Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 261 of 316
Found at i:86456701 original size:27 final size:26
Alignment explanation
Indices: 86456657--86456708 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
86456647 CTCGCTGCAA
*
86456657 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
86456684 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
86456709 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:86463671 original size:30 final size:30
Alignment explanation
Indices: 86463637--86463694 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
86463627 TTTTTGAGCA
*
86463637 TAGGGGCAAAATGGTCATTTTATTAAAGTT
1 TAGGGGCAAAATGGTCATTTTACTAAAGTT
*
86463667 TAGGGGCGAAATGGTCATTTTACTAAAG
1 TAGGGGCAAAATGGTCATTTTACTAAAG
86463695 ATGTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACTAAAGTT
Found at i:86464107 original size:47 final size:46
Alignment explanation
Indices: 86464035--86464301 Score: 202
Period size: 47 Copynumber: 5.7 Consensus size: 46
86464025 TGATTTGTGC
* **
86464035 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGA
*
86464081 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCACAGAGATGAGA
** * * * *
86464129 GGTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGA
* * * * *
86464176 GACAGTGTAAGACGTGTCTAGGACATGCATCGGCTA-AGAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGA
* * * * *
86464220 GCTATTGTAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-AGATGAGA
* * *
86464268 GCCAGTGTATGACCATGTTTAGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
86464302 ACAATATATC
Statistics
Matches: 170, Mismatches: 37, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 4 0.02
46 21 0.12
47 63 0.37
48 36 0.21
49 12 0.07
50 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGA
Found at i:86464250 original size:91 final size:94
Alignment explanation
Indices: 86464038--86464301 Score: 274
Period size: 94 Copynumber: 2.8 Consensus size: 94
86464028 TTTGTGCGCC
* * * *
86464038 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTGTAAGACTATGTCTAG
*
86464103 GACATGGCATCGGCACAGAGATGAGTGGT
66 GACATGGCATCGGCACAGAGATGAGTGCT
* *
86464132 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-TA-GAGATAGACAGTGTAAGAC-GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAG--AGACAGTGTAAGACTATGTC
*
86464194 TAGGACAT-GCATCGGCTA-AGAG-T-TGTGCT
63 TAGGACATGGCATCGGC-ACAGAGATGAGTGCT
* * * * * * *
86464223 ATTGTAAGACATGTCTGGGACATGCATC-AGCACGCGTATATGAGAGCCAGTGTATGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-C-CACAT-TATGAGAGACAGTGTAAGACTATGTC
86464287 TAGGACATGGCATCG
63 TAGGACATGGCATCG
86464302 ACAATATATC
Statistics
Matches: 144, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
90 1 0.01
91 32 0.22
92 15 0.10
93 28 0.19
94 54 0.38
95 14 0.10
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTGTAAGACTATGTCTAG
GACATGGCATCGGCACAGAGATGAGTGCT
Found at i:86467297 original size:33 final size:31
Alignment explanation
Indices: 86467255--86467334 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
86467245 TAAATTATTT
86467255 TTGTATTGGTTATTGTCTATCATGTTGTATTAAA
1 TTGT-TTGGTTATTGTC-AT-ATGTTGTATTAAA
* *
86467289 TTGTTTGGTCATTG-CCTATGTTGTATTAAA
1 TTGTTTGGTTATTGTCATATGTTGTATTAAA
*
86467319 TTGTTTGGTTGTTGTC
1 TTGTTTGGTTATTGTC
86467335 CGCATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 25 0.61
31 2 0.05
32 1 0.02
33 9 0.22
34 4 0.10
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.54
Consensus pattern (31 bp):
TTGTTTGGTTATTGTCATATGTTGTATTAAA
Found at i:86470385 original size:28 final size:28
Alignment explanation
Indices: 86470348--86470408 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
86470338 CAGTATCAAT
* * *
86470348 ACAGTTTGGGCCTTAGCGCTATACAGTA
1 ACAGTGTGGGCCTAAGCGCAATACAGTA
*
86470376 ACAGTGTGGGCCTAAGCTCAATACAGTA
1 ACAGTGTGGGCCTAAGCGCAATACAGTA
*
86470404 TCAGT
1 ACAGT
86470409 ACAGTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCGCAATACAGTA
Found at i:86470596 original size:27 final size:27
Alignment explanation
Indices: 86470564--86470645 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
86470554 AGCTGCCTGA
*
86470564 AATAGTAAATGTGGCAAAGCCACCAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
* * *
86470591 ATTAGTAATTGTGGCATAGCCACTAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
* * * *
86470618 AACAGTGAATGTGACATAGTCACCAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
86470645 A
1 A
86470646 CAGTACTTCC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (27 bp):
AATAGTAAATGTGGCATAGCCACCAGT
Found at i:86472376 original size:49 final size:49
Alignment explanation
Indices: 86472190--86472420 Score: 255
Period size: 49 Copynumber: 4.5 Consensus size: 49
86472180 TGAGGTCGCA
* * ** *
86472190 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGATCACG
* * ** *
86472241 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GATCACG
*
86472291 TGTGTAGTACTAATACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAG------TACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
*
86472346 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
* *
86472395 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
86472421 TGCATACCAG
Statistics
Matches: 156, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 65 0.42
50 14 0.09
51 32 0.21
55 14 0.09
56 31 0.20
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
Found at i:86475078 original size:46 final size:46
Alignment explanation
Indices: 86474967--86475181 Score: 297
Period size: 46 Copynumber: 4.6 Consensus size: 46
86474957 TTTGACATGA
* * * *
86474967 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTCA-TTTCATATCACGT
* *
86475017 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATTTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
86475063 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
** *
86475109 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
86475155 TGCCATGGTATCTTTCAACCATGGTCT
1 TGCCATGGTATCTTTCAACCATGGTCT
86475182 GGTATCTTTA
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
45 4 0.03
46 124 0.81
47 1 0.01
49 1 0.01
50 23 0.15
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
Found at i:86475186 original size:21 final size:21
Alignment explanation
Indices: 86475160--86475202 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
86475150 CAGGTTGCCA
*
86475160 TGGTATCTTTCAACCATGGTC
1 TGGTATCTTTAAACCATGGTC
86475181 TGGTATCTTTAAACCATGGTC
1 TGGTATCTTTAAACCATGGTC
86475202 T
1 T
86475203 TACACATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TGGTATCTTTAAACCATGGTC
Found at i:86475189 original size:67 final size:67
Alignment explanation
Indices: 86475114--86475248 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
86475104 CACGTTGCCA
* *
86475114 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
86475179 TC
66 TC
86475181 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
86475246 TC
66 TC
86475248 T
1 T
86475249 TACACATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (67 bp):
TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
TC
Found at i:86475201 original size:113 final size:113
Alignment explanation
Indices: 86475068--86475290 Score: 410
Period size: 113 Copynumber: 2.0 Consensus size: 113
86475058 CACGTTGCCA
* ** *
86475068 TGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
86475133 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
66 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
86475181 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
86475246 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
66 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
86475291 ATCATACACA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (113 bp):
TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:86475311 original size:46 final size:46
Alignment explanation
Indices: 86475181--86475311 Score: 226
Period size: 46 Copynumber: 2.8 Consensus size: 46
86475171 AACCATGGTC
* *
86475181 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCA
1 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
86475227 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
1 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
* *
86475273 TGGTATCTTTCAACCATGATCATACACATTTCATATCAG
1 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
86475312 AGAGCACACT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (46 bp):
TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
Found at i:86475311 original size:159 final size:159
Alignment explanation
Indices: 86475022--86475311 Score: 481
Period size: 159 Copynumber: 1.8 Consensus size: 159
86475012 CATGTTGCCA
* ** * * *
86475022 TGGTATCTTTCAACCATGGTCTTATTCTTTTCATTTCACGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
** * *
86475087 TCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
66 TCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGATCATACACATTTCATATCA
86475152 GGTTGCCATGGTATCTTTCAACCATGGTC
131 GGTTGCCATGGTATCTTTCAACCATGGTC
86475181 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
1 TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
*
86475246 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGATCATACACATTTCATATCA
66 TCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGATCATACACATTTCATATCA
86475311 G
131 G
86475312 AGAGCACACT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 120 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (159 bp):
TGGTATCTTTAAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGG
TCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGATCATACACATTTCATATCA
GGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:86481774 original size:27 final size:27
Alignment explanation
Indices: 86481744--86481835 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
86481734 AACATAGCTG
*
86481744 CCAGAAATAGTAAATGTGGCAAAGCCA
1 CCAGTAATAGTAAATGTGGCAAAGCCA
* * *
86481771 CCAGTATTAGTAATTGTGGCATAGCCA
1 CCAGTAATAGTAAATGTGGCAAAGCCA
* * * * *
86481798 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAATAGTAAATGTGGCAAAGCCA
86481825 CCAGT-ATAGTA
1 CCAGTAATAGTA
86481836 CTTCCTCCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 4 0.08
27 49 0.92
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (27 bp):
CCAGTAATAGTAAATGTGGCAAAGCCA
Found at i:86482031 original size:27 final size:26
Alignment explanation
Indices: 86481970--86482035 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
86481960 AAGGCATAAT
*
86481970 CGTCATTTTATCATATAGGGGTATTA
1 CGTCATTTTACCATATAGGGGTATTA
* *
86481996 CGATTATTTTACCCTATAGGGGTATTA
1 CG-TCATTTTACCATATAGGGGTATTA
86482023 CAGTCATTTTACC
1 C-GTCATTTTACC
86482036 TATTTTAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (26 bp):
CGTCATTTTACCATATAGGGGTATTA
Found at i:86488757 original size:5 final size:5
Alignment explanation
Indices: 86488747--86488789 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
86488737 ATTTAAATGC
86488747 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T-TAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
86488790 TTTTTCTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:86491211 original size:26 final size:26
Alignment explanation
Indices: 86491167--86491224 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
86491157 ATTTTCTCAG
* * *
86491167 AATTTTACTAGGGGCAAAATAGTTAA
1 AATTTTACCAAGGGCAAAATAGTCAA
* *
86491193 AATTTTACCAAGGGTAAAATCGTCAA
1 AATTTTACCAAGGGCAAAATAGTCAA
86491219 AATTTT
1 AATTTT
86491225 GTTAGGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (26 bp):
AATTTTACCAAGGGCAAAATAGTCAA
Found at i:86493827 original size:12 final size:11
Alignment explanation
Indices: 86493795--86493827 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
86493785 TATTTTAGGT
86493795 TTAGTTTTCTC
1 TTAGTTTTCTC
86493806 TTAGTTTTCTC
1 TTAGTTTTCTC
86493817 TTAGCTTTTCT
1 TTAG-TTTTCT
86493828 TTCTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (11 bp):
TTAGTTTTCTC
Found at i:86496320 original size:18 final size:18
Alignment explanation
Indices: 86496297--86496332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
86496287 ATCTGCATTG
* *
86496297 GTTTAAATCCATTTCAAA
1 GTTTAAAACCAATTCAAA
86496315 GTTTAAAACCAATTCAAA
1 GTTTAAAACCAATTCAAA
86496333 ACAATCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
GTTTAAAACCAATTCAAA
Found at i:86496474 original size:20 final size:20
Alignment explanation
Indices: 86496449--86496489 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
86496439 TTAAAATAAG
86496449 TAAAGTTTTCATAACTTATA
1 TAAAGTTTTCATAACTTATA
86496469 TAAAGTTTTCATAACTTATA
1 TAAAGTTTTCATAACTTATA
86496489 T
1 T
86496490 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAAGTTTTCATAACTTATA
Found at i:86496700 original size:16 final size:16
Alignment explanation
Indices: 86496679--86496714 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
86496669 TACCCTTGAT
86496679 ATTCAAAATCTATTAA
1 ATTCAAAATCTATTAA
86496695 ATTCAAAATCTATTAA
1 ATTCAAAATCTATTAA
86496711 ATTC
1 ATTC
86496715 CTTAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTCAAAATCTATTAA
Found at i:86497214 original size:22 final size:22
Alignment explanation
Indices: 86497154--86497217 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
86497144 GCACTAATAT
86497154 AACAGTAGGCATCGAAGTGCAA
1 AACAGTAGGCATCGAAGTGCAA
* ** *
86497176 ATCACAAAGCATCGAAGTGCAA
1 AACAGTAGGCATCGAAGTGCAA
86497198 AACAGTAGGCA-CAGAAGTGC
1 AACAGTAGGCATC-GAAGTGC
86497218 GGAACGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AACAGTAGGCATCGAAGTGCAA
Found at i:86497384 original size:21 final size:21
Alignment explanation
Indices: 86497354--86497398 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
86497344 TATCATGCAC
*
86497354 ACATATCACTTTTACACTTTT
1 ACATAACACTTTTACACTTTT
* *
86497375 ACATAACACTTTTATATTTTT
1 ACATAACACTTTTACACTTTT
86497396 ACA
1 ACA
86497399 ATTTAGTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
ACATAACACTTTTACACTTTT
Found at i:86503106 original size:27 final size:27
Alignment explanation
Indices: 86503073--86503166 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
86503063 ACCGAAATAT
*
86503073 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACTAAAATACCCCTATAG
* * *
86503100 GGTAAAATGACTGAAATATCCCTGTAG
1 GGTAAAATGACTAAAATACCCCTATAG
** * *
86503127 GGTAAAATGACTGTAATACCTCTATAA
1 GGTAAAATGACTAAAATACCCCTATAG
86503154 GGTAAAATGACTA
1 GGTAAAATGACTA
86503167 TTTTGCCCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCTATAG
Found at i:86503186 original size:27 final size:27
Alignment explanation
Indices: 86503152--86503255 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
86503142 ATACCTCTAT
86503152 AAGGTAAAATGACTATTTTGCCCTTAC
1 AAGGTAAAATGACTATTTTGCCCTTAC
* * * *
86503179 ATA-TTAAAATAAC-AGTTTTTCCCTTAT
1 A-AGGTAAAATGACTA-TTTTGCCCTTAC
*
86503206 AAGGTAAAATGACTATTTTGCCCTTAT
1 AAGGTAAAATGACTATTTTGCCCTTAC
* ** *
86503233 ATGGTAGGATGACTGTTTTGCCC
1 AAGGTAAAATGACTATTTTGCCC
86503256 CTATGTGATG
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
26 2 0.03
27 58 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (27 bp):
AAGGTAAAATGACTATTTTGCCCTTAC
Found at i:86503187 original size:54 final size:54
Alignment explanation
Indices: 86503129--86503231 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
86503119 CCCTGTAGGG
* *
86503129 TAAAATGACTGTAATA-CCTCTATAAGGTAAAATGACTATTTTGCCCTTACATAT
1 TAAAATAACAGTAATACCCT-TATAAGGTAAAATGACTATTTTGCCCTTACATAT
** *
86503183 TAAAATAACAGTTTTTCCCTTATAAGGTAAAATGACTATTTTGCCCTTA
1 TAAAATAACAGTAATACCCTTATAAGGTAAAATGACTATTTTGCCCTTA
86503232 TATGGTAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 40 0.93
55 3 0.07
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (54 bp):
TAAAATAACAGTAATACCCTTATAAGGTAAAATGACTATTTTGCCCTTACATAT
Found at i:86503643 original size:18 final size:18
Alignment explanation
Indices: 86503591--86503645 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
86503581 GGACTTGCAT
* * *
86503591 ACTGCTTACTGTTACTAC
1 ACTGATTACTATTACTGC
86503609 ACTGATTACTATTACTGC
1 ACTGATTACTATTACTGC
*
86503627 ACTGTTTACTATTACTGC
1 ACTGATTACTATTACTGC
86503645 A
1 A
86503646 ATAGGCCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (18 bp):
ACTGATTACTATTACTGC
Found at i:86508899 original size:94 final size:94
Alignment explanation
Indices: 86508729--86508998 Score: 227
Period size: 94 Copynumber: 2.9 Consensus size: 94
86508719 ATGGATGTGT
* * *
86508729 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACAATATGAGAGCCAGTGTAAGACCATATC
*
86508794 TGGAACTTGGCATTGGCATTAAGACGAGA
66 TGGAACATGGCATTGGCATTAAGACGAGA
* * *
86508823 GCTAGTGTAAGATATGTTTGGGACATGCATCGGCCT-CGAGATATGCA-AGCTA-TGTGAGACC-
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CTAC-A-ATATG-AGAGCCAGTGTAAGACCA
* *
86508884 TATCTGGGACATGGCATTGGC-TT--GAC-ATGT
62 TATCTGGAACATGGCATTGGCATTAAGACGA-GA
* * * * * * *
86508914 G-TCAGTGTAAGACTTGTCTGGGACATGGCATCGACTTA-GATGTGTGAGCCAGTGTAAAACCAT
1 GCT-AGTGTAAGACATGTTTGGGACAT-GCATCGGC-TACAATATGAGAGCCAGTGTAAGACCAT
* * *
86508977 GTTTGGAACATGGCATCGGCAT
63 ATCTGGAACATGGCATTGGCAT
86508999 CGTACCCTAT
Statistics
Matches: 140, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
90 10 0.07
91 33 0.24
92 24 0.17
93 3 0.02
94 50 0.36
95 11 0.08
96 8 0.06
97 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACAATATGAGAGCCAGTGTAAGACCATATC
TGGAACATGGCATTGGCATTAAGACGAGA
Found at i:86511842 original size:27 final size:27
Alignment explanation
Indices: 86511812--86511960 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 27
86511802 ATATTGAGCC
* *
86511812 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
86511839 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
86511866 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
86511894 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
86511921 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
86511948 CGCACACTTAGTG
1 CGCACACTTAGTG
86511961 NNNNNNNNNN
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
27 79 0.78
28 22 0.22
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:86511905 original size:55 final size:54
Alignment explanation
Indices: 86511812--86511960 Score: 165
Period size: 55 Copynumber: 2.7 Consensus size: 54
86511802 ATATTGAGCC
* * *
86511812 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * * ** *
86511866 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACATAATCAAAT
* **
86511921 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTG
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTG
86511961 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
54 35 0.44
55 45 0.56
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:86523900 original size:27 final size:27
Alignment explanation
Indices: 86523870--86524047 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
86523860 ATATTGAGCC
* *
86523870 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
86523897 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
86523924 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
86523952 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
86523979 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
86524006 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
86524033 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86524048 GAACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:86524009 original size:82 final size:81
Alignment explanation
Indices: 86523891--86524046 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
86523881 TGCTATATAA
* * * *
86523891 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAG-TAGAATCGCA
86523956 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
86523973 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
86524037 CACTTAGTGC
65 CACTTAGTGC
86524047 TGAACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86531478 original size:45 final size:45
Alignment explanation
Indices: 86531427--86531612 Score: 246
Period size: 45 Copynumber: 4.1 Consensus size: 45
86531417 GGTACTAAGG
* *
86531427 CATTTTGATCATGACACCATAGCACCTTTCAGTTATGGTCTTACT
1 CATTTTGATCATGACACCATAGCATCTTTCAGCTATGGTCTTACT
* *
86531472 CATTTTGATCATGACACCATAGCATCTTTCAGTTATAGTCTTACT
1 CATTTTGATCATGACACCATAGCATCTTTCAGCTATGGTCTTACT
* **
86531517 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
1 CATTTTGATCATGACACCATAGCATCTTTCAGCTATGGTCTTACT
* * * ** * *
86531562 TATTTTTATTATGATGCCATAGCATCTTTCACCTATGGTCATACT
1 CATTTTGATCATGACACCATAGCATCTTTCAGCTATGGTCTTACT
86531607 CATTTT
1 CATTTT
86531613 AGGCATATAG
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (45 bp):
CATTTTGATCATGACACCATAGCATCTTTCAGCTATGGTCTTACT
Found at i:86535901 original size:20 final size:20
Alignment explanation
Indices: 86535864--86535901 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
86535854 TGATGGGGAG
*
86535864 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
86535884 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
86535902 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:86537851 original size:46 final size:46
Alignment explanation
Indices: 86537799--86538118 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
86537789 AGTGTGCTCT
*
86537799 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
86537845 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
86537891 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
86537937 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
86537983 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
86538029 ATGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
86538075 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
86538119 TCATGTCAAA
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 255 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:86540008 original size:45 final size:45
Alignment explanation
Indices: 86539950--86540124 Score: 172
Period size: 45 Copynumber: 3.8 Consensus size: 45
86539940 TTAATTTGAT
* * *
86539950 GCCATAACGTCTTTCAGCTATGGTTTTACTCTTTTTTATCATGAC
1 GCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGAC
* * * *
86539995 GCCATAGCATCTTTCA-ATGATGGTCTTACTTATTTTTTTATCATGGC
1 GCCATAACATCTTTCAGCT-ATGGTCTTACTCA--TTTTTATCATGAC
* * ** * * *
86540042 TCAATGTCATCTTTTAGCTATGATCTTACTCATTTTTATCATCAC
1 GCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGAC
* *
86540087 GCCAAAACATCTTTCAACTATGGTCTTACTCATTTTTA
1 GCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTA
86540125 GGGGTATAGC
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
44 1 0.01
45 65 0.64
47 34 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (45 bp):
GCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGAC
Found at i:86541579 original size:4 final size:4
Alignment explanation
Indices: 86541570--86541594 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
86541560 ATCTAGTTAT
86541570 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
86541595 ATTTTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:86550010 original size:68 final size:68
Alignment explanation
Indices: 86549927--86550066 Score: 244
Period size: 68 Copynumber: 2.1 Consensus size: 68
86549917 GTTTATGACC
*
86549927 AGAAGAAACCCGTCAGGACTATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAACCG
1 AGAAGAAACCCGTCAGGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAACCG
86549992 AAG
66 AAG
* * *
86549995 AGAAGAAACCTGTCAGGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCT
1 AGAAGAAACCCGTCAGGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAACCG
86550060 AAG
66 AAG
86550063 AGAA
1 AGAA
86550067 ATAAGGCGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (68 bp):
AGAAGAAACCCGTCAGGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAACCG
AAG
Found at i:86554176 original size:11 final size:11
Alignment explanation
Indices: 86554171--86554197 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
86554161 AAAAAAAATG
86554171 AAAAAACGAAA
1 AAAAAACGAAA
86554182 AAAAAACGAAA
1 AAAAAACGAAA
86554193 AAAAA
1 AAAAA
86554198 TTTCAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAACGAAA
Found at i:86555270 original size:30 final size:28
Alignment explanation
Indices: 86555234--86555289 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
86555224 AAGCAAAAAA
* *
86555234 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
86555264 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
86555290 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:86561609 original size:13 final size:13
Alignment explanation
Indices: 86561591--86561616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86561581 CTCGACAGGG
86561591 ACACGCCCGTGTA
1 ACACGCCCGTGTA
86561604 ACACGCCCGTGTA
1 ACACGCCCGTGTA
86561617 CGATTACTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:86570855 original size:10 final size:10
Alignment explanation
Indices: 86570840--86570867 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
86570830 TGAAGATCTC
86570840 CCTTCAAGTT
1 CCTTCAAGTT
86570850 CCTTCAAGTT
1 CCTTCAAGTT
86570860 CCTTCAAG
1 CCTTCAAG
86570868 AGTTTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (10 bp):
CCTTCAAGTT
Found at i:86578401 original size:56 final size:56
Alignment explanation
Indices: 86578333--86578498 Score: 233
Period size: 56 Copynumber: 2.9 Consensus size: 56
86578323 ACCATGGCAT
86578333 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
* * * * *
86578389 CGATATAAGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTAAATTT
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT-GACTC
* * * **
86578446 CGATATATGTGTGAGAGTAAGACCATGTCTAGCACGTTGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
86578499 TTACATGTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 50 0.52
57 46 0.48
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
Found at i:86579988 original size:168 final size:168
Alignment explanation
Indices: 86579710--86580048 Score: 642
Period size: 168 Copynumber: 2.0 Consensus size: 168
86579700 TGAGAACTAT
*
86579710 ATGGTTTAAATTAATATGGTCTTATGCATATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
1 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
*
86579775 GATTTGGATTGGTTTTTGATCATTCAGATTAGGTATGCTATGAAATGTCTTTGATGTTCAAAAAT
66 GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAATGTCTTTGATGTTCAAAAAT
86579840 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
131 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
86579878 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
1 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
* *
86579943 GATTTGGATTGGTTTTTGATCATTCGGATCAGGTATGCTATGAAATGTCTTTGATGTTCGAAAAT
66 GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAATGTCTTTGATGTTCAAAAAT
86580008 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
131 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
86580046 ATG
1 ATG
86580049 CACATGATTA
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (168 bp):
ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAATGTCTTTGATGTTCAAAAAT
GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
Found at i:86582387 original size:40 final size:39
Alignment explanation
Indices: 86582342--86582524 Score: 233
Period size: 40 Copynumber: 4.6 Consensus size: 39
86582332 CTCGCACAAG
* *
86582342 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-CACTAGCACAAAT
* * *
86582382 GCCTTCGGGACTTAGCTCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-CACTAGCACAAAT
*
86582422 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGC-ACTAGCACAAAT
* * *
86582462 GCCTTCGGATCTTAGTCCGGATATAGCACTAGCATAAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCA-CAAAT
*
86582502 -CCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
86582525 CATTCGAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 27 0.22
40 98 0.78
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAAAT
Found at i:86595029 original size:48 final size:50
Alignment explanation
Indices: 86594686--86595026 Score: 532
Period size: 50 Copynumber: 6.9 Consensus size: 50
86594676 TTGATGTATA
*
86594686 AGATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
86594736 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
86594786 AGATATGTATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATATG
* *
86594838 AGATATGTACATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
86594886 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
* *
86594936 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
86594984 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
86595027 GTAGGCGATG
Statistics
Matches: 270, Mismatches: 11, Indels: 20
0.90 0.04 0.07
Matches are distributed among these distances:
47 1 0.00
48 86 0.32
49 8 0.03
50 126 0.47
51 3 0.01
52 45 0.17
53 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:86595045 original size:98 final size:98
Alignment explanation
Indices: 86594679--86595026 Score: 556
Period size: 98 Copynumber: 3.5 Consensus size: 98
86594669 GCTGAAATTG
* *
86594679 ATGTATAAGATATGTATATGTAGTAAAGCCGAATGG-CTAATGTGAAATATATATATGAGATATG
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAGATATG
*
86594743 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATAT
65 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
86594779 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATATATATATGAGATAT
*
86594844 GTACATGTGGTAAAGCCGAATGGCTAATGTGAAAT
64 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
86594879 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
*
86594944 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
86594977 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
86595027 GTAGGCGATG
Statistics
Matches: 233, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
97 1 0.00
98 96 0.41
99 2 0.01
100 83 0.36
101 5 0.02
102 46 0.20
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (98 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:86595286 original size:37 final size:37
Alignment explanation
Indices: 86595177--86595286 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
86595167 GAAATATATA
*
86595177 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* *
86595214 GTCCAGGTAAGACCCGATGACTACGTGTGGAGATTTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* *
86595251 TTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
86595287 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
Found at i:86596596 original size:40 final size:40
Alignment explanation
Indices: 86596542--86596900 Score: 411
Period size: 40 Copynumber: 9.0 Consensus size: 40
86596532 GAGAGTTATA
* *
86596542 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTACTGA
1 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGT
* *
86596582 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGT
* * * *
86596622 TATGTCTGGGCTAAGT-CTCGAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCT-GAAGAGCATTCGTGCTAGTGT
* * *
86596662 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGT
* * **
86596702 TATGTCCGGGCTAAGT-CTCGAAGAGCATTTGTGCTACAGT
1 TATATCCGGGCTAAGTCCT-GAAGAGCATTCGTGCTAGTGT
*
86596742 TATATCCGGGCTAAGT-CTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCT-GAAGAGCATTCGTGCTAGTGT
* * *
86596782 TATATCCGGGCTAAGT-CTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCT-GAAGAGCATTCGTGCTAGTGT
* * * *
86596822 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGT
* * * *
86596862 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGTG
1 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
86596901 ATGTGTATTC
Statistics
Matches: 271, Mismatches: 44, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 267 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGT
Found at i:86596755 original size:120 final size:120
Alignment explanation
Indices: 86596542--86596898 Score: 480
Period size: 120 Copynumber: 3.0 Consensus size: 120
86596532 GAGAGTTATA
* * *
86596542 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTACTGATATATCCGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGAG
* * *
86596607 CATTCGTGCTGGTGTTATGTCTGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGT
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
* * * *
86596662 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCTCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGAG
* *** * *
86596727 CATTTGTGCTACAGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
* * * * * *
86596782 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGTTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGAG
* * * *
86596847 CATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAG
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAG
86596899 TGATGTGTAT
Statistics
Matches: 202, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
120 202 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (120 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
Found at i:86596898 original size:80 final size:80
Alignment explanation
Indices: 86596542--86596888 Score: 543
Period size: 80 Copynumber: 4.3 Consensus size: 80
86596532 GAGAGTTATA
* ** *
86596542 TATATCCGGGCTAAGTC-CTGAAGAGCATTCGTGCTACTGATATATCCGGGCTAAGTCCCGAAGA
1 TATATCCGGGCTAAGTCTC-GAAGAGCATTTGTGCTAGAGTTATATCCGGGCTAAGTCCCGAAGA
86596606 GCATTCGTGCTGGTGT
65 GCATTCGTGCTGGTGT
* * *
86596622 TATGTCTGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGTTATATCTGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGTTATATCCGGGCTAAGTCCCGAAGAG
86596687 CATTCGTGCTGGTGT
66 CATTCGTGCTGGTGT
* * *
86596702 TATGTCCGGGCTAAGTCTCGAAGAGCATTTGTGCTACAGTTATATCCGGGCTAAGTCTCGAAGAG
1 TATATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGTTATATCCGGGCTAAGTCCCGAAGAG
86596767 CATTCGTGCTGGTGT
66 CATTCGTGCTGGTGT
* * *
86596782 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGTTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGTTATATCCGGGCTAAGTCCCGAAGAG
86596847 CATTCGTGCTGGTGT
66 CATTCGTGCTGGTGT
* *
86596862 TATATCCGGGCTAGGTCCCGAAGAGCA
1 TATATCCGGGCTAAGTCTCGAAGAGCA
86596889 ATCATGCTAG
Statistics
Matches: 246, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 245 1.00
81 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (80 bp):
TATATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTAGAGTTATATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTGGTGT
Found at i:86597114 original size:25 final size:25
Alignment explanation
Indices: 86597064--86597114 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
86597054 TGTGTAACAA
* *
86597064 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
86597089 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
86597114 C
1 C
86597115 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:86599563 original size:98 final size:96
Alignment explanation
Indices: 86599452--86599825 Score: 383
Period size: 98 Copynumber: 4.0 Consensus size: 96
86599442 ATGTATAATT
86599452 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGTA
86599517 AAGCCGAATGGCTAATGTGAAATATGTATGAGA
64 AAGCCGAATGGCTAATGTGAAATATGTATGAGA
* *
86599550 TATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATAT---ATGACG-A-A--TGGTCA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT-ATGTATATGTGGT-A
* * * * * *
86599608 ATG-TGAA---AT-ATAT-ATATATGAGAT-ATG-
64 AAGCCGAATGGCTAATGTGAAATATG-TATGA-GA
* *
86599635 TAT----ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAA
* *
86599696 GTCGAATGG-TCAATGTGAAATATATATATGAGA
66 GCCGAATGGCT-AATGTG-AA-ATATGTATGAGA
* *
86599729 TATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAA
* *
86599794 GCCGAATGGCTAGTGTGAAATATGTAGGAGA
66 GCCGAATGGCTAATGTGAAATATGTATGAGA
86599825 T
1 T
86599826 GTGTGTATAT
Statistics
Matches: 226, Mismatches: 23, Indels: 56
0.74 0.08 0.18
Matches are distributed among these distances:
81 35 0.15
83 2 0.01
84 3 0.01
85 11 0.05
86 9 0.04
87 8 0.04
89 1 0.00
90 7 0.03
91 6 0.03
92 1 0.00
93 7 0.03
94 10 0.04
96 19 0.08
97 4 0.02
98 102 0.45
99 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAGA
Found at i:86599566 original size:48 final size:48
Alignment explanation
Indices: 86599452--86599825 Score: 378
Period size: 48 Copynumber: 8.0 Consensus size: 48
86599442 ATGTATAATT
*
86599452 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGA
86599502 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
* *
86599550 TATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGACGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGA-GA
* * * *
86599601 -ATGGTCA-ATGT-G-AAA----TAT--ATATATATGAGATATG--T---A
1 TAT-GT-ATATGTGGTAAAGCCGAATGGCTA-ATGTGAAATATGTATGAGA
86599637 T------ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
* * *
86599679 TATGCATATGTGGTAAAGTCGAATGG-TCAATGTGAAATATATATATGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGA
*
86599729 TATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
* *
86599777 TATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
86599825 T
1 T
86599826 GTGTGTATAT
Statistics
Matches: 274, Mismatches: 20, Indels: 62
0.77 0.06 0.17
Matches are distributed among these distances:
30 4 0.01
31 1 0.00
32 3 0.01
36 3 0.01
37 10 0.04
38 2 0.01
39 1 0.00
40 1 0.00
42 6 0.02
43 3 0.01
44 3 0.01
45 2 0.01
47 1 0.00
48 127 0.46
49 11 0.04
50 86 0.31
51 9 0.03
52 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
Found at i:86599615 original size:29 final size:29
Alignment explanation
Indices: 86599569--86599624 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
86599559 GTGGTAAAGC
86599569 CGAATGGCTAATGCGAAATATATATATGA
1 CGAATGGCTAATGCGAAATATATATATGA
*
86599598 CGAATGG-TCAATGTGAAATATATATAT
1 CGAATGGCT-AATGCGAAATATATATAT
86599625 ATGAGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (29 bp):
CGAATGGCTAATGCGAAATATATATATGA
Found at i:86599641 original size:129 final size:127
Alignment explanation
Indices: 86599471--86599726 Score: 435
Period size: 129 Copynumber: 2.0 Consensus size: 127
86599461 GTGGTAAAGC
86599471 CGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 CGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
86599536 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGCGAAATATATATATGA
66 AAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGCGAAATATATATATGA
86599598 CGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 CGAATGGCT-AATGTG-AA-ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* *
86599662 GTGAAATATGTATGAGATATGCATATGTGGTAAAGTCGAATGGTCAATGTGAAATATATATATGA
63 GTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGCGAAATATATATATGA
86599727 GATATGTATA
Statistics
Matches: 122, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
126 1 0.01
127 13 0.11
128 2 0.02
129 105 0.86
130 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (127 bp):
CGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGCGAAATATATATATGA
Found at i:86600076 original size:37 final size:37
Alignment explanation
Indices: 86599968--86600076 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
86599958 AAATATATAT
*
86599968 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
86600005 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
86600042 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
86600077 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:86607475 original size:23 final size:23
Alignment explanation
Indices: 86607445--86607492 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
86607435 TAGGGAGGCC
86607445 TTGTGGACTTGCAACGGCTAGGG
1 TTGTGGACTTGCAACGGCTAGGG
86607468 TTGTGGACTTGCAACGGCTAGGG
1 TTGTGGACTTGCAACGGCTAGGG
86607491 TT
1 TT
86607493 AGGGATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (23 bp):
TTGTGGACTTGCAACGGCTAGGG
Found at i:86607685 original size:13 final size:13
Alignment explanation
Indices: 86607667--86607691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86607657 TATGGGTGCA
86607667 CACGGCCGTGTCG
1 CACGGCCGTGTCG
86607680 CACGGCCGTGTC
1 CACGGCCGTGTC
86607692 TGTCTTCATT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:86614136 original size:79 final size:81
Alignment explanation
Indices: 86614027--86614209 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
86614017 TACTCGTTCA
* *
86614027 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
86614090 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
86614107 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
86614170 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
86614186 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
86614210 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:86614209 original size:40 final size:40
Alignment explanation
Indices: 86614006--86614209 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
86613996 CGGAATTTAA
** *
86614006 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
86614046 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
86614086 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
86614125 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
86614165 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
86614205 CCGGA
1 CCGGA
86614210 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:86615404 original size:56 final size:56
Alignment explanation
Indices: 86615337--86615512 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
86615327 TATTAGTTTA
86615337 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
86615393 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
86615449 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
86615505 TTGCCCAT
1 TTGCCCAT
86615513 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:86620033 original size:27 final size:27
Alignment explanation
Indices: 86620002--86620179 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
86619992 TAAATTGTAC
86620002 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
86620029 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
86620055 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
86620083 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
86620111 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
86620138 AGCACTAAGTGTGCGAGTGGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
86620165 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
86620180 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:86620116 original size:82 final size:81
Alignment explanation
Indices: 86620003--86620153 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
86619993 AAATTGTACA
* *
86620003 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
86620067 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
86620084 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
86620149 TGCGA
65 TGCGA
86620154 GTGGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:86620170 original size:82 final size:81
Alignment explanation
Indices: 86619999--86620179 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
86619989 GATTAAATTG
* *
86619999 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
86620064 GTGTGCGAATTGACCA
66 GTGTGCGAATGGACCA
* * ** *
86620080 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
86620144 AAGTGTGCGAGTGGATTA
64 AAGTGTGCGAATGGACCA
* *
86620162 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
86620180 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATGGACCA
Found at i:86621889 original size:39 final size:39
Alignment explanation
Indices: 86621846--86621922 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
86621836 ATACACTAGA
* *
86621846 CAATTTCAGTCT-GGGCCTAAGCCTATTTCAGTAACAGTT
1 CAATTTCAGT-TAGGGCCTAAGCCCATTACAGTAACAGTT
* *
86621885 CAATTTCAGTTAGGGCCTTAGCCCATTACAGTATCAGT
1 CAATTTCAGTTAGGGCCTAAGCCCATTACAGTAACAGT
86621923 ATCAGTGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (39 bp):
CAATTTCAGTTAGGGCCTAAGCCCATTACAGTAACAGTT
Found at i:86624631 original size:25 final size:24
Alignment explanation
Indices: 86624603--86624649 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
86624593 AGTAGCTCAT
* *
86624603 AAGAGCCATAATCGGGAAGTTCACG
1 AAGAACCA-AATCGGGAAATTCACG
*
86624628 AAGAACCAGATCGGGAAATTCA
1 AAGAACCAAATCGGGAAATTCA
86624650 ATCGAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (24 bp):
AAGAACCAAATCGGGAAATTCACG
Found at i:86625589 original size:31 final size:31
Alignment explanation
Indices: 86625551--86625612 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
86625541 CCAAATGATA
86625551 GGGTATAAACTATGCCACATAAGCTTTGTTT
1 GGGTATAAACTATGCCACATAAGCTTTGTTT
86625582 GGGTATAAACTATGCCACATAAGCTTTGTTT
1 GGGTATAAACTATGCCACATAAGCTTTGTTT
86625613 CCTTTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (31 bp):
GGGTATAAACTATGCCACATAAGCTTTGTTT
Found at i:86625957 original size:17 final size:17
Alignment explanation
Indices: 86625935--86625972 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
86625925 AAACTGAATC
* *
86625935 TTTTCGTTTTATTTAAT
1 TTTTCGATTTAATTAAT
86625952 TTTTCGATTTAATTAAT
1 TTTTCGATTTAATTAAT
86625969 TTTT
1 TTTT
86625973 ATATTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTCGATTTAATTAAT
Found at i:86634527 original size:37 final size:40
Alignment explanation
Indices: 86634477--86634612 Score: 116
Period size: 41 Copynumber: 3.4 Consensus size: 40
86634467 AATAGTTGAC
** * *
86634477 ACCCAGTGTCTCATCG-GCCTAGCCTAAGT-AA-AGTGGT
1 ACCCAGTACCTCATCGAACCTAGCCGAAGTAAATAGTGGT
* *
86634514 ACCCAGTACCTCATCGAATCTATCCGAAGTAAAATAGTGGT
1 ACCCAGTACCTCATCGAACCTAGCCGAAGT-AAATAGTGGT
* * * **
86634555 ACCCAGTACCTCATCGAATCTATCTGAAGTAAAATAGTGAC
1 ACCCAGTACCTCATCGAACCTAGCCGAAGT-AAATAGTGGT
**
86634596 ACCCAGTGTCTCATCGA
1 ACCCAGTACCTCATCGA
86634613 CTCGAGGTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 14 0.17
38 9 0.11
40 2 0.02
41 59 0.70
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
ACCCAGTACCTCATCGAACCTAGCCGAAGTAAATAGTGGT
Found at i:86634557 original size:41 final size:41
Alignment explanation
Indices: 86634508--86634612 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 41
86634498 GCCTAAGTAA
86634508 AGTGGTACCCAGTACCTCATCGAATCTATCCGAAGTAAAAT
1 AGTGGTACCCAGTACCTCATCGAATCTATCCGAAGTAAAAT
*
86634549 AGTGGTACCCAGTACCTCATCGAATCTATCTGAAGTAAAAT
1 AGTGGTACCCAGTACCTCATCGAATCTATCCGAAGTAAAAT
** **
86634590 AGTGACACCCAGTGTCTCATCGA
1 AGTGGTACCCAGTACCTCATCGA
86634613 CTCGAGGTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
AGTGGTACCCAGTACCTCATCGAATCTATCCGAAGTAAAAT
Found at i:86635839 original size:31 final size:32
Alignment explanation
Indices: 86635804--86635864 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
86635794 TTGATCTAAT
*
86635804 AAATATCTTTT-ACTAATTAATA-ATAAATATA
1 AAATATATTTTCACTAATT-ATACATAAATATA
86635835 AAATATATTTTCACTAATTATACATAAATA
1 AAATATATTTTCACTAATTATACATAAATA
86635865 ATACAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATATATTTTCACTAATTATACATAAATATA
Found at i:86635962 original size:15 final size:16
Alignment explanation
Indices: 86635942--86636002 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
86635932 ATTTATTTCA
86635942 TAAT-ATAATAATAAT
1 TAATAATAATAATAAT
* *
86635957 TAAT-ATAATTTATATCT
1 TAATAATAA-TAATA-AT
86635974 TAATAATAATAATAA-
1 TAATAATAATAATAAT
86635989 TAATAATAATAATA
1 TAATAATAATAATA
86636003 TCTTTTTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 22 0.56
16 4 0.10
17 9 0.23
18 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATAATAAT
Found at i:86635964 original size:12 final size:13
Alignment explanation
Indices: 86635946--86636002 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 13
86635936 ATTTCATAAT
86635946 ATAATAATAATTA
1 ATAATAATAATTA
86635959 AT-ATAAT--TTA
1 ATAATAATAATTA
**
86635969 TATCTTAATAA-TA
1 -ATAATAATAATTA
86635982 ATAATAATAA-TA
1 ATAATAATAATTA
86635994 ATAATAATA
1 ATAATAATA
86636003 TCTTTTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 28 0.76
13 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:86635966 original size:9 final size:10
Alignment explanation
Indices: 86635941--86636001 Score: 60
Period size: 9 Copynumber: 6.5 Consensus size: 10
86635931 AATTTATTTC
86635941 ATAATATAATA
1 ATAAT-TAATA
86635952 ATAATTAAT-
1 ATAATTAATA
*
86635961 ATAATTTAT-
1 ATAATTAATA
*
86635970 AT-CTTAATA
1 ATAATTAATA
86635979 ATAA-TAATA
1 ATAATTAATA
86635988 ATAA-TAATA
1 ATAATTAATA
86635997 ATAAT
1 ATAAT
86636002 ATCTTTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 4 0.09
9 30 0.70
10 4 0.09
11 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATTAATA
Found at i:86635982 original size:3 final size:3
Alignment explanation
Indices: 86635974--86636002 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
86635964 ATTTATATCT
86635974 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
86636003 TCTTTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:86640423 original size:28 final size:27
Alignment explanation
Indices: 86640373--86640480 Score: 121
Period size: 27 Copynumber: 3.9 Consensus size: 27
86640363 GGATGCCTGA
* *
86640373 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
86640400 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
86640427 ACAGATATATGGGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
86640455 -CAGATAATTTGTGGCATAGCGACCAG
1 ACAGATAA--TGTGGCAGAGCCACCAG
86640481 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.01
27 38 0.54
28 31 0.44
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:86640454 original size:55 final size:54
Alignment explanation
Indices: 86640371--86640480 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 54
86640361 ATGGATGCCT
* *
86640371 GAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCACCA
1 GAACAGATAATGGGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCACCA
* * * *
86640425 GAACAGATATATGGGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCGACCA
1 GAACAGATA-ATGGGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCACCA
86640480 G
1 G
86640481 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 16 0.33
55 32 0.67
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.16
Consensus pattern (54 bp):
GAACAGATAATGGGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCACCA
Found at i:86641947 original size:24 final size:24
Alignment explanation
Indices: 86641915--86641988 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
86641905 ACACAGTTCA
86641915 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
86641939 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
86641963 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
86641987 CC
1 CC
86641989 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:86645389 original size:41 final size:38
Alignment explanation
Indices: 86645288--86645389 Score: 89
Period size: 41 Copynumber: 2.6 Consensus size: 38
86645278 AGTTCGAAAC
* *
86645288 AATAGTTGACACCCAGTGTCTTATCAGCCTAGCCGAAGT
1 AATAG-TGACACCCAGTGTCTCATCAACCTAGCCGAAGT
** ** * *
86645327 AA-AGTGGTACCCAGTACCTCATCGAATCTATCCGAAGT
1 AATAGTGACACCCAGTGTCTCATC-AACCTAGCCGAAGT
86645365 AAAATAGTGACACCCAGTGTCTCAT
1 --AATAGTGACACCCAGTGTCTCAT
86645390 TGGCTCGAGG
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
37 14 0.30
38 13 0.28
39 2 0.04
40 2 0.04
41 16 0.34
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (38 bp):
AATAGTGACACCCAGTGTCTCATCAACCTAGCCGAAGT
Found at i:86646657 original size:35 final size:33
Alignment explanation
Indices: 86646618--86646694 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 33
86646608 ATAATTTTAA
*
86646618 TAATAATAAACATCTAATAAATATATTTT-ACTAAT
1 TAATAATAAA-ATAT-A-AAATATATTTTCACTAAT
86646653 TAATAAT-AAATATAAAATATATTTTCACTAAT
1 TAATAATAAAATATAAAATATATTTTCACTAAT
86646685 T-ATACATAAA
1 TAATA-ATAAA
86646695 TAATACAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 14 0.37
32 10 0.26
33 5 0.13
34 2 0.05
35 7 0.18
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (33 bp):
TAATAATAAAATATAAAATATATTTTCACTAAT
Found at i:86646671 original size:31 final size:32
Alignment explanation
Indices: 86646636--86646696 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
86646626 AACATCTAAT
86646636 AAATATATTTT-ACTAATTAATA-ATAAATATA
1 AAATATATTTTCACTAATT-ATACATAAATATA
86646667 AAATATATTTTCACTAATTATACATAAATA
1 AAATATATTTTCACTAATTATACATAAATA
86646697 ATACAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATATATTTTCACTAATTATACATAAATATA
Found at i:86646794 original size:15 final size:14
Alignment explanation
Indices: 86646773--86646843 Score: 67
Period size: 15 Copynumber: 5.0 Consensus size: 14
86646763 AATTTATTTC
86646773 ATAATATAATAATA
1 ATAATATAATAATA
*
86646787 ATTAATATAAT-CT-
1 A-TAATATAATAATA
*
86646800 ATAGCT-TAATAATA
1 ATA-ATATAATAATA
86646814 ATAATAATAATAATA
1 ATAAT-ATAATAATA
86646829 ATAATAATAATAATA
1 ATAAT-ATAATAATA
86646844 TCTTTTTACT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
14 5 0.11
15 32 0.68
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (14 bp):
ATAATATAATAATA
Found at i:86646796 original size:12 final size:13
Alignment explanation
Indices: 86646778--86646842 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 13
86646768 ATTTCATAAT
86646778 ATAATAATAATTA
1 ATAATAATAATTA
86646791 AT-ATAATCTATAGCTTA
1 ATAATAA--TA-A--TTA
86646808 ATAATAATAA-TA
1 ATAATAATAATTA
86646820 ATAATAATAA-TA
1 ATAATAATAATTA
86646832 ATAATAATAAT
1 ATAATAATAAT
86646843 ATCTTTTTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
12 28 0.62
13 2 0.04
14 2 0.04
15 2 0.04
16 2 0.04
17 5 0.11
18 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:86646814 original size:3 final size:3
Alignment explanation
Indices: 86646806--86646843 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
86646796 ATCTATAGCT
86646806 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
86646844 TCTTTTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:86652728 original size:46 final size:48
Alignment explanation
Indices: 86652635--86652900 Score: 183
Period size: 46 Copynumber: 5.6 Consensus size: 48
86652625 AATGAAAGCC
* * * * * * *
86652635 AGTGTAAGATCATATCTGGGACATGGCATCGGCGTTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCCTCGAGATGTGAGCT
*
86652683 AGTATAAGA-CATGTCTGGGACAT-GCATCGCCCTCGAGATGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCCTCGAGATGTGAGCT
* * * ** *
86652729 ACTGTGAGA-CATGTCTAGGACAT-GCATCAGCTAT-AAGATGT--G-T
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCCTCGAGATGTGAGCT
* * *
86652772 AAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GCCCTCGAGATGT--GAGCT
* * * * *
86652823 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TTTTAATGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCCTCGAGATGTGA-GCT
* *
86652871 CAATGTAAGACCATGTCTAGGACATGGCAT
1 -AGTGTAAGACCATGTCTGGGACATGGCAT
86652901 TGACTTGATG
Statistics
Matches: 174, Mismatches: 31, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 8 0.05
45 13 0.07
46 60 0.34
47 17 0.10
48 10 0.06
49 31 0.18
50 33 0.19
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCCTCGAGATGTGAGCT
Found at i:86652943 original size:96 final size:98
Alignment explanation
Indices: 86652775--86652951 Score: 236
Period size: 96 Copynumber: 1.8 Consensus size: 98
86652765 GATGTGTAAG
* *
86652775 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGA-ATGTGAGAGCCAGTGTAAGACCATGTCT
***
86652840 GGGACATGGCATCGGCCTCGATTTTAATGGTCAA
65 AAAACATGGCATCGGCCTCGATTTTAATGGTCAA
* *
86652874 TGTAAGACCATGTCTAGGACATGGCAT-TG-ACTTG-ATG-GATGAGCCAGTGTAAGACCATGTC
1 TGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAATGTGA-GAGCCAGTGTAAGACCATGTC
86652935 TAAAACATGGCATCGGC
64 TAAAACATGGCATCGGC
86652952 ATCGTACCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
95 2 0.03
96 37 0.54
97 2 0.03
98 2 0.03
99 26 0.38
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (98 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCACGGAATGTGAGAGCCAGTGTAAGACCATGTCTA
AAACATGGCATCGGCCTCGATTTTAATGGTCAA
Found at i:86658255 original size:21 final size:21
Alignment explanation
Indices: 86658221--86658292 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
86658211 ATCAGTATAA
* *
86658221 GACACATAAAGTGCCTAAAAC
1 GACACATGAGGTGCCTAAAAC
* * *
86658242 GACACATGAGGTGCTTGATAC
1 GACACATGAGGTGCCTAAAAC
* **
86658263 GGCACGCGAGGTGCCTGAAATAC
1 GACACATGAGGTGCCT-AAA-AC
86658286 GACACAT
1 GACACAT
86658293 AAAGTGCTTG
Statistics
Matches: 35, Mismatches: 14, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
21 28 0.80
22 1 0.03
23 6 0.17
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.17
Consensus pattern (21 bp):
GACACATGAGGTGCCTAAAAC
Found at i:86659575 original size:30 final size:31
Alignment explanation
Indices: 86659523--86659595 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 31
86659513 CTTATAGCTT
86659523 ACTTTACATTTCAATCCCTTTATCTACTCTA
1 ACTTTACATTTCAATCCCTTTATCTACTCTA
*
86659554 ACTTTACATTTCAAT-CCTTTATCTATTCTA
1 ACTTTACATTTCAATCCCTTTATCTACTCTA
*
86659584 AC-TTAAATTTCA
1 ACTTTACATTTCA
86659596 TTCAATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 9 0.22
30 16 0.40
31 15 0.38
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.47
Consensus pattern (31 bp):
ACTTTACATTTCAATCCCTTTATCTACTCTA
Found at i:86659859 original size:17 final size:18
Alignment explanation
Indices: 86659831--86659876 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
86659821 GCTTTCTGTT
86659831 TTCT-TTTC-TTTCTTC-
1 TTCTATTTCTTTTCTTCA
* *
86659846 TTTTGTTTCTTTTCTTCA
1 TTCTATTTCTTTTCTTCA
86659864 TTCTATTTCTTTT
1 TTCTATTTCTTTT
86659877 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 4 0.16
17 7 0.28
18 11 0.44
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTATTTCTTTTCTTCA
Found at i:86663463 original size:46 final size:46
Alignment explanation
Indices: 86663413--86663757 Score: 392
Period size: 46 Copynumber: 7.5 Consensus size: 46
86663403 CCATAGTGTA
* * * *
86663413 TTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATC
* *** * * **
86663459 TTTCAACCATGGCCTTGTTCA-TTTCATGTTACATTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATC
** * *
86663505 TTTCAACCATGGTCTTATTCA-TTCCCATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATC
** * *
86663550 TTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATC
* *
86663596 TTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATC
* * *
86663642 TTTCAACCATGGCCTTACACA-TTTCATATAATGTTGCCATGGTGTC
1 TTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATC
* *
86663688 TTTCAACCATGGTCTTACACATTTTATATCATGTTACCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATC
86663734 TTTCAACCATGGTCTTACACATTT
1 TTTCAACCATGGTCTTACACATTT
86663758 CATTTCAGAA
Statistics
Matches: 258, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
45 45 0.17
46 206 0.80
47 7 0.03
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATC
Found at i:86663644 original size:183 final size:184
Alignment explanation
Indices: 86663413--86663750 Score: 489
Period size: 183 Copynumber: 1.8 Consensus size: 184
86663403 CCATAGTGTA
* * * * ***
86663413 TTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGCCTTGTT
1 TTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACA
* * ** * *
86663478 CATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCATCATGTTGCC
66 CATTTCATATAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTACC
86663542 ATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATC
131 ATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATC
**
86663596 TTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGCCTTACA
1 TTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACA
** * * *
86663661 CATTTCATATAATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATATCATGTTACC
66 CATTTCATATAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTACC
86663726 ATGGTATCTTTCAACCATGGTCTTA
131 ATGGTATCTTTCAACCATGGTCTTA
86663751 CACATTTCAT
Statistics
Matches: 134, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
183 97 0.72
184 37 0.28
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (184 bp):
TTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACA
CATTTCATATAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTACC
ATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATC
Found at i:86663678 original size:92 final size:92
Alignment explanation
Indices: 86663413--86663760 Score: 455
Period size: 92 Copynumber: 3.8 Consensus size: 92
86663403 CCATAGTGTA
* * * * * ***
86663413 TTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGCCTTGTT
1 TTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGCCTTACA
* *
86663478 CATTTCATGTTACATTGCCATGGTATC
66 CATTTCATGTAACGTTGCCATGGTATC
** *** * **
86663505 TTTCAACCATGGTCTTATTCA-TTCCCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGCCTTACA
* *
86663569 CTTTTCATGTCACGTTGCCATGGTATC
66 CATTTCATGTAACGTTGCCATGGTATC
*
86663596 TTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGCCTTACA
1 TTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGCCTTACA
* * *
86663661 CATTTCATATAATGTTGCCATGGTGTC
66 CATTTCATGTAACGTTGCCATGGTATC
* *
86663688 TTTCAACCATGGTCTTACACATTTTATATCATGTTACCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGCCTTACA
86663753 CATTTCAT
66 CATTTCAT
86663761 TTCAGAAAGC
Statistics
Matches: 227, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
91 80 0.35
92 147 0.65
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGCCTTACA
CATTTCATGTAACGTTGCCATGGTATC
Found at i:86665903 original size:8 final size:8
Alignment explanation
Indices: 86665890--86665922 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
86665880 TTCCTTATAT
86665890 ATAATAAA
1 ATAATAAA
86665898 ATAAT--A
1 ATAATAAA
86665904 ATAATAAA
1 ATAATAAA
86665912 ATAATAAA
1 ATAATAAA
86665920 ATA
1 ATA
86665923 TCATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.26
8 17 0.74
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATAATAAA
Found at i:86665909 original size:14 final size:14
Alignment explanation
Indices: 86665890--86665922 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
86665880 TTCCTTATAT
86665890 ATAATAAAATAATA
1 ATAATAAAATAATA
86665904 ATAATAAAATAATA
1 ATAATAAAATAATA
86665918 A-AATA
1 ATAATA
86665923 TCATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAATAAAATAATA
Found at i:86668813 original size:46 final size:46
Alignment explanation
Indices: 86668685--86668857 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
86668675 GTTATTGTGT
* * *
86668685 GCTAGTGTAAGACGTGTCTGGGACATGCATTGGCCA-T-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATTGA-GATGAGA
* * *
86668731 GCTAGTATAAGACCATGTTTGGGACATGGATCGGCATTGAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCATTGAGATGAGA
* * *
86668778 GCTAGTGTAAGAAATGTCTGGGACATGCATCGGCATCGAGATGTGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAGA
* *
86668824 GCCAGTGTAAGACATGTTTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
86668858 TAGGACACGG
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
46 73 0.67
47 35 0.32
48 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAGA
Found at i:86674949 original size:33 final size:34
Alignment explanation
Indices: 86674912--86674979 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
86674902 ATAAGTTTAA
* *
86674912 TTATTATTTAATA-TAAAATAATTTGAATATATT
1 TTATTATTTAATATTAAAATAATTTAAAAATATT
* *
86674945 TTATTATTTATTATTAATATAATTTAAAAATATT
1 TTATTATTTAATATTAAAATAATTTAAAAATATT
86674979 T
1 T
86674980 AAATTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
TTATTATTTAATATTAAAATAATTTAAAAATATT
Found at i:86675240 original size:21 final size:21
Alignment explanation
Indices: 86675206--86675258 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
86675196 CACTATTTCT
* * * *
86675206 AATCTCATCGCTACATTATCC
1 AATCTCACCACTACAGTAACC
*
86675227 AATCTCACCACTACAGTAACT
1 AATCTCACCACTACAGTAACC
86675248 AATCTCACCAC
1 AATCTCACCAC
86675259 CACCACTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.36, G:0.04, T:0.26
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:86677898 original size:31 final size:31
Alignment explanation
Indices: 86677863--86677924 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
86677853 ATAACAAAAG
86677863 GATGCCCAACTATTTGGTCCAACGAAAAATC
1 GATGCCCAACTATTTGGTCCAACGAAAAATC
86677894 GATGCCCAACTATTTGGTCCAACGAAAAATC
1 GATGCCCAACTATTTGGTCCAACGAAAAATC
86677925 CTCAGTAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (31 bp):
GATGCCCAACTATTTGGTCCAACGAAAAATC
Found at i:86678604 original size:19 final size:19
Alignment explanation
Indices: 86678580--86678617 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
86678570 GAAATGAATA
*
86678580 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
86678599 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
86678618 GCAATCTCAA
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:86688661 original size:31 final size:30
Alignment explanation
Indices: 86688611--86688674 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
86688601 ACTTATTTTA
*
86688611 TTGTTAATTTTGTTATTATTTTA-AGGCAT
1 TTGTTAATTTTATTATTATTTTAGAGGCAT
86688640 TTGTTAATTTATTATTATTATTTTAGAGGCAT
1 TTGTTAA-TT-TTATTATTATTTTAGAGGCAT
86688672 TTG
1 TTG
86688675 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 7 0.23
30 2 0.06
31 13 0.42
32 9 0.29
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAGGCAT
Found at i:86693047 original size:5 final size:6
Alignment explanation
Indices: 86693032--86693072 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
86693022 AAATTATATG
*
86693032 TTTTTA TTTTTA TTTTTA TTTTTAGA CTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
86693073 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:86693113 original size:13 final size:13
Alignment explanation
Indices: 86693097--86693121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86693087 AATGTTTATG
86693097 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
86693110 ATTGGGTTGGGT
1 ATTGGGTTGGGT
86693122 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:86693121 original size:18 final size:18
Alignment explanation
Indices: 86693098--86693135 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
86693088 ATGTTTATGA
86693098 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
86693116 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
86693134 TT
1 TT
86693136 AATATATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:86693461 original size:102 final size:102
Alignment explanation
Indices: 86693339--86693668 Score: 624
Period size: 102 Copynumber: 3.2 Consensus size: 102
86693329 AAAAGGGGTA
*
86693339 ACTTTAAGGAATAAACTGTACTTATTGGCTAGACTAAAAATTCTTAAAATTTTATGGTGAGAAGA
1 ACTTTAAGGAATAAACTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
*
86693404 TATGTAAGTTTAGTTTCAGGGGAAATTAGTGGATCTT
66 TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
*
86693441 ACTTTAAGGAATAAATTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
1 ACTTTAAGGAATAAACTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
86693506 TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
66 TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
*
86693543 ACTTTAAGGAATAAATTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
1 ACTTTAAGGAATAAACTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
86693608 TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
66 TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
86693645 ACTTTAAGGAATAAACTGTACTTA
1 ACTTTAAGGAATAAACTGTACTTA
86693669 ACAGCTTGGC
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 224 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (102 bp):
ACTTTAAGGAATAAACTGTACTTATTGGCTAGACCAAAAATTCTTAAAATTTTATGGTGAGAAGA
TATGTAAGTCTAGTTTCAGGGGAAATTAGTGGATCTT
Found at i:86699504 original size:37 final size:37
Alignment explanation
Indices: 86699443--86699635 Score: 278
Period size: 37 Copynumber: 5.2 Consensus size: 37
86699433 GCTCAGACGA
* * *
86699443 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
86699480 AATCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
86699517 ACTCTCCACACATAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
86699554 AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
86699591 ACTCTCCACACATAGTCATCAGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
86699628 ATTCTCCA
1 AATCTCCA
86699636 AGTTTCATGT
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:86699839 original size:47 final size:47
Alignment explanation
Indices: 86699787--86700066 Score: 434
Period size: 47 Copynumber: 6.0 Consensus size: 47
86699777 TTTCGCACTA
* * * * *
86699787 GCCATTCAGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
86699834 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
86699881 GCCATTCGGCCTTATCACATATATGCATGTTCACGTTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
86699928 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
86699975 GCCATTTGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
86700022 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
86700067 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 215 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:86699851 original size:25 final size:25
Alignment explanation
Indices: 86699823--86699898 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
86699813 ATGTTCATAT
86699823 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
* * *
86699848 TCA-CACATAT-G-CATGC-TCACGT-
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
86699870 TCATCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
86699895 TCAC
1 TCAC
86699899 ATATATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:86704153 original size:27 final size:27
Alignment explanation
Indices: 86704123--86704180 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
86704113 AATTGAAGAC
86704123 AAAGTTCAGATTATTCGAGATTGCATG
1 AAAGTTCAGATTATTCGAGATTGCATG
86704150 AAAGTTCAGATTATTCGAGATTGCATG
1 AAAGTTCAGATTATTCGAGATTGCATG
86704177 AAAG
1 AAAG
86704181 CTGCATTTGA
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:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (27 bp):
AAAGTTCAGATTATTCGAGATTGCATG
Found at i:86706014 original size:27 final size:27
Alignment explanation
Indices: 86705981--86706035 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
86705971 TAACTAGTTT
*
86705981 ATAACATCTTTACTTCATTTCATTTAA
1 ATAACATCTTTAATTCATTTCATTTAA
86706008 ATAACATCTTTAATTCATTTCATTTAA
1 ATAACATCTTTAATTCATTTCATTTAA
86706035 A
1 A
86706036 CTTTATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.47
Consensus pattern (27 bp):
ATAACATCTTTAATTCATTTCATTTAA
Found at i:86706567 original size:70 final size:70
Alignment explanation
Indices: 86706454--86706615 Score: 247
Period size: 70 Copynumber: 2.3 Consensus size: 70
86706444 TCCTCATTGA
*
86706454 AATACCATACCTACATTTCACAACTCCGAATAGATTATACCATACCTACATTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCCGAATAGATGATACCATACCTACATTTCACAACTCAGTA
86706519 TGGTT
66 TGGTT
*
86706524 AATACCATACCTACATTTCACAACT-C-AATATGGATGATACCATACCTACGTTTCACAACTCAG
1 AATACCATACCTACATTTCACAACTCCGAATA--GATGATACCATACCTACATTTCACAACTCAG
86706587 TATGGTT
64 TATGGTT
* * *
86706594 AATACTATAACTACGTTTCACA
1 AATACCATACCTACATTTCACA
86706616 TTTTTCCATG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
68 4 0.05
69 1 0.01
70 80 0.94
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCCGAATAGATGATACCATACCTACATTTCACAACTCAGTA
TGGTT
Found at i:86706585 original size:35 final size:35
Alignment explanation
Indices: 86706454--86706615 Score: 202
Period size: 35 Copynumber: 4.6 Consensus size: 35
86706444 TCCTCATTGA
86706454 AATACCATACCTACATTTCACAACTCCGAATA--GAT
1 AATACCATACCTACATTTCACAACT-C-AATATGGAT
* * *
86706489 TATACCATACCTACATTTCACAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAATATGGAT
86706524 AATACCATACCTACATTTCACAACTCAATATGGAT
1 AATACCATACCTACATTTCACAACTCAATATGGAT
* * * *
86706559 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAATATGGAT
* * *
86706594 AATACTATAACTACGTTTCACA
1 AATACCATACCTACATTTCACA
86706616 TTTTTCCATG
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
33 3 0.03
34 1 0.01
35 108 0.96
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAATATGGAT
Found at i:86716152 original size:40 final size:40
Alignment explanation
Indices: 86716037--86716262 Score: 339
Period size: 40 Copynumber: 5.7 Consensus size: 40
86716027 CAATTGAGGA
*
86716037 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
86716077 CTATTTCCGGGTTAAGTCCC-AAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
86716116 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
86716156 TTATTTCCGGGTTAAG-CCCTGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCC-GAAGGCATTCGTGCTGGTTG
* *
86716196 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
86716236 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
86716263 ATTGGGTTGG
Statistics
Matches: 169, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 40 0.24
40 126 0.75
41 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:86717218 original size:35 final size:35
Alignment explanation
Indices: 86717172--86717297 Score: 173
Period size: 35 Copynumber: 3.6 Consensus size: 35
86717162 CCTCATTGAA
*
86717172 ATACCATACCTACATTTCACAACTCCGTATGGATG
1 ATACCATACCTACGTTTCACAACTCCGTATGGATG
* * *
86717207 ATACCTTACCTACGTTTCACAAC-CCAGTATGGTTA
1 ATACCATACCTACGTTTCACAACTCC-GTATGGATG
**
86717242 ATACCATACCTACGTTTCACAACTCAATATGGATG
1 ATACCATACCTACGTTTCACAACTCCGTATGGATG
*
86717277 ATACGATACCTACGTTTCACA
1 ATACCATACCTACGTTTCACA
86717298 CTTTCCCATG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
34 2 0.03
35 76 0.96
36 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACGTTTCACAACTCCGTATGGATG
Found at i:86719485 original size:34 final size:35
Alignment explanation
Indices: 86719400--86719488 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
86719390 GACTATCTCT
*
86719400 TATGAGCATC-GGTGTGTTTTGGAGGGATTGGCTCA
1 TATGAGCATCTGGTGTG-TTTGGAGGGATTGACTCA
* * * *
86719435 TATGAGCTTTTTGTGTGTTTGGAGGGATT-ACTCG
1 TATGAGCATCTGGTGTGTTTGGAGGGATTGACTCA
*
86719469 TGTGAGCATCTGGTGTGTTT
1 TATGAGCATCTGGTGTGTTT
86719489 TGGTTGAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
34 19 0.43
35 20 0.45
36 5 0.11
ACGTcount: A:0.15, C:0.10, G:0.35, T:0.40
Consensus pattern (35 bp):
TATGAGCATCTGGTGTGTTTGGAGGGATTGACTCA
Found at i:86722249 original size:18 final size:17
Alignment explanation
Indices: 86722215--86722256 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
86722205 ATATGATTTT
*
86722215 TTCAAAAACTCTCAAAA
1 TTCAAAAACTATCAAAA
*
86722232 TTCAAAAACATATGAAAA
1 TTCAAAAAC-TATCAAAA
86722250 TT-AAAAA
1 TTCAAAAA
86722257 AATTGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (17 bp):
TTCAAAAACTATCAAAA
Found at i:86727016 original size:18 final size:17
Alignment explanation
Indices: 86726985--86727027 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
86726975 TTCCTATGTG
86726985 GGGCCCAAGACCC-ATT
1 GGGCCCAAGACCCAATT
86727001 GGGCCCACACGACCCAATT
1 GGGCCCA-A-GACCCAATT
*
86727020 CGGCCCAA
1 GGGCCCAA
86727028 AATGGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.30
17 1 0.04
18 6 0.26
19 9 0.39
ACGTcount: A:0.26, C:0.42, G:0.23, T:0.09
Consensus pattern (17 bp):
GGGCCCAAGACCCAATT
Found at i:86739506 original size:49 final size:49
Alignment explanation
Indices: 86739354--86739628 Score: 194
Period size: 49 Copynumber: 5.8 Consensus size: 49
86739344 TGATATGTGT
* * * * * *
86739354 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGGAA
* * * * *
86739402 GCCAGTGTAAGACCTGTCTGGAACATGGCATCGGC-TTG--ACAT-G-T
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGGAA
* * *
86739446 GTCAGTGTAAGACCTGTATGGGACATGGCGTCGACATCGATAGAT-GAGA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGGA-A
* * * * *
86739495 GCCAGTGTAAGACTTGTCTGGGATATGGCATCGGCCTCGATATATGGAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGGAA
* * * * *
86739544 GTCAGTGTAAGACCTCTCTGGGACATGACATC-ACTTAGAT-G-TGTG-A
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATG-GAA
* * * *
86739590 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC
1 GCCAGTGTAAGACC-TGTCTGGGACATGGCATCGACATC
86739629 ATACATATGT
Statistics
Matches: 177, Mismatches: 40, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
44 30 0.17
45 2 0.01
46 18 0.10
47 19 0.11
48 33 0.19
49 73 0.41
50 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (49 bp):
GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGGAA
Found at i:86739514 original size:93 final size:94
Alignment explanation
Indices: 86739351--86739625 Score: 256
Period size: 93 Copynumber: 2.9 Consensus size: 94
86739341 GGGTGATATG
* * * * * *
86739351 TGTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-AGCCAGTGTAAGA
1 TGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATG-AGAGCCAGTGTAAGA
* *
86739414 CCTGTCTGGAACATGGCATCGGCTTG-ACA
65 CATGTCTGGAACATGGCATCGGCTCGAACA
* *
86739443 TGTGTCAGTGTAAGACCTGTATGGGACATGGCGTCGACATCGATAGATGAGAGCCAGTGTAAGAC
1 TGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGAC
* * * *
86739508 TTGTCTGGGATATGGCATCGGCCTCGATATA
66 ATGTCTGGAACATGGCATCGG-CTCGA-ACA
* * * * * * *
86739539 TGGAAGTCAGTGTAAGACCTCTCTGGGACATGACATC-ACTTAGAT-G-TGTGAGCTAGTGTAAG
1 T-G-TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAG
*
86739601 ACCATGTTTGGAACATGGCATCGGC
64 A-CATGTCTGGAACATGGCATCGGC
86739626 ATCATACATA
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
92 27 0.18
93 46 0.31
94 3 0.02
95 16 0.11
96 22 0.15
97 7 0.05
98 28 0.19
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (94 bp):
TGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGAC
ATGTCTGGAACATGGCATCGGCTCGAACA
Done.