Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 151 of 290
Found at i:48378801 original size:40 final size:39
Alignment explanation
Indices: 48378741--48378854 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 39
48378731 TTATTTGTGA
* *
48378741 CACTTAGTGTGAGATACGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATTCGACATAGCTTC-GCTATATATGG
** *
48378781 CACTTAGTGTGCGATTCGACATATTTTCGATAATATATGG
1 CACTTAGTGTGCGATTCGACATAGCTTCGCT-ATATATGG
* * * *
48378821 CAATTAGTGTGCGATTTGAGATAGGTTCAGCTAT
1 CACTTAGTGTGCGATTCGACATAGCTTC-GCTAT
48378855 GTACGGTACT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
39 2 0.03
40 57 0.93
41 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (39 bp):
CACTTAGTGTGCGATTCGACATAGCTTCGCTATATATGG
Found at i:48381857 original size:79 final size:82
Alignment explanation
Indices: 48381746--48381930 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
48381736 GCTACTCGTT
* * *
48381746 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48381809 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48381826 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48381889 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48381906 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48381931 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:48381930 original size:40 final size:40
Alignment explanation
Indices: 48381727--48381930 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
48381717 CGGAATTTAA
** *
48381727 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48381767 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48381807 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48381846 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48381886 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48381926 CCGGA
1 CCGGA
48381931 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48389156 original size:79 final size:82
Alignment explanation
Indices: 48389045--48389229 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
48389035 GCTACTCGTT
* * *
48389045 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48389108 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48389125 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48389188 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48389205 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48389230 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:48389229 original size:40 final size:40
Alignment explanation
Indices: 48389026--48389229 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
48389016 CGGAATTTAA
** *
48389026 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48389066 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48389106 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48389145 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48389185 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48389225 CCGGA
1 CCGGA
48389230 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48397541 original size:45 final size:45
Alignment explanation
Indices: 48397477--48397647 Score: 260
Period size: 45 Copynumber: 3.8 Consensus size: 45
48397467 TGTACAGTAC
*
48397477 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
48397522 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC-GATGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAG-TGAGATAT
*
48397567 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
* *
48397612 TATTCTGGCC-TCGAGCCTAGCAGG-TGA-AATGCCAGT
1 TATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCAGT
48397648 AAATGAATTC
Statistics
Matches: 119, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
43 9 0.08
44 15 0.13
45 94 0.79
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
Found at i:48407353 original size:55 final size:54
Alignment explanation
Indices: 48407266--48407520 Score: 287
Period size: 55 Copynumber: 4.8 Consensus size: 54
48407256 ATTAGGGTTT
*
48407266 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
48407321 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
48407376 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTCAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
48407429 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
48407478 AAGGATACCACGTAAGACCATGACAAGACATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
48407521 GTACCCGCGT
Statistics
Matches: 173, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
49 41 0.24
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:48407472 original size:108 final size:110
Alignment explanation
Indices: 48407273--48407473 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
48407263 TTTAAGGATA
*
48407273 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
48407338 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
48407383 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTCA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
48407445 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
48407474 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:48410294 original size:48 final size:48
Alignment explanation
Indices: 48410208--48410434 Score: 337
Period size: 48 Copynumber: 4.7 Consensus size: 48
48410198 TCATATCGAC
* * ** *
48410208 GCCATGTCCCAAACATGGTCGTACATGAAATCACATATCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
* * * *
48410256 GCCATATCCCAGACATGGTCTTACGTGGGATCATATATCAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
48410304 GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
* * *
48410352 GCTATGTCCCAGACATGGTCTTACATGGGATCACATATTGATTCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
*
48410400 GCCATGTCCCAGACATGGTCTAACATGGGATCACA
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACA
48410435 ATGCCATAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT
Found at i:48410455 original size:37 final size:37
Alignment explanation
Indices: 48410396--48410494 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
48410386 ATATTGATTC
*
48410396 CAATGCCAT-GTCCCAGAC-ATGGTCTAACATGGGATCA
1 CAATGCCATAG-CCCAG-CTATGGTCTAACATGGCATCA
* * * * *
48410433 CAATGCCATAGCCCATCTATGGTTTTACATGTCATTA
1 CAATGCCATAGCCCAGCTATGGTCTAACATGGCATCA
*
48410470 CGATGCCATAGCCCAGCTATGGTCT
1 CAATGCCATAGCCCAGCTATGGTCT
48410495 TGCACGTACT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 1 0.02
37 49 0.96
38 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAGCTATGGTCTAACATGGCATCA
Found at i:48412205 original size:46 final size:47
Alignment explanation
Indices: 48412099--48412414 Score: 211
Period size: 46 Copynumber: 6.7 Consensus size: 47
48412089 TATTATGAGC
* * * * *
48412099 CAGTGTAAGGCCATGTCTGGGACATGACATTGGCATTGAGACG-AGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCA-TCGCCTCGAGACGTA-AGT
*
48412146 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACGTAAGG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGACGTAAGT
* * * *
48412193 CAGTGCAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGT--GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGACGTAAGT
* * * * * * *
48412237 CAGTGTAAGACCATGTCCGGGACATGGCATCGACACAGATATGTGAGAA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTC-GAGACGTAAG-T
* *
48412286 CTAGTGTAAGACCATGCCTGGGACATGGCGTCAGCCTCGATGACG-ATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-GACGTA-AGT
* * ** *
48412336 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGACGTAAGT
* * *
48412382 CTAGTGTAAGACAATGTCTAGGACATGACATCG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCG
48412415 ACATTCTACC
Statistics
Matches: 216, Mismatches: 36, Indels: 34
0.76 0.13 0.12
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 60 0.28
47 49 0.23
48 14 0.06
49 29 0.13
50 30 0.14
51 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGACGTAAGT
Found at i:48412406 original size:146 final size:140
Alignment explanation
Indices: 48412141--48412417 Score: 351
Period size: 146 Copynumber: 1.9 Consensus size: 140
48412131 GCATTGAGAC
* *
48412141 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGGCAGTGCAAGACAT
1 GAGAACTAGTGTAAGACATGCCTGGGACATGCATCAGCCTCGAGACGTAAGGCAGTGCAAGACAT
* * * * *
48412206 GTCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCCGGGACATGGCATCGAC
66 GTCTAGGACATGCATCGGCTACGAGATATGGCAGTGTAAGACAATGTCCAGGACATGACATCGAC
48412271 ACAGATATGT
131 ACAGATATGT
* * *
48412281 GAGAACTAGTGTAAGACCATGCCTGGGACATGGCGTCAGCCTCGATGACG-ATAGTCAGTGTAAG
1 GAGAACTAGTGTAAGA-CATGCCTGGGACAT-GCATCAGCCTCGA-GACGTA-AGGCAGTGCAAG
* * *
48412345 ACCATGTCTGGGACATGGCATCGGCT-TGAGATATGAGCTAGTGTAAGACAATGTCTAGGACATG
62 A-CATGTCTAGGACAT-GCATCGGCTACGAGATATG-GC-AGTGTAAGACAATGTCCAGGACATG
48412409 ACATCGACA
123 ACATCGACA
48412418 TTCTACCCCA
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
140 15 0.13
141 13 0.11
142 13 0.11
143 15 0.13
144 20 0.17
145 10 0.09
146 30 0.26
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (140 bp):
GAGAACTAGTGTAAGACATGCCTGGGACATGCATCAGCCTCGAGACGTAAGGCAGTGCAAGACAT
GTCTAGGACATGCATCGGCTACGAGATATGGCAGTGTAAGACAATGTCCAGGACATGACATCGAC
ACAGATATGT
Found at i:48421903 original size:20 final size:20
Alignment explanation
Indices: 48421878--48421922 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48421868 AGGGACTAAA
* *
48421878 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
48421898 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
48421918 ATGAA
1 ATGAA
48421923 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:48425707 original size:47 final size:47
Alignment explanation
Indices: 48425629--48426314 Score: 1111
Period size: 47 Copynumber: 14.6 Consensus size: 47
48425619 CCCTTCGGGA
* * * * * *
48425629 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48425676 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48425723 CTCATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48425770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48425817 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48425866 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48425913 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48425960 CTTATCACATATATACACTTTCAAATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426007 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48426054 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426101 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426148 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48426195 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426242 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48426289 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
48426315 CACAATTATC
Statistics
Matches: 596, Mismatches: 41, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 551 0.92
49 45 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48434460 original size:39 final size:39
Alignment explanation
Indices: 48434425--48434813 Score: 384
Period size: 39 Copynumber: 9.9 Consensus size: 39
48434415 GGATATAGTA
* * * * *
48434425 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
48434464 CCAGCACGAAGCCTACAGATCTTAATTCCGGAAACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
48434503 CCAGCACGAAGCCTGCGAGTCTTTATGCCCAGATATAATT
1 CCAGCACGAAGCCTGCG-GACCTTAAGTCCGGATACAATT
* * * *
48434543 CCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
*
48434583 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
48434622 CCAGCACAAAGTCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * * *
48434662 CCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
* *
48434702 CCAGCACGAAGCTTGCGGACCTTAAGTCCTGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
48434741 CTAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
48434780 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
48434814 TACATCAAAT
Statistics
Matches: 292, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
39 165 0.57
40 125 0.43
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:48434547 original size:79 final size:78
Alignment explanation
Indices: 48434405--48434813 Score: 340
Period size: 79 Copynumber: 5.2 Consensus size: 78
48434395 GCCTATGGGA
* * * * * * * * * * *
48434405 CTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGTCTTTAAGCCCG-ATACAATTCCAGCA
* *
48434470 CGAAGCCTACAGAT
65 CGAAGCCTGCGGAT
** * * *
48434484 C-TTAATTCCGGAAACAATTCCAGCACGAAGCCTGCGAGTCTTTATGCCCAGATATAATTCCAGC
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCG-GTCTTTAAGCCC-GATACAATTCCAGC
* *
48434548 ACGAAGCCTGTGGGT
64 ACGAAGCCTGCGGAT
* * *
48434563 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGTCTTTAAGCCCG-ATACAATTCCAGCA
* * *
48434628 CAAAGTCTGCGGGT
65 CGAAGCCTGCGGAT
* * *
48434642 CTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAG
1 CTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGC-GGTCTTTAAGCCC-GATACAATTCCAG
*
48434706 CACGAAGCTTGCGGA-
63 CACGAAGCCTGCGGAT
* * * * * * * **
48434721 CCTTAAGTCCTGATACAATTCTAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATTCCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGTCTTTAAG-CCCGATACAATTCCAGCA
*
48434786 CGAAGCTTGCGGA-
65 CGAAGCCTGCGGAT
* *
48434799 CCTTAAGTCCGGATA
1 CTTTAAGCCCGGATA
48434814 TACATCAAAT
Statistics
Matches: 269, Mismatches: 52, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
78 79 0.29
79 122 0.45
80 67 0.25
81 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (78 bp):
CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGTCTTTAAGCCCGATACAATTCCAGCAC
GAAGCCTGCGGAT
Found at i:48434727 original size:158 final size:158
Alignment explanation
Indices: 48434393--48434791 Score: 453
Period size: 158 Copynumber: 2.5 Consensus size: 158
48434383 CACCAACACA
* * * * * *
48434393 AAGCCTATGGGACTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAAT
1 AAGCCTGTGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAAT
* * * * ** *
48434458 ATAGTACCAGCACGAAGCCTACAGATCTTAATTCCGGAAACAATTCCAGCACGAAGCCTGCGAGT
66 ACAATTCCAGCACAAAGCCTACAGATCTTAAGCCCGGAAACAATTCCAGCACGAAGCCTACGAGT
* *
48434523 CTTTATGCCCAGATATAATTCCAGCACG
131 CTTTAAGCCCAGATACAATTCCAGCACG
*
48434551 AAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAAT
1 AAGCCTGTGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAAT
* * * * * * * *
48434616 ACAATTCCAGCACAAAGTCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTACGG
66 ACAATTCCAGCACAAAGCCTACAGATC-TTAAGCCCGGAAACAATTCCAGCACGA-AGCCTACGA
*
48434680 GTCTTTAAGCCCGGATACAATTCCAGCACG
129 GTCTTTAAGCCCAGATACAATTCCAGCACG
* * * * * * *
48434710 AAG-CT-TGCGGACCTTAAGTCCTGATACAATTCTAGCACGAAGCTTGCGGACCTTAAGTCTGGA
1 AAGCCTGTG-GGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAA
*
48434773 TACAATTCCAGCACGAAGC
65 TACAATTCCAGCACAAAGC
48434792 TTGCGGACCT
Statistics
Matches: 203, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
157 2 0.01
158 144 0.71
159 57 0.28
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (158 bp):
AAGCCTGTGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGAAT
ACAATTCCAGCACAAAGCCTACAGATCTTAAGCCCGGAAACAATTCCAGCACGAAGCCTACGAGT
CTTTAAGCCCAGATACAATTCCAGCACG
Found at i:48434817 original size:119 final size:116
Alignment explanation
Indices: 48434405--48434813 Score: 417
Period size: 119 Copynumber: 3.5 Consensus size: 116
48434395 GCCTATGGGA
* * * * * * * * *
48434405 CTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCA
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
* * * * * *
48434470 CGAAGCCTACAGATCTTAATTCCGGAAACAATTCCAGCACGAAGCCTGCGAGT
66 CGAAGCCTGCGGACCTTAAGTCC-GATACAATTCCAGCACGAAGCTTGCG-GT
* * * * *
48434523 CTTTATGCCCAGATATAATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGC
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTG-CGGACCTTAAGCCCGGATACAATTCCAGC
*
48434588 ACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAG-TCTGCGGGT
65 ACGAAGCCTGCGGACCTTAAGTCCG-ATACAATTCCAGCACGAAGCT-TGC-GGT
* * * *
48434642 CTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAG
1 CTTTAAGCCCGGATATAATTCCAGCACGA-AGCCTGC-GGACCTTAAGCCCGGATACAATTCCAG
* * *
48434706 CACGAAGCTTGCGGACCTTAAGTCCTGATACAATTCTAGCACGAAGCTTGCGGA
64 CACGAAGCCTGCGGACCTTAAGTCC-GATACAATTCCAGCACGAAGCTTGCGGT
* * * * * *
48434760 CCTTAAGTCTGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATA
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATA
48434814 TACATCAAAT
Statistics
Matches: 242, Mismatches: 40, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
117 15 0.06
118 60 0.25
119 164 0.68
120 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (116 bp):
CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
CGAAGCCTGCGGACCTTAAGTCCGATACAATTCCAGCACGAAGCTTGCGGT
Found at i:48436974 original size:27 final size:26
Alignment explanation
Indices: 48436936--48437102 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 26
48436926 CAGCATGGCT
* *
48436936 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
48436962 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
48436990 GCCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
48437017 ATCAGATCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
*
48437044 ACCAGAACAAATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
48437071 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
48437098 ACCAG
1 ACCAG
48437103 GACGCTTCCT
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.07
27 97 0.79
28 18 0.15
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:48437001 original size:54 final size:54
Alignment explanation
Indices: 48436936--48437102 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
48436926 CAGCATGGCT
* *
48436936 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* *
48436990 GCCAGAACAGATATATGTGGCAGAGCCATCAGATCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
* * * *
48437044 ACCAGAACAAATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
48437098 ACCAG
1 ACCAG
48437103 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 85 0.83
55 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:48443399 original size:40 final size:40
Alignment explanation
Indices: 48443293--48443494 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
48443283 GGATGATAAT
* * *
48443293 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TC
* *
48443333 CGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATACC
1 CGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATC
* * *
48443372 CGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGTC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
*
48443412 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
* *
48443452 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATC
48443492 CGG
1 CGG
48443495 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.23
40 110 0.77
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
Found at i:48452302 original size:19 final size:19
Alignment explanation
Indices: 48452278--48452315 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48452268 CACCAGAGTT
48452278 AGAAAAGATTTACGATGTG
1 AGAAAAGATTTACGATGTG
*
48452297 AGAAAAGATTTATGATGTG
1 AGAAAAGATTTACGATGTG
48452316 TTTCACGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (19 bp):
AGAAAAGATTTACGATGTG
Found at i:48453904 original size:47 final size:46
Alignment explanation
Indices: 48453830--48454057 Score: 187
Period size: 47 Copynumber: 4.8 Consensus size: 46
48453820 TGGGGTTATG
*
48453830 TGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
1 TGAG-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGATGA
* * * * * *
48453878 CGAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATCATGA
1 TGA-GGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCA-TTGATGA
* * * * *
48453927 T-A-GCCCGTGTAAGACCACGTCTAGGACATGGCATCGGCGTAGA-GA
1 TGAGGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGATGA
* *
48453972 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGA
1 TGAG-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGA
*
48454019 TGTTA-GCCAGTGTAAGACGTGTCTGGGACATGCATCGGC
1 TG--AGGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
48454058 TAAGTTTTGT
Statistics
Matches: 144, Mismatches: 24, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.02
46 28 0.19
47 78 0.54
48 31 0.22
49 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (46 bp):
TGAGGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGA
Found at i:48454003 original size:94 final size:95
Alignment explanation
Indices: 48453834--48454057 Score: 292
Period size: 94 Copynumber: 2.4 Consensus size: 95
48453824 GTTATGTGAG
* * * *
48453834 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
48453899 TCTGGGACATGCATCAGCCAC-ATCATGAT
66 TCTGGGACATGCATCAGCCACGATCATGAT
* * * * * *
48453928 AGCCCGTGTAAGACCACGTCTAGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
* * * *
48453993 TCTGGGACATGCATCGGCCTCGATGATGTT
66 TCTGGGACATGCATCAGCCACGATCATGAT
*
48454023 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
48454058 TAAGTTTTGT
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
93 8 0.07
94 85 0.77
95 18 0.16
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCACGATCATGAT
Found at i:48463289 original size:58 final size:57
Alignment explanation
Indices: 48463157--48463291 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 57
48463147 TTTAATTCAT
* * **
48463157 ATAATAATTACATTAAGAATTTTATTAAATTATATATCATTTTATTAAATTATAATTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATCATTTTATTAAATTATAATTA
* * * **
48463215 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATATTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATCAT-TTTATTAAATTATAATTA
48463273 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
48463292 TTAATAAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 18 0.28
58 46 0.71
59 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATCATTTTATTAAATTATAATTA
Found at i:48465090 original size:89 final size:90
Alignment explanation
Indices: 48464921--48465167 Score: 288
Period size: 88 Copynumber: 2.8 Consensus size: 90
48464911 TGTAAAAAAT
* * *
48464921 CTTCAAACTTTTTTAAAATAAAGTAATTAAG-CCTCTGTTTTTTTTTTTTCACTCATTTGGGTAC
1 CTTCAAACTTTTTTAAAA-AAAGCAATTAAGCCCT-TGTTTTTTTTTTATCACTCAATTGGGTAC
* *
48464985 TTGAATTTTCATAATGCATCAAAAAGAC
64 TTGAACTTTCAAAATGCATC-AAAAGAC
* *
48465013 CTTCAAATTTTTTTAAAAAAAGCAATTAAGCCCTTG-TTTTTTTTTAT-ATTCAATTGGGTACTT
1 CTTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTATCACTCAATTGGGTACTT
*
48465076 GAACTTTCAAAATGCATCAAAAGGC
66 GAACTTTCAAAATGCATCAAAAGAC
* * * ** ** *
48465101 CCTCAAACTTTTTCATAAAAAGCAATTAAGCCCTTG--CCTTTTTTGGCACTCAATTAGGTACTT
1 CTTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTATCACTCAATTGGGTACTT
48465164 GAAC
66 GAAC
48465168 CGCCATTAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
87 6 0.04
88 56 0.41
89 30 0.22
90 10 0.07
91 13 0.10
92 20 0.15
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (90 bp):
CTTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTATCACTCAATTGGGTACTT
GAACTTTCAAAATGCATCAAAAGAC
Found at i:48465231 original size:9 final size:9
Alignment explanation
Indices: 48465217--48465375 Score: 78
Period size: 9 Copynumber: 17.2 Consensus size: 9
48465207 CATTTGGCAA
*
48465217 AAAAATGAT
1 AAAAATTAT
48465226 AAAAA-TA-
1 AAAAATTAT
**
48465233 AAAAACAAT
1 AAAAATTAT
*
48465242 AAAAGTTAT
1 AAAAATTAT
* *
48465251 AAATATGATT
1 AAAAATTA-T
**
48465261 AAATTTTAAT
1 AAAAATTA-T
48465271 AAAAA-TAT
1 AAAAATTAT
48465279 AAAAAATTAT
1 -AAAAATTAT
*
48465289 AAAAATCAT
1 AAAAATTAT
48465298 AAAAATTAT
1 AAAAATTAT
*
48465307 AAAAAATTGT
1 -AAAAATTAT
48465317 -AAAATCATAT
1 AAAAAT--TAT
*
48465327 AAAAATCAT
1 AAAAATTAT
48465336 AAAATATTAT
1 AAAA-ATTAT
48465346 -AAAATATAT
1 AAAAAT-TAT
*
48465355 AGAAA-TAT
1 AAAAATTAT
48465363 AGAACAATTAT
1 A-AA-AATTAT
48465374 AA
1 AA
48465376 CATTTTATAA
Statistics
Matches: 114, Mismatches: 21, Indels: 29
0.70 0.13 0.18
Matches are distributed among these distances:
7 5 0.04
8 14 0.12
9 52 0.46
10 34 0.30
11 9 0.08
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48465299 original size:19 final size:19
Alignment explanation
Indices: 48465269--48465349 Score: 87
Period size: 19 Copynumber: 4.3 Consensus size: 19
48465259 TTAAATTTTA
48465269 ATAAAAAT-ATAAAAAATT
1 ATAAAAATCATAAAAAATT
48465287 ATAAAAATCAT-AAAAATT
1 ATAAAAATCATAAAAAATT
** *
48465305 ATAAAAAATTGTAAAATCA-T
1 AT-AAAAATCATAAAA-AATT
*
48465325 ATAAAAATCATAAAATATT
1 ATAAAAATCATAAAAAATT
48465344 ATAAAA
1 ATAAAA
48465350 TATATAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
18 18 0.35
19 27 0.52
20 6 0.12
21 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATT
Found at i:48465347 original size:10 final size:10
Alignment explanation
Indices: 48465247--48465362 Score: 77
Period size: 10 Copynumber: 12.1 Consensus size: 10
48465237 ACAATAAAAG
48465247 TTAT-AAATA
1 TTATAAAATA
* * *
48465256 TGATTAAATT
1 TTATAAAATA
48465266 TTAATAAAA-A
1 TT-ATAAAATA
*
48465276 -TATAAAAAA
1 TTATAAAATA
48465285 TTATAAAA-A
1 TTATAAAATA
*
48465294 TCATAAAA-A
1 TTATAAAATA
*
48465303 TTATAAAAAA
1 TTATAAAATA
*
48465313 TTGTAAAATCA
1 TTATAAAAT-A
48465324 -TATAAAA-A
1 TTATAAAATA
*
48465332 TCATAAAATA
1 TTATAAAATA
48465342 TTATAAAATA
1 TTATAAAATA
48465352 -TATAGAAATA
1 TTATA-AAATA
48465362 T
1 T
48465363 AGAACAATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.08
9 31 0.36
10 41 0.48
11 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAATA
Found at i:48465385 original size:57 final size:57
Alignment explanation
Indices: 48465230--48465407 Score: 159
Period size: 57 Copynumber: 3.1 Consensus size: 57
48465220 AATGATAAAA
* * * * *
48465230 ATAAAAAACAATAAAAGTTAT-AAATATGATTAAATTTTAATAAAAAT-ATAAAAAATT
1 ATAAAAATC-ATAAAAATTATAAAAAATTATAAAATTTT-ATAAAAATCATAAAAAATT
* ** *
48465287 ATAAAAATCATAAAAATTATAAAAAATTGTAAAATCATATAAAAATCATAAAATATT
1 ATAAAAATCATAAAAATTATAAAAAATTATAAAATTTTATAAAAATCATAAAAAATT
* * * *
48465344 ATAAAATAT-ATAGAAA-TATAGAACAATTATAACATTTTAT-AAAGTCATAAGAAAATT
1 ATAAAA-ATCATAAAAATTATA-AAAAATTATAAAATTTTATAAAAATCATAA-AAAATT
48465401 ATAAAAA
1 ATAAAAA
48465408 ATTGTAAAGA
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
56 32 0.32
57 65 0.66
58 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (57 bp):
ATAAAAATCATAAAAATTATAAAAAATTATAAAATTTTATAAAAATCATAAAAAATT
Found at i:48466135 original size:56 final size:56
Alignment explanation
Indices: 48466033--48466141 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
48466023 AAACTAATTC
* * *
48466033 CTATATATCAAGAGTATATCAAAACAGAAAACAAGAGCAAAGAAATTTGAAATCTT
1 CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATCTT
* ** * *
48466089 CTATATATCAGGAGCACATCAAAACAGAAGGCAAAAGTAAATAAATTTGAAAT
1 CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAAT
48466142 ACAAATAGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (56 bp):
CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATCTT
Found at i:48470553 original size:17 final size:17
Alignment explanation
Indices: 48470531--48470564 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48470521 CTAAGGCTTG
*
48470531 TAAAGAAGCTATTTGGT
1 TAAAGAAACTATTTGGT
*
48470548 TAAAGAAACTCTTTGGT
1 TAAAGAAACTATTTGGT
48470565 GAAGTAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (17 bp):
TAAAGAAACTATTTGGT
Found at i:48474004 original size:12 final size:12
Alignment explanation
Indices: 48473960--48474004 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
48473950 AAAAAAAAGG
* *
48473960 AAAAAAATTTGA
1 AAAAAAAATTCA
48473972 AAAAAAAATTCGA
1 AAAAAAAATTC-A
48473985 AAAAAAAATTCA
1 AAAAAAAATTCA
48473997 AAAAAAAA
1 AAAAAAAA
48474005 AGTTTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.60
13 12 0.40
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:48474005 original size:13 final size:13
Alignment explanation
Indices: 48473960--48474004 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
48473950 AAAAAAAAGG
*
48473960 AAAAAAATTTGAA
1 AAAAAAATTCGAA
48473973 AAAAAAATTCGAA
1 AAAAAAATTCGAA
48473986 AAAAAAATTC-AA
1 AAAAAAATTCGAA
48473998 AAAAAAA
1 AAAAAAA
48474005 AGTTTGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:48474107 original size:29 final size:30
Alignment explanation
Indices: 48474049--48474117 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
48474039 TAGTATTGAA
* **
48474049 GAAAAAAAAGAAGAAAAAAAATTCGGAATT
1 GAAAAAAAAAAAGAAAAAAAATTCAAAATT
48474079 -AAAAAAAGAAAAGAAAAAAAA-TCAAAATT
1 GAAAAAAA-AAAAGAAAAAAAATTCAAAATT
48474108 GAAAAAAAAA
1 GAAAAAAAAA
48474118 GAGTGATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (30 bp):
GAAAAAAAAAAAGAAAAAAAATTCAAAATT
Found at i:48475023 original size:17 final size:15
Alignment explanation
Indices: 48475003--48475041 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
48474993 GCGAGCGAGA
48475003 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
48475020 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
48475035 AAGATGA
1 AA-ATGA
48475042 GTGGGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:48478407 original size:6 final size:6
Alignment explanation
Indices: 48478381--48478458 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
48478371 AGTGATTTCA
* * *
48478381 TTTAGT TTTATGT TTTA-- TTTATT TTTATT TTTATT TGTACT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
48478428 TTTATT GTTATT TGT-TT TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
48478459 TAAATTTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 40 0.69
7 5 0.09
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:48478426 original size:18 final size:17
Alignment explanation
Indices: 48478381--48478457 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
48478371 AGTGATTTCA
*
48478381 TTTAGTTTTATGTTTTA-
1 TTTACTTTTAT-TTTTAT
*
48478398 TTTATTTTTATTTTTAT
1 TTTACTTTTATTTTTAT
48478415 TTGTACTTTTATTTTTAT
1 TT-TACTTTTATTTTTAT
48478433 TGTTA-TTTGT-TTTTTAT
1 T-TTACTTT-TATTTTTAT
48478450 TTTA-TTTT
1 TTTACTTTT
48478458 TTAAATTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.20
17 23 0.43
18 18 0.33
19 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTACTTTTATTTTTAT
Found at i:48478430 original size:24 final size:23
Alignment explanation
Indices: 48478398--48478458 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
48478388 TTATGTTTTA
48478398 TTTATTTTTATTTTTATTTGTACT
1 TTTATTTTTATTTTTATTTGT-CT
* *
48478422 TTTATTTTTATTGTTATTTGTTT
1 TTTATTTTTATTTTTATTTGTCT
48478445 TTTA-TTTTATTTTT
1 TTTATTTTTATTTTT
48478459 TAAATTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 9 0.26
23 5 0.15
24 20 0.59
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTATTTTTATTTTTATTTGTCT
Found at i:48478459 original size:12 final size:12
Alignment explanation
Indices: 48478398--48478482 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 12
48478388 TTATGTTTTA
48478398 TTTATTTT-TATT
1 TTTATTTTAT-TT
*
48478410 TTTATTTGTA-CT
1 TTTATTT-TATTT
48478422 TTTATTTT-TATT
1 TTTATTTTAT-TT
* *
48478434 GTTA-TTTGTTT
1 TTTATTTTATTT
48478445 TTTATTTTATTT
1 TTTATTTTATTT
*
48478457 TTTAAATTTATATGT
1 TTT--ATTT-TATTT
48478472 TTTATTTTATT
1 TTTATTTTATT
48478483 ATGCACTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
11 9 0.16
12 32 0.56
13 5 0.09
14 4 0.07
15 7 0.12
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:48483454 original size:33 final size:33
Alignment explanation
Indices: 48483409--48483476 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
48483399 AGGACACTCC
48483409 CAGATCTAATATTTTGTGGACCCACATCAAAAA
1 CAGATCTAATATTTTGTGGACCCACATCAAAAA
* *
48483442 CAGATCTGATATTTTGTGGACCCACGTCAAAAA
1 CAGATCTAATATTTTGTGGACCCACATCAAAAA
48483475 CA
1 CA
48483477 TACTCTTGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (33 bp):
CAGATCTAATATTTTGTGGACCCACATCAAAAA
Found at i:48485591 original size:20 final size:20
Alignment explanation
Indices: 48485566--48485605 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48485556 CGGTCGTGTG
48485566 GGGGTCAACAAGCCCATGTA
1 GGGGTCAACAAGCCCATGTA
* *
48485586 GGGGTCAACACGCCCGTGTA
1 GGGGTCAACAAGCCCATGTA
48485606 AGAGGAGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (20 bp):
GGGGTCAACAAGCCCATGTA
Found at i:48485688 original size:21 final size:21
Alignment explanation
Indices: 48485610--48485682 Score: 146
Period size: 21 Copynumber: 3.5 Consensus size: 21
48485600 CGTGTAAGAG
48485610 GAGGCACACGGTCGTGTGGCT
1 GAGGCACACGGTCGTGTGGCT
48485631 GAGGCACACGGTCGTGTGGCT
1 GAGGCACACGGTCGTGTGGCT
48485652 GAGGCACACGGTCGTGTGGCT
1 GAGGCACACGGTCGTGTGGCT
48485673 GAGGCACACG
1 GAGGCACACG
48485683 CCCGTGGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.16, C:0.25, G:0.42, T:0.16
Consensus pattern (21 bp):
GAGGCACACGGTCGTGTGGCT
Found at i:48490278 original size:16 final size:17
Alignment explanation
Indices: 48490251--48490285 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48490241 TAGAATTAGG
*
48490251 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
48490268 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
48490284 TT
1 TT
48490286 TTATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:48492042 original size:20 final size:20
Alignment explanation
Indices: 48492013--48492145 Score: 76
Period size: 20 Copynumber: 6.8 Consensus size: 20
48492003 AAGTGGTATC
*
48492013 CATTACAAATTTTAATATTG
1 CATTAAAAATTTTAATATTG
* * ** *
48492033 CATTAGAAATATTGGTA-TC
1 CATTAAAAATTTTAATATTG
***
48492052 CATTAAAAATTTTGGCATTG
1 CATTAAAAATTTTAATATTG
* *
48492072 CATTAAAAATATTGATATTG
1 CATTAAAAATTTTAATATTG
* * * *
48492092 CATTAGAGATTTTGATATTA
1 CATTAAAAATTTTAATATTG
*
48492112 CGA-TAAAAATTTTAGTATT-
1 C-ATTAAAAATTTTAATATTG
*
48492131 AATT-AAAATTTTAAT
1 CATTAAAAATTTTAAT
48492146 TTCGTATTAG
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
18 11 0.12
19 16 0.18
20 60 0.68
21 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (20 bp):
CATTAAAAATTTTAATATTG
Found at i:48492061 original size:19 final size:19
Alignment explanation
Indices: 48491977--48492085 Score: 67
Period size: 20 Copynumber: 5.6 Consensus size: 19
48491967 CAAGATGCTC
* **
48491977 TTAAAAATTTTGGTATCTG
1 TTAAAAATATTGGTATCCA
*
48491996 TTAGAAAA-AGTGGTATCCA
1 TTA-AAAATATTGGTATCCA
* * ** *
48492015 TTACAAATTTTAATATTGCA
1 TTAAAAATATTGGTA-TCCA
*
48492035 TTAGAAATATTGGTATCCA
1 TTAAAAATATTGGTATCCA
* * *
48492054 TTAAAAATTTTGGCATTGCA
1 TTAAAAATATTGGTA-TCCA
48492074 TTAAAAATATTG
1 TTAAAAATATTG
48492086 ATATTGCATT
Statistics
Matches: 66, Mismatches: 20, Indels: 7
0.71 0.22 0.08
Matches are distributed among these distances:
18 3 0.05
19 31 0.47
20 32 0.48
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTGGTATCCA
Found at i:48492072 original size:39 final size:39
Alignment explanation
Indices: 48491977--48492085 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
48491967 CAAGATGCTC
* *
48491977 TTAAAAATTTTGGTATCTG--TTAGAAAAAGTGGTATCCA
1 TTAAAAATTTTGGTAT-TGCATTAGAAATATTGGTATCCA
* **
48492015 TTACAAATTTTAATATTGCATTAGAAATATTGGTATCCA
1 TTAAAAATTTTGGTATTGCATTAGAAATATTGGTATCCA
* *
48492054 TTAAAAATTTTGGCATTGCATTAAAAATATTG
1 TTAAAAATTTTGGTATTGCATTAGAAATATTG
48492086 ATATTGCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.03
38 13 0.22
39 44 0.75
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (39 bp):
TTAAAAATTTTGGTATTGCATTAGAAATATTGGTATCCA
Found at i:48496640 original size:21 final size:21
Alignment explanation
Indices: 48496611--48496666 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
48496601 CGAACACGAC
* *
48496611 AACAAAAGCTCATAGGAGCTG
1 AACAGAAGCTCAAAGGAGCTG
48496632 AACAGAAGCTCAAAGGAGCTG
1 AACAGAAGCTCAAAGGAGCTG
48496653 AACAGAAGCTCAAA
1 AACAGAAGCTCAAA
48496667 AGAGTTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (21 bp):
AACAGAAGCTCAAAGGAGCTG
Found at i:48497237 original size:16 final size:18
Alignment explanation
Indices: 48497216--48497248 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
48497206 ATTAATCATT
48497216 TTTATC-AAATA-AATAA
1 TTTATCTAAATATAATAA
48497232 TTTATCTAAATATAATA
1 TTTATCTAAATATAATA
48497249 GGCCCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATCTAAATATAATAA
Found at i:48498605 original size:9 final size:9
Alignment explanation
Indices: 48498591--48498658 Score: 111
Period size: 9 Copynumber: 7.6 Consensus size: 9
48498581 ATAAGTATAA
48498591 AATTAACCG
1 AATTAACCG
48498600 AATTAACCG
1 AATTAACCG
*
48498609 AATTAATCG
1 AATTAACCG
48498618 AATTAACCG
1 AATTAACCG
48498627 AATT-ACCAG
1 AATTAACC-G
48498636 AATTAACCG
1 AATTAACCG
48498645 AATTAACCG
1 AATTAACCG
48498654 AATTA
1 AATTA
48498659 TTTGTATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:48498759 original size:13 final size:13
Alignment explanation
Indices: 48498743--48498767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48498733 AATTTTTATG
48498743 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
48498756 ATTGGGTTGGGT
1 ATTGGGTTGGGT
48498768 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:48498894 original size:18 final size:18
Alignment explanation
Indices: 48498871--48498905 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48498861 TTTTATTAAT
*
48498871 TTTTTTTGGTTAACCGAA
1 TTTTTTCGGTTAACCGAA
48498889 TTTTTTCGGTTAACCGA
1 TTTTTTCGGTTAACCGA
48498906 TCGGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (18 bp):
TTTTTTCGGTTAACCGAA
Found at i:48504982 original size:22 final size:23
Alignment explanation
Indices: 48504957--48505015 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
48504947 TGATTAAGAT
*
48504957 AATAAAAAAATAAAATA-TGAAA
1 AATAAAAAAATAAAATATTCAAA
48504979 AATAAAATAAA-AAAATATTCAAA
1 AATAAAA-AAATAAAATATTCAAA
**
48505002 AATGCAAAAATAAA
1 AATAAAAAAATAAA
48505016 TTTAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (23 bp):
AATAAAAAAATAAAATATTCAAA
Found at i:48504993 original size:14 final size:14
Alignment explanation
Indices: 48504960--48504993 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48504950 TTAAGATAAT
48504960 AAAAAAATAAAATA
1 AAAAAAATAAAATA
**
48504974 TGAAAAATAAAATA
1 AAAAAAATAAAATA
48504988 AAAAAA
1 AAAAAA
48504994 TATTCAAAAA
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:48505854 original size:13 final size:13
Alignment explanation
Indices: 48505813--48505878 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
48505803 TAGATTTTTC
48505813 CTAAATATTATCA
1 CTAAATATTATCA
* *
48505826 -T-TATATAATC-
1 CTAAATATTATCA
48505836 CTAAATATTATCA
1 CTAAATATTATCA
*
48505849 CTAAATA--AT-T
1 CTAAATATTATCA
48505859 CTAAATATTATCA
1 CTAAATATTATCA
48505872 CTAAATA
1 CTAAATA
48505879 ATTCAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
10 7 0.17
11 10 0.24
12 10 0.24
13 14 0.34
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:48505881 original size:23 final size:23
Alignment explanation
Indices: 48505813--48505887 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
48505803 TAGATTTTTC
* * *
48505813 CTAAATATTATCATTATATAATC
1 CTAAATATTATCACTAAATAATT
48505836 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
48505859 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
48505882 CAAAAT
1 CTAAAT
48505888 TTTAAAATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:48506713 original size:14 final size:15
Alignment explanation
Indices: 48506675--48506745 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 15
48506665 ATTCAATGGC
*
48506675 CATATTGCAACGGTT
1 CATATTGCAACAGTT
* *
48506690 -AGATTCCAAC-GTT
1 CATATTGCAACAGTT
48506703 CATATTGCAACAGTT
1 CATATTGCAACAGTT
* * *
48506718 -AGATTCCAATAG-T
1 CATATTGCAACAGTT
48506731 CATATTGCAACAGTT
1 CATATTGCAACAGTT
48506746 AGATTTCAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
13 4 0.10
14 34 0.81
15 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (15 bp):
CATATTGCAACAGTT
Found at i:48506771 original size:28 final size:28
Alignment explanation
Indices: 48506675--48506792 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
48506665 ATTCAATGGC
* *
48506675 CATATTGCAACGGTTAGATTCCAACGTT
1 CATATTGCAACAGTTAGATTCCAACGAT
*
48506703 CATATTGCAACAGTTAGATTCCAA-TAGT
1 CATATTGCAACAGTTAGATTCCAACGA-T
*
48506731 CATATTGCAACAGTTAGATTTCAACGAT
1 CATATTGCAACAGTTAGATTCCAACGAT
** * * * *
48506759 CATATTGTGACAGTCAAATTCCAATGAC
1 CATATTGCAACAGTTAGATTCCAACGAT
48506787 CATATT
1 CATATT
48506793 TTTGCATTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 75 0.99
29 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (28 bp):
CATATTGCAACAGTTAGATTCCAACGAT
Found at i:48506791 original size:56 final size:56
Alignment explanation
Indices: 48506663--48506792 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 56
48506653 AGTGATCCAA
* * * *
48506663 AAATT-CAATGGCCATATTGCAACGGTTAGATTCCAACGTTCATATTGCAACAGTT
1 AAATTCCAATGACCATATTGCAACAGTTAGATTCCAACGATCATATTGCAACAGTC
* * * **
48506718 AGATTCCAAT-AGTCATATTGCAACAGTTAGATTTCAACGATCATATTGTGACAGTC
1 AAATTCCAATGA-CCATATTGCAACAGTTAGATTCCAACGATCATATTGCAACAGTC
48506774 AAATTCCAATGACCATATT
1 AAATTCCAATGACCATATT
48506793 TTTGCATTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
55 4 0.07
56 56 0.92
57 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (56 bp):
AAATTCCAATGACCATATTGCAACAGTTAGATTCCAACGATCATATTGCAACAGTC
Found at i:48507824 original size:31 final size:31
Alignment explanation
Indices: 48507786--48507876 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 31
48507776 ATATTCTTAA
48507786 TTATTTTAATAAATAATTTAATATTAA-AATT
1 TTATTTTAAT-AATAATTTAATATTAATAATT
*
48507817 TTATTTTAATAATAAATTTTAACATTAATAATT
1 TTATTTTAATAAT-AA-TTTAATATTAATAATT
* *
48507850 TAAATTTTAAGTAATATTATTAATATT
1 T-TATTTTAA-TAATAAT-TTAATATT
48507877 TTATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
30 3 0.06
31 12 0.24
32 10 0.20
33 6 0.12
34 15 0.30
35 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TTATTTTAATAATAATTTAATATTAATAATT
Found at i:48507826 original size:19 final size:18
Alignment explanation
Indices: 48507802--48507837 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48507792 TAATAAATAA
*
48507802 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
48507821 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
48507838 ACATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:48507981 original size:13 final size:13
Alignment explanation
Indices: 48507952--48507994 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
48507942 ATGTTTTGTA
48507952 ATATTAAATATAGAT
1 ATATT-AATATA-AT
*
48507967 ATTTTAATATAAT
1 ATATTAATATAAT
48507980 ATATTAATA-AAT
1 ATATTAATATAAT
48507992 ATA
1 ATA
48507995 ATATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 10 0.38
14 6 0.23
15 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTAATATAAT
Found at i:48509516 original size:10 final size:10
Alignment explanation
Indices: 48509496--48509529 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
48509486 TATCTGTGTT
48509496 TCTCAGTTGTA
1 TCTC-GTTGTA
48509507 TCTCGTTGTA
1 TCTCGTTGTA
48509517 TCTCGTTGTA
1 TCTCGTTGTA
48509527 TCT
1 TCT
48509530 ATTTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (10 bp):
TCTCGTTGTA
Found at i:48516783 original size:16 final size:16
Alignment explanation
Indices: 48516764--48516797 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48516754 ACCTTAGATT
*
48516764 AGCTCCCCCTTCGAAG
1 AGCTCACCCTTCGAAG
48516780 AGCTCACCCTTCGAAG
1 AGCTCACCCTTCGAAG
48516796 AG
1 AG
48516798 TCGATCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.18
Consensus pattern (16 bp):
AGCTCACCCTTCGAAG
Found at i:48524872 original size:10 final size:10
Alignment explanation
Indices: 48524827--48524886 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
48524817 TAATTTTAGG
48524827 ATTTAT-TTT
1 ATTTATCTTT
48524836 CATTTATCTTT
1 -ATTTATCTTT
*
48524847 AATTATCTTT
1 ATTTATCTTT
*
48524857 AATTATCTTT
1 ATTTATCTTT
*
48524867 GTTTAT-TTGT
1 ATTTATCTT-T
48524877 ATTTATCTTT
1 ATTTATCTTT
48524887 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:48525649 original size:40 final size:39
Alignment explanation
Indices: 48525571--48525646 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
48525561 TTGAAATTCC
* **
48525571 AATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTCA
1 AATCAAAACTTTTAATTCTATTTTTATTAAATTTTTTCA
48525610 AATCAAAACTTTTAATTCTATTTTT-TTAAAATTTTTT
1 AATCAAAACTTTTAATTCTATTTTTATT-AAATTTTTT
48525647 TCAGGTATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (39 bp):
AATCAAAACTTTTAATTCTATTTTTATTAAATTTTTTCA
Found at i:48527187 original size:40 final size:40
Alignment explanation
Indices: 48527055--48527180 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
48527045 AACCCAAGTA
* * *
48527055 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
48527094 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
48527134 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
48527174 CCTTCGG
1 CCTTCGG
48527181 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.16
40 66 0.84
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:48528611 original size:13 final size:13
Alignment explanation
Indices: 48528595--48528622 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48528585 TTTATTATTT
48528595 TTAACACAAAATA
1 TTAACACAAAATA
48528608 TTAACACAAAATA
1 TTAACACAAAATA
48528621 TT
1 TT
48528623 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:48533839 original size:31 final size:31
Alignment explanation
Indices: 48533767--48533840 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
48533757 TTAACAATAA
48533767 AATAATTAAAATTGACAACTTATTTCATAGG
1 AATAATTAAAATTGACAACTTATTTCATAGG
* * * *
48533798 AGTTATTAAAATTGACAACTTATTTTATATG
1 AATAATTAAAATTGACAACTTATTTCATAGG
*
48533829 AATAACTAAAAT
1 AATAATTAAAAT
48533841 AACAATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
AATAATTAAAATTGACAACTTATTTCATAGG
Found at i:48535152 original size:31 final size:32
Alignment explanation
Indices: 48535112--48535186 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
48535102 AAAATTTACA
* **
48535112 ATTT-AGTCATTAAATTATTTGAAAG-TTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
*
48535142 ATTTAAGTCATTGAACTATTCAAAAGTTTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
48535174 ATTTAAGTCATTA
1 ATTTAAGTCATTA
48535187 GATTGTTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 4 0.11
31 17 0.45
32 17 0.45
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (32 bp):
ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
Found at i:48538508 original size:25 final size:25
Alignment explanation
Indices: 48538480--48538531 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
48538470 TTTGGCTTGA
*
48538480 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
48538505 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
48538530 CA
1 CA
48538532 AATTATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:48541786 original size:23 final size:23
Alignment explanation
Indices: 48541732--48541790 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
48541722 AGGTAAGATA
*
48541732 TCGTTGCGACGTCACAACTCCCC
1 TCGTCGCGACGTCACAACTCCCC
* **
48541755 TCGTTGCGACGTCACAACTCTTC
1 TCGTCGCGACGTCACAACTCCCC
*
48541778 TTGTCGCGACGTC
1 TCGTCGCGACGTC
48541791 GCATGTCTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.37, G:0.20, T:0.27
Consensus pattern (23 bp):
TCGTCGCGACGTCACAACTCCCC
Found at i:48545176 original size:14 final size:14
Alignment explanation
Indices: 48545124--48545193 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 14
48545114 ACGTAGTGAC
48545124 TAAAATATAATAATAT
1 TAAAATATAAT-A-AT
**
48545140 TTTAATATAAGTAAT
1 TAAAATATAA-TAAT
*
48545155 TAAAATATAATATT
1 TAAAATATAATAAT
*
48545169 TTAAATATAAATAAT
1 TAAAATAT-AATAAT
48545184 TAAAATATAA
1 TAAAATATAA
48545194 ACTATTATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
14 12 0.27
15 22 0.50
16 9 0.20
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (14 bp):
TAAAATATAATAAT
Found at i:48545184 original size:29 final size:29
Alignment explanation
Indices: 48545133--48545211 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
48545123 CTAAAATATA
*
48545133 ATAATATTTT-AATATAAGTAATTAAAAT
1 ATAATATTTTAAATATAAATAATTAAAAT
48545161 ATAATATTTTAAATATAAATAATTAAAAT
1 ATAATATTTTAAATATAAATAATTAAAAT
* *
48545190 ATAAACTATTATAAATAAAAAT
1 AT-AA-TATTTTAAATATAAAT
48545212 GACTATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.22
29 19 0.42
30 2 0.04
31 14 0.31
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
ATAATATTTTAAATATAAATAATTAAAAT
Found at i:48545194 original size:15 final size:15
Alignment explanation
Indices: 48545143--48545194 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
48545133 ATAATATTTT
*
48545143 AATATAAGTAATTAA
1 AATATAAATAATTAA
* *
48545158 AATAT-AATATTTTA
1 AATATAAATAATTAA
48545172 AATATAAATAATTAA
1 AATATAAATAATTAA
48545187 AATATAAA
1 AATATAAA
48545195 CTATTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:48545200 original size:15 final size:14
Alignment explanation
Indices: 48545124--48545211 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 14
48545114 ACGTAGTGAC
48545124 TAAAATATAATAATAT
1 TAAAATAT-A-AATAT
** *
48545140 TTTAATATAAGTAAT
1 TAAAATATAAAT-AT
48545155 TAAAATAT-AATATT
1 TAAAATATAAATA-T
*
48545169 TTAAATATAAATAAT
1 TAAAATATAAAT-AT
48545184 TAAAATATAAACTAT
1 TAAAATATAAA-TAT
*
48545199 TATAAATAAAAAT
1 TA-AAATATAAAT
48545212 GACTATTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
13 1 0.02
14 12 0.21
15 28 0.49
16 16 0.28
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (14 bp):
TAAAATATAAATAT
Found at i:48547989 original size:15 final size:15
Alignment explanation
Indices: 48547961--48547997 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
48547951 TACTAGTGCC
* *
48547961 CCACCCCCTTCAAGA
1 CCACCACCTCCAAGA
48547976 CCACCACCTCCAAGA
1 CCACCACCTCCAAGA
48547991 CCACCAC
1 CCACCAC
48547998 GAGTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.57, G:0.05, T:0.08
Consensus pattern (15 bp):
CCACCACCTCCAAGA
Found at i:48555191 original size:158 final size:157
Alignment explanation
Indices: 48554471--48555534 Score: 1525
Period size: 158 Copynumber: 6.7 Consensus size: 157
48554461 GAGTTTTTAA
* * * * *
48554471 GGTTTAGGGTTTTAATATTTTTTAAGAAAAAATTAATTTAATTAGAATTGAAGGTTAATTAATTA
1 GGTTTAGGATTTTAGTA-TTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* *
48554536 AATTAACTATGAAAAT-AAAAAAA--AATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGATTT
65 AATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
* *
48554598 TTGATAGTTTTAGGAT-TGAGGTTTTAGT
130 TTGATTGTTTTAGGATCAG-GGTTTTAGT
* * *
48554626 GGTTTAGAATTTTTGTGTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
1 GGTTTAGGATTTTAGTATTTTT-AAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* *
48554691 AATTAACTATGAAAAT-AAAAAAATAAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGATT
65 AATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
48554755 TTGATTGTTTTAGGATCAGGGTTTTAGT
130 TTGATTGTTTTAGGATCAGGGTTTTAGT
* * *
48554783 GGTTTTGGATTTTAGCATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGATGGTTAATTAATTA
1 GGTTTAGGATTTTAGTATTTTTAA-GGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* * *
48554848 AATTAACTATGAAAATAAAAAAAAATTAACTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGAT
65 AATTAACTATGAAAAT-AAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTT
* **
48554913 TTTGATTGTTTTAAGATCAAAGTTTTAGT
129 TTTGATTGTTTTAGGATCAGGGTTTTAGT
* *
48554942 GGTTTTGGATTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGT-ATTTTTAA-GGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* * * *
48555007 AAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAAGTTTGTTTATGATTAAGGT
64 AAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTT-TTTAAGGTTAGGGT
48555072 TTTTGATTGTTTTAGGATCAGGGTTTTAGT
128 TTTTGATTGTTTTAGGATCAGGGTTTTAGT
* *
48555102 GGTTTAGGGTTTTAGTATTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
1 GGTTTAGGATTTTAGTATTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
* * *
48555167 ATTAACTATGAAAATAAAAAAAATCAATTAAATTAGAGTTT-AGGGTTTTTAAAGTTAGGGTTTT
66 ATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTTT
*
48555231 TGATTGTTTTAGGATTAGGGTTTTAGT
131 TGATTGTTTTAGGATCAGGGTTTTAGT
* *
48555258 GGTTTAGAATTTTTGTATTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGTA-TTTTT-AAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* * *
48555323 AAATTAACTATGAAAAT-AAAAAAGTCAATTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGTT
64 AAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTT
* *
48555387 TTTGATTGTTTTAGGATTAAGGTTTTAGT
129 TTTGATTGTTTTAGGATCAGGGTTTTAGT
* *
48555416 GGTTTAAGG-TTTTTGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAAT
1 GGTTT-AGGATTTTAGT-ATTTTT-AAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAAT
* *
48555480 TAAATTAACTATGAAATTAAAAAAAATTAATTAAATTAGGGTTT-AGGATTTTTTA
63 TAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGG-TTTTTTA
48555535 GAGTTTATTA
Statistics
Matches: 829, Mismatches: 64, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
154 5 0.01
155 74 0.09
156 55 0.07
157 164 0.20
158 262 0.32
159 155 0.19
160 114 0.14
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (157 bp):
GGTTTAGGATTTTAGTATTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
ATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTTT
TGATTGTTTTAGGATCAGGGTTTTAGT
Found at i:48555393 original size:23 final size:23
Alignment explanation
Indices: 48555351--48555399 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
48555341 AAAAAGTCAA
48555351 TTAAATTAGGGTTTAAGATT-TT
1 TTAAATTAGGGTTTAAGATTGTT
**
48555373 TTAAAGTTAGGGTTTTTGATTGTT
1 TTAAA-TTAGGGTTTAAGATTGTT
48555397 TTA
1 TTA
48555400 GGATTAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 13 0.57
24 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (23 bp):
TTAAATTAGGGTTTAAGATTGTT
Found at i:48555790 original size:125 final size:126
Alignment explanation
Indices: 48555560--48556117 Score: 888
Period size: 125 Copynumber: 4.5 Consensus size: 126
48555550 ATTAACTATT
* * *
48555560 AATTACGGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTATAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * * *
48555625 GAGAATATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGAAAGATGCACTGTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* ** *
48555686 AATTACGGAAAAAAGGTCCCATATGGACGCTCTTTTGCTGCAGTAGTATCTGA-AAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * *
48555750 GAGAAGATGTTTCTGAACAAATAGTGTTAAAAAAGTTTCAAGAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
*
48555811 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
*
48555876 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGTAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * *
48555937 AATTACGGAAAAAAGCTCCTACGTGAACGTTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * *
48556002 AAGAAGATGTTT-TGAATAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
48556062 AATTACGGAAAAAAGCTCCCACGTGGACGCTC-TTTGCTACAGTAGTATCTGATAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAA
48556118 GCCTTAAACT
Statistics
Matches: 401, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
124 24 0.06
125 190 0.47
126 187 0.47
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:48556025 original size:251 final size:251
Alignment explanation
Indices: 48555560--48556117 Score: 886
Period size: 251 Copynumber: 2.2 Consensus size: 251
48555550 ATTAACTATT
* * *
48555560 AATTACGGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTATAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * *
48555625 GAGAATATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGAAAGATGCACTGTTAGCAAAATT
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAAAATT
* * * * *
48555690 ACGGAAAAAAGGTCCCATATGGACGCTCTTTTGCTGCAGTAGTATCTGAAAAATAAATTTGAGAA
131 ACGGAAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTATCTGAAAAATAAATTTAAGAA
* *
48555755 GATGTTTCTGAACAAATAGTGTTAAAAAAGTTTCAAGAAGGATGCACTGTCAGCAA
196 GATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
*
48555811 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* *
48555876 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGTAAAATT
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAAAATT
* * * *
48555941 ACGGAAAAAAGCTCCTACGTGAACGTTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTAAGA
131 ACGGAAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTATCTGA-AAAATAAATTTAAGA
* * *
48556006 AGATGTTT-TGAATAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGCAA
195 AGATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
48556062 AATTACGGAAAAAAGCTCCCACGTGGACGCTC-TTTGCTACAGTAGTATCTGATAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAA
48556118 GCCTTAAACT
Statistics
Matches: 283, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
250 24 0.08
251 238 0.84
252 21 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (251 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTGTCAGCAAAATT
ACGGAAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTATCTGAAAAATAAATTTAAGAA
GATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:48559153 original size:10 final size:9
Alignment explanation
Indices: 48559134--48559165 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
48559124 ATTTATATTT
48559134 TATTAAAAA
1 TATTAAAAA
48559143 TATTAAAAAA
1 TATT-AAAAA
48559153 TATTAAAAA
1 TATTAAAAA
48559162 TATT
1 TATT
48559166 TCCATAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TATTAAAAA
Found at i:48560379 original size:14 final size:14
Alignment explanation
Indices: 48560360--48560392 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48560350 TTATATAGGT
48560360 AATACTAAATAATA
1 AATACTAAATAATA
*
48560374 AATACTAAATATTA
1 AATACTAAATAATA
48560388 AATAC
1 AATAC
48560393 AAAACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (14 bp):
AATACTAAATAATA
Found at i:48570910 original size:23 final size:24
Alignment explanation
Indices: 48570866--48570930 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
48570856 CTGACGGGCT
48570866 TAAATAATTTTAAATTTTCTAAGTTA
1 TAAATAATTTT-AATTTTCTAA-TTA
48570892 TAAAT-ATTTTAA-TTTCTAATTA
1 TAAATAATTTTAATTTTCTAATTA
* * *
48570914 TAATTCATTTTACTTTT
1 TAAATAATTTTAATTTT
48570931 ATGCAATGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.20
23 13 0.37
24 5 0.14
25 5 0.14
26 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (24 bp):
TAAATAATTTTAATTTTCTAATTA
Found at i:48573211 original size:30 final size:30
Alignment explanation
Indices: 48573154--48573211 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48573144 TTTTTGAGCA
* **
48573154 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
*
48573184 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
48573212 ACGTGAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:48573698 original size:46 final size:45
Alignment explanation
Indices: 48573554--48573768 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 45
48573544 TTTGTGAGCT
* ** *
48573554 AGTGTAAGACATGTCTGGGATATGCATCGGCC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGA-AGCC
* * * *
48573600 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACT-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGA-TGA-AGCC
*
48573648 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGGAACCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAT-GAAGCC
* * * * * *
48573694 AGTGTAAGACATGTCTAGGACATGCACCGG-CTAAGAGTTG-TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGAAGCC
*
48573738 AGTGTAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
48573769 ACACGGATAG
Statistics
Matches: 137, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 60 0.44
47 28 0.20
48 21 0.15
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAAGCC
Found at i:48574114 original size:21 final size:21
Alignment explanation
Indices: 48574089--48574133 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
48574079 TTTATATGCA
48574089 ACTTACTAAGCTTTTATGCTT
1 ACTTACTAAGCTTTTATGCTT
48574110 ACTTACTAAGCTTTTATGCTT
1 ACTTACTAAGCTTTTATGCTT
48574131 ACT
1 ACT
48574134 CCCCTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (21 bp):
ACTTACTAAGCTTTTATGCTT
Found at i:48580873 original size:30 final size:30
Alignment explanation
Indices: 48580816--48580873 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48580806 TTTTCAAGCA
* * **
48580816 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
48580846 TAGGGGCAAAATAGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
48580874 ATGTGAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:48599513 original size:3 final size:3
Alignment explanation
Indices: 48599505--48599531 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48599495 TTTATTAACT
48599505 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
48599532 ATATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48599545 original size:19 final size:20
Alignment explanation
Indices: 48599523--48599561 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
48599513 ATAATAATAA
*
48599523 TAATAATAAATATAT-TATT
1 TAATAACAAATATATATATT
48599542 TAATAACAAATATATATATT
1 TAATAACAAATATATATATT
48599562 ACAATTGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAACAAATATATATATT
Found at i:48599966 original size:25 final size:27
Alignment explanation
Indices: 48599932--48599993 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 27
48599922 TGGCTTTAAT
*
48599932 TTAATTTAATTCATAATATGATATTTATAA
1 TTAA-TTAATTAATAATAT-AT-TTTATAA
48599962 TTAATTAATTTAATAATATATTTTATAA
1 TTAATTAA-TTAATAATATATTTTATAA
48599990 TTAA
1 TTAA
48599994 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.37
29 6 0.20
30 13 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAATTAATTAATAATATATTTTATAA
Found at i:48600000 original size:20 final size:21
Alignment explanation
Indices: 48599967--48600007 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48599957 TATAATTAAT
*
48599967 TAATTTAATAATATAT-TTTA
1 TAATTAAATAATATATATTTA
*
48599987 TAATTAAATTATATATATTTA
1 TAATTAAATAATATATATTTA
48600008 CATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAAATAATATATATTTA
Found at i:48602468 original size:21 final size:22
Alignment explanation
Indices: 48602438--48602484 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
48602428 CTTAATTAAC
*
48602438 TAATTAAAACATTATTAAAT-T
1 TAATTAAAACATAATTAAATAT
* *
48602459 TAATTTAAACATAATTTAATAT
1 TAATTAAAACATAATTAAATAT
48602481 TAAT
1 TAAT
48602485 GGAATTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAAAACATAATTAAATAT
Found at i:48602859 original size:95 final size:95
Alignment explanation
Indices: 48602696--48602885 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 95
48602686 TATCAACTCC
* * * * ** ** *
48602696 GTAAATATTTCTATTTTATATTTATGGACTTGGTTTATGTTTTATGGAAATGAGGTTCTGAAATC
1 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTATGTTTTACAGAAATGAAATTCTAAAATC
*
48602761 ATATTTTTCAACACCATTGAAAATCGAGTT
66 ATATTTTTCAACACCATTAAAAATCGAGTT
48602791 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTACTG-TTTACAGAAATGAAATTCTAAAAT
1 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTA-TGTTTTACAGAAATGAAATTCTAAAAT
*
48602855 CATATTTTTTAACACCATTAAAAATCGAGTT
65 CATATTTTTCAACACCATTAAAAATCGAGTT
48602886 ATTACAGATC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 81 0.98
96 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (95 bp):
GTAAATATTCCTATTTTATATTTACGAACTTAGTTTATGTTTTACAGAAATGAAATTCTAAAATC
ATATTTTTCAACACCATTAAAAATCGAGTT
Found at i:48603145 original size:19 final size:19
Alignment explanation
Indices: 48603106--48603147 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48603096 AGTTTAGTTG
* *
48603106 TATATATTAATTAATATAT
1 TATATATTAATTAAAAAAT
*
48603125 TATATATTTATTAAAAAAT
1 TATATATTAATTAAAAAAT
48603144 TATA
1 TATA
48603148 ACCTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTAATTAAAAAAT
Found at i:48603431 original size:24 final size:25
Alignment explanation
Indices: 48603403--48603452 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
48603393 ATTAAATTGT
*
48603403 AGTTTG-AAAAAAAATCATTTAAAA
1 AGTTTGAAAAAAAAACCATTTAAAA
48603427 AGTTTGAAAAAAAAACCATTTAAAA
1 AGTTTGAAAAAAAAACCATTTAAAA
48603452 A
1 A
48603453 AAACAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (25 bp):
AGTTTGAAAAAAAAACCATTTAAAA
Found at i:48613795 original size:19 final size:20
Alignment explanation
Indices: 48613749--48613796 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
48613739 TTGCTTTATC
*
48613749 TATTTTGTTTTCTATTTTCTG
1 TATTTTCTTTTC-ATTTTCTG
48613770 T-TGTTTCTTTTC-TTTTCTG
1 TAT-TTTCTTTTCATTTTCTG
48613789 TATTTTCT
1 TATTTTCT
48613797 ATATTTCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 13 0.54
20 2 0.08
21 9 0.38
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.73
Consensus pattern (20 bp):
TATTTTCTTTTCATTTTCTG
Found at i:48621485 original size:3 final size:3
Alignment explanation
Indices: 48621468--48621515 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
48621458 CAAAACACAA
* * * *
48621468 AAT AAT AAC ATT AAT AAT AAT AAT AAT GAT AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48621516 GGGGTTACAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48621485 original size:12 final size:12
Alignment explanation
Indices: 48621445--48621511 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
48621435 GTTCTAATTC
*
48621445 TAATATCAATAA
1 TAATAACAATAA
*
48621457 TCAA-AACACAAAA
1 T-AATAACA-ATAA
*
48621470 TAATAACATTAA
1 TAATAACAATAA
*
48621482 TAATAATAATAA
1 TAATAACAATAA
* *
48621494 TGATAAGAATAA
1 TAATAACAATAA
48621506 TAATAA
1 TAATAA
48621512 TAATGGGGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 33 0.77
13 10 0.23
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:48621624 original size:18 final size:21
Alignment explanation
Indices: 48621600--48621644 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
48621590 AAGGAATATG
48621600 TATATATG-TAAAAA-AATAAA
1 TATATA-GATAAAAATAATAAA
*
48621620 TATATAGATAAAAATAATACA
1 TATATAGATAAAAATAATAAA
48621641 TATA
1 TATA
48621645 AAATCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
TATATAGATAAAAATAATAAA
Found at i:48623595 original size:44 final size:44
Alignment explanation
Indices: 48623528--48624043 Score: 302
Period size: 44 Copynumber: 11.8 Consensus size: 44
48623518 TCCACTGCAG
* * *
48623528 TCTGCTCCGCTGCAACTTTAAGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* *
48623572 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* ** * * * * *** *
48623616 CCCACTCTACTGTAACTTC-AGAAAGATAGGATTTGCTGTGTTCAG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAA
* * * * **
48623661 TCTGCTCTATTGCAACTTCAAAGAGATAAGAATTGTAACTTTGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * * * * * *
48623705 TCTGCTCCACTGCAACTTTAGGGAAATGAGATTTGTAGCTTTAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * * *
48623749 T-TCGCTCTACTGCAACTTC-AGAGAGATAGGATTTGCTATCTTCAG
1 TCT-GCTCCACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAA
** * *
48623794 TCTGCTTTATTGTAACTTC-AGAGAGAT-A-A---G--ACTTCAA
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTAACTTCAA
* * * *
48623831 TCTACTCCACCGCAACTTC-AGGAAGATAAGATTTGTAATTTTCGA
1 TCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTAA-CTTCAA
* * *
48623876 TCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * ** ** *
48623920 TCTACTCCACTGCAACTTCAAGGAGATAAAATTCACTATTTTCGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATT-TGTAACTTCAA
* * * * * **
48623965 TCTACTCCACTGCAACTTTAGGGAGATGAGATTAGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * *
48624009 TCTACTCCACTACAACTT-TAGAGAGATAAGATTTG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG
48624044 CCATATTCCA
Statistics
Matches: 361, Mismatches: 92, Indels: 38
0.74 0.19 0.08
Matches are distributed among these distances:
36 1 0.00
37 24 0.07
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 6 0.02
44 194 0.54
45 128 0.35
46 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
Found at i:48623766 original size:133 final size:133
Alignment explanation
Indices: 48623538--48623952 Score: 400
Period size: 133 Copynumber: 3.2 Consensus size: 133
48623528 TCTGCTCCGC
* * * *
48623538 TGCAACTTTAAGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
* * *
48623603 TTTGTAGCTTTAACCCACTCTACTGTAACTTCAGAAAGATAGGATTTGCTGTGTTCAGTCTGCTC
66 TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAAAGATAGGATTTGCTATCTTCAGTCTGCTC
48623668 TAT
131 TAT
** * * *
48623671 TGCAACTTCAAAGAGATAAGAATTGTAACTTTGATCTGCTCCACTGCAACTTTAGGGAAATGAGA
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
*** * * *
48623736 TTTGTAGCTTTAGTTCGCTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGCTT
66 TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAAAGATAGGATTTGCTATCTTCAGTCTGCTC
48623801 TAT
131 TAT
* * * *
48623804 TGTAACTTCAGAGAGAT---AA--G--ACTTCAATCTACTCCACCGCAACTTC-AGGAAGATAAG
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAA-ATAAG
** * * * * ** * * * * *
48623861 ATTTGTAATTTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTG-TAACTTCAATCTAC
65 ATTTGTAGCTTT-AACCCACTCTACTGCAACTTCAGAAAGATAGGATTTGCTATCTTCAGTCTGC
* *
48623925 TCCAC
129 TCTAT
*
48623930 TGCAACTTCAAGGAGATAA-AATT
1 TGCAACTTCAAAGAGATAAGAATT
48623953 CACTATTTTC
Statistics
Matches: 229, Mismatches: 47, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
125 4 0.02
126 62 0.27
127 28 0.12
128 3 0.01
130 2 0.01
133 130 0.57
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (133 bp):
TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAAAGATAGGATTTGCTATCTTCAGTCTGCTC
TAT
Found at i:48623894 original size:45 final size:44
Alignment explanation
Indices: 48623825--48624043 Score: 217
Period size: 45 Copynumber: 4.9 Consensus size: 44
48623815 AGAGATAAGA
*
48623825 CTTCAATCTACTCCACCGCAACTTCAGGAAGATAAGATTTGTAAT
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGT-AT
* * * * *
48623870 TTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
* **
48623914 CTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAAATTCACTAT
1 CTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAGATT-TGTAT
* * * * * * **
48623959 TTTCGATCTACTCCACTGCAACTTTAGGGAGATGAGATTAGTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
* *
48624003 CTTCAATCTACTCCACTACAACTTTA-GAGAGATAAGATTTG
1 CTTCAATCTACTCCACTGCAACTTCAGGA-AGATAAGATTTG
48624044 CCATATTCCA
Statistics
Matches: 143, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 70 0.49
45 72 0.50
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
Found at i:48623975 original size:89 final size:89
Alignment explanation
Indices: 48623824--48624026 Score: 277
Period size: 89 Copynumber: 2.3 Consensus size: 89
48623814 GAGAGATAAG
* * **
48623824 ACTTCAATCTACTCCACCGCAACTTCAGGAAGATAAGATTTGTAATTTTCGATCTACTCCACTGC
1 ACTTCAATCTACTCCACTGCAACTTCAGGAAGATAAAATTACTAATTTTCGATCTACTCCACTGC
48623889 AACTTCAGGGAGATAAGATCT-GTA
66 AACTTCAGGGAGATAAGAT-TAGTA
48623913 ACTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAAATTCACT-ATTTTCGATCTACTCCACT
1 ACTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAAATT-ACTAATTTTCGATCTACTCCACT
* * *
48623976 GCAACTTTAGGGAGATGAGATTAGTG
64 GCAACTTCAGGGAGATAAGATTAGTA
* *
48624002 GCTTCAATCTACTCCACTACAACTT
1 ACTTCAATCTACTCCACTGCAACTT
48624027 TAGAGAGATA
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 1 0.01
89 97 0.95
90 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (89 bp):
ACTTCAATCTACTCCACTGCAACTTCAGGAAGATAAAATTACTAATTTTCGATCTACTCCACTGC
AACTTCAGGGAGATAAGATTAGTA
Found at i:48627560 original size:19 final size:19
Alignment explanation
Indices: 48627538--48627581 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
48627528 TTAAAAGTAT
*
48627538 TAAAATTAATATAAACTT-A
1 TAAAATT-ATATAAAATTCA
48627557 TAAAAATTATATAAAATTCA
1 T-AAAATTATATAAAATTCA
48627577 TAAAA
1 TAAAA
48627582 ATTTGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATTATATAAAATTCA
Found at i:48627562 original size:20 final size:20
Alignment explanation
Indices: 48627518--48627584 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
48627508 CATCCAAATA
* *
48627518 ATAAAAGTTAT-TAAAAGT-
1 ATAAAAATTATATAAAATTC
* *
48627536 ATTAAAATTAATATAAACTT-
1 ATAAAAATT-ATATAAAATTC
48627556 ATAAAAATTATATAAAATTC
1 ATAAAAATTATATAAAATTC
48627576 ATAAAAATT
1 ATAAAAATT
48627585 TGAATTGGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.17
19 11 0.28
20 22 0.55
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAAAATTATATAAAATTC
Found at i:48627574 original size:10 final size:10
Alignment explanation
Indices: 48627518--48627584 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
48627508 CATCCAAATA
48627518 ATAAAAGTTAT
1 ATAAAA-TTAT
*
48627529 -TAAAAGTAT
1 ATAAAATTAT
48627538 -TAAAATTAAT
1 ATAAAATT-AT
*
48627548 ATAAACTTAT
1 ATAAAATTAT
48627558 A-AAAATTAT
1 ATAAAATTAT
48627567 ATAAAATTCAT
1 ATAAAATT-AT
48627578 A-AAAATT
1 ATAAAATT
48627585 TGAATTGGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
9 17 0.35
10 22 0.46
11 9 0.19
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:48627998 original size:9 final size:9
Alignment explanation
Indices: 48627984--48628184 Score: 99
Period size: 9 Copynumber: 21.7 Consensus size: 9
48627974 TTTTATGATG
48627984 TTTTTATAA
1 TTTTTATAA
48627993 TTTTTATAA
1 TTTTTATAA
*
48628002 GTTTATATCAA
1 -TTTTTAT-AA
*
48628013 TTTTAAT-A
1 TTTTTATAA
48628021 TTTTTATAA
1 TTTTTATAA
48628030 CTTTTTATAA
1 -TTTTTATAA
*
48628040 TTTTTATTA
1 TTTTTATAA
*
48628049 TTTTTAAGAA
1 TTTTT-ATAA
* * * *
48628059 TTCTAACAC
1 TTTTTATAA
*
48628068 TTTTTAAAA
1 TTTTTATAA
*
48628077 ATTTTA-AA
1 TTTTTATAA
*
48628085 TATTTAAAATAA
1 T-TTT--TATAA
* *
48628097 GTTTAATTAA
1 TTTTTA-TAA
48628107 -TTTTATAA
1 TTTTTATAA
48628115 -TTTTATAA
1 TTTTTATAA
*
48628123 TATTTATAA
1 TTTTTATAA
*
48628132 GTTTTCATAA
1 -TTTTTATAA
*
48628142 TTTTT-TTA
1 TTTTTATAA
48628150 TATTTT-TAA
1 T-TTTTATAA
48628159 TTTTTATAAGA
1 TTTTTAT-A-A
*
48628170 TTTTTATGA
1 TTTTTATAA
48628179 TTTTTA
1 TTTTTA
48628185 ATCATTATTT
Statistics
Matches: 149, Mismatches: 27, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
8 27 0.18
9 70 0.47
10 36 0.24
11 14 0.09
12 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48628016 original size:28 final size:28
Alignment explanation
Indices: 48627984--48628054 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
48627974 TTTTATGATG
*
48627984 TTTTTATAATTTTTATAAGTTTATATCAA
1 TTTTTATAATTTTTATAACTTTATAT-AA
* *
48628013 TTTTAAT-ATTTTTATAACTTTTTATAA
1 TTTTTATAATTTTTATAACTTTATATAA
*
48628040 TTTTTATTATTTTTA
1 TTTTTATAATTTTTA
48628055 AGAATTCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.22
28 23 0.62
29 6 0.16
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTATAATTTTTATAACTTTATATAA
Found at i:48628035 original size:19 final size:19
Alignment explanation
Indices: 48627984--48628196 Score: 85
Period size: 19 Copynumber: 11.4 Consensus size: 19
48627974 TTTTATGATG
48627984 TTTTTATAATTTTT-ATAA
1 TTTTTATAATTTTTAATAA
*
48628002 GTTTATATCAA-TTTTAAT-A
1 -TTTTTAT-AATTTTTAATAA
48628021 TTTTTATAACTTTTT-ATAA
1 TTTTTATAA-TTTTTAATAA
* *
48628040 TTTTTATTATTTTTAAGAA
1 TTTTTATAATTTTTAATAA
* * * *
48628059 TTCTAACACTTTTTAA-AA
1 TTTTTATAATTTTTAATAA
* *
48628077 ATTTTA-AATATTTAAAATAA
1 TTTTTATAAT-TTT-TAATAA
* *
48628097 GTTTAATTAA-TTTT-ATAA
1 TTTTTA-TAATTTTTAATAA
*
48628115 -TTTTATAATATTT-ATAA
1 TTTTTATAATTTTTAATAA
* *
48628132 GTTTTCATAATTTTT--TTA
1 -TTTTTATAATTTTTAATAA
48628150 TATTTT-TAATTTTT-ATAAGA
1 T-TTTTATAATTTTTAAT-A-A
* *
48628170 TTTTTATGATTTTTAATCA
1 TTTTTATAATTTTTAATAA
48628189 TTATTTAT
1 TT-TTTAT
48628197 GGAAAAATAT
Statistics
Matches: 147, Mismatches: 26, Indels: 41
0.69 0.12 0.19
Matches are distributed among these distances:
16 3 0.02
17 24 0.16
18 31 0.21
19 58 0.39
20 27 0.18
21 2 0.01
22 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:48628183 original size:36 final size:38
Alignment explanation
Indices: 48628107--48628183 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
48628097 GTTTAATTAA
48628107 TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
1 TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
* * *
48628145 TTTTAT-ATTTT-TAATTTTTATAAGATTTTTATGATTT
1 TTTTATAATTTTATAATATTTATAAG-TTTTCATAATTT
48628182 TT
1 TT
48628184 AATCATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 12 0.34
37 17 0.49
38 6 0.17
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (38 bp):
TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
Found at i:48629921 original size:19 final size:19
Alignment explanation
Indices: 48629899--48630017 Score: 112
Period size: 19 Copynumber: 6.2 Consensus size: 19
48629889 CGTACAAAGC
*
48629899 GCATACTCGCACACGAAGT
1 GCATACTAGCACACGAAGT
* * *
48629918 GCATTCTAGCACACAAAGC
1 GCATACTAGCACACGAAGT
* *
48629937 ACATACTGGCACACGAAGT
1 GCATACTAGCACACGAAGT
* *
48629956 GCATTCTAGCGCACGAAGT
1 GCATACTAGCACACGAAGT
* * *
48629975 GCATTCTAGCGCACGATGT
1 GCATACTAGCACACGAAGT
* *
48629994 ACATATCTGGCACACGAAGT
1 GCATA-CTAGCACACGAAGT
48630014 GCAT
1 GCAT
48630018 CCTGACGCAT
Statistics
Matches: 79, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
19 65 0.82
20 14 0.18
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (19 bp):
GCATACTAGCACACGAAGT
Found at i:48629990 original size:38 final size:38
Alignment explanation
Indices: 48629899--48630017 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
48629889 CGTACAAAGC
* * *
48629899 GCATACTCGCACACGAAGTGCATTCTAGCACACAAAGC
1 GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
* * *
48629937 ACATACTGGCACACGAAGTGCATTCTAGCGCACGAAGT
1 GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
* * * * *
48629975 GCATTCTAGCGCACGATGTACATATCTGGCACACGAAGT
1 GCATACTAGCACACGAAGTGCAT-TCTAGCACACGAAGT
48630014 GCAT
1 GCAT
48630018 CCTGACGCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
38 50 0.75
39 17 0.25
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (38 bp):
GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
Found at i:48632613 original size:27 final size:27
Alignment explanation
Indices: 48632575--48632632 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
48632565 ATAATATGAA
48632575 ATATAAATTTACAGAAAAGTAACATGC
1 ATATAAATTTACAGAAAAGTAACATGC
48632602 ATATAAATTTACAGAAAAGTAACATGC
1 ATATAAATTTACAGAAAAGTAACATGC
48632629 ATAT
1 ATAT
48632633 CATGAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (27 bp):
ATATAAATTTACAGAAAAGTAACATGC
Found at i:48633049 original size:6 final size:6
Alignment explanation
Indices: 48633038--48633062 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48633028 ACCGACAAAA
48633038 CAACTC CAACTC CAACTC CAACTC C
1 CAACTC CAACTC CAACTC CAACTC C
48633063 TTCAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CAACTC
Found at i:48637295 original size:21 final size:20
Alignment explanation
Indices: 48637271--48637383 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
48637261 ATTTGTCTTA
*
48637271 AATCGATTCTTTGCTTATTTG
1 AATCGATTCTTTG-TTGTTTG
* *
48637292 AATCGATTGTTTTGTTGATTG
1 AATCGATT-CTTTGTTGTTTG
* *
48637313 ACTCAATTCTTTTTGTTGTTTG
1 AATCGATTC--TTTGTTGTTTG
* *
48637335 AATCGATTGTTTATTGTTTG
1 AATCGATTCTTTGTTGTTTG
48637355 AATCGATTCTTTGTTGTTT-
1 AATCGATTCTTTGTTGTTTG
48637374 AACTCGATTC
1 AA-TCGATTC
48637384 AAACGCCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 34 0.45
21 19 0.25
22 20 0.27
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTG
Found at i:48637364 original size:42 final size:43
Alignment explanation
Indices: 48637271--48637372 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
48637261 ATTTGTCTTA
*
48637271 AATCGATTC--TTTGCTTATTTGAATCGATTGTTTTGTTGATTG
1 AATCGATTCTTTTTG-TTATTTGAATCGATTGTTTTATTGATTG
* * * *
48637313 ACTCAATTCTTTTTGTTGTTTGAATCGATTG-TTTATTGTTTG
1 AATCGATTCTTTTTGTTATTTGAATCGATTGTTTTATTGATTG
48637355 AATCGATTCTTTGTTGTT
1 AATCGATTCTTT-TTGTT
48637373 TAACTCGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.52
43 20 0.40
44 4 0.08
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (43 bp):
AATCGATTCTTTTTGTTATTTGAATCGATTGTTTTATTGATTG
Found at i:48651916 original size:24 final size:25
Alignment explanation
Indices: 48651889--48651937 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
48651879 TATTTTTATG
48651889 AAATTACATATTAATA-TAATAATA
1 AAATTACATATTAATACTAATAATA
* *
48651913 AAATTATATTTTAATACCTAATAAT
1 AAATTACATATTAATA-CTAATAAT
48651938 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTACATATTAATACTAATAATA
Found at i:48656279 original size:5 final size:6
Alignment explanation
Indices: 48656259--48656289 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
48656249 CGACAAAAGG
48656259 TTTCTTT TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT
48656290 CCAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:48657845 original size:28 final size:28
Alignment explanation
Indices: 48657813--48657874 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
48657803 AAATTGAAGG
*
48657813 TTTAAAGATCTCT-TTTATTGTTTAACAA
1 TTTAAAAATCT-TATTTATTGTTTAACAA
* * *
48657841 TTTAAAAATGTTATTTATTGTTTAATAG
1 TTTAAAAATCTTATTTATTGTTTAACAA
48657869 TTTAAA
1 TTTAAA
48657875 TTTGGCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (28 bp):
TTTAAAAATCTTATTTATTGTTTAACAA
Done.