATCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (96 bp):
AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
TGTGCAGGCCACCAATAACCTATTAAGATAC
Found at i:27280626 original size:2 final size:2
Alignment explanation
Indices: 27280619--27280643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27280609 GGAAATTTAA
27280619 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27280644 AATGATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27281971 original size:21 final size:21
Alignment explanation
Indices: 27281947--27282017 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
27281937 CAGCGTGAAT
27281947 ATCAAAATCCAAAACTTAAAA
1 ATCAAAATCCAAAACTTAAAA
* *
27281968 ATCAAAACCCCAAA-TCTAAAA
1 ATCAAAATCCAAAACT-TAAAA
* ** *
27281989 CTCAAAATTTAAAACTTGAAA
1 ATCAAAATCCAAAACTTAAAA
*
27282010 CTCAAAAT
1 ATCAAAAT
27282018 TTAAGAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (21 bp):
ATCAAAATCCAAAACTTAAAA
Found at i:27285280 original size:21 final size:21
Alignment explanation
Indices: 27285222--27285293 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
27285212 AAATAAAATG
* * * *
27285222 GTTTTCCCTATAAAAAACCAA
1 GTTTTTCCTGTAAAAATCTAA
27285243 GTTTTTCCTGTAAAAATCTAA
1 GTTTTTCCTGTAAAAATCTAA
27285264 GTTATTTCCTGT-AAAATCTCAA
1 GTT-TTTCCTGTAAAAATCT-AA
*
27285286 CTTTTTCC
1 GTTTTTCC
27285294 CTAAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 32 0.73
22 12 0.27
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (21 bp):
GTTTTTCCTGTAAAAATCTAA
Found at i:27301613 original size:31 final size:32
Alignment explanation
Indices: 27301554--27301618 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27301544 GGCAAATTAC
27301554 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27301586 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27301617 AA
1 AA
27301619 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27304440 original size:17 final size:17
Alignment explanation
Indices: 27304418--27304473 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
27304408 CAACCAAGAA
27304418 CACATTTCCATTACATT
1 CACATTTCCATTACATT
27304435 CACATTTCCATTACATT
1 CACATTTCCATTACATT
*
27304452 CACATCTCCATTACATT
1 CACATTTCCATTACATT
27304469 CACAT
1 CACAT
27304474 GTGATATGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (17 bp):
CACATTTCCATTACATT
Found at i:27305075 original size:20 final size:21
Alignment explanation
Indices: 27305044--27305082 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27305034 AAGTAAACTT
*
27305044 AAATATCAATTTAACCACTAA
1 AAATATCAATTTAAACACTAA
27305065 AAATA-CAATTTAAACACT
1 AAATATCAATTTAAACACT
27305083 CAAGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATCAATTTAAACACTAA
Found at i:27307315 original size:27 final size:27
Alignment explanation
Indices: 27307277--27307377 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
27307267 GGTCACCGAG
* *
27307277 ACCCCTGATTTGTGAAATTATCGAAAT
1 ACCCCCGATTTGTAAAATTATCGAAAT
*
27307304 ACCCCCGATTTGTAAAATTATTGAAAT
1 ACCCCCGATTTGTAAAATTATCGAAAT
* * * *
27307331 A-CCTCTAGTTTGTAAAATTACCGAAAC
1 ACCCCCGA-TTTGTAAAATTATCGAAAT
* * *
27307358 ACCCTCAATTTGTGAAATTA
1 ACCCCCGATTTGTAAAATTA
27307378 CTAAAATACC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.06
27 53 0.85
28 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (27 bp):
ACCCCCGATTTGTAAAATTATCGAAAT
Found at i:27307369 original size:54 final size:54
Alignment explanation
Indices: 27307285--27307387 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
27307275 AGACCCCTGA
* * * * * *
27307285 TTTGTGAAATTATCGAAATACCCCCGATTTGTAAAATTATTGAAATACCTCTAG
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACCTCTAG
* *
27307339 TTTGTAAAATTACCGAAACACCCTCAATTTGTGAAATTACTAAAATACC
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACC
27307388 CCTTTAGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACCTCTAG
Found at i:27307378 original size:27 final size:27
Alignment explanation
Indices: 27307284--27307388 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
27307274 GAGACCCCTG
* * * *
27307284 ATTTGTGAAATTATCGAAATACCCCCG
1 ATTTGTAAAATTACCGAAATACCCTCA
**
27307311 ATTTGTAAAATTATTGAAATA-CCTCTA
1 ATTTGTAAAATTACCGAAATACCCTC-A
* *
27307338 GTTTGTAAAATTACCGAAACACCCTCA
1 ATTTGTAAAATTACCGAAATACCCTCA
* **
27307365 ATTTGTGAAATTACTAAAATACCC
1 ATTTGTAAAATTACCGAAATACCC
27307389 CTTTAGGGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.05
27 56 0.89
28 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATTACCGAAATACCCTCA
Found at i:27307404 original size:27 final size:27
Alignment explanation
Indices: 27307374--27307426 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27307364 AATTTGTGAA
*
27307374 ATTACTAAAATACCCCTT-TAGGGTAAG
1 ATTACCAAAATA-CCCTTATAGGGTAAG
*
27307401 ATTACCGAAATACCCTTATAGGGTAA
1 ATTACCAAAATACCCTTATAGGGTAA
27307427 AATGACCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
ATTACCAAAATACCCTTATAGGGTAAG
Found at i:27307901 original size:28 final size:28
Alignment explanation
Indices: 27307815--27307906 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
27307805 TACTGCATAC
*
27307815 TGTTTCTGTATTGGGCTAAGGCCCGCCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
*
27307843 TATTTCTGTATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
* * * *
27307871 TGTTTCTGTATCGGGCTAAAGCCTACAT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
27307899 TG-TTCTGT
1 TGTTTCTGT
27307907 TCTGTTACTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 6 0.11
28 51 0.89
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCTAAGGCCCACCT
Found at i:27316013 original size:27 final size:25
Alignment explanation
Indices: 27315923--27316018 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
27315913 CTTGTACATA
27315923 TATGCTCACACGAGCTGTGAATCAG
1 TATGCTCACACGAGCTGTGAATCAG
27315948 TATGCTCACACGAGCTGTGAATCAG
1 TATGCTCACACGAGCTGTGAATCAG
**
27315973 TATGCTCACACGAGCTGTGAAAATGGG
1 TATGCTCACACGAGCTGTG--AATCAG
*
27316000 TCTGCTCACACGAGCTGTG
1 TATGCTCACACGAGCTGTG
27316019 GGTCAAAATG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 44 0.67
27 22 0.33
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCAG
Found at i:27325858 original size:18 final size:18
Alignment explanation
Indices: 27325815--27325859 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
27325805 CGTTTGATAA
27325815 AACGATTTTTATGAAAAC
1 AACGATTTTTATGAAAAC
** * *
27325833 AATAATTTTTCTGAAAAT
1 AACGATTTTTATGAAAAC
27325851 AACGATTTT
1 AACGATTTT
27325860 CAAGGAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
AACGATTTTTATGAAAAC
Found at i:27329861 original size:3 final size:3
Alignment explanation
Indices: 27329853--27329879 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27329843 TAACACACTT
27329853 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
27329880 GAATTATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27337764 original size:19 final size:20
Alignment explanation
Indices: 27337722--27337764 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
27337712 TCATGCTTTC
*
27337722 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
27337742 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
27337760 TATTC
1 TATTC
27337765 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:27340059 original size:20 final size:20
Alignment explanation
Indices: 27340034--27340071 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27340024 TTAGAAATGG
*
27340034 ATATTTTTTAGATTTTTTAT
1 ATATTTTTCAGATTTTTTAT
27340054 ATATTTTTCAGATTTTTT
1 ATATTTTTCAGATTTTTT
27340072 TTATCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATATTTTTCAGATTTTTTAT
Found at i:27353542 original size:27 final size:28
Alignment explanation
Indices: 27353512--27353594 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 28
27353502 ACTAATGCGA
** *
27353512 TCCATTCAGGGTTTGCCAGAAAGGC-AT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
27353539 TCCATTCAAAGTTTGCCACAAAGGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
* * * *
27353567 T-CTTTCAGAGTTCG-CACAAAAGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
27353593 TC
1 TC
27353595 TTAGCTATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 12 0.26
27 32 0.68
28 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (28 bp):
TCCATTCAAAGTTTGCCACAAAGGCTAT
Found at i:27379106 original size:18 final size:18
Alignment explanation
Indices: 27379073--27379122 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
27379063 GTGGCCTAAA
*
27379073 TTAG-CTAAATTAATCAAT
1 TTAGCCTAAATT-ATCAAC
27379091 TTAGCCTAAATTATCAAC
1 TTAGCCTAAATTATCAAC
**
27379109 AAAGCCTAAATTAT
1 TTAGCCTAAATTAT
27379123 TCTTGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAGCCTAAATTATCAAC
Found at i:27390680 original size:40 final size:39
Alignment explanation
Indices: 27390584--27390887 Score: 310
Period size: 40 Copynumber: 7.7 Consensus size: 39
27390574 TTGAATGATG
* * *
27390584 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAA-A
** *
27390623 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACAAA
* * *
27390662 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAA
* *
27390703 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAA
* *
27390743 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAA
* **
27390783 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-ACAAA
* *
27390823 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAA
* * *
27390862 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
27390888 AACGAGGAGC
Statistics
Matches: 234, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
39 51 0.22
40 174 0.74
41 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAA
Found at i:27390799 original size:120 final size:119
Alignment explanation
Indices: 27390584--27390885 Score: 351
Period size: 120 Copynumber: 2.5 Consensus size: 119
27390574 TTGAATGATG
* * * * *
27390584 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAA-AACCGGGCTAAG-TCCCGAAGGCAT
* * *
27390646 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
27390703 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* * * * **
27390768 GTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
27390823 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
27390886 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
119 55 0.35
120 93 0.59
121 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:27398655 original size:40 final size:40
Alignment explanation
Indices: 27398571--27398795 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
27398561 TTGAATGATG
* * *
27398571 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
27398610 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
27398651 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACT-AAT
* * * *
27398691 T-CGGGTTCAGTCCCGAAGGAATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27398730 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27398769 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27398796 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 112 0.71
41 13 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27398785 original size:80 final size:79
Alignment explanation
Indices: 27398571--27398795 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
27398561 TTGAATGATG
* * * * *
27398571 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCT-AG-TCCCGAAGGCAT
*
27398634 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
* * *
27398651 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTA-AATTCGGGTTCAGTCCCGAAGGAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCT-AGTCCCGAAGGCAT
*
27398713 TTGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAA
*
27398730 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTA-GTCCCGAAGGCATTT
27398795 G
65 G
27398796 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
78 2 0.02
79 59 0.48
80 56 0.46
81 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:27405823 original size:3 final size:3
Alignment explanation
Indices: 27405817--27405893 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
27405807 CTTTCTTCTT
27405817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27405865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27405894 GACTGAATCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27406724 original size:22 final size:23
Alignment explanation
Indices: 27406698--27406753 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
27406688 TTCCTTTTTC
*
27406698 TTTTTCTTTTTAATTTCATCA-T
1 TTTTTCTTTTTAATTTAATCATT
* * * *
27406720 TTTTTATTTTGATTTTAATTATT
1 TTTTTCTTTTTAATTTAATCATT
27406743 TTTTTCTTTTT
1 TTTTTCTTTTT
27406754 TTATTTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTCTTTTTAATTTAATCATT
Found at i:27407560 original size:24 final size:25
Alignment explanation
Indices: 27407507--27407562 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
27407497 AAATTCAAAC
*
27407507 GAATGAAAGAATAATTATTCAAAAA
1 GAATGAAAGAATAATTACTCAAAAA
*
27407532 GAATGAAAGAAT-ATTGGCTCAAAAA
1 GAATGAAAGAATAATT-ACTCAAAAA
27407557 -AATGAA
1 GAATGAA
27407563 TGCGAAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (25 bp):
GAATGAAAGAATAATTACTCAAAAA
Found at i:27411258 original size:24 final size:23
Alignment explanation
Indices: 27411231--27411283 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
27411221 CTATAGATGA
*
27411231 TGAAACATATAAA-GATATAGAGTT
1 TGAAACATAAAAAGGATA-A-AGTT
27411255 TGAAA-ATAAAAAGGATAAAGTT
1 TGAAACATAAAAAGGATAAAGTT
*
27411277 TAAAACA
1 TGAAACA
27411284 ATGTTGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 8 0.32
24 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.25
Consensus pattern (23 bp):
TGAAACATAAAAAGGATAAAGTT
Found at i:27412805 original size:44 final size:43
Alignment explanation
Indices: 27412756--27412956 Score: 176
Period size: 44 Copynumber: 4.7 Consensus size: 43
27412746 CTATATTTGG
*
27412756 TCTGCTCCACTGCAACTTCAGAGGGATAAGATCTACGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-CGATTTTAA
* * * * **
27412800 TCTGCTCCACTGCAACTTTAGGGAGA-AAGGAT-TGGCTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGAGAGATAA-GATCTCG-AT-TTTAA
* * ***
27412844 TCTTCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTCGATTTTAA
* * *
27412885 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-CGATTTTAA
* *
27412929 TCCGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGAGAGATA
27412957 GGATTGGTTT
Statistics
Matches: 123, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
41 29 0.24
42 3 0.02
43 6 0.05
44 83 0.67
45 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTCGATTTTAA
Found at i:27412994 original size:129 final size:129
Alignment explanation
Indices: 27412756--27412996 Score: 313
Period size: 129 Copynumber: 1.9 Consensus size: 129
27412746 CTATATTTGG
* * * *
27412756 TCTGCTCCACTGCAACTTCAGAGGGATAAGATCTACGATTTTAATCTGCTCCACTGCAACTTTAG
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
*** ** * *
27412821 GGAGAAAGGATTGGCTTCTTTTGTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGA
66 GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACTTCAGAGAGATAAGACTGGATGCGA
* **
27412885 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
* * *
27412950 GGAGATAGGATTGGTTTCTTCAATCTGATTAACTACAA-TGTCAGAGA
66 GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACT-TCAGAGA
27412997 AGCAAGATTC
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 1 0.01
129 93 0.99
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACTTCAGAGAGATAAGACTGGATGCGA
Found at i:27413026 original size:50 final size:48
Alignment explanation
Indices: 27412967--27413123 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 48
27412957 GGATTGGTTT
*
27412967 CTTCAATCTGATTAACTACAATGTCAGAGAAGCAAGATTC-GTCGTTGTAG
1 CTTCAATCTG-TTAACTACAATGTCAG-GAAGCAAGATTCACT-GTTGTAG
* ** * * *
27413017 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTGTT-AACTACAATGTCA-GGAAGCAAGATTCACTGTTGTAG
* * * *
27413067 CTTCAATCTTTTTAATTGCAATGTTAGGAAAGCAAGATTCACTGTTGTAG
1 CTTCAATC-TGTTAACTACAATGTCAGG-AAGCAAGATTCACTGTTGTAG
27413117 CTTCAAT
1 CTTCAAT
27413124 TTGTGCGTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 4 0.05
50 76 0.89
51 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (48 bp):
CTTCAATCTGTTAACTACAATGTCAGGAAGCAAGATTCACTGTTGTAG
Found at i:27415331 original size:5 final size:5
Alignment explanation
Indices: 27415321--27415375 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
27415311 AAACTATTAA
27415321 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
27415371 TATAT
1 TATAT
27415376 AACATTCTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:27421498 original size:59 final size:59
Alignment explanation
Indices: 27421406--27421529 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 59
27421396 GCACTGATGG
27421406 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
*
27421465 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
27421524 AAAACC
1 AAAACC
27421530 AATTTGCAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (59 bp):
AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
Found at i:27426133 original size:79 final size:82
Alignment explanation
Indices: 27426022--27426206 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
27426012 GCTACTCGTT
* *
27426022 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
27426085 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
27426102 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
27426165 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
27426182 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27426207 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:27426206 original size:40 final size:40
Alignment explanation
Indices: 27426003--27426206 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
27425993 CGGAATTTAA
** *
27426003 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27426043 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27426083 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27426122 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27426162 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27426202 CCGGA
1 CCGGA
27426207 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27434109 original size:79 final size:79
Alignment explanation
Indices: 27433998--27434221 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 79
27433988 GCTACTCGTT
* * *
27433998 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27434063 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
27434078 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27434141 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
27434156 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
27434220 GA
64 GA
27434222 CATCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
78 36 0.28
79 59 0.46
80 34 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:27434112 original size:39 final size:40
Alignment explanation
Indices: 27433998--27434221 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
27433988 GCTACTCGTT
* *
27433998 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
27434038 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
27434078 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27434117 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
27434156 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
27434197 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27434222 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 77 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:27441384 original size:9 final size:9
Alignment explanation
Indices: 27441344--27441396 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
27441334 ATATTTTGAA
27441344 TATTAATA-
1 TATTAATAT
27441352 T-TTATATAT
1 TATTA-ATAT
27441361 TA-TAAT-T
1 TATTAATAT
*
27441368 TAAATAATAT
1 T-ATTAATAT
27441378 TATTAATAT
1 TATTAATAT
27441387 TATTAATAT
1 TATTAATAT
27441396 T
1 T
27441397 TTCTACATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 24 0.63
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTAATAT
Found at i:27441439 original size:29 final size:32
Alignment explanation
Indices: 27441406--27441485 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
27441396 TTTCTACATG
27441406 TTTTT-ATTTTATATATTATTAA-ATTAA-TT
1 TTTTTAATTTTATATATTATTAATATTAATTT
** *
27441435 TTTTTAATGGTA-AAATTATTAATTATTAATTT
1 TTTTTAATTTTATATATTATTAA-TATTAATTT
27441467 TTTTTAATTTTATAT-TTAT
1 TTTTTAATTTTATATATTAT
27441486 ATTTGCTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 14 0.35
30 4 0.10
31 5 0.12
32 16 0.40
33 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
TTTTTAATTTTATATATTATTAATATTAATTT
Found at i:27445647 original size:21 final size:20
Alignment explanation
Indices: 27445609--27445648 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27445599 ATATTGTAGT
*
27445609 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
27445629 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
27445649 TTTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:27446290 original size:44 final size:45
Alignment explanation
Indices: 27446229--27446340 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
27446219 CGATCTACTT
* ** * *
27446229 CTACAACTTCAGAGAGATAAGATTTA-TGGTTTTAATCTGCTCTA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
*
27446273 CTACAACTTCAGGGAGATAGGA-TTATTGGCCTCAATCTGCTCCA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
* *
27446317 CTGCATCTTCAGGGAGATAAGATT
1 CTACAACTTCAGGGAGATAAGATT
27446341 CGCCATCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 53 0.93
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
Found at i:27446427 original size:50 final size:50
Alignment explanation
Indices: 27446373--27446763 Score: 223
Period size: 50 Copynumber: 7.8 Consensus size: 50
27446363 TGCAATGTCG
* * *
27446373 GGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAGACCGCCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * ** ** ***
27446423 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACT-GCAATGTTG
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * * * * *
27446473 GGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCCCTACACCACCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * * * * ** *
27446523 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTCTT-TAATTGCAATGTC-
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * * *
27446572 GGGAAAACAAGATTCGCCGTCGTGACTTCAATTTGTTCCCCTACACCGCCA
1 GGG-AAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * ** * ** * *
27446623 GGGAAGTAAGATTCGTCGTTGTGGCTTCAATCT-TTTTAATAGCAATGTCG
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * *
27446673 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCGACTACACCGCCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * *
27446723 GGGAAGTAAGATTTGTCGTTGTGGCTTCAATCTATTCCACT
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACT
27446764 GTAATGCCAA
Statistics
Matches: 236, Mismatches: 97, Indels: 16
0.68 0.28 0.05
Matches are distributed among these distances:
49 9 0.04
50 218 0.92
51 9 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
Found at i:27446481 original size:100 final size:100
Alignment explanation
Indices: 27446347--27446758 Score: 587
Period size: 100 Copynumber: 4.1 Consensus size: 100
27446337 GATTCGCCAT
* * *
27446347 CTTCAATCTGTCTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGT-AGCTTCAATCTGTTCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGA-CTTCAATCTGTTCC
*
27446411 ACTAGACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
27446447 CTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
*
27446512 CTACACCACCAGGGAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * *
27446547 CTTCAATCTCTTTAATTGCAATGTCGGGAAAACAAGATTCGCCGTCGTGACTTCAATTTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
*
27446612 CTACACCGCCAGGGAAGTAAGATTCGTCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
27446647 CTTCAATCTTTTTAA-TAGCAATGTCGGGGAAACAAGATTCACCGTCGT-AGCTTCAATCTATTC
1 CTTCAATCTATTTAACT-GCAATGTCGGGGAAACAAGATTCACCATCGTGA-CTTCAATCTGTTC
* * *
27446710 GACTACACCGCCAGGGAAGTAAGATTTGTCGTTGTGG
64 CACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
27446747 CTTCAATCTATT
1 CTTCAATCTATT
27446759 CCACTGTAAT
Statistics
Matches: 284, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
99 2 0.01
100 281 0.99
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:27450998 original size:15 final size:14
Alignment explanation
Indices: 27450978--27451024 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
27450968 TAGCCTCTCT
*
27450978 ATTTTTACTTTTTCC
1 ATTTTTAATTTTT-C
27450993 ATTTTTAATTTTTC
1 ATTTTTAATTTTTC
*
27451007 A-TTTTCA-TTTTC
1 ATTTTTAATTTTTC
27451019 ATTTTT
1 ATTTTT
27451025 TACATCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 2 0.07
15 12 0.41
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTC
Found at i:27451530 original size:1 final size:1
Alignment explanation
Indices: 27451516--27451603 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
27451506 CTGGTAGAAG
* * * * * * * * * * * *
27451516 TTTTTGTTTCTTTTTGTTTTTATTTTTATTTATTTTTTTGTTTTTTATTCTTCTTTTTTGTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
27451581 TTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
27451604 GGAATTTGCA
Statistics
Matches: 59, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:27451579 original size:10 final size:9
Alignment explanation
Indices: 27451516--27451601 Score: 63
Period size: 10 Copynumber: 9.6 Consensus size: 9
27451506 CTGGTAGAAG
27451516 TTTTTGTTT
1 TTTTTGTTT
27451525 CTTTTTG-TT
1 -TTTTTGTTT
*
27451534 TTTAT-TTT
1 TTTTTGTTT
* *
27451542 TATTT-ATT
1 TTTTTGTTT
27451550 TTTTTGTTT
1 TTTTTGTTT
*
27451559 TTTATTCTTCT
1 TTT-TTGTT-T
27451570 TTTTTGTTCT
1 TTTTTGTT-T
27451580 TTTTT-TTT
1 TTTTTGTTT
*
27451588 GTTTTGTTT
1 TTTTTGTTT
27451597 TTTTT
1 TTTTT
27451602 TTGGAATTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
8 20 0.33
9 16 0.26
10 21 0.34
11 4 0.07
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:27451587 original size:13 final size:13
Alignment explanation
Indices: 27451516--27451600 Score: 59
Period size: 13 Copynumber: 6.4 Consensus size: 13
27451506 CTGGTAGAAG
27451516 TTTTTGTTTCTTTT
1 TTTTTG-TTCTTTT
* *
27451530 TGTTT-TTATTTT
1 TTTTTGTTCTTTT
*
27451542 TATTTAT-TTTTTTGT
1 T-TTT-TGTTCTTT-T
* *
27451557 TTTTTATTCTTCT
1 TTTTTGTTCTTTT
27451570 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
27451583 TTTTTGTT-TTGTT
1 TTTTTGTTCTT-TT
27451596 TTTTT
1 TTTTT
27451601 TTTGGAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
12 9 0.16
13 30 0.52
14 17 0.29
15 2 0.03
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:27459479 original size:16 final size:16
Alignment explanation
Indices: 27459458--27459513 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
27459448 AAGTATTCAC
*
27459458 ATATAAAATATAAAAT
1 ATATAAAAAATAAAAT
*
27459474 ATATAAAAAATTGAAAT
1 ATATAAAAAA-TAAAAT
*
27459491 ATATAAAACAA-AAAAA
1 ATATAAAA-AATAAAAT
27459507 ATATAAA
1 ATATAAA
27459514 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 19 0.56
17 13 0.38
18 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
ATATAAAAAATAAAAT
Found at i:27459538 original size:27 final size:27
Alignment explanation
Indices: 27459508--27459565 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
27459498 ACAAAAAAAA
* *
27459508 TATAAATA-ATTTTTAAAAAAAAGTATG
1 TATAAATATA-TTATAAAAAAAAGCATG
* *
27459535 TATATATATATTATAAAAAAATGCATG
1 TATAAATATATTATAAAAAAAAGCATG
27459562 TATA
1 TATA
27459566 TGTGCATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (27 bp):
TATAAATATATTATAAAAAAAAGCATG
Found at i:27459744 original size:29 final size:29
Alignment explanation
Indices: 27459670--27459745 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
27459660 ATATATGTAT
* * *
27459670 AAAATATATACATGTATTTATAAAGTCTA
1 AAAAAATATGCATGTATATATAAAGTCTA
* * *
27459699 AAAAATATAGGCATATATAT-TAAA-TTTA
1 AAAAA-ATATGCATGTATATATAAAGTCTA
27459727 AAAAAATATGCATGTATAT
1 AAAAAATATGCATGTATAT
27459746 GTATAGAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.32
28 8 0.21
29 8 0.21
30 10 0.26
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (29 bp):
AAAAAATATGCATGTATATATAAAGTCTA
Found at i:27460761 original size:21 final size:20
Alignment explanation
Indices: 27460723--27460762 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27460713 ATATTGTAGT
*
27460723 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
27460743 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
27460763 TTTAGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:27461016 original size:16 final size:16
Alignment explanation
Indices: 27460996--27461025 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27460986 CTTTGATGTT
27460996 TTTTTTATT-ATTAAA
1 TTTTTTATTCATTAAA
27461011 TTTTTTATTCATTAA
1 TTTTTTATTCATTAA
27461026 TTTCATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTATTCATTAAA
Found at i:27461331 original size:91 final size:91
Alignment explanation
Indices: 27461227--27461407 Score: 362
Period size: 91 Copynumber: 2.0 Consensus size: 91
27461217 ATAAATAAAT
27461227 ATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTTTC
1 ATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTTTC
27461292 CTCTGCTTTGCTTTTGTTTTGCTTAC
66 CTCTGCTTTGCTTTTGTTTTGCTTAC
27461318 ATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTTTC
1 ATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTTTC
27461383 CTCTGCTTTGCTTTTGTTTTGCTTA
66 CTCTGCTTTGCTTTTGTTTTGCTTA
27461408 TGTTTTATTA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (91 bp):
ATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTTTC
CTCTGCTTTGCTTTTGTTTTGCTTAC
Found at i:27464954 original size:14 final size:14
Alignment explanation
Indices: 27464909--27464955 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27464899 ACTTTATTTG
27464909 TTTATTATATAAAT
1 TTTATTATATAAAT
*
27464923 TTT-TTA-AAATAAT
1 TTTATTATATA-AAT
27464936 ATTTATTATATAAAT
1 -TTTATTATATAAAT
27464951 TTTAT
1 TTTAT
27464956 CTTATGTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 6 0.22
14 11 0.41
15 6 0.22
16 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTATATAAAT
Found at i:27467746 original size:40 final size:40
Alignment explanation
Indices: 27467663--27467925 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27467653 TTGAATGCTG
* * * * * *
27467663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27467703 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27467743 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27467783 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
27467823 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27467863 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27467902 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27467926 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27467945 original size:79 final size:80
Alignment explanation
Indices: 27467702--27467960 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
27467692 AAGTGAATAT
* * * * * *
27467702 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
27467766 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27467782 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
27467847 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
27467862 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
27467926 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27467941 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27467961 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:27471382 original size:27 final size:28
Alignment explanation
Indices: 27471349--27471410 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
27471339 ACTTCAGATC
*
27471349 GCCAGGCCCTCTGGCGAACACCAACT-T
1 GCCAGGCCCTCTAGCGAACACCAACTAT
* *
27471376 GCCAGGCTCTCTAGTGAACACCAACTAT
1 GCCAGGCCCTCTAGCGAACACCAACTAT
27471404 -CCAGGCC
1 GCCAGGCC
27471411 TAAAGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (28 bp):
GCCAGGCCCTCTAGCGAACACCAACTAT
Found at i:27475744 original size:19 final size:18
Alignment explanation
Indices: 27475714--27475751 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
27475704 TGGTTTTCTC
*
27475714 AAAATGGAAATAGAAATG
1 AAAATGGAAATAAAAATG
27475732 AAAATGAGAAATAAAAATG
1 AAAATG-GAAATAAAAATG
27475751 A
1 A
27475752 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:27477938 original size:12 final size:12
Alignment explanation
Indices: 27477921--27477945 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27477911 GTAGAATCTA
27477921 TTTTTGTATTTG
1 TTTTTGTATTTG
27477933 TTTTTGTATTTG
1 TTTTTGTATTTG
27477945 T
1 T
27477946 ATCTGTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTTGTATTTG
Done.