Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 42 of 153
Found at i:14156753 original size:50 final size:50
Alignment explanation
Indices: 14156554--14156868 Score: 177
Period size: 50 Copynumber: 6.6 Consensus size: 50
14156544 TTTATATGCT
14156554 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--ATTA--TGAGAGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGA-TACGTGAGA-CTC
* * * * ** * *
14156600 AGTATAAGACCGTGTTTGGGATATGGCATCGGCATTGAGACGAGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGTGAGACTC
* * *
14156648 AATGTAAGA-CATGTCTGGGACAT-GCATCAGCTAC--AT--GATGTG--TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATACG-TGAGACTC
* * ** *
14156692 AATGTAAGACCATGTCTAGGACATGGCATCGGCACGGATTTGTGGGACTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGTGAGACTC
* * * * *
14156742 GGTGTAAGACCATGTCGGGGACATGGCATCAGTACGGATACGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGTGAGACTC
* * * **
14156792 AGTGTAAGACTATGTTTGGGTCATGGCATC-G-ACTTA-ACGTGAGAGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGTGAGA-CTC
* *
14156839 AGTGTAAGACCATGTCTAGGACATAGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
14156869 AGCATTATAC
Statistics
Matches: 207, Mismatches: 43, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 16 0.08
46 22 0.11
47 61 0.29
48 22 0.11
49 3 0.01
50 70 0.34
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGTGAGACTC
Found at i:14158570 original size:14 final size:14
Alignment explanation
Indices: 14158551--14158580 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14158541 ATGTTAAAAT
14158551 AATAAATAAAATTA
1 AATAAATAAAATTA
14158565 AATAAATAAAATTA
1 AATAAATAAAATTA
14158579 AA
1 AA
14158581 AGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATTA
Found at i:14159475 original size:30 final size:32
Alignment explanation
Indices: 14159415--14159478 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
14159405 CACTTATTTT
14159415 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
14159448 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
14159479 ATACATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:14159740 original size:41 final size:41
Alignment explanation
Indices: 14159695--14159932 Score: 449
Period size: 41 Copynumber: 5.8 Consensus size: 41
14159685 ACCGGCTCTT
*
14159695 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14159736 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14159777 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14159818 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14159859 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
14159900 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
14159933 TAACGATAAA
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 194 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:14163993 original size:24 final size:24
Alignment explanation
Indices: 14163944--14163996 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
14163934 TTAAACAAAG
**
14163944 ACAAATGTAATGCATAGGTGACGT
1 ACAAATGTAATAAATAGGTGACGT
*
14163968 ACAAATGTAATAAATTATGTGA-GT
1 ACAAATGTAATAAA-TAGGTGACGT
14163992 ACAAA
1 ACAAA
14163997 AGTGTATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (24 bp):
ACAAATGTAATAAATAGGTGACGT
Found at i:14164314 original size:16 final size:16
Alignment explanation
Indices: 14164293--14164325 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14164283 AAATAAAGTA
*
14164293 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
14164309 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
14164325 A
1 A
14164326 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:14168169 original size:8 final size:8
Alignment explanation
Indices: 14168145--14168269 Score: 53
Period size: 8 Copynumber: 15.1 Consensus size: 8
14168135 ATTATTTTGA
14168145 AAATATAT
1 AAATATAT
14168153 AAA-ATAT
1 AAATATAT
14168160 AAATATAT
1 AAATATAT
*
14168168 AAAATCCTAT
1 -AAAT-ATAT
*
14168178 AACATATGTAAA
1 AA-ATA--T-AT
14168190 AAATATAT
1 AAATATAT
14168198 AAATATAT
1 AAATATAT
14168206 AAA-AGCGTAT
1 AAATA---TAT
* *
14168216 AATTTTAT
1 AAATATAT
14168224 AAATATAT
1 AAATATAT
* *
14168232 -ATTATAA
1 AAATATAT
14168239 AAAT-TAT
1 AAATATAT
14168246 -AATATAT
1 AAATATAT
* *
14168253 AAGTTTAT
1 AAATATAT
*
14168261 AAAAATAT
1 AAATATAT
14168269 A
1 A
14168270 TTATAAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
6 3 0.03
7 18 0.21
8 41 0.48
9 7 0.08
10 10 0.12
11 4 0.05
12 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (8 bp):
AAATATAT
Found at i:14168196 original size:18 final size:17
Alignment explanation
Indices: 14168147--14168209 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 17
14168137 TATTTTGAAA
*
14168147 ATATATAAAATATAAAT
1 ATATAAAAAATATAAAT
**
14168164 ATATAAAATCCTATAACAT
1 ATATAAAA-AATATAA-AT
*
14168183 ATGTAAAAAATATATAAAT
1 ATAT-AAAAA-ATATAAAT
14168202 ATATAAAA
1 ATATAAAA
14168210 GCGTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 7 0.20
18 9 0.26
19 10 0.29
20 9 0.26
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
ATATAAAAAATATAAAT
Found at i:14168280 original size:21 final size:21
Alignment explanation
Indices: 14168233--14168293 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 21
14168223 TAAATATATA
*
14168233 TTATAAAAATTATAATATATAAGT
1 TTATAAAAA-TAT-AT-TATAAAT
14168257 TTATAAAAATATATTATAAAT
1 TTATAAAAATATATTATAAAT
*
14168278 TTAGAAAATATATATT
1 TTATAAAA-ATATATT
14168294 TGTTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.38
22 9 0.26
23 3 0.09
24 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
TTATAAAAATATATTATAAAT
Found at i:14177569 original size:126 final size:127
Alignment explanation
Indices: 14177387--14178310 Score: 703
Period size: 126 Copynumber: 6.9 Consensus size: 127
14177377 GTGTTGCCTT
*** ** * *
14177387 ACAAAGCCAACAAATATTTAAGTATTGCCTTAGGCATGTATATACCAACCCTTATACAAAGAGTT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
* *
14177452 GGCCAAAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATGGTGTT-GG
66 GGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATGGTATTAGG
** * *
14177513 ACAAAGCTGACTCTTATTGAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
* * * * *
14177578 GGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGGC
66 GGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-TG-GC---A---T--G-
*
14177643 GTAGTGTTGG
120 GTA-T-TAGG
*** * * *
14177653 ACAAAGTTGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AGT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACA-AAGAGT
* * * *** *
14177717 TGACCAAAGCGTATGTCTG-CAAGTCTATCCCAACACTTAGGAAAATGTCGTTTTAGG-ACT-GG
65 TGGCCAAAGCGTATGT-TGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCAT-GGTATTAGG
* *
14177779 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAGAGTT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
* * * *
14177844 GGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTAGCCCCAAAAGTTTCGTA
66 GGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--GC---A---TGGTA
14177909 TTAGG
123 TTAGG
* * * * * *
14177914 ACTACACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTATCTCAACCCTTATGCAA
1 -----AC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAA
* * **
14177979 AGAGTTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAAT
60 AGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-T-GGC----AT
14178044 -GTCATCTTAGG
119 GGT-A--TTAGG
* *
14178055 ACTACACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAA
1 -----AC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAA
* * * * *
14178120 AGAGTTGACCAAAGC-TATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTCGCCCCAGAAGT
60 AGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG-----GCA-T
*
14178184 GTCGTCTTAGGCCTAG
119 G--GTATTA-G----G
*
14178200 ACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
* * * * * *
14178264 GGTCAAAGCGTATGTTGATAAATTTATCTCAACATTTAGGAAAGTGT
66 GGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT
14178311 CACCCCAAAA
Statistics
Matches: 653, Mismatches: 90, Indels: 97
0.78 0.11 0.12
Matches are distributed among these distances:
125 4 0.01
126 195 0.30
127 2 0.00
128 1 0.00
129 1 0.00
130 1 0.00
131 2 0.00
132 1 0.00
133 1 0.00
134 4 0.01
135 2 0.00
136 1 0.00
137 2 0.00
138 56 0.09
139 48 0.07
140 141 0.22
141 184 0.28
142 4 0.01
143 2 0.00
145 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (127 bp):
ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
GGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATGGTATTAGG
Found at i:14177744 original size:140 final size:140
Alignment explanation
Indices: 14177512--14178334 Score: 898
Period size: 141 Copynumber: 6.0 Consensus size: 140
14177502 CATGGTGTTG
** * *
14177512 GACAAAGCTGACTCTTATTGAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* *
14177577 TGGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
* * *
14177642 CGTAGTG-TTG
131 CTTAG-GACTA
*** * * *
14177652 GACAAAGTTGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACA-AAGAG
* *
14177716 TTGACCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAATGT-----C----GT-T-
65 TTGGCCAAAGCGTATGT-TGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTA
*
14177769 ---TTAGGACTG
129 GGCTTAGGACTA
* *
14177778 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * *
14177843 TGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-AGCCCCAAAAGTTTCG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAG
**
14177907 TATTAGGACTA
130 GCTTAGGACTA
* * * * * * *
14177918 CACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTATCTCAACCCTTATGCAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* ** *
14177983 TTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGTCA
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGT-A
*
14178048 -TCTTAGGACTA
129 GGCTTAGGACTA
* * *
14178059 CACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* * * *
14178124 TTGACCAAAGC-TATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-GCCCCAGAAGTGTC
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTA
* *
14178187 GTCTTAGGCCTA
129 GGCTTAGGACTA
*
14178199 GACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* ** * * * * * * *
14178263 TGGTCAAAGCGTATGTTGATAAATTTATCTCAACATTTAGGAAAGTGTCACCCCAAAAGTGTCGT
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
14178328 CTTAGGA
131 CTTAGGA
14178335 TTGTTTTGTT
Statistics
Matches: 584, Mismatches: 73, Indels: 53
0.82 0.10 0.07
Matches are distributed among these distances:
125 4 0.01
126 101 0.17
130 1 0.00
131 3 0.01
135 3 0.01
136 1 0.00
138 53 0.09
139 63 0.11
140 165 0.28
141 190 0.33
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (140 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
CTTAGGACTA
Found at i:14177880 original size:266 final size:267
Alignment explanation
Indices: 14177387--14178311 Score: 1012
Period size: 266 Copynumber: 3.4 Consensus size: 267
14177377 GTGTTGCCTT
*** ** *
14177387 ACAAAGCCAACAAATATTTAAGTATTGCCTTAGGCATGTATATACC-AACCCTTATACAAAGAGT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT-CCTAACCCTTATACAAAGAGT
* * *** **
14177451 TGGCCAAAGCATATGT-TGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCAT-GGTGTTGGA
65 TGGCCAAAGCGTATGTCTG-CAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGG-ACTGGA
** * *
14177514 CAAAGCTGACTCTTATTGAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
128 CAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
* * * *
14177579 GCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAGGC
193 GCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTC
* * *
14177643 GTAGTG-TTGG
258 TTAG-GACTAG
*** * *
14177653 ACAAAGTTGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AGT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACA-AAGAGT
* *
14177717 TGACCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAATGTCGTTTTAGGACTGGACA
65 TGGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGGACTGGACA
* *
14177782 AAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAGAGTTGGC
130 AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGC
* * * *
14177847 CAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-AGCCCCAAAAGTTTCGTATT
195 CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCTT
*
14177911 AGGACTAC
260 AGGACTAG
* * * * *
14177919 ACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTAT-CTCAACCCTTATGCAAAGAG
1 AC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCT-AACCCTTATACAAAGAG
14177983 TTGGCCAAAGCGTATG-CTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGTC
64 TTGGCCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAGTG--T---C------GT-
** * *
14178047 ATCTTAGGACTACACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCC
116 -T-TTAGGACTGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCC
* *
14178112 TTATACAAAGAGTTGACCAAAGC-TATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-GC
178 TTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGC
* *
14178175 CCCAGAAGTGTCGTCTTAGGCCTAG
243 CCCAAAAGTGTCGTCTTAGGACTAG
* *
14178200 ACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
1 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGTT
* * * * * *
14178264 GGTCAAAGCGTATGT-TGATAAATTTATCTCAACATTTAGGAAAGTGTC
66 GGCCAAAGCGTATGTCTG-CAAGTCTATCCCAACACTTAGGAAAGTGTC
14178312 ACCCCAAAAG
Statistics
Matches: 552, Mismatches: 78, Indels: 50
0.81 0.11 0.07
Matches are distributed among these distances:
265 5 0.01
266 219 0.40
267 94 0.17
269 1 0.00
272 1 0.00
274 1 0.00
277 1 0.00
278 3 0.01
279 77 0.14
280 15 0.03
281 69 0.12
282 66 0.12
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (267 bp):
ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGTT
GGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGGACTGGACAA
AGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCC
AAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCTTA
GGACTAG
Found at i:14178308 original size:279 final size:281
Alignment explanation
Indices: 14177758--14178334 Score: 809
Period size: 279 Copynumber: 2.1 Consensus size: 281
14177748 AACACTTAGG
* ** *
14177758 AAAATGTCGTTTTAGGACTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACC
1 AAAATGTCGTCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATACATACC
* *
14177823 CCAACCCTTATACAAAGAGTTGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAG
66 CCAACCCTTATACAAAGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAG
* *
14177888 TGTAGCCCCAAAAGTTTCGTATTAGGACTACACAAAAACCAACTCTTATTTAAGCGTTGTCTTAG
131 TGTAGCCCCAAAAGTGTCGTATTAGGACTACACAAAAACCAACTCTTATTTAAGCGTTGCCTTAG
* * * * *
14177953 GCATACGTATCTCAACCCTTATGCAAAGAGTTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAAC
196 GCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGCTGACAAATCTATCCCAAC
*
14178018 ACTTAGGAAAGTGTCTCCCCA
261 ACTTAGGAAAGTGTCACCCCA
* * * *
14178039 AAAATGTCATCTTAGGACTACACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATAT
1 AAAATGTCGTCTTAGGACTACAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATACATAC
* *
14178104 CCCAACCCTTATACAAAGAGTTGACCAAAGC-TATGTTGGCAAGTCTATCCCAACGCTTAGGAAA
65 CCCAACCCTTATACAAAGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA
* * * * * * *
14178168 GTGTCGCCCCAGAAGTGTCGTCTTAGGCCTAGAC-AAAGCCAACTCTTA-TTAAGTGTTGCCTTA
130 GTGTAGCCCCAAAAGTGTCGTATTAGGACTACACAAAAACCAACTCTTATTTAAGCGTTGCCTTA
* * * * * *
14178231 GGCATGCATATCCCAACCCTTATACAAAGAGTTGGTCAAAGCGTATGTTGATAAATTTATCTCAA
195 GGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGCTGACAAATCTATCCCAA
*
14178296 CATTTAGGAAAGTGTCACCCCA
260 CACTTAGGAAAGTGTCACCCCA
*
14178318 AAAGTGTCGTCTTAGGA
1 AAAATGTCGTCTTAGGA
14178335 TTGTTTTGTT
Statistics
Matches: 259, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
279 102 0.39
280 13 0.05
281 78 0.30
282 66 0.25
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (281 bp):
AAAATGTCGTCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATACATACC
CCAACCCTTATACAAAGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAG
TGTAGCCCCAAAAGTGTCGTATTAGGACTACACAAAAACCAACTCTTATTTAAGCGTTGCCTTAG
GCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGCTGACAAATCTATCCCAAC
ACTTAGGAAAGTGTCACCCCA
Found at i:14181159 original size:17 final size:16
Alignment explanation
Indices: 14181126--14181168 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
14181116 TCAATAATGT
*
14181126 TATTATTTTAATGTTA
1 TATTATTTTAATATTA
*
14181142 TTTTATTTATAATATTA
1 TATTATTT-TAATATTA
14181159 TATTATTTTA
1 TATTATTTTA
14181169 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTTTAATATTA
Found at i:14181185 original size:23 final size:22
Alignment explanation
Indices: 14181139--14181185 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14181129 TATTTTAATG
*
14181139 TTATTTTATTTATAATATTATA
1 TTATTTTATTTATAATAATATA
14181161 TTATTTTAGTTTATAA-AATACTA
1 TTATTTTA-TTTATAATAATA-TA
14181184 TT
1 TT
14181186 TAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTATTTATAATAATATA
Found at i:14181672 original size:21 final size:20
Alignment explanation
Indices: 14181638--14181677 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14181628 TTTAAAGAAT
*
14181638 TAAAAAAATTAATAAAATTC
1 TAAAAAAATAAATAAAATTC
*
14181658 TAAAAAATATAAATATAATT
1 TAAAAAA-ATAAATAAAATT
14181678 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAAAATAAATAAAATTC
Found at i:14182280 original size:15 final size:15
Alignment explanation
Indices: 14182262--14182327 Score: 73
Period size: 14 Copynumber: 4.5 Consensus size: 15
14182252 TTATTTAAAA
14182262 TAAAAATTTTAAT-T
1 TAAAAATTTTAATAT
* *
14182276 TTAAAATTTTAA-AA
1 TAAAAATTTTAATAT
14182290 TAAAAATTTATAATAT
1 TAAAAATTT-TAATAT
* *
14182306 TAAATATTTAAATAT
1 TAAAAATTTTAATAT
14182321 TAAAAAT
1 TAAAAAT
14182328 ATTTTTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 19 0.45
15 14 0.33
16 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATTTTAATAT
Found at i:14182286 original size:28 final size:29
Alignment explanation
Indices: 14182253--14182327 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
14182243 GAATTAAATT
*
14182253 TATTTAAAATAAAAATTT-TAATTTTAAA
1 TATTTAAAATAAAAATTTATAATATTAAA
14182281 -ATTTTAAAATAAAAATTTATAATATTAAA
1 TA-TTTAAAATAAAAATTTATAATATTAAA
14182310 TATTTAAATATTAAAAAT
1 TATTTAAA-A-TAAAAAT
14182328 ATTTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 1 0.02
28 16 0.39
29 15 0.37
30 2 0.05
31 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTTAAAATAAAAATTTATAATATTAAA
Found at i:14182553 original size:19 final size:18
Alignment explanation
Indices: 14182502--14182560 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
14182492 TAAAATGTAT
14182502 AATTGAAAATTTTA-AAA
1 AATTGAAAATTTTATAAA
*
14182519 AGTT-AAAATAATTTATAAA
1 AATTGAAAAT--TTTATAAA
*
14182538 AATTGAAAATTGTTATACA
1 AATTGAAAATT-TTATAAA
14182557 AATT
1 AATT
14182561 TTAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 5 0.15
19 16 0.47
20 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (18 bp):
AATTGAAAATTTTATAAA
Found at i:14185773 original size:46 final size:46
Alignment explanation
Indices: 14185708--14185802 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
14185698 CCAACCAACC
* *
14185708 ACACATTGGCCTCTATGCATTCTCAAGAGCAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
* *
14185754 ACACATTAGCCCCTGTGCATTCTCAAGAGTAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
14185800 ACA
1 ACA
14185803 ATGGGCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (46 bp):
ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
Found at i:14188308 original size:167 final size:167
Alignment explanation
Indices: 14188029--14188336 Score: 499
Period size: 167 Copynumber: 1.8 Consensus size: 167
14188019 ATTTCATTAC
* * *
14188029 AAATGATATCTTAAGTAAGCAACTCAATACAATGCCATTTTTCATATCTAATCTAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
* * * * *
14188094 TATTGTTGATGCGGACTCCCATTATATAAATTAATTCTTTAATATTCTCATATTTCTTAAATTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
14188159 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
131 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
*
14188196 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
* * * *
14188261 TATTGTTAATACAGACTCTCATTATAAAAATTAATTCTTTCATATTCTCCCATTTCTTAACTTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
14188326 AAATTTCACAT
131 AAATTTCACAT
14188337 TTCACATAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
167 128 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (167 bp):
AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
AAATTTCACATGCTTTATATTATCCGATGAACACTGT
Found at i:14193908 original size:42 final size:42
Alignment explanation
Indices: 14193845--14193928 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
14193835 ACCTCAAGAA
* *
14193845 ATCCGGCAAGCCAGCGATCAGCATTTTCCACCAACTCATTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
* * * *
14193887 ATCCGGCAACCCAGCGGTCAGCGTTTCCCACCCACTCGTTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
14193929 GATGCATGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (42 bp):
ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
Found at i:14197600 original size:55 final size:56
Alignment explanation
Indices: 14197501--14197611 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 56
14197491 GGTGGAGATG
* * *
14197501 TTAGAAATTAGAAAAAAAAAAGGACAAATTTTATCAGATTAATTCTTAAGTCTGGT
1 TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
* * * *
14197557 TTAGAAATTAG-AAAAAGAAAGGACAAGTTTGATGAGATGAATTCATAAGTGTGGT
1 TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
14197612 AAATATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 37 0.77
56 11 0.23
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (56 bp):
TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
Found at i:14197978 original size:13 final size:13
Alignment explanation
Indices: 14197960--14197984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14197950 TAATATTAAT
14197960 TTAACCTATAAAC
1 TTAACCTATAAAC
14197973 TTAACCTATAAA
1 TTAACCTATAAA
14197985 TAAGTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAACCTATAAAC
Found at i:14200115 original size:306 final size:301
Alignment explanation
Indices: 14199497--14200513 Score: 1494
Period size: 307 Copynumber: 3.3 Consensus size: 301
14199487 AAATGTACAT
* * * *
14199497 TTAAAAAATACTCTAAA-TTA-ATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAATAA
1 TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* *
14199560 AATTAGAAAATA-TGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCC
66 AATTAGAAAATAGT-ATATTTTTTAAAGTAATAAAATTCGG-G-AAAAAATACGAACAAAAGGCC
* * * *
14199624 GAAGTAAGGGTTTTTTAAC-AATTTTTTTAAAAAAAGAAATAATTAATACATTTCAAACATAATG
128 GAAATAAGGATTTTTT-ACTAA--ATTTAAAAAAAAGAAATAATTAATACATTTCAAACATAATG
* *
14199688 TACTAAAATAATTTAAAAAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
190 TACTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
** * * *
14199753 ACAAAAAAAATACGAGTAAAGAGTCGAAATAAGGGTTTTTTTAAATTA
255 -GGAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAATTA
14199801 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 -TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
**
14199866 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCTA
65 AAATTAGAAAATAGTATATTTTTT-AAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCCG
*
14199931 AAATAAGGATTTTTTACTAAATTTAAAAAAAACAGAAATAATTAATACATTTTAAACATAATGTA
129 AAATAAGGATTTTTTACTAAATTT-AAAAAAA-AGAAATAATTAATACATTTCAAACATAATGTA
14199996 CTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGG
192 CTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGG
14200061 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAACTTA
257 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAA-TTA
14200107 TCTAAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 T-T-AAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
***
14200172 AAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATT-TTAAAAAAATACGAAC-AAAGAGCC
64 AAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAG-GCC
*
14200235 GAAATAA-GAGTTTTTTACTAAA-TTAAAAAAATAGAATTAATTAATACATTTCAAACATAATGT
128 GAAATAAGGA-TTTTTTACTAAATTTAAAAAAA-AGAAATAATTAATACATTTCAAACATAATGT
* * *
14200298 ACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTG
191 ACTAAAATAATGTAAAA-AATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
* * *
14200363 GG-AAAAAATACGAGCAAAAGGCCGAAATAAGAGTTTTTTTTAATTTAA
255 GGAAAAAAATACGAGCAAAGGGCCGAAATAAG-GGTTTTTTTAAATT-A
*
14200411 TTAAAAAACACACTAAATTTATTTAAATTTCAATCATAATGTACTAAAATAATGTAAAATAATAA
1 TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
14200476 AATTAGAAAATAGTCTATTTTTTAAAAGTAATAAAATT
66 AATTAGAAAATAGTATATTTTTT-AAAGTAATAAAATT
14200514 TGGATACAAT
Statistics
Matches: 660, Mismatches: 36, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
302 84 0.13
303 97 0.15
304 70 0.11
305 96 0.15
306 147 0.22
307 149 0.23
308 17 0.03
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (301 bp):
TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
AATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCCGAA
ATAAGGATTTTTTACTAAATTTAAAAAAAAGAAATAATTAATACATTTCAAACATAATGTACTAA
AATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAA
AAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAATTA
Found at i:14200728 original size:76 final size:76
Alignment explanation
Indices: 14200510--14200737 Score: 366
Period size: 76 Copynumber: 2.9 Consensus size: 76
14200500 AAAGTAATAA
*
14200510 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTTCAAATGAATTATAC
1 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
*
14200575 TTTTTATAACTT
66 -TTTTACAACTT
14200587 AATTTGGATACAATTTAAGCATAAGCATAATCATAAGCTGAATAATTTTAATTATTCCAAATGAA
1 AATTTGGATACAATTTAAGCATAAG------CATAAGCTGAATAATTTTAATTATTCCAAATGAA
14200652 TTATACTTTTACAACTT
60 TTATACTTTTACAACTT
*
14200669 AATTTGGATATAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
1 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
14200734 TTTT
66 TTTT
14200738 TATAACATTA
Statistics
Matches: 142, Mismatches: 3, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
76 44 0.31
77 25 0.18
82 34 0.24
83 39 0.27
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
TTTTACAACTT
Found at i:14203118 original size:272 final size:271
Alignment explanation
Indices: 14202622--14203167 Score: 984
Period size: 272 Copynumber: 2.0 Consensus size: 271
14202612 CATGCTATAC
* *
14202622 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTTTAGCCTATGAATAACTCCTCATG
1 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
14202687 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
66 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
* *
14202752 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAGGATTATTGAATAACAAAATACGTTGC
131 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCGC
*
14202817 ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCGTTATTCACATCTTCATCGTCAATATC
196 ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
14202882 ATCAGGTACAT
261 ATCAGGTACAT
*
14202893 CGTTTTATAGCCTAGTACGTACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
1 CGTTTTATAG-CTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
*
14202958 GATTAGAATTTACGGACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
65 GATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
* * *
14203023 TACGCTGCATCTGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCG
130 TACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCG
*
14203088 CATCTGATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
195 CATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
14203153 CATCAGGTACAT
260 CATCAGGTACAT
14203165 CGT
1 CGT
14203168 CCACATCGAG
Statistics
Matches: 263, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
271 10 0.04
272 253 0.96
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (271 bp):
CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCGC
ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
ATCAGGTACAT
Found at i:14203945 original size:37 final size:38
Alignment explanation
Indices: 14203896--14203988 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 38
14203886 TCCTAATAAC
* *
14203896 TAACACAA-TAACAATAATAA-TA-GTTTTATACTCAAAA
1 TAACA-AACTAACAATAATAATTAGGGTTT-TACTAAAAA
14203933 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
1 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
* *
14203971 TAA-TAGCTAACAATAATA
1 TAACAAACTAACAATAATA
14203989 TAATGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 2 0.04
37 30 0.61
38 13 0.27
39 4 0.08
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (38 bp):
TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
Found at i:14204020 original size:23 final size:23
Alignment explanation
Indices: 14203977--14204021 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14203967 AAAATAATAG
*
14203977 CTAACAATAATATAATGTAAAAA
1 CTAACAATAATATAATCTAAAAA
*
14204000 CTAACAATCATACTAA-CTAAAA
1 CTAACAATAATA-TAATCTAAAA
14204022 TAATAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
CTAACAATAATATAATCTAAAAA
Found at i:14204097 original size:41 final size:40
Alignment explanation
Indices: 14203999--14204113 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 40
14203989 TAATGTAAAA
*
14203999 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAACTAATAATAAT-ATTAGGGTTTTT
* *
14204039 ACTAATC-CTAATAACTAACCATAATAATAATATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAA-C-TAATAATAATATTAGGGTTTTT
*
14204081 ACTAACAATAATACTAAGTAATAATAATTATTA
1 ACTAACAATAATACTAACTAATAATAA-TATTA
14204114 ATAACTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
39 9 0.14
40 13 0.21
41 12 0.19
42 16 0.25
43 7 0.11
44 6 0.10
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (40 bp):
ACTAACAATAATACTAACTAATAATAATATTAGGGTTTTT
Found at i:14204342 original size:3 final size:3
Alignment explanation
Indices: 14204336--14204382 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
14204326 CTTCCTCCTC
* * *
14204336 CTT CTT CTT CTT CTT TTT CTT TTT CTT -TT -TT CTT CTT CTT CTC CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
14204382 C
1 C
14204383 AGCTGGACGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:14204988 original size:30 final size:30
Alignment explanation
Indices: 14204952--14205019 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
14204942 TAGTTAGGAA
*
14204952 TTAGTTACTTAC-GTATAATTAGCAGTAGGG
1 TTAGTTAC-TACTGTATAATTAGCAATAGGG
*
14204982 TTAGTTA-TACTTGTATAATTGGCAATAGGG
1 TTAGTTACTAC-TGTATAATTAGCAATAGGG
14205012 TTAGTTAC
1 TTAGTTAC
14205020 ACTCTTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
30 30 0.91
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (30 bp):
TTAGTTACTACTGTATAATTAGCAATAGGG
Found at i:14211401 original size:17 final size:17
Alignment explanation
Indices: 14211355--14211401 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
14211345 TATTTTTATT
14211355 TTTATAAATATTATGTTA
1 TTTATAAA-ATTATGTTA
**
14211373 TTTATATTATTATTGTTA
1 TTTATAAAATTA-TGTTA
14211391 -TTATAAAATTA
1 TTTATAAAATTA
14211402 AAAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATAAAATTATGTTA
Found at i:14211424 original size:17 final size:16
Alignment explanation
Indices: 14211392--14211454 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
14211382 TTATTGTTAT
* *
14211392 TATAAAATTAAAAATA
1 TATAAATTTTAAAATA
14211408 TATACAATTTTAAAATA
1 TATA-AATTTTAAAATA
*
14211425 TATAAATTAATAAAATAA
1 TATAAATT-TTAAAAT-A
14211443 TAATAAATTTTA
1 T-ATAAATTTTA
14211455 CATCAAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.21
17 20 0.51
18 4 0.10
19 7 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATTTTAAAATA
Found at i:14211608 original size:19 final size:19
Alignment explanation
Indices: 14211586--14211645 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 19
14211576 TATTATAATT
14211586 TTTATAAATTTTTATTTTA
1 TTTATAAATTTTTATTTTA
*
14211605 TTTATCAA--TTTA-TTTA
1 TTTATAAATTTTTATTTTA
* *
14211621 TTTTTAAGATTTTCTATTTTT
1 TTTATAA-ATTTT-TATTTTA
14211642 TTTA
1 TTTA
14211646 ATTTATATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
19 9 0.29
20 2 0.06
21 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATAAATTTTTATTTTA
Found at i:14211625 original size:37 final size:34
Alignment explanation
Indices: 14211583--14211651 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 34
14211573 ATATATTATA
14211583 ATTTTTATAAATTTT-TATTTTATTTATCAATTTATTT
1 ATTTTTA-AAATTTTCTATTTT-TTT-T-AATTTATTT
*
14211620 ATTTTTAAGATTTTCTATTTTTTTTAATTTAT
1 ATTTTTAAAATTTTCTATTTTTTTTAATTTAT
14211652 ATTGCCACGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 7 0.23
35 1 0.03
36 9 0.30
37 13 0.43
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (34 bp):
ATTTTTAAAATTTTCTATTTTTTTTAATTTATTT
Found at i:14214213 original size:19 final size:18
Alignment explanation
Indices: 14214189--14214228 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
14214179 ATAAAATCAA
*
14214189 ATAATAAATATGTAATTAT
1 ATAATAAATATAT-ATTAT
14214208 ATAATAAATATATATTAT
1 ATAATAAATATATATTAT
14214226 ATA
1 ATA
14214229 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAATAAATATATATTAT
Found at i:14221478 original size:25 final size:24
Alignment explanation
Indices: 14221449--14221496 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14221439 TATAAAAAGA
* *
14221449 TTTATATTTCAATTTTAATTCTTTG
1 TTTATATTTAAAATTTAA-TCTTTG
14221474 TTTATATTTAAAATTTAATCTTT
1 TTTATATTTAAAATTTAATCTTT
14221497 ATATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTATATTTAAAATTTAATCTTTG
Found at i:14224684 original size:9 final size:9
Alignment explanation
Indices: 14224670--14224700 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14224660 GTTAAACGAA
14224670 TCGAGTTAT
1 TCGAGTTAT
*
14224679 TCGAGTTAA
1 TCGAGTTAT
14224688 TCGAGTTAT
1 TCGAGTTAT
14224697 TCGA
1 TCGA
14224701 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14224771 original size:9 final size:9
Alignment explanation
Indices: 14224754--14224790 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14224744 TAAGTTTTCG
14224754 AATTCGAAT
1 AATTCGAAT
*
14224763 AACTCGAAT
1 AATTCGAAT
*
14224772 AATTTGAAT
1 AATTCGAAT
14224781 AATTCGAAT
1 AATTCGAAT
14224790 A
1 A
14224791 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14225037 original size:30 final size:31
Alignment explanation
Indices: 14225004--14225062 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14224994 AACCTTTTAT
*
14225004 TTTTTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCTAAAACTTTTACTCCCTTCCCAC
*
14225033 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCTAAAACTTTTACTCCCTTCCCA
14225063 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.44
Consensus pattern (31 bp):
TTTTTCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:14229335 original size:29 final size:29
Alignment explanation
Indices: 14229281--14229336 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
14229271 TACTTAATAT
* * *
14229281 AATACATATACTTGAATTTTCCAAAAAAA
1 AATACAAATACTTGAATTATCAAAAAAAA
14229310 AATACAAATACTTGAATATAT-AAAAAA
1 AATACAAATACTTGAAT-TATCAAAAAA
14229337 TTAAACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.29
Consensus pattern (29 bp):
AATACAAATACTTGAATTATCAAAAAAAA
Found at i:14230059 original size:43 final size:46
Alignment explanation
Indices: 14230011--14230099 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
14230001 TACGTATGAT
14230011 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAGGCTAC
*
14230054 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAGGCTAC
14230100 TTTTTCACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 10 0.24
44 5 0.12
45 20 0.48
46 7 0.17
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (46 bp):
CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:14230234 original size:36 final size:36
Alignment explanation
Indices: 14230054--14230234 Score: 285
Period size: 36 Copynumber: 5.0 Consensus size: 36
14230044 GCTAGGCTAC
*
14230054 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
* * *
14230090 --CTAAGGCTACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTA-TC-ACTTTTTCACTTGATCAGATAAGTGTAG
*
14230126 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
14230162 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
14230198 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
14230234 C
1 C
14230235 TAAAGCTACC
Statistics
Matches: 134, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
34 3 0.02
35 1 0.01
36 126 0.94
37 1 0.01
38 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
Found at i:14230734 original size:21 final size:21
Alignment explanation
Indices: 14230704--14230747 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14230694 GCTCCAAATT
14230704 AAGATACGTTAATTTTCCCTG
1 AAGATACGTTAATTTTCCCTG
*
14230725 AAGATCCGTTAATTTTCCCTG
1 AAGATACGTTAATTTTCCCTG
14230746 AA
1 AA
14230748 ACTAGACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (21 bp):
AAGATACGTTAATTTTCCCTG
Found at i:14235558 original size:14 final size:14
Alignment explanation
Indices: 14235539--14235567 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14235529 ATAACTCTTC
14235539 AAAGGGTAAAGATA
1 AAAGGGTAAAGATA
14235553 AAAGGGTAAAGATA
1 AAAGGGTAAAGATA
14235567 A
1 A
14235568 CTTATGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AAAGGGTAAAGATA
Found at i:14239443 original size:57 final size:57
Alignment explanation
Indices: 14239370--14239478 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
14239360 GATCCTATCC
14239370 TGATACAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTGATCT
1 TGATACAGCCCTCCCGAAGAATATGTG-GAAAATAGATCTAGCCCGGACGGGTGATCT
* * *
14239427 TGATATAGCCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATACAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGT
14239479 AATCCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (57 bp):
TGATACAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGTGATCT
Found at i:14245338 original size:21 final size:21
Alignment explanation
Indices: 14245309--14245348 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
14245299 TTCCTCAAAC
14245309 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
14245331 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
14245349 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:14253034 original size:23 final size:22
Alignment explanation
Indices: 14252989--14253053 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
14252979 AAAATGATCC
*
14252989 TAATTATATAAAAAGTT-AAAAT
1 TAATT-TATAAAAAATTCAAAAT
*
14253011 TAATTTATAAAAATTTCAACAAT
1 TAATTTATAAAAAATTCAA-AAT
14253034 TAATTT-TAAAAAATTCAAAA
1 TAATTTATAAAAAATTCAAAA
14253054 AAAAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.31
22 18 0.46
23 9 0.23
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAATTTATAAAAAATTCAAAAT
Found at i:14259069 original size:27 final size:27
Alignment explanation
Indices: 14259033--14259127 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
14259023 ATTATTTATA
*
14259033 TATATTTGCATGAACTTGATTGTTACG
1 TATATTTGCATGAACTTGATTGTAACG
*
14259060 TATATTTGCACGAAC----TTGTAAC-
1 TATATTTGCATGAACTTGATTGTAACG
* *
14259082 -ATATTTGCATAAACTTGATTGTCACG
1 TATATTTGCATGAACTTGATTGTAACG
*
14259108 CATATTTGCATGAACTTGAT
1 TATATTTGCATGAACTTGAT
14259128 GGGCACGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
21 12 0.21
23 6 0.11
25 6 0.11
27 32 0.57
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
TATATTTGCATGAACTTGATTGTAACG
Found at i:14259113 original size:48 final size:48
Alignment explanation
Indices: 14259034--14259125 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
14259024 TTATTTATAT
* * *
14259034 ATATTTGCATGAACTTGATTGTTACGTATATTTGCACGAACTTGTAAC
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
*
14259082 ATATTTGCATAAACTTGATTGTCACGCATATTTGCATGAACTTG
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTG
14259126 ATGGGCACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (48 bp):
ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
Found at i:14259134 original size:27 final size:27
Alignment explanation
Indices: 14259081--14259134 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
14259071 GAACTTGTAA
* *
14259081 CATATTTGCATAAACTTGATTGTCACG
1 CATATTTGCATAAACTTGATGGGCACG
*
14259108 CATATTTGCATGAACTTGATGGGCACG
1 CATATTTGCATAAACTTGATGGGCACG
14259135 TATACTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (27 bp):
CATATTTGCATAAACTTGATGGGCACG
Found at i:14259917 original size:21 final size:22
Alignment explanation
Indices: 14259869--14259917 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
14259859 ATTAAATAAA
*
14259869 AAAATTATGTGCAACTATTATG
1 AAAATTACGTGCAACTATTATG
14259891 AAAATTACGTGCAAC-ATTA-G
1 AAAATTACGTGCAACTATTATG
14259911 AATAATT
1 AA-AATT
14259918 TTTTACCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 14 0.56
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
AAAATTACGTGCAACTATTATG
Found at i:14261659 original size:19 final size:20
Alignment explanation
Indices: 14261637--14261675 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14261627 CCCATTTTCG
14261637 TAATC-AACAAAAATATAAT
1 TAATCAAACAAAAATATAAT
*
14261656 TAATCAAACAAACATATAAT
1 TAATCAAACAAAAATATAAT
14261676 GTTCACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATCAAACAAAAATATAAT
Found at i:14261974 original size:6 final size:7
Alignment explanation
Indices: 14261954--14261980 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14261944 AAATGTTTGT
14261954 AATAAAA
1 AATAAAA
14261961 AATAAAA
1 AATAAAA
14261968 AATAAAA
1 AATAAAA
14261975 AATAAA
1 AATAAA
14261981 TAGTACTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:14265260 original size:28 final size:28
Alignment explanation
Indices: 14265219--14265273 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
14265209 TCTTGGTAAT
*
14265219 CATCAAGTGGCTGGAATTGACTACACCC
1 CATCAAGTGACTGGAATTGACTACACCC
14265247 CATCAAGTGACTGGAATTGACTACACC
1 CATCAAGTGACTGGAATTGACTACACC
14265274 GATACATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (28 bp):
CATCAAGTGACTGGAATTGACTACACCC
Found at i:14266680 original size:45 final size:46
Alignment explanation
Indices: 14266630--14266723 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
14266620 TCTCTTTTCT
14266630 TTTAATTAGGAGATTAGATGCT-AAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
*
14266675 TTTAATTAGGAGATTAGATGTTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
14266721 TTT
1 TTT
14266724 CTATCTTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 21 0.45
46 26 0.55
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:14268798 original size:40 final size:41
Alignment explanation
Indices: 14268717--14268801 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 41
14268707 CACACAACTG
14268717 TCCTTTGCATTTACCATTCTTGACATTACCAACCACCCTTTGC
1 TCCTTTGCATTTACCA-T-TTGACATTACCAACCACCCTTTGC
* * * *
14268760 TCCTTTGCCTTTACCA-TTGCCATTACCAACTACTCTTTGC
1 TCCTTTGCATTTACCATTTGACATTACCAACCACCCTTTGC
14268800 TC
1 TC
14268802 TCTCTCTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 23 0.61
43 15 0.39
ACGTcount: A:0.19, C:0.35, G:0.07, T:0.39
Consensus pattern (41 bp):
TCCTTTGCATTTACCATTTGACATTACCAACCACCCTTTGC
Found at i:14270667 original size:20 final size:20
Alignment explanation
Indices: 14270629--14270667 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14270619 GACTCTTCAA
** *
14270629 ATGCATGGAAATTCTTGGAC
1 ATGCATGGAAAAACATGGAC
14270649 ATGCATGGAAAAACATGGA
1 ATGCATGGAAAAACATGGA
14270668 AAGAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (20 bp):
ATGCATGGAAAAACATGGAC
Found at i:14271825 original size:121 final size:120
Alignment explanation
Indices: 14271635--14271879 Score: 386
Period size: 121 Copynumber: 2.0 Consensus size: 120
14271625 ATCTACTAAC
* * *
14271635 AAATTCGTTCTCAGACTTTTTTGATGAACTTCATTTTCTCTATCCATATTAAACTTTGAAAACAC
1 AAATTCGTTCTCAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
* *
14271700 CTCATCAATTTCAGTCTACAAAGAAT-TTGACTTAAAATTTGAGCTTTTCATCTTTT
66 CTCATCAATTTCAGCCTACAAAGAATGTGGA-TTAAAATTTGAGCTTTTCATC-TTT
14271756 AAATTCGTTC-CAAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
1 AAATTCGTTCTC-AGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
* *
14271820 CCTCATCAATTTGAGCCTTCAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
65 CCTCATCAATTTCAGCCTACAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
14271876 AAAT
1 AAAT
14271880 ATTGTGTATA
Statistics
Matches: 115, Mismatches: 7, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
120 8 0.07
121 104 0.90
122 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (120 bp):
AAATTCGTTCTCAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
CTCATCAATTTCAGCCTACAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
Found at i:14279887 original size:30 final size:30
Alignment explanation
Indices: 14279853--14279909 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14279843 GGTGGGATGG
*
14279853 GAAGGGAATAAAAGTTTTAGGGGAAAAGTC
1 GAAGGGAATAAAAATTTTAGGGGAAAAGTC
* *
14279883 GAAGGGAGTAAAAATTTTGGGGGAAAA
1 GAAGGGAATAAAAATTTTAGGGGAAAA
14279910 TAAAAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (30 bp):
GAAGGGAATAAAAATTTTAGGGGAAAAGTC
Found at i:14279959 original size:21 final size:21
Alignment explanation
Indices: 14279933--14279973 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14279923 GGGTTTTTGG
*
14279933 GAGTAAAATTTTGAGAAAAAA
1 GAGTAAAAATTTGAGAAAAAA
14279954 GAGTAAAAATTTGAGAAAAA
1 GAGTAAAAATTTGAGAAAAA
14279974 GTAAATGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (21 bp):
GAGTAAAAATTTGAGAAAAAA
Found at i:14283426 original size:15 final size:15
Alignment explanation
Indices: 14283406--14283471 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 15
14283396 ATAATAAAAC
14283406 AAAGAAATAAAAGAA
1 AAAGAAATAAAAGAA
14283421 AAAGAAAT---AGAA
1 AAAGAAATAAAAGAA
*
14283433 AAAGAAA-CAAAGAA
1 AAAGAAATAAAAGAA
* *
14283447 CAAACGAAACATGAAGAA
1 -AAA-GAAATA-AAAGAA
14283465 AAAGAAA
1 AAAGAAA
14283472 GAAAGGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
12 11 0.26
14 4 0.10
15 11 0.26
16 8 0.19
17 3 0.07
18 5 0.12
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.05
Consensus pattern (15 bp):
AAAGAAATAAAAGAA
Found at i:14283471 original size:16 final size:14
Alignment explanation
Indices: 14283415--14283476 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 14
14283405 CAAAGAAATA
14283415 AAAGAAAAAG-AA-
1 AAAGAAAAAGAAAC
*
14283427 ATAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
14283441 AAAGAACAAACGAAAC
1 AAAGAA-AAA-GAAAC
*
14283457 ATGAAGAAAAAGAAAG
1 A--AAGAAAAAGAAAC
14283473 AAAG
1 AAAG
14283477 GAGAAACTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 9 0.22
13 2 0.05
14 8 0.20
15 3 0.07
16 11 0.27
17 3 0.07
18 5 0.12
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:14284411 original size:40 final size:38
Alignment explanation
Indices: 14284291--14284424 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 38
14284281 ACTTCAAGTT
*
14284291 GATGAGACACTGGGTGTCAATTTATTACTTTGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTT--ATT-ATCC
* * * ** *
14284332 GATGAGGCACTAGGTGCCAATTTACTT-CGGT-TTAGCC
1 GATGAGACACTGGGTGTCAATTTA-TTACTTTATTATCC
*
14284369 GATGAGACATTGGGTGTCAATTTATTACTTTAAATTATCC
1 GATGAGACACTGGGTGTCAATTTATTACTTT--ATTATCC
*
14284409 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
14284425 CCAAACTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
36 2 0.03
37 24 0.33
38 2 0.03
40 19 0.26
41 23 0.32
42 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCAATTTATTACTTTATTATCC
Found at i:14290276 original size:30 final size:29
Alignment explanation
Indices: 14290238--14290333 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 29
14290228 TGAAATGAAG
14290238 ATGTTAATTACCTTATCTTCATTGTTTGC
1 ATGTTAATTACCTTATCTTCATTGTTTGC
*
14290267 ATGTGTAATT---TTATCTTTAACAATG-TT--
1 ATGT-TAATTACCTTATC-TT--CATTGTTTGC
14290294 ATAGTTAATTACCTTATCTTCATTGTTTGC
1 AT-GTTAATTACCTTATCTTCATTGTTTGC
*
14290324 AGGTGTAATT
1 ATGT-TAATT
14290334 TTATCTTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 23
0.67 0.04 0.29
Matches are distributed among these distances:
27 16 0.31
28 6 0.12
29 10 0.19
30 20 0.38
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (29 bp):
ATGTTAATTACCTTATCTTCATTGTTTGC
Found at i:14290281 original size:27 final size:27
Alignment explanation
Indices: 14290250--14290340 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
14290240 GTTAATTACC
14290250 TTATCTTCATTGTTTGCATGTGTAATT
1 TTATCTTCATTGTTTGCATGTGTAATT
*
14290277 TTATCTTTAACAATG-TT--ATAGT-TAATT
1 TTATC-TT--CATTGTTTGCAT-GTGTAATT
*
14290304 ACCTTATCTTCATTGTTTGCAGGTGTAATT
1 ---TTATCTTCATTGTTTGCATGTGTAATT
14290334 TTATCTT
1 TTATCTT
14290341 TAACAATGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 22
0.67 0.04 0.29
Matches are distributed among these distances:
27 23 0.46
28 6 0.12
29 6 0.12
30 15 0.30
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (27 bp):
TTATCTTCATTGTTTGCATGTGTAATT
Found at i:14290309 original size:57 final size:57
Alignment explanation
Indices: 14290240--14290353 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
14290230 AAATGAAGAT
*
14290240 GTTAATTACCTTATCTTCATTGTTTGCATGTGTAATTTTATCTTTAACAATGTTATA
1 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
14290297 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
1 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
14290354 CAAAAAGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (57 bp):
GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
Found at i:14292017 original size:22 final size:24
Alignment explanation
Indices: 14291990--14292047 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 24
14291980 CAAAAGATCA
14291990 AAAACTTA-G-CCTTTTCCAGAAC
1 AAAACTTATGACCTTTTCCAGAAC
14292012 AAAACTTAAATGAAACCTTTTCCAGAAC
1 AAAACTT--ATG--ACCTTTTCCAGAAC
14292040 AAAACTTA
1 AAAACTTA
14292048 AATGAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 7 0.23
24 1 0.03
25 1 0.03
26 1 0.03
28 20 0.67
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAACTTATGACCTTTTCCAGAAC
Found at i:14292032 original size:28 final size:28
Alignment explanation
Indices: 14291999--14292055 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14291989 AAAAACTTAG
14291999 CCTTTTCCAGAACAAAACTTAAATGAAA
1 CCTTTTCCAGAACAAAACTTAAATGAAA
14292027 CCTTTTCCAGAACAAAACTTAAATGAAA
1 CCTTTTCCAGAACAAAACTTAAATGAAA
14292055 C
1 C
14292056 TATCCCTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (28 bp):
CCTTTTCCAGAACAAAACTTAAATGAAA
Found at i:14292255 original size:43 final size:43
Alignment explanation
Indices: 14292090--14292274 Score: 187
Period size: 43 Copynumber: 4.3 Consensus size: 43
14292080 TCAATGGGTT
* * * *
14292090 ATGTTCTTTAGCGGTGTTTGTGGGGAAAACGCTGC-TAAAAG-TT
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGC--CATTAAAGATC
* **
14292133 ATGTTCTTTAGCTGCGTTTGTGGGGAAAGCGCCGCTAAAGATC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
* * * * *
14292176 ATATTCTATAGCGACATTTGTGGGGAAAGCGTCATTAAAGATC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
* *
14292219 ATGTTCTTTAGCGGTGTTTGTGGGGAAAGTGCCATTAAA-AGTC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGA-TC
*
14292262 ATGTTCTATAGCG
1 ATGTTCTTTAGCG
14292275 ACCTTTTACC
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 111 0.95
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
Found at i:14294358 original size:7 final size:7
Alignment explanation
Indices: 14294346--14294370 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14294336 AGGACAGATT
14294346 TGGGAAG
1 TGGGAAG
14294353 TGGGAAG
1 TGGGAAG
14294360 TGGGAAG
1 TGGGAAG
14294367 TGGG
1 TGGG
14294371 TGGGGACGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.60, T:0.16
Consensus pattern (7 bp):
TGGGAAG
Found at i:14296373 original size:28 final size:28
Alignment explanation
Indices: 14296333--14296394 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
14296323 ATTGGAAGTC
*
14296333 GAGCATGGATGAACCGAAGAGAGAAAGG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
* *
14296361 GAGCATAGATGAACCGAAGAGGGAAATG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
14296389 GAGCAT
1 GAGCAT
14296395 GGAACCAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.37, T:0.10
Consensus pattern (28 bp):
GAGCATAGATGAACCGAAGAGAGAAAGG
Found at i:14297583 original size:19 final size:20
Alignment explanation
Indices: 14297548--14297586 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14297538 ACATGTATGA
14297548 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
14297568 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
14297587 GTTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:14297657 original size:14 final size:14
Alignment explanation
Indices: 14297638--14297686 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
14297628 TTAAAACAAT
*
14297638 AAAGTAAAGAAAAG
1 AAAGTAAAGTAAAG
14297652 AAAGTAAAGTAAAG
1 AAAGTAAAGTAAAG
14297666 AAAAG-AAAGTAAAG
1 -AAAGTAAAGTAAAG
14297680 AAA-TAAA
1 AAAGTAAA
14297687 AACGAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 22 0.69
15 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAGTAAAGTAAAG
Found at i:14297661 original size:19 final size:19
Alignment explanation
Indices: 14297637--14297679 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
14297627 ATTAAAACAA
14297637 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAGAAAAGAAAG
14297656 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAGAAAAGAAAG
14297675 TAAAG
1 TAAAG
14297680 AAATAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (19 bp):
TAAAGTAAAGAAAAGAAAG
Found at i:14297688 original size:19 final size:19
Alignment explanation
Indices: 14297637--14297693 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
14297627 ATTAAAACAA
*
14297637 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAAAAAAGAAAG
*
14297656 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAAAAAAGAAAG
14297675 TAAAG-AAATAAAAACGAAA
1 TAAAGTAAA-AAAAA-GAAA
14297694 AAAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 3 0.09
19 28 0.80
20 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.11
Consensus pattern (19 bp):
TAAAGTAAAAAAAAGAAAG
Found at i:14298911 original size:22 final size:22
Alignment explanation
Indices: 14298884--14298956 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
14298874 AGGCACTTTA
*
14298884 TGTGTCGTATTTTAGGCACCTG
1 TGTGTCGTATTTCAGGCACCTG
14298906 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCT-G
* * *
14298927 TGTG-C-CATTTCAGGCACTTA
1 TGTGTCGTATTTCAGGCACCTG
14298947 TGTGTCGTAT
1 TGTGTCGTAT
14298957 ACTAATCAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 14 0.34
21 15 0.37
22 11 0.27
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (22 bp):
TGTGTCGTATTTCAGGCACCTG
Found at i:14302034 original size:17 final size:16
Alignment explanation
Indices: 14302006--14302058 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
14301996 TTTGGTTCGC
14302006 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14302022 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
14302039 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14302055 TGTA
1 TGTA
14302059 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14302123 original size:44 final size:45
Alignment explanation
Indices: 14302039--14302129 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14302029 GGATTAGAGG
* * *
14302039 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14302084 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14302128 TG
1 TG
14302130 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14302315 original size:18 final size:17
Alignment explanation
Indices: 14302294--14302328 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14302284 TTATTATTAA
*
14302294 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14302312 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14302329 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14302435 original size:18 final size:17
Alignment explanation
Indices: 14302414--14302448 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14302404 TTATTATTAA
*
14302414 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14302432 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14302449 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14302494 original size:61 final size:60
Alignment explanation
Indices: 14302309--14302499 Score: 162
Period size: 61 Copynumber: 3.2 Consensus size: 60
14302299 TTTTAATTAA
* *
14302309 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * * * *
14302370 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTATTAT-TAAATATATT-TTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATAAAT-T-TTCTAAATCAT
*
14302429 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
14302490 AATATATAAT
1 AATATATAAT
14302500 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 29 0.30
60 20 0.20
61 38 0.39
62 6 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:14302577 original size:120 final size:120
Alignment explanation
Indices: 14302272--14302555 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 120
14302262 ATTTAATCAT
14302272 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
14302337 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
14302393 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
14302458 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
14302513 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
14302556 TTTTCAATTA
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
119 14 0.09
120 136 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:14317819 original size:5 final size:6
Alignment explanation
Indices: 14317805--14317836 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14317795 ATTAGCAATG
14317805 AAAATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
14317837 CTTCATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:14333689 original size:3 final size:3
Alignment explanation
Indices: 14333683--14333733 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
14333673 TGCAAAAAGT
14333683 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14333731 TAA
1 TAA
14333734 AGACGGAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14341861 original size:18 final size:19
Alignment explanation
Indices: 14341827--14341866 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
14341817 ATTAAATATT
14341827 AAATATTTACTTTTAAATTA
1 AAATATTTAC-TTTAAATTA
14341847 AAATATTTA-TTTAAATTA
1 AAATATTTACTTTAAATTA
14341865 AA
1 AA
14341867 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTACTTTAAATTA
Found at i:14341871 original size:24 final size:23
Alignment explanation
Indices: 14341815--14341872 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 23
14341805 GTTTAAATAA
14341815 TAATTAAATATT-AAATATTTACT
1 TAATTAAAT-TTAAAATATTTACT
*
14341838 T--TTAAA-TTAAAATATTTATT
1 TAATTAAATTTAAAATATTTACT
14341858 TAAATTAAATTTAAA
1 T-AATTAAATTTAAA
14341873 TAAATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 5 0.17
23 6 0.21
24 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAAATTTAAAATATTTACT
Found at i:14359294 original size:26 final size:26
Alignment explanation
Indices: 14359265--14359330 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
14359255 TTTTCAAAAA
14359265 TTATTACTTTTATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
* *
14359291 TTATTACATTGATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
*
14359317 -T-TTATTTTTATAAA
1 TTATTACTTTTATAAA
14359331 AAAAATCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 24 0.69
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (26 bp):
TTATTACTTTTATAAAGTAGCACTAG
Found at i:14359401 original size:18 final size:18
Alignment explanation
Indices: 14359380--14359415 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14359370 TCCCCTTGAG
14359380 TAAAAAATTAAATTAAAT
1 TAAAAAATTAAATTAAAT
* *
14359398 TAAAAATTTTAATTAAAT
1 TAAAAAATTAAATTAAAT
14359416 CCCTCGTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAAATTAAATTAAAT
Found at i:14359917 original size:19 final size:17
Alignment explanation
Indices: 14359889--14359953 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 17
14359879 TAGTTTTATA
14359889 TTTTAT-TTTTTATAAT
1 TTTTATATTTTTATAAT
**
14359905 TTATTATCATTTTCCTAACT
1 TT-TTAT-ATTTTTATAA-T
*
14359925 TTTTATTATATTTATAATT
1 TTTTA-TATTTTTATAA-T
14359944 TTTTATATTT
1 TTTTATATTT
14359954 GCAAACATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 2 0.05
17 4 0.11
18 4 0.11
19 23 0.62
20 4 0.11
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTTATAAT
Found at i:14364095 original size:19 final size:20
Alignment explanation
Indices: 14364073--14364111 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14364063 ACATTTTCAC
*
14364073 TTTTAGTGT-TTAATATTTT
1 TTTTAGTGTATCAATATTTT
*
14364092 TTTTTGTGTATCAATATTTT
1 TTTTAGTGTATCAATATTTT
14364112 AAAAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTAGTGTATCAATATTTT
Found at i:14364122 original size:15 final size:16
Alignment explanation
Indices: 14364104--14364135 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14364094 TTTGTGTATC
14364104 AATA-TTTTAAAAAAT
1 AATATTTTTAAAAAAT
14364119 AATATTTTTAAAAAAT
1 AATATTTTTAAAAAAT
14364135 A
1 A
14364136 TGATGTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATTTTTAAAAAAT
Found at i:14369590 original size:44 final size:44
Alignment explanation
Indices: 14369542--14369668 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 44
14369532 GAAATGTAAT
* * * *
14369542 TTCAATCTACTACGCTGCAACCTTAGGGAGATTAGATTC-GTATC
1 TTCAATCTGCT-CGCTGTAACCTTAGGGAGATAAGATTCACTATC
*
14369586 TTCAATCTGCTCTGCTGTAA-CTTCAAGGAGATAAGATTCACTATC
1 TTCAATCTGCTC-GCTGTAACCTT-AGGGAGATAAGATTCACTATC
* *
14369631 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATT
1 TTCAATCTGCT-CGCTGTAACCTTAGGGAGATAAGATT
14369669 GGTGACTTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
44 29 0.41
45 34 0.49
46 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCGCTGTAACCTTAGGGAGATAAGATTCACTATC
Found at i:14370202 original size:262 final size:262
Alignment explanation
Indices: 14369730--14370225 Score: 823
Period size: 262 Copynumber: 1.9 Consensus size: 262
14369720 TGCTATATTC
*
14369730 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
* * *
14369795 AACTTTAGGGGTATAGGATTTGTGGTTTCACTAGTCTGTTACACCATTCTCTAGGGAACATGACC
66 AACATCAGGGGTATAGGATTTGTGGTTTCACTAGTATGTTACACCATTCTCTAGGGAACATGACC
*
14369860 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACGATTAGGATGTTATGATCAGAATGAAT
131 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAAT
14369925 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
196 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
14369990 TT
261 TT
* * * *
14369992 AATCTGATCCACTGTAACTTTAGTGAGATAAGATTCGCCACGATTACTTCAATCCGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
** * *
14370057 AACATCAGGGGTATAGGATTTGTGGTTTCACT-GATATGTTACACTGTTCTTTGGGGAACATGAC
66 AACATCAGGGGTATAGGATTTGTGGTTTCACTAG-TATGTTACACCATTCTCTAGGGAACATGAC
* *
14370121 CTGTAGAATCCATTTCATGGGCCTATATTTATGCCAAGCAATTAGGATGTTATGATCAGAATGAA
130 CTGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAA
**
14370186 TCAGATGTTCCTAACTAGATGTGTATGAATGATATTTGCA
195 TCAGATACTCCTAACTAGATGTGTATGAATGATATTTGCA
14370226 TTAATGCAGA
Statistics
Matches: 216, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
261 1 0.00
262 215 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (262 bp):
AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
AACATCAGGGGTATAGGATTTGTGGTTTCACTAGTATGTTACACCATTCTCTAGGGAACATGACC
TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAAT
CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
TT
Found at i:14377644 original size:41 final size:41
Alignment explanation
Indices: 14377610--14377703 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
14377600 ACCGACTTTT
* *
14377610 AGCCTACTAGACTTATAGTCTGAAATATTTCACCGGCATCA
1 AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
* * *
14377651 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
*
14377692 AGCCTGCTAGAC
1 AGCCTACTAGAC
14377704 ATAAAGTCTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
Found at i:14381110 original size:17 final size:18
Alignment explanation
Indices: 14381083--14381121 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
14381073 TATATTGACA
14381083 AAAAAATTAAAATAATTT
1 AAAAAATTAAAATAATTT
*
14381101 AAAAAA-TAAAATACTTT
1 AAAAAATTAAAATAATTT
14381118 AAAA
1 AAAA
14381122 TTAACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATTAAAATAATTT
Found at i:14381348 original size:24 final size:26
Alignment explanation
Indices: 14381315--14381372 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
14381305 TTTAGAACAA
14381315 AACTTGAG-AA-AATTGAGAGAGTTG
1 AACTTGAGAAAGAATTGAGAGAGTTG
*
14381339 AACTTTAGAAAGAATTGAGAGAGTTG
1 AACTTGAGAAAGAATTGAGAGAGTTG
*
14381365 AATTTGAG
1 AACTTGAG
14381373 TGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.24
25 2 0.07
26 20 0.69
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (26 bp):
AACTTGAGAAAGAATTGAGAGAGTTG
Found at i:14384086 original size:29 final size:30
Alignment explanation
Indices: 14384017--14384089 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
14384007 GACACATTAG
* *
14384017 CATTTAAATAATTTTTTAAAATTTAAAAAAT
1 CATTAAAATTATTTTTTAAAA-TTAAAAAAT
* *
14384048 GA-AAAGAATTATTTTTTAAAA-TAAAAAAT
1 CATTAA-AATTATTTTTTAAAATTAAAAAAT
14384077 CATTAAAATTATT
1 CATTAAAATTATT
14384090 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
29 16 0.47
30 3 0.09
31 15 0.44
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
CATTAAAATTATTTTTTAAAATTAAAAAAT
Found at i:14387236 original size:26 final size:27
Alignment explanation
Indices: 14387200--14387260 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
14387190 GGTCCTTGTA
14387200 TTTTTTT-CTTTT-TGTGCAATTTAA-T
1 TTTTTTTCCTTTTATGT-CAATTTAACT
*
14387225 TTTTTTTCCTTTTATGTTAATTTAACT
1 TTTTTTTCCTTTTATGTCAATTTAACT
14387252 TTTTTTTCC
1 TTTTTTTCC
14387261 ATTCTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.22
26 12 0.38
27 13 0.41
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.69
Consensus pattern (27 bp):
TTTTTTTCCTTTTATGTCAATTTAACT
Found at i:14390858 original size:30 final size:32
Alignment explanation
Indices: 14390824--14390884 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
14390814 TATTTCATGG
14390824 TTCTTTT-CAATT-ATATAATAA-TTTAGTAAA
1 TTCTTTTGCAATTGATAT-ATAATTTTAGTAAA
*
14390854 TTCTTTTGCCATTGATATATAATTTTAGTAA
1 TTCTTTTGCAATTGATATATAATTTTAGTAA
14390885 TATTTTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 8 0.30
32 12 0.44
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (32 bp):
TTCTTTTGCAATTGATATATAATTTTAGTAAA
Found at i:14390911 original size:14 final size:14
Alignment explanation
Indices: 14390892--14390956 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
14390882 TAATATTTTT
14390892 ACCTCAAACCTTAA
1 ACCTCAAACCTTAA
* *
14390906 ACCTCAAATCTCAA
1 ACCTCAAACCTTAA
*
14390920 A-CT-AGAACGTTAA
1 ACCTCA-AACCTTAA
14390933 ATCC-CAAACCTTAA
1 A-CCTCAAACCTTAA
14390947 ACCTCAAACC
1 ACCTCAAACC
14390957 CCAAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.03
13 10 0.25
14 27 0.68
15 2 0.05
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (14 bp):
ACCTCAAACCTTAA
Found at i:14391062 original size:7 final size:7
Alignment explanation
Indices: 14391052--14391134 Score: 55
Period size: 7 Copynumber: 12.0 Consensus size: 7
14391042 CCCAAACCCA
14391052 AAACCTT
1 AAACCTT
14391059 AAACCTT
1 AAACCTT
* **
14391066 GAACCCC
1 AAACCTT
14391073 AAACCTT
1 AAACCTT
*
14391080 AAACAC-C
1 AAAC-CTT
* *
14391087 AAATCTC
1 AAACCTT
14391094 AAACCTT
1 AAACCTT
14391101 AAA-CTT
1 AAACCTT
*
14391107 CAAACC-A
1 -AAACCTT
*
14391114 AAACCCT
1 AAACCTT
14391121 AAACCTT
1 AAACCTT
14391128 AAACCTT
1 AAACCTT
14391135 GATTCGAGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
6 9 0.16
7 47 0.81
8 2 0.03
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCTT
Found at i:14391201 original size:28 final size:28
Alignment explanation
Indices: 14391141--14391204 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
14391131 CCTTGATTCG
*
14391141 AGTTTAGGGTTAAAGATTTAAAATTTAA
1 AGTTTAGGGTTAAAGATTTAAAATTCAA
* * * *
14391169 AGTTTGGGGTTCAAGATTTAGAGTTCAA
1 AGTTTAGGGTTAAAGATTTAAAATTCAA
*
14391197 GGTTTAGG
1 AGTTTAGG
14391205 AATGTGGGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.38
Consensus pattern (28 bp):
AGTTTAGGGTTAAAGATTTAAAATTCAA
Found at i:14395653 original size:42 final size:42
Alignment explanation
Indices: 14395575--14395746 Score: 145
Period size: 42 Copynumber: 4.1 Consensus size: 42
14395565 GTGCTAAACA
* * * *
14395575 GAAACCCGTAAGGGTTGAA-C-GAAAGCTCATAGGAGCTGAACA
1 GAAACCCATAAGGGTT-AATCTG-AAGCTCAAAAGAGCTGAACT
* * * *
14395617 AAAACCCATAAGGGTTAATCTGAAGTTCAGAAGAGCTAAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
*
14395659 GAAACCCATTAGGGTTAAAT-TGAAGCTCAAAAGAGCTGAACT
1 GAAACCCATAAGGGTT-AATCTGAAGCTCAAAAGAGCTGAACT
* * * * * * *
14395701 GAAACCCAAAAGGATTAAACTGAAACTCATATGAG-TTAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
14395742 GAAAC
1 GAAAC
14395747 TCATGAAAGC
Statistics
Matches: 106, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
41 14 0.13
42 88 0.83
43 4 0.04
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
Found at i:14395721 original size:21 final size:21
Alignment explanation
Indices: 14395653--14395726 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
14395643 TCAGAAGAGC
** *
14395653 TAAACTGAAACCCATTAGGGT
1 TAAACTGAAACCCAAAAGGAT
* * * *
14395674 TAAATTGAAGCTCAAAA-GAGC
1 TAAACTGAAACCCAAAAGGA-T
*
14395695 TGAACTGAAACCCAAAAGGAT
1 TAAACTGAAACCCAAAAGGAT
14395716 TAAACTGAAAC
1 TAAACTGAAAC
14395727 TCATATGAGT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 1 0.03
21 35 0.92
22 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (21 bp):
TAAACTGAAACCCAAAAGGAT
Found at i:14403614 original size:104 final size:104
Alignment explanation
Indices: 14403427--14403615 Score: 258
Period size: 104 Copynumber: 1.8 Consensus size: 104
14403417 TTGAAGAACT
* *
14403427 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATTTTTAGATTA
1 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATATTTAGAATA
14403492 AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
66 AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
* ** *
14403531 AAGTGGTGGAGCCATTTAGAATGGCTCCACC-AAATAAAATATTATTTTTTTAAAA-ATTTA-AA
1 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATA-TA-ATTTTTAAAATATTTAGAA
* * *
14403593 TATAAAAAATATATTTAAAAAAA
64 TAAAAAAAACACATTTAAAAAAA
14403616 TCTTAAAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
103 31 0.42
104 34 0.46
105 9 0.12
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (104 bp):
AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATATTTAGAATA
AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
Found at i:14410878 original size:40 final size:40
Alignment explanation
Indices: 14410833--14410911 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
14410823 TATTCCTCTT
14410833 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
1 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
*
14410873 CAAACCATCTAAAATAGAGTTAAAGTCACTAGCAACAAT
1 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAAT
14410912 CCATGGCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (40 bp):
CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
Found at i:14414915 original size:40 final size:40
Alignment explanation
Indices: 14414860--14414938 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
14414850 TGAGCCATGG
14414860 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
* *
14414900 ATTGTTGCTAGTGACTTTAACTCTATTTTGGATGGTTTG
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTG
14414939 AAGAGGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (40 bp):
ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
Found at i:14415305 original size:33 final size:33
Alignment explanation
Indices: 14415263--14415328 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
14415253 ATCTTGTTGA
14415263 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
1 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
14415296 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
1 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
14415329 GAATTTGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.24
Consensus pattern (33 bp):
TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
Found at i:14415574 original size:115 final size:115
Alignment explanation
Indices: 14415370--14415627 Score: 333
Period size: 115 Copynumber: 2.2 Consensus size: 115
14415360 TGTTTTCGAT
* * **
14415370 AAAGCGCCACTAATTATCGATATATAACGGTGTTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* *
14415435 AACGCCACCGTTTTGGATTGAGCTTTAATGGCATTAGCAGCG-TTTGGGAC
66 AACGCCACCGTTTTGGATTAAGCTTTAATGGCATTAGCAGCGCTTT-GGAA
*
14415485 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAGATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* * * **
14415550 AACGCCATC-TTATTAGG-TTAAGCTTTAGTGGCATTAGCGGCGCTTTTTAA
66 AACGCCACCGTT-TT-GGATTAAGCTTTAATGGCATTAGCAGCGCTTTGGAA
* * *
14415600 AAAACGCCGCTAATTCTCGATCTATAGC
1 AAAGCGCCACTAATTCTCGATATATAGC
14415628 TTCGTTTTCG
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
114 2 0.02
115 118 0.94
116 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (115 bp):
AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
AACGCCACCGTTTTGGATTAAGCTTTAATGGCATTAGCAGCGCTTTGGAA
Found at i:14415684 original size:40 final size:40
Alignment explanation
Indices: 14415609--14415686 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
14415599 AAAAACGCCG
* ** *
14415609 CTAATTCTCGATCTATAGCTTCGTTTTCGACAAAGTGCCA
1 CTAATTCTCGATATATAGCGACGTTTTAGACAAAGTGCCA
14415649 CTAATTCTCGATATATAGCGACGTTTTTAGA-AAAGTGC
1 CTAATTCTCGATATATAGCGACG-TTTTAGACAAAGTGC
14415687 AGCAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
CTAATTCTCGATATATAGCGACGTTTTAGACAAAGTGCCA
Found at i:14415823 original size:141 final size:140
Alignment explanation
Indices: 14415570--14415823 Score: 382
Period size: 141 Copynumber: 1.8 Consensus size: 140
14415560 TATTAGGTTA
* ** * * **
14415570 AGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAATTCTCGATCTATAGCTTCGTTT
1 AGCTTTAGTGGCATTAGCGGCACTTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTTT
*
14415635 TCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
66 GCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
14415700 ATCACAACAC
131 ATCACAACAC
** *
14415710 AGCTTTAGTGGCATTAGCGGCACTTTTTTTGAAAGCGCAACTAATGCTCGATCTACAGCGACGTT
1 AGCTTTAGTGGCATTAGCGGCAC-TTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTT
* *
14415775 TGGGACAAAGTGCCACTAATTCTCGATATATAGCGGCGTTTTTAGAAAA
65 TGCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAA
14415824 ACGCCATAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
140 22 0.22
141 78 0.78
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (140 bp):
AGCTTTAGTGGCATTAGCGGCACTTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTTT
GCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
ATCACAACAC
Found at i:14415970 original size:21 final size:21
Alignment explanation
Indices: 14415925--14415976 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14415915 ATCATTTTAT
* *
14415925 TTTAAGGTTTATTGTTTAGTA
1 TTTAAGGTTTAATGTCTAGTA
14415946 TTTAAGGTTTAATGTCTA-TA
1 TTTAAGGTTTAATGTCTAGTA
*
14415966 GTTTAGGGTTT
1 -TTTAAGGTTT
14415977 TTAGGGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (21 bp):
TTTAAGGTTTAATGTCTAGTA
Found at i:14416271 original size:21 final size:20
Alignment explanation
Indices: 14416228--14416301 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
14416218 GTAGTATATA
14416228 TTTAAGGTTTAGGATATAAG
1 TTTAAGGTTTAGGATATAAG
* * *
14416248 TTTATGGTTTAGGGTTTAAAG
1 TTTAAGGTTTAGGATAT-AAG
* *
14416269 TTTAAGGTTTATGAT-TTAG
1 TTTAAGGTTTAGGATATAAG
14416288 TGTTAAGAGTTTAG
1 T-TTAAG-GTTTAG
14416302 TGTTTACGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.07
20 20 0.47
21 20 0.47
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
TTTAAGGTTTAGGATATAAG
Found at i:14416370 original size:22 final size:22
Alignment explanation
Indices: 14416345--14416387 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14416335 GTGTTTAGTG
*
14416345 TTTAGGGGTTAGAAGCTTAAGA
1 TTTAAGGGTTAGAAGCTTAAGA
* *
14416367 TTTAAGGGTTATAGGCTTAAG
1 TTTAAGGGTTAGAAGCTTAAG
14416388 GGCTTATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
TTTAAGGGTTAGAAGCTTAAGA
Found at i:14416422 original size:7 final size:7
Alignment explanation
Indices: 14416247--14416443 Score: 81
Period size: 7 Copynumber: 27.9 Consensus size: 7
14416237 TAGGATATAA
*
14416247 GTTTATG
1 GTTTAGG
14416254 GTTTAGG
1 GTTTAGG
**
14416261 GTTTAAA
1 GTTTAGG
*
14416268 GTTTAAG
1 GTTTAGG
*
14416275 GTTTATG
1 GTTTAGG
* *
14416282 ATTTAGT
1 GTTTAGG
* *
14416289 GTTAAGA
1 GTTTAGG
*
14416296 GTTTAGT
1 GTTTAGG
*
14416303 GTTTACG
1 GTTTAGG
* *
14416310 ATTTAAG
1 GTTTAGG
*
14416317 GTGTA-G
1 GTTTAGG
*
14416323 GTTTATG
1 GTTTAGG
*
14416330 GTTTAGT
1 GTTTAGG
*
14416337 GTTTAGT
1 GTTTAGG
14416344 GTTTAGG
1 GTTTAGG
* *
14416351 GGTTAGAA
1 GTTTAG-G
* *
14416359 GCTTAAG
1 GTTTAGG
*
14416366 ATTTAAGG
1 GTTT-AGG
14416374 GTTATAGG
1 GTT-TAGG
* *
14416382 CTTAAGG
1 GTTTAGG
* *
14416389 GCTTATG
1 GTTTAGG
* *
14416396 ATTTATG
1 GTTTAGG
*
14416403 GTTTATG
1 GTTTAGG
14416410 GTTTAGG
1 GTTTAGG
*
14416417 GTTTAGT
1 GTTTAGG
*
14416424 GTTTGGG
1 GTTTAGG
14416431 GTTTAGG
1 GTTTAGG
14416438 GTTTAG
1 GTTTAG
14416444 CTAAAAACAT
Statistics
Matches: 140, Mismatches: 46, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
6 5 0.04
7 121 0.86
8 13 0.09
9 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:14417167 original size:24 final size:23
Alignment explanation
Indices: 14417135--14417181 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
14417125 TCACGGACTC
14417135 TATTTTTGTTTCTATGTTTAATT
1 TATTTTTGTTTCTATGTTTAATT
14417158 TATTATTTGTTTCTATGTTTAATT
1 TATT-TTTGTTTCTATGTTTAATT
14417182 GTTAAGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TATTTTTGTTTCTATGTTTAATT
Found at i:14418648 original size:28 final size:28
Alignment explanation
Indices: 14418607--14418680 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
14418597 TTTAATTGGT
14418607 TTAATGTGAATAAATTATCGATTTTCGAC
1 TTAAT-TGAATAAATTATCGATTTTCGAC
* *
14418636 TTAATTGAATAAATTATCGATTTTTGAT
1 TTAATTGAATAAATTATCGATTTTCGAC
14418664 TTAATTGAATAAATTAT
1 TTAATTGAATAAATTAT
14418681 GTTTGACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 38 0.88
29 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (28 bp):
TTAATTGAATAAATTATCGATTTTCGAC
Found at i:14418692 original size:23 final size:25
Alignment explanation
Indices: 14418608--14418692 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 25
14418598 TTAATTGGTT
14418608 TAATGTGAATAAATTATCGATTTTCGAC
1 TAAT-TGAATAAATTATCG-TTTT-GAC
*
14418636 TTAATTGAATAAATTATCGATTTTTGATT
1 -TAATTGAATAAATTATCG--TTTTGA-C
14418665 TAATTGAATAAATTAT-G-TTTGAC
1 TAATTGAATAAATTATCGTTTTGAC
14418688 TAATT
1 TAATT
14418693 TATCGTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
27 1 0.02
28 32 0.63
29 8 0.16
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (25 bp):
TAATTGAATAAATTATCGTTTTGAC
Done.