Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 322 of 333
Found at i:104635515 original size:29 final size:29
Alignment explanation
Indices: 104635483--104635541 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
104635473 AGCTTTGGTC
*
104635483 TTTCTCCTTTTCTTTCCTTT-TTCTTTCTT
1 TTTC-CCTTCTCTTTCCTTTGTTCTTTCTT
* *
104635512 TTTCCCTTCTGTTTCGTTTGTTCTTTCTT
1 TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
104635541 T
1 T
104635542 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.69
Consensus pattern (29 bp):
TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
Found at i:104636155 original size:16 final size:16
Alignment explanation
Indices: 104636118--104636158 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
104636108 ATAGCAACAC
*
104636118 AAATAATAAAATAACA
1 AAATAATAAAATAAAA
**
104636134 CTATAATAAAATAAAA
1 AAATAATAAAATAAAA
104636150 AAATAATAA
1 AAATAATAA
104636159 TAGGAATAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAATAAAATAAAA
Found at i:104636271 original size:30 final size:27
Alignment explanation
Indices: 104636232--104636286 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
104636222 ATGATGTTAT
104636232 AATTATAACGTGTAATATTAACAATAATAA
1 AATTATAACG-G-AA-ATTAACAATAATAA
*
104636262 AATTTTAACGGAAATTAACAATAAT
1 AATTATAACGGAAATTAACAATAAT
104636287 CATCTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 1 0.04
30 9 0.38
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTATAACGGAAATTAACAATAATAA
Found at i:104636627 original size:27 final size:26
Alignment explanation
Indices: 104636585--104636690 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
104636575 AGGAAGTTAC
104636585 AAATTAAGATAATTAAGAATTTAAATT
1 AAATT-AGATAATTAAGAATTTAAATT
* * *
104636612 AAATTAGAATATTTAA-AGTTTTAATTT
1 AAATTAG-ATAATTAAGA-ATTTAAATT
* * * *
104636639 ATATAAGATAATTAGGAGTTTAAATT
1 AAATTAGATAATTAAGAATTTAAATT
* *
104636665 AAATTAATATAATTAA-AATTTTAATT
1 AAATT-AGATAATTAAGAATTTAAATT
104636691 TATTTAAAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
26 27 0.45
27 33 0.55
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATTAGATAATTAAGAATTTAAATT
Found at i:104636661 original size:53 final size:53
Alignment explanation
Indices: 104636589--104636693 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
104636579 AGTTACAAAT
* *
104636589 TAAGATAATTAAGAATTTAAATTAAATTAGA-ATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTA-ATATAATTAAAATTTTAATTTATA
* *
104636642 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
104636694 TTAAAAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTATA
Found at i:104637794 original size:168 final size:167
Alignment explanation
Indices: 104637511--104638018 Score: 734
Period size: 168 Copynumber: 3.0 Consensus size: 167
104637501 CTTTGGGAAC
* * * *
104637511 TCATGTTTATGTTCCTTATCCTCATCTAGT-TTTTCCTTGCACTCAGGTATTTTCGGATATTCGG
1 TCATCTTTATGTTCCTTATCCTCATCT--TCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
** *
104637575 CTTTATGTTTCTCGTGCCCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* ** * *
104637640 TCTTCGTGCTCTTTCGATTCGTGTGACTCCTGGCACTCT
129 TCTTCGTGCTCCTTCGATTCACGTGACTCGTGGTACTCT
* * * *
104637679 TCATCTTTATGTTTCTTA-CTCTTATCTTCCTTTTCCTTGTACTCGGGTATTTCCGAATATTCGA
1 TCATCTTTATGTTCCTTATC-CTCATCTT-CTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
*
104637743 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTT-CCAGTTTGGGGAACTCGGGTTTTTCTTTCTCGTA
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCA-TTTGGGGAAATCGGGTTTTTCTTTCTCGTA
* *
104637807 TTCTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
128 CTCTTCGTGCTCCTTCGATTCACGTGACTCGTGGTACTCT
* *
104637847 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATCTTTATGTTCCTTATCCTCATCTTCTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
* *
104637912 TTCGTGTTTCTCGTGCTCTTTATGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
104637977 CTTCGTGCTCCTTCGATTCACGTGACTCGTGGTACTCT
130 CTTCGTGCTCCTTCGATTCACGTGACTCGTGGTACTCT
104638015 TCAT
1 TCAT
104638019 GATGTTTGCA
Statistics
Matches: 303, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
166 1 0.00
167 7 0.02
168 291 0.96
169 4 0.01
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCCTTCGATTCACGTGACTCGTGGTACTCT
Found at i:104642231 original size:19 final size:16
Alignment explanation
Indices: 104642193--104642224 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
104642183 TGGACTAAGC
104642193 CACTCAGATAATAATA
1 CACTCAGATAATAATA
104642209 CACTCAGATAATAATA
1 CACTCAGATAATAATA
104642225 ACGCACTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
CACTCAGATAATAATA
Found at i:104649701 original size:23 final size:23
Alignment explanation
Indices: 104649671--104649716 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
104649661 AACTCGGATT
*
104649671 TGGACGGATACACGGATCCGACC
1 TGGACGGATACACAGATCCGACC
104649694 TGGACGGATACACAGATCCGACC
1 TGGACGGATACACAGATCCGACC
104649717 CACACACCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.13
Consensus pattern (23 bp):
TGGACGGATACACAGATCCGACC
Found at i:104649790 original size:12 final size:12
Alignment explanation
Indices: 104649775--104649801 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
104649765 CACCGTAAGG
104649775 GTAACAGTAATA
1 GTAACAGTAATA
104649787 GTAACAGTAATA
1 GTAACAGTAATA
104649799 GTA
1 GTA
104649802 GCGGTACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:104649932 original size:20 final size:20
Alignment explanation
Indices: 104649907--104649955 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
104649897 AGTCATAGTA
*
104649907 GTCGACATATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
104649927 GTCGACACATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
*
104649947 ATCGACACA
1 GTCGACACA
104649956 CAGTCGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
GTCGACACATATAGTGTCTC
Found at i:104652329 original size:23 final size:23
Alignment explanation
Indices: 104652297--104652345 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
104652287 TTTTTATGCA
*
104652297 TATCAGTTTACAGTTTC-AGTAAT
1 TATCAATTTACAGTTTCGA-TAAT
104652320 TATCAATTTACAGTTTCGATAAT
1 TATCAATTTACAGTTTCGATAAT
104652343 TAT
1 TAT
104652346 TAGCAGGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (23 bp):
TATCAATTTACAGTTTCGATAAT
Found at i:104653542 original size:30 final size:27
Alignment explanation
Indices: 104653503--104653557 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
104653493 ATGATGTTAT
104653503 AATTATAACGTGTAATATTAACAATAATAA
1 AATTATAACG-G-AA-ATTAACAATAATAA
*
104653533 AATTTTAACGGAAATTAACAATAAT
1 AATTATAACGGAAATTAACAATAAT
104653558 CATCTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 1 0.04
30 9 0.38
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTATAACGGAAATTAACAATAATAA
Found at i:104653898 original size:27 final size:26
Alignment explanation
Indices: 104653856--104653961 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
104653846 AGGAGGTTAC
104653856 AAATTAAGATAATTAAGAATTTAAATT
1 AAATT-AGATAATTAAGAATTTAAATT
* * *
104653883 AAATTAGAATATTTAA-AGTTTTAATTT
1 AAATTAG-ATAATTAAGA-ATTTAAATT
* * * *
104653910 ATATAAGATAATTAGGAGTTTAAATT
1 AAATTAGATAATTAAGAATTTAAATT
* *
104653936 AAATTAATATAATTAA-AATTTTAATT
1 AAATT-AGATAATTAAGAATTTAAATT
104653962 TATTTAAAAG
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
26 27 0.45
27 33 0.55
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATTAGATAATTAAGAATTTAAATT
Found at i:104653940 original size:53 final size:53
Alignment explanation
Indices: 104653860--104653964 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
104653850 GGTTACAAAT
* *
104653860 TAAGATAATTAAGAATTTAAATTAAATTAGA-ATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTA-ATATAATTAAAATTTTAATTTATA
* *
104653913 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
104653965 TTAAAAGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTATA
Found at i:104655063 original size:168 final size:167
Alignment explanation
Indices: 104654780--104655287 Score: 750
Period size: 168 Copynumber: 3.0 Consensus size: 167
104654770 CTTTGGGAAC
* * * *
104654780 TCATGTTTATGTTCCTTATCCTCATCTAGT-TTTTCCTTGCACTCAGGTATTTTCGGATATTCGG
1 TCATCTTTATGTTCCTTATCCTCATCT--TCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
** *
104654844 CTTTATGTTTCTCGTGCCCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* * * *
104654909 TCTTCGTGCTCTTTCGATTCGTGTGACTCCTGGCACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* * * *
104654948 TCATCTTTATGTTTCTTA-CTCTTATCTTCCTTTTCCTTGTACTCGGGTATTTCCGAATATTCGA
1 TCATCTTTATGTTCCTTATC-CTCATCTT-CTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * *
104655012 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCGTTTGGGGAACTCGGGTTTTTCTTTCTCGTAT
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* *
104655077 TCTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* *
104655116 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATCTTTATGTTCCTTATCCTCATCTTCTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
104655181 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
104655246 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
104655284 TCAT
1 TCAT
104655288 GATGTTTGCA
Statistics
Matches: 303, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
166 1 0.00
167 4 0.01
168 297 0.98
169 1 0.00
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
Found at i:104659371 original size:46 final size:46
Alignment explanation
Indices: 104659318--104659493 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
104659308 TATTTGGGCA
*
104659318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
104659364 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
104659411 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
104659457 CCCGAACTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104659494 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:104659473 original size:93 final size:93
Alignment explanation
Indices: 104659314--104659486 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
104659304 GGGATATTTG
* * *
104659314 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
104659379 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
104659407 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
104659472 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
104659487 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104665054 original size:18 final size:18
Alignment explanation
Indices: 104664992--104665055 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
104664982 GCTCTGGTGA
*
104664992 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
104665010 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
*
104665031 GCTTCAGTTAGTCTTCGG
1 GCTTCAGTTAGACTTCGG
104665049 GCTTCAG
1 GCTTCAG
104665056 ATCACAATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 14 0.40
19 7 0.20
20 7 0.20
21 7 0.20
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.38
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:104667198 original size:10 final size:10
Alignment explanation
Indices: 104667129--104667361 Score: 64
Period size: 10 Copynumber: 22.8 Consensus size: 10
104667119 CATGAAAAAA
104667129 AATATATAAT
1 AATATATAAT
104667139 AGATA-ATAAT
1 A-ATATATAAT
104667149 AATATGA-AAT
1 AATAT-ATAAT
**
104667159 AATATATTGTT
1 AATATA-TAAT
* *
104667170 AAAATGTAA-
1 AATATATAAT
104667179 AATAATATAAT
1 AAT-ATATAAT
104667190 AATATAT-A-
1 AATATATAAT
104667198 AATATATAAAT
1 AATATAT-AAT
* * *
104667209 ATTATGTGAT
1 AATATATAAT
*
104667219 AA-AAAT-AT
1 AATATATAAT
104667227 AATATAATAAAT
1 AATAT-AT-AAT
104667239 AATA-AGTAAT
1 AATATA-TAAT
*
104667249 GATATATGTTAA-
1 -A-ATAT-ATAAT
*
104667261 AATATATATT
1 AATATATAAT
104667271 AATATGATAAT
1 AATAT-ATAAT
* *
104667282 AGAAAAAT-AT
1 A-ATATATAAT
104667292 GAAGTA-AT-AT
1 -AA-TATATAAT
104667302 AATATAATAA-
1 AATAT-ATAAT
104667312 AATATA-AAT
1 AATATATAAT
104667321 AAATAATAATATAT
1 -AAT-AT-ATA-AT
104667335 AATATATAAT
1 AATATATAAT
*
104667345 AA-ATAAAAT
1 AATATATAAT
104667354 AATATATA
1 AATATATA
104667362 TACAATTTAA
Statistics
Matches: 165, Mismatches: 24, Indels: 68
0.64 0.09 0.26
Matches are distributed among these distances:
8 15 0.09
9 23 0.14
10 69 0.42
11 35 0.21
12 14 0.08
13 7 0.04
14 2 0.01
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (10 bp):
AATATATAAT
Found at i:104667210 original size:6 final size:7
Alignment explanation
Indices: 104667129--104667361 Score: 81
Period size: 7 Copynumber: 34.1 Consensus size: 7
104667119 CATGAAAAAA
104667129 AATATAT
1 AATATAT
*
104667136 AATAGAT
1 AATATAT
104667143 AATA-AT
1 AATATAT
104667149 AATATGA-
1 AATAT-AT
104667156 AATAATAT
1 AAT-ATAT
* *
104667164 ATTGT-T
1 AATATAT
* *
104667170 AAAATGT
1 AATATAT
104667177 AA-A-AT
1 AATATAT
104667182 AATATAAT
1 AATAT-AT
104667190 AATATAT
1 AATATAT
104667197 AAATATAT
1 -AATATAT
104667205 AA-ATAT
1 AATATAT
* *
104667211 TATGTGAT
1 AATAT-AT
*
104667219 AA-AAAT
1 AATATAT
104667225 -ATAATAT
1 AAT-ATAT
*
104667232 AATAAAT
1 AATATAT
104667239 AATA-AGT
1 AATATA-T
104667246 AATGATAT
1 AAT-ATAT
*
104667254 -ATGT-T
1 AATATAT
*
104667259 AAAATAT
1 AATATAT
104667266 -ATAT-T
1 AATATAT
104667271 AATATGAT
1 AATAT-AT
*
104667279 AATAGA-
1 AATATAT
*
104667285 AAAATAT
1 AATATAT
104667292 GAAGTAATAT
1 -AA-T-ATAT
104667302 AATATAAT
1 AATAT-AT
*
104667310 AAAATAT
1 AATATAT
104667317 AA-ATA-
1 AATATAT
104667322 AATA-AT
1 AATATAT
104667328 AATATAT
1 AATATAT
104667335 AATATAT
1 AATATAT
*
104667342 AATAAAT
1 AATATAT
104667349 AA-A-AT
1 AATATAT
104667354 AATATAT
1 AATATAT
104667361 A
1 A
104667362 TACAATTTAA
Statistics
Matches: 170, Mismatches: 24, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
5 13 0.08
6 43 0.25
7 67 0.39
8 40 0.24
9 3 0.02
10 4 0.02
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:104667306 original size:5 final size:5
Alignment explanation
Indices: 104667296--104667363 Score: 58
Period size: 5 Copynumber: 14.4 Consensus size: 5
104667286 AAATATGAAG
*
104667296 TAATA TAATA TAATA AAATA TAA-A TAA-A TAATA -ATATA TAATA T-ATAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA-ATA TAATA TAAT-A
*
104667344 TAA-A TAAAA TAATA T-ATA TA
1 TAATA TAATA TAATA TAATA TA
104667364 CAATTTAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
4 19 0.36
5 32 0.60
6 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:104667329 original size:21 final size:22
Alignment explanation
Indices: 104667258--104667363 Score: 81
Period size: 24 Copynumber: 4.5 Consensus size: 22
104667248 TGATATATGT
* *
104667258 TAAAATATATATTAATATGATAA
1 TAAAATATATAATAA-ATAATAA
*
104667281 TAGAAAAATATGAAGTAATATAATATAA
1 TA-AAATATAT-AA-TAA-AT-A-ATAA
104667309 TAAAATATA-AATAAATAATAA
1 TAAAATATATAATAAATAATAA
104667330 TATATAATATATAATAAATAA-AA
1 TA-A-AATATATAATAAATAATAA
*
104667353 TAATATATATA
1 TAAAATATATA
104667364 CAATTTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
21 13 0.19
22 3 0.04
23 14 0.20
24 19 0.27
25 3 0.04
26 6 0.09
27 6 0.09
28 6 0.09
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
TAAAATATATAATAAATAATAA
Found at i:104667376 original size:21 final size:19
Alignment explanation
Indices: 104667298--104667361 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
104667288 ATATGAAGTA
104667298 ATATAATATAATAAAAT-AT
1 ATATAATA-AATAAAATAAT
*
104667317 AAATAA-ATAATAATATATAAT
1 ATATAATA-AATAA-A-ATAAT
104667338 ATATAATAAATAAAATAAT
1 ATATAATAAATAAAATAAT
104667357 ATATA
1 ATATA
104667362 TACAATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.18
19 16 0.41
20 3 0.08
21 12 0.31
22 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATAATAAATAAAATAAT
Found at i:104669699 original size:21 final size:21
Alignment explanation
Indices: 104669674--104669742 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
104669664 TAGCCTTCGG
*
104669674 GCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
104669695 GCTTCAG-TTAGC-CTT-TAG-
1 GCTTCAGTTTAGCACTTAT-GT
*
104669713 GCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
104669734 GCTTCAGTT
1 GCTTCAGTT
104669743 AGATTTCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
18 7 0.17
19 9 0.22
20 9 0.22
21 15 0.38
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTATGT
Found at i:104669702 original size:39 final size:39
Alignment explanation
Indices: 104669656--104669744 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
104669646 GCTCTGATAA
* *
104669656 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
*
104669695 GCTTCAGTTAGCCTTTAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
104669734 GCTTCAGTTAG
1 GCTTCAGTTAG
104669745 ATTTCGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
Found at i:104678413 original size:206 final size:206
Alignment explanation
Indices: 104678054--104678608 Score: 923
Period size: 206 Copynumber: 2.7 Consensus size: 206
104678044 AAATCTACTT
* *
104678054 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
104678119 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
104678184 GGATCTGTTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
104678249 GAGACGCCAAA
196 GAGACGCCAAA
* *
104678260 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGGTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
104678325 GTGAAAGCTAAATCAACTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
104678389 TGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
104678454 GGAGACGCCAAA
195 GGAGACGCCAAA
* *
104678466 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
104678531 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
104678596 GGATCTTGCTTCA
131 GGATC-TGCTTCA
104678609 CCCAGATCTG
Statistics
Matches: 322, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
205 1 0.00
206 313 0.97
207 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:104690535 original size:21 final size:22
Alignment explanation
Indices: 104690502--104690545 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
104690492 ATAAGATAAT
*
104690502 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
104690524 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
104690545 A
1 A
104690546 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:104690743 original size:41 final size:40
Alignment explanation
Indices: 104690698--104690859 Score: 102
Period size: 41 Copynumber: 3.9 Consensus size: 40
104690688 TATACATGAA
104690698 AAAATATAATAGATAATAATAATATGAAATAATATATTGTT
1 AAAATATAATA-ATAATAATAATATGAAATAATATATTGTT
* *
104690739 AAAATGTAA-AATAATATAATAATATAAAATATATAAATATTATGTGAT
1 AAAATATAATAAT-A-ATAATAATATGAAATA-AT--ATA-T-TGT--T
* * *
104690787 AAAAATATAAT-ATAATAAATAATAAGTAATTATATA-TGTT
1 -AAAATATAATAATAAT-AATAATATGAAATAATATATTGTT
*
104690827 AAAATATATATTAAT-ATGATAATA-GAAA-AATAT
1 AAAATATA-A-TAATAATAATAATATGAAATAATAT
104690860 GAAGTAATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
38 4 0.04
39 13 0.14
40 10 0.10
41 26 0.27
42 7 0.07
44 3 0.03
45 4 0.04
46 3 0.03
47 4 0.04
48 12 0.12
49 10 0.10
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (40 bp):
AAAATATAATAATAATAATAATATGAAATAATATATTGTT
Found at i:104690842 original size:44 final size:43
Alignment explanation
Indices: 104690698--104690848 Score: 109
Period size: 44 Copynumber: 3.5 Consensus size: 43
104690688 TATACATGAA
* * *
104690698 AAAATATA-AT-AGATAAT-AATAATATGAAATAATATATTGTT
1 AAAATATATATAATATAATAAATAATAAGTAATAATATA-TGTT
* * *
104690739 AAAATGTAAAATAATATAATAATATAA-AA-TATATAAATATTATGTG
1 AAAATAT-ATATAATATAATAA-ATAATAAGTA-AT-AATA-TATGTT
*
104690785 ATAAA-A-ATATAATATAATAAATAATAAGTAATTATATATGTT
1 A-AAATATATATAATATAATAAATAATAAGTAATAATATATGTT
*
104690827 AAAATATATATTAATATGATAA
1 AAAATATATA-TAATATAATAA
104690849 TAGAAAAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
41 9 0.10
42 8 0.09
43 12 0.14
44 34 0.40
45 6 0.07
46 12 0.14
47 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (43 bp):
AAAATATATATAATATAATAAATAATAAGTAATAATATATGTT
Found at i:104690874 original size:5 final size:5
Alignment explanation
Indices: 104690864--104690931 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
104690854 AAATATGAAG
* *
104690864 TAATA TAATA TAATA AAATA TAA-A TAAATAA TAATA TAAAA T-ATA TAATACA
1 TAATA TAATA TAATA TAATA TAATA T-AAT-A TAATA TAATA TAATA TAAT--A
*
104690916 TAAAA TAATA T-ATA TA
1 TAATA TAATA TAATA TA
104690932 CAATTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 9 0.18
5 32 0.64
6 3 0.06
7 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (5 bp):
TAATA
Found at i:104690918 original size:7 final size:7
Alignment explanation
Indices: 104690749--104690929 Score: 66
Period size: 7 Copynumber: 26.4 Consensus size: 7
104690739 AAAATGTAAA
104690749 ATAATAT
1 ATAATAT
104690756 AATAATAT
1 -ATAATAT
*
104690764 AAAATAT
1 ATAATAT
104690771 ATAA-AT
1 ATAATAT
* *
104690777 ATTATGT
1 ATAATAT
*
104690784 GATAA-AA
1 -ATAATAT
104690791 AT-ATAAT
1 ATAAT-AT
*
104690798 ATAATAA
1 ATAATAT
104690805 ATAATA-
1 ATAATAT
104690811 AGTAAT-T
1 A-TAATAT
104690818 AT-ATAT
1 ATAATAT
* *
104690824 GTTAAAAT
1 -ATAATAT
104690832 AT-ATAT
1 ATAATAT
104690838 -TAATAT
1 ATAATAT
*
104690844 GATAATAG
1 -ATAATAT
*
104690852 A-AAAAT
1 ATAATAT
104690858 ATGAAGTAAT
1 AT-AA-T-AT
104690868 ATAATAT
1 ATAATAT
*
104690875 AATAAAAT
1 -ATAATAT
104690883 ATAA-AT
1 ATAATAT
104690889 A-AATA-
1 ATAATAT
104690894 ATAATAT
1 ATAATAT
*
104690901 AAAATAT
1 ATAATAT
*
104690908 ATAATAC
1 ATAATAT
104690915 ATAA-A-
1 ATAATAT
104690920 ATAATAT
1 ATAATAT
104690927 ATA
1 ATA
104690930 TACAATTTAA
Statistics
Matches: 129, Mismatches: 21, Indels: 47
0.65 0.11 0.24
Matches are distributed among these distances:
5 11 0.09
6 31 0.24
7 52 0.40
8 29 0.22
9 2 0.02
10 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (7 bp):
ATAATAT
Found at i:104701166 original size:22 final size:22
Alignment explanation
Indices: 104701141--104701196 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
104701131 TTTTACTAAA
*
104701141 ACAAAGGTTTTTTTTTTAAAAT
1 ACAAAGGTTTTTTTTTAAAAAT
* *
104701163 ACAAACTGTATTTTTTTAAAAAT
1 ACAAA-GGTTTTTTTTTAAAAAT
* *
104701186 ATAACGGTTTT
1 ACAAAGGTTTT
104701197 AAGAATTCCG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (22 bp):
ACAAAGGTTTTTTTTTAAAAAT
Found at i:104701601 original size:13 final size:13
Alignment explanation
Indices: 104701567--104701601 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
104701557 AGAAGAAATG
104701567 AAAGAAAAATTTC
1 AAAGAAAAATTTC
104701580 AGAAG-AAAATTTC
1 A-AAGAAAAATTTC
104701593 AAAGAAAAA
1 AAAGAAAAA
104701602 CAAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.15
13 14 0.70
14 3 0.15
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (13 bp):
AAAGAAAAATTTC
Found at i:104701670 original size:17 final size:17
Alignment explanation
Indices: 104701648--104701681 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
104701638 ATGGTAGAAC
104701648 TAAGGAAAAAAATGTGG
1 TAAGGAAAAAAATGTGG
104701665 TAAGGAAAAAAATGTGG
1 TAAGGAAAAAAATGTGG
104701682 GAAGTGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (17 bp):
TAAGGAAAAAAATGTGG
Found at i:104701694 original size:18 final size:17
Alignment explanation
Indices: 104701649--104701685 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
104701639 TGGTAGAACT
*
104701649 AAGGAAAAAAATGTGGT
1 AAGGAAAAAAATGTGGG
104701666 AAGGAAAAAAATGTGGG
1 AAGGAAAAAAATGTGGG
104701683 AAG
1 AAG
104701686 TGAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (17 bp):
AAGGAAAAAAATGTGGG
Found at i:104703449 original size:53 final size:53
Alignment explanation
Indices: 104703308--104703458 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
104703298 ATAAGTGCGC
* **
104703308 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
104703361 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
104703414 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
104703459 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:104710100 original size:33 final size:35
Alignment explanation
Indices: 104710063--104710130 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
104710053 AAGGGACCAA
* *
104710063 AATGGATGA-TTTTTTT-ACTTATTTGGCTTTAAG
1 AATGGAAGATTTTTTTTAACCTATTTGGCTTTAAG
104710096 AATGGAAGATTTTTTTTAACCTATTTGGCTTTAAG
1 AATGGAAGATTTTTTTTAACCTATTTGGCTTTAAG
104710131 GTATCCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 8 0.26
34 7 0.23
35 16 0.52
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (35 bp):
AATGGAAGATTTTTTTTAACCTATTTGGCTTTAAG
Found at i:104714517 original size:12 final size:12
Alignment explanation
Indices: 104714496--104714539 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
104714486 ACACAAAAAG
*
104714496 TAAAGAAATGAA
1 TAAATAAATGAA
*
104714508 TAAATGAATGAA
1 TAAATAAATGAA
* *
104714520 TATATAAATAAA
1 TAAATAAATGAA
104714532 TAAATAAA
1 TAAATAAA
104714540 ACATAACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
TAAATAAATGAA
Found at i:104714937 original size:32 final size:27
Alignment explanation
Indices: 104714872--104714927 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
104714862 AAATGGGGAA
104714872 GATTGAAAAATAAAAATCAAGCAATAG
1 GATTGAAAAATAAAAATCAAGCAATAG
* *
104714899 GATTGAAAATTAAAAATCAAGCAGTAG
1 GATTGAAAAATAAAAATCAAGCAATAG
104714926 GA
1 GA
104714928 CATAATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (27 bp):
GATTGAAAAATAAAAATCAAGCAATAG
Found at i:104715567 original size:13 final size:13
Alignment explanation
Indices: 104715536--104715583 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
104715526 TCACCTCCAG
104715536 TTTTTTTGTATTC
1 TTTTTTTGTATTC
104715549 TATTTTTTG-ATTTC
1 T-TTTTTTGTA-TTC
*
104715563 TTTTTTTGTGTT-
1 TTTTTTTGTATTC
104715575 TTTTTTTGT
1 TTTTTTTGT
104715584 TCGATTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.29
13 11 0.35
14 11 0.35
ACGTcount: A:0.06, C:0.04, G:0.10, T:0.79
Consensus pattern (13 bp):
TTTTTTTGTATTC
Found at i:104718731 original size:69 final size:69
Alignment explanation
Indices: 104718651--104718787 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
104718641 CTCAAACTTT
*
104718651 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAATTATAATGTTATATACTTTACGTATCT
1 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
104718716 CCTG
66 CCTG
104718720 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
1 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
104718785 CCT
66 CCT
104718788 CACTGTCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (69 bp):
GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
CCTG
Found at i:104723996 original size:23 final size:24
Alignment explanation
Indices: 104723948--104724016 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
104723938 ATAAATTATT
**
104723948 TATAAAATTTAATTTATTTATAAA
1 TATAAAATTTAATTTATGAATAAA
104723972 TA-AAAATTGTAATTTATGAAT-AA
1 TATAAAATT-TAATTTATGAATAAA
* *
104723995 TATAAATTTATAATTTAAGAAT
1 TATAAAATT-TAATTTATGAAT
104724017 CGATGCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 10 0.26
24 28 0.74
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TATAAAATTTAATTTATGAATAAA
Found at i:104725488 original size:46 final size:45
Alignment explanation
Indices: 104725435--104725598 Score: 129
Period size: 46 Copynumber: 3.6 Consensus size: 45
104725425 ACCTTTTCGA
*
104725435 GTTGAACTTACACGAATCAG-ATAATAGTGCATGGTCACCTGTTAG
1 GTTGAACTTACACGAATCAGAATAATAATGC-TGGTCACCTGTTAG
* * * **
104725480 CGTTGAACTTACCCGAAT-TGAATAATAATGTTTGGTCACCCATTAGG
1 -GTTGAACTTACACGAATCAGAATAATAATG-CTGGTCACCTGTTA-G
* * *
104725527 GTTGGACTTATATGAATC-GAATAATAATGTCTGGTCACCTGTTAAG
1 GTTGAACTTACACGAATCAGAATAATAATG-CTGGTCACCTGTT-AG
* * **
104725573 GTTGGACCTACATAAATCAG-ATAATA
1 GTTGAACTTACACGAATCAGAATAATA
104725599 GTGTTTGGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 92 0.96
47 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (45 bp):
GTTGAACTTACACGAATCAGAATAATAATGCTGGTCACCTGTTAG
Found at i:104725622 original size:46 final size:45
Alignment explanation
Indices: 104725499--104725630 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 45
104725489 TACCCGAATT
* * * *
104725499 GAATAATAATGTTTGGTCACCCATTAGGGTTGGACTTATATGAATC
1 GAATAATAATGTTTGGTCA-CCGTTAGGGTTGGACCTACATAAATC
* *
104725545 GAATAATAATGTCTGGTCACCTGTTAAGGTTGGACCTACATAAATC
1 GAATAATAATGTTTGGTCACC-GTTAGGGTTGGACCTACATAAATC
* * *
104725591 -AGATAATAGTGTTTGGTTACTCGTTAGGGTTGAACCTACA
1 GA-ATAATAATGTTTGGTCAC-CGTTAGGGTTGGACCTACA
104725631 CAACATATAG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.04
46 68 0.94
47 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (45 bp):
GAATAATAATGTTTGGTCACCGTTAGGGTTGGACCTACATAAATC
Found at i:104725816 original size:29 final size:29
Alignment explanation
Indices: 104725774--104725829 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
104725764 CACTCGTCCA
104725774 TAAATTTTCTTTTTTTCATCGATTATCCG
1 TAAATTTTCTTTTTTTCATCGATTATCCG
104725803 TAAATTTTCTTTTTTTCATCGATTATC
1 TAAATTTTCTTTTTTTCATCGATTATC
104725830 AACCATCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.57
Consensus pattern (29 bp):
TAAATTTTCTTTTTTTCATCGATTATCCG
Found at i:104729391 original size:36 final size:36
Alignment explanation
Indices: 104729347--104729418 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
104729337 ATAGGCATAA
*
104729347 AACGTAAATCTTACCGATCATACTTTAATAAATCAT
1 AACGTAAATCTTACCGACCATACTTTAATAAATCAT
* *
104729383 AACGTAAATCTTACCGGCCATATTTTAATAAATCAT
1 AACGTAAATCTTACCGACCATACTTTAATAAATCAT
104729419 TTAACTAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (36 bp):
AACGTAAATCTTACCGACCATACTTTAATAAATCAT
Found at i:104734252 original size:25 final size:27
Alignment explanation
Indices: 104734178--104734252 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 27
104734168 TGTTAAGTTG
* *
104734178 TATTCATTTTAATATTATTTAAGTATACA
1 TATTTATTTTAATATT-TTTAAG-ATAAA
* *
104734207 TATATATTTT-TTATTTATTAA-A-AAA
1 TATTTATTTTAATATTT-TTAAGATAAA
104734232 TATTTATTTTAATATTTTTAA
1 TATTTATTTTAATATTTTTAA
104734253 TGTTTTTGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
25 15 0.39
26 6 0.16
27 1 0.03
28 8 0.21
29 8 0.21
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (27 bp):
TATTTATTTTAATATTTTTAAGATAAA
Found at i:104734913 original size:33 final size:31
Alignment explanation
Indices: 104734859--104734931 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
104734849 TTAAAACAAC
* *
104734859 TTATTTGAATAAAAAGTAAATATTAAATATTAG
1 TTATTTGATTAAAAAGAAAATA-TAAA-ATTAG
*
104734892 TTATTTGATTAATAAA-AAAATATAAAGTTAG
1 TTATTTGATTAA-AAAGAAAATATAAAATTAG
104734923 -TATTTGATT
1 TTATTTGATT
104734932 CCATTTGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 9 0.25
31 4 0.11
32 4 0.11
33 16 0.44
34 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (31 bp):
TTATTTGATTAAAAAGAAAATATAAAATTAG
Found at i:104735865 original size:15 final size:15
Alignment explanation
Indices: 104735847--104735898 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
104735837 ACTACAAACC
104735847 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
104735862 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
104735881 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
104735896 ATT
1 ATT
104735899 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:104735962 original size:16 final size:16
Alignment explanation
Indices: 104735931--104735967 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
104735921 ATGTGAATAA
104735931 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
104735947 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
104735963 TATTA
1 TATTA
104735968 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:104736019 original size:22 final size:22
Alignment explanation
Indices: 104735977--104736034 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
104735967 AAAATAAAAA
*
104735977 TAAAATATTAAA-TA-ATTTAT
1 TAAAATAATAAATTATATTTAT
104735997 TAAAATAATAAATTATATTTAT
1 TAAAATAATAAATTATATTTAT
* * *
104736019 TATATTAATAATTTAT
1 TAAAATAATAAATTAT
104736035 TATATGACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.34
21 2 0.06
22 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATAATAAATTATATTTAT
Found at i:104738857 original size:17 final size:17
Alignment explanation
Indices: 104738835--104738868 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104738825 ATCCACTAAT
*
104738835 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
104738852 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
104738869 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:104743496 original size:17 final size:17
Alignment explanation
Indices: 104743474--104743507 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104743464 ATCCACTAAT
*
104743474 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
104743491 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
104743508 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:104755918 original size:41 final size:42
Alignment explanation
Indices: 104755861--104755941 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
104755851 AATCTCTTCC
104755861 TTTGAGTGGCTAAAATGGAAACA-TGATGCAAATGCGATGAT
1 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATGAT
*
104755902 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGTGATG
1 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATG
104755942 GTTTAGTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 23 0.61
42 15 0.39
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (42 bp):
TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATGAT
Found at i:104772422 original size:109 final size:109
Alignment explanation
Indices: 104772225--104772425 Score: 303
Period size: 109 Copynumber: 1.8 Consensus size: 109
104772215 ACTTTGAAGA
* *
104772225 TTTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
** * *
104772290 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* * *
104772334 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
**
104772399 TCTCGAACTTTCCAAACGTGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
104772426 GCTTTTACGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:104772653 original size:15 final size:15
Alignment explanation
Indices: 104772633--104772662 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104772623 AATAATAATT
104772633 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
104772648 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
104772663 GCTAAGTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:104772765 original size:15 final size:15
Alignment explanation
Indices: 104772745--104772775 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104772735 ATATATATTA
104772745 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
104772760 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
104772775 A
1 A
104772776 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:104773125 original size:19 final size:17
Alignment explanation
Indices: 104773090--104773146 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
104773080 AAAAATAGTG
104773090 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
* *
104773107 GTAATATAACAAG-AGA
1 ATAATATAACAAGAATA
* *
104773123 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
104773141 ATAATA
1 ATAATA
104773147 GTAATGGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.59
18 7 0.22
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:104773130 original size:3 final size:3
Alignment explanation
Indices: 104773122--104773188 Score: 71
Period size: 3 Copynumber: 21.3 Consensus size: 3
104773112 ATAACAAGAG
*
104773122 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT AAT AAT
* * *
104773170 AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
104773189 TAAATAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 49 0.92
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:104774132 original size:25 final size:26
Alignment explanation
Indices: 104774098--104774154 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
104774088 TCGCGAAGAG
*
104774098 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
104774123 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
104774149 AAAGAA
1 AAAGAA
104774155 CCAAGAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 11 0.38
26 17 0.59
27 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:104774478 original size:22 final size:22
Alignment explanation
Indices: 104774426--104774478 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
104774416 GGTGTCAGAC
*
104774426 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
104774448 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
104774470 GGTATGGGG
1 GGTATGGGG
104774479 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:104775078 original size:46 final size:46
Alignment explanation
Indices: 104774980--104775081 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
104774970 CCACTTCCTA
* * * * * * **
104774980 CCAATATAGGGAGGCAGGATCTGCTATCTTCGATCTATTTCGTTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
* *
104775026 CGAATACAGGAAGGCAATATCTGCAATCTTCAATCTATTCCACTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
104775072 CCAATACAGG
1 CCAATACAGG
104775082 GAGATAGAGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
Found at i:104775226 original size:229 final size:229
Alignment explanation
Indices: 104774821--104775249 Score: 732
Period size: 229 Copynumber: 1.9 Consensus size: 229
104774811 TAAGACCTGA
* * * *
104774821 AATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTCATCGGCTTCAATGTACTCTATT
1 AATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCGGCTTCAACGTACTCCACT
* * * *
104774886 GTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTGTTCCACTGCCAAATACAGGGAG
66 GTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAATACAGGGAG
*
104774951 ATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGGAGGCAGGATCTGCTATCTTCGATCT
131 ATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCT
104775016 ATTTCGTTGCCGAATACAGGAAGGCAATATCTGC
196 ATTTCGTTGCCGAATACAGGAAGGCAATATCTGC
* *
104775050 AATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAACGTACTCCACT
1 AATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCGGCTTCAACGTACTCCACT
* * *
104775115 GTAGTCAGGGAGGTAAAGTCTGCCGTCTTCGACCTGCAATCTATTCCACTGCTAAATACAGGGAG
66 GTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAATACAGGGAG
104775180 ATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCT
131 ATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCT
104775245 ATTTC
196 ATTTC
104775250 ACATCAATAT
Statistics
Matches: 186, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
229 186 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (229 bp):
AATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCGGCTTCAACGTACTCCACT
GTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAATACAGGGAG
ATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCT
ATTTCGTTGCCGAATACAGGAAGGCAATATCTGC
Found at i:104775448 original size:132 final size:132
Alignment explanation
Indices: 104775197--104775453 Score: 293
Period size: 132 Copynumber: 1.9 Consensus size: 132
104775187 CTGTTTTTCA
* * * * * *
104775197 ATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCACATCAATATAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATATTCGATCTACTTCACACCAATACAT
* * * ***
104775262 GAAAATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGT
66 GAAAACAAGATCTGCCTTCTTCGATCTAATTCGCCACCAATACAAGAAGACAAGATCTGCGTCGT
104775327 CG
131 CG
* * * *
104775329 ATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATATTTGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATATTCGATCTACTTCACACCAATACAT
* * * * *
104775394 GAAGACAAGATCTGCCTTCTTC-AGTCTACTT-TCTACCTAATACAAGAAGGCAAGATCTGC
66 GAAAACAAGATCTGCCTTCTTCGA-TCTAATTCGCCACC-AATACAAGAAGACAAGATCTGC
104775454 AATCTTCAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
131 5 0.05
132 97 0.95
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATATTCGATCTACTTCACACCAATACAT
GAAAACAAGATCTGCCTTCTTCGATCTAATTCGCCACCAATACAAGAAGACAAGATCTGCGTCGT
CG
Found at i:104775612 original size:46 final size:46
Alignment explanation
Indices: 104775445--104776026 Score: 283
Period size: 46 Copynumber: 13.0 Consensus size: 46
104775435 ACAAGAAGGC
* *
104775445 AAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * * *
104775491 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGTCACAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTATTCCACTGCCAAAT-ACAGGGAGGT
* * * * * * * *
104775535 AAAATCTGCCATCTTCGATCTGCTT-CGCTGCCTAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGT
*
104775581 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * ***
104775627 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * * *
104775669 AAAATCTGCCATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGT
*
104775715 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * ***
104775761 AGAGTTAT-C-GGCTTCAATATACTCCACTG--TGGT-CAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * * *
104775803 AAAATCTGCCATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGT
*
104775849 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * * *
104775895 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
* * ** * * * *
104775937 AAAATCTGCCATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGT
104775983 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAG
104776027 ATAGAATTAT
Statistics
Matches: 371, Mismatches: 133, Indels: 64
0.65 0.23 0.11
Matches are distributed among these distances:
41 9 0.02
42 30 0.08
43 38 0.10
44 14 0.04
45 87 0.23
46 174 0.47
47 19 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (46 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGGT
Found at i:104775742 original size:134 final size:134
Alignment explanation
Indices: 104775432--104776134 Score: 1282
Period size: 134 Copynumber: 5.2 Consensus size: 134
104775422 CTTTCTACCT
* *
104775432 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
*
104775497 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCG
*
104775562 CTGCCT
129 CTGCCA
104775568 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
*
104775633 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
104775698 GCCA
131 GCCA
104775702 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
* *
104775767 ATCGGCTTCAATATACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
104775832 GCCA
131 GCCA
104775836 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
104775901 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
104775966 GCCA
131 GCCA
*
104775970 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
*
104776035 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
104776100 GCCA
131 GCCA
*
104776104 AATACAGGAAAGCAAGATCTG-ATATCTTCAA
1 AATACAGGAAGGCAAGATCTGCA-ATCTTCAA
104776135 CCAGCTCTGC
Statistics
Matches: 555, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
133 1 0.00
134 465 0.84
136 89 0.16
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
GCCA
Found at i:104776219 original size:86 final size:86
Alignment explanation
Indices: 104776082--104776345 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
104776072 AAATCTGCCA
* * *
104776082 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
104776147 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* * * *
104776169 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAATATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* *
104776234 AAACGAGAGTGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
104776255 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* * *
104776320 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
104776341 TCTTC
1 TCTTC
104776346 AATTTTTACT
Statistics
Matches: 158, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
86 138 0.87
87 20 0.13
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:104780475 original size:19 final size:20
Alignment explanation
Indices: 104780451--104780494 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
104780441 CGTGAAAGTC
* *
104780451 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
104780470 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
104780490 -AATGC
1 TAATGC
104780495 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:104780827 original size:30 final size:30
Alignment explanation
Indices: 104780793--104780855 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
104780783 GTCTTCAGGC
104780793 AACGAGGCAAAGTCGTATAGTCCTCTACTG
1 AACGAGGCAAAGTCGTATAGTCCTCTACTG
104780823 AACGAGGCAAAGTCGTATAGTCCTCTACTG
1 AACGAGGCAAAGTCGTATAGTCCTCTACTG
104780853 AAC
1 AAC
104780856 TATCATCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (30 bp):
AACGAGGCAAAGTCGTATAGTCCTCTACTG
Found at i:104782230 original size:109 final size:109
Alignment explanation
Indices: 104782033--104782233 Score: 303
Period size: 109 Copynumber: 1.8 Consensus size: 109
104782023 ACTTTGAAGA
* *
104782033 TTTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
** * *
104782098 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* * *
104782142 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
**
104782207 TCTCGAACTTTCCAAACGTGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
104782234 GCTTTTACGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:104782461 original size:15 final size:15
Alignment explanation
Indices: 104782441--104782470 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104782431 AATAATAATT
104782441 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
104782456 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
104782471 GCTAAGTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:104782574 original size:15 final size:15
Alignment explanation
Indices: 104782554--104782584 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104782544 ATATATATTA
104782554 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
104782569 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
104782584 A
1 A
104782585 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:104782934 original size:19 final size:17
Alignment explanation
Indices: 104782899--104782958 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
104782889 AAAAATAGTG
104782899 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
104782916 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
104782935 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
104782953 ATAATA
1 ATAATA
104782959 GTAATGGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.28
18 11 0.31
19 11 0.31
20 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:104782939 original size:3 final size:3
Alignment explanation
Indices: 104782931--104783000 Score: 77
Period size: 3 Copynumber: 22.3 Consensus size: 3
104782921 ATAACAAGAG
*
104782931 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT AAT
* * *
104782979 AAT AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
104783001 TAAATAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 52 0.93
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:104783947 original size:25 final size:26
Alignment explanation
Indices: 104783913--104783969 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
104783903 TCGCGAAGAG
*
104783913 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
104783938 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
104783964 AAAGAA
1 AAAGAA
104783970 CCAAGAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 11 0.38
26 17 0.59
27 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:104784293 original size:22 final size:22
Alignment explanation
Indices: 104784241--104784293 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
104784231 GGTGTCAGAC
*
104784241 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
104784263 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
104784285 GGTATGGGG
1 GGTATGGGG
104784294 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:104785697 original size:19 final size:19
Alignment explanation
Indices: 104785639--104785697 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
104785629 ATCTTTGAGG
*
104785639 AATATTATAAAAATATCGA
1 AATATTATAAAAATATCTA
** *
104785658 TGTA-T-TAACAATAT-TA
1 AATATTATAAAAATATCTA
104785674 TAATATTATAAAAATATCTA
1 -AATATTATAAAAATATCTA
104785694 AATA
1 AATA
104785698 AAAATTACAG
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
16 1 0.03
17 10 0.34
18 2 0.07
19 14 0.48
20 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
AATATTATAAAAATATCTA
Found at i:104801742 original size:32 final size:32
Alignment explanation
Indices: 104801706--104801770 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
104801696 TCGAAAATGG
104801706 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
*
104801738 AAAACAGTAAAGAAAACGTGTTTGATTGAAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
104801770 A
1 A
104801771 TTAAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.22
Consensus pattern (32 bp):
AAAACACTAAAGAAAACGTGTTTGATTGAAAA
Found at i:104807498 original size:19 final size:19
Alignment explanation
Indices: 104807474--104807511 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
104807464 ATTTTTCTAT
104807474 CCAAATAACGAGGCTTCTC
1 CCAAATAACGAGGCTTCTC
104807493 CCAAATAACGAGGCTTCTC
1 CCAAATAACGAGGCTTCTC
104807512 TGTTGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (19 bp):
CCAAATAACGAGGCTTCTC
Found at i:104810650 original size:21 final size:21
Alignment explanation
Indices: 104810624--104810667 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
104810614 AATAATATTT
104810624 ATCTTTACTGGCTGAACCTTG
1 ATCTTTACTGGCTGAACCTTG
104810645 ATCTTTACTGGCTGAACCTTG
1 ATCTTTACTGGCTGAACCTTG
104810666 AT
1 AT
104810668 ATTGTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (21 bp):
ATCTTTACTGGCTGAACCTTG
Found at i:104811065 original size:19 final size:19
Alignment explanation
Indices: 104811041--104811079 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
104811031 TAATGTCAAT
104811041 ATGTTATAACCAAATCATC
1 ATGTTATAACCAAATCATC
*
104811060 ATGTTATAACTAAATCATC
1 ATGTTATAACCAAATCATC
104811079 A
1 A
104811080 AGGGACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (19 bp):
ATGTTATAACCAAATCATC
Found at i:104816369 original size:108 final size:108
Alignment explanation
Indices: 104816191--104816390 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 108
104816181 ATCAACTCGA
* * * * *
104816191 TTAAGAAATTACGGATATGTTCTTCCATAATTAGAATGAGTCATATTATTTGAAGGTATTTTAAT
1 TTAAGAAATTACGGATATATCCTTCCATAATTAAAATGAGTCATATAATTCGAAGGTATTTTAAT
104816256 ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
66 ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
* *
104816299 TTAAGAAATTACGGATATATCCTTCCGTAATTAAAATGAGTCATATAATTCGAGGGTATTTTAAT
1 TTAAGAAATTACGGATATATCCTTCCATAATTAAAATGAGTCATATAATTCGAAGGTATTTTAAT
*
104816364 CTTTTCATTTTAATAAAAACCAAGAAA
66 ATTTTCATTTTAATAAAAACCAAGAAA
104816391 AATATGCATA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (108 bp):
TTAAGAAATTACGGATATATCCTTCCATAATTAAAATGAGTCATATAATTCGAAGGTATTTTAAT
ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
Found at i:104820264 original size:58 final size:61
Alignment explanation
Indices: 104820184--104820308 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 61
104820174 GGTAAACTAT
* *
104820184 TATAAAATAGTATCTGAATATTAATTTA-GTAAAAA-AAA-TT-AATAATTACAATATCTAAA
1 TATAAAAGAGTATCTAAATATTAA-TTAGGTAAAAATAAACTTAAATAATTACAATATCT-AA
* *
104820243 TATAAAAGA-TATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTATACTATCTAA
1 TATAAAAGAGTATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATATCTAA
104820303 TATAAA
1 TATAAA
104820309 TTCAGCATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
57 3 0.05
58 20 0.34
59 11 0.19
60 10 0.17
61 14 0.24
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (61 bp):
TATAAAAGAGTATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATATCTAA
Found at i:104827624 original size:60 final size:60
Alignment explanation
Indices: 104827518--104827630 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
104827508 AATTAATGAC
*
104827518 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAAGTATCCTAATTGTATTTTTGAGAT
1 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAAGTATCCTAATTATATTTTTGAGAT
* * **
104827578 AATTTTGGTCACTAATATTTGTATGTTTTGTCAAAA-TAATTTTAATTATATTT
1 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAAGT-ATCCTAATTATATTT
104827631 CGAACCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (60 bp):
AATTTTGGTCACCAATATTTGTATATTTTGTCAAAAGTATCCTAATTATATTTTTGAGAT
Found at i:104831520 original size:19 final size:19
Alignment explanation
Indices: 104831498--104831545 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
104831488 GGTCTGGCTC
104831498 AATTAAAAATCATAAA-AAA
1 AATTAAAAAT-ATAAATAAA
*
104831517 AATTTAAAATATAAATTAAA
1 AATTAAAAATATAAA-TAAA
*
104831537 AAATAAAAA
1 AATTAAAAA
104831546 AAAACTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.21
19 9 0.38
20 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AATTAAAAATATAAATAAA
Found at i:104845869 original size:26 final size:26
Alignment explanation
Indices: 104845840--104845919 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
104845830 TTATAAATTT
104845840 ATAACTACCAAGTAATCCTATTGCTC
1 ATAACTACCAAGTAATCCTATTGCTC
104845866 ATAACTACCAAGTAATCCTATTGCTC
1 ATAACTACCAAGTAATCCTATTGCTC
* * *
104845892 ATAACAACTAAGTAATCCTATTACTC
1 ATAACTACCAAGTAATCCTATTGCTC
104845918 AT
1 AT
104845920 CAAGCTAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATAACTACCAAGTAATCCTATTGCTC
Found at i:104848965 original size:46 final size:46
Alignment explanation
Indices: 104848865--104848955 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
104848855 AAATATATAT
* *
104848865 AATGTTAAAAAAATAATTGTAAGTGGATTGTAAACAATTTATGTAC
1 AATGTTAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTAC
* *
104848911 AATGTTAAAAAAATGATTATAGGTGGATTGTAAACAACTTATGTA
1 AATGTTAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTA
104848956 TAGATTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.34
Consensus pattern (46 bp):
AATGTTAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTAC
Found at i:104849332 original size:22 final size:20
Alignment explanation
Indices: 104849293--104849329 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
104849283 TAATTTTTTT
104849293 AAAAATAAAAAAAATTATCA
1 AAAAATAAAAAAAATTATCA
*
104849313 AAAAAT-ATAAAAATTAT
1 AAAAATAAAAAAAATTAT
104849330 TATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATAAAAAAAATTATCA
Found at i:104849471 original size:10 final size:10
Alignment explanation
Indices: 104849357--104849487 Score: 51
Period size: 10 Copynumber: 13.3 Consensus size: 10
104849347 AATTTGATGT
104849357 AAACTTATAA
1 AAACTTATAA
*
104849367 AAACTATAAAA
1 AAACT-TATAA
*
104849378 AAATTTATAA
1 AAACTTATAA
* *
104849388 AAAATTATGA
1 AAACTTATAA
104849398 AAA-TT-T-A
1 AAACTTATAA
* *
104849405 TAACTTCTAA
1 AAACTTATAA
104849415 TAAA-TTATAA
1 -AAACTTATAA
104849425 AAA--TATAA
1 AAACTTATAA
* *
104849433 GAA-TAATAA
1 AAACTTATAA
*
104849442 AAACATATTTAA
1 AAAC-T-TATAA
**
104849454 AATTTTATAA
1 AAACTTATAA
*
104849464 AAACTTATTA
1 AAACTTATAA
*
104849474 AAATTCTATAA
1 AAACT-TATAA
104849485 AAA
1 AAA
104849488 TCATAAAACA
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 10 0.11
9 12 0.13
10 41 0.46
11 19 0.21
12 5 0.06
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (10 bp):
AAACTTATAA
Found at i:104849474 original size:21 final size:22
Alignment explanation
Indices: 104849438--104849492 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
104849428 TATAAGAATA
*
104849438 ATAAAAACATATTTAAAATTTT
1 ATAAAAACATATTTAAAATTCT
*
104849460 ATAAAAACTTA-TTAAAATTCT
1 ATAAAAACATATTTAAAATTCT
104849481 ATAAAAATCATA
1 ATAAAAA-CATA
104849493 AAACAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAACATATTTAAAATTCT
Found at i:104850004 original size:28 final size:26
Alignment explanation
Indices: 104849972--104850205 Score: 87
Period size: 28 Copynumber: 8.3 Consensus size: 26
104849962 TTTTTTTTTG
104849972 TATTTTTATAAATTTATATCAATTTTAA
1 TATTTTTATAAATTT-TAT-AATTTTAA
* * *
104850000 TATTTTAAT-ACTTTTATAATTTTTTTA
1 TATTTTTATAAATTTTATAA--TTTTAA
* * * * *
104850027 CAGTTTTTATTACTTTTAAACAATTCTAA
1 TA-TTTTTATAAATTTT--ATAATTTTAA
* *
104850056 TAATTTTTTTAATATTTAAT-ATTTTAAA
1 T-ATTTTTATAA-ATTTTATAATTTT-AA
* * *
104850084 TAATTTTTATTAATTTTATAGCTTTTAT
1 T-ATTTTTATAAATTTTATA-ATTTTAA
* * *
104850112 TATTTATTATAATTTTTATATTTTTTA
1 TATTT-TTATAAATTTTATAATTTTAA
* *
104850139 TAATATTTATAAGTTTTTATACTATTTT-A
1 T-ATTTTTATAA-ATTTTATA--ATTTTAA
* *
104850168 TAATTTTAATAAGTTTATATCAATTTTAA
1 T-ATTTTTATAAATTT-TAT-AATTTTAA
104850197 TATTTTTAT
1 TATTTTTAT
104850206 TTTTATAATA
Statistics
Matches: 156, Mismatches: 31, Indels: 38
0.69 0.14 0.17
Matches are distributed among these distances:
25 2 0.01
26 3 0.02
27 35 0.22
28 67 0.43
29 37 0.24
30 9 0.06
31 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTTATAAATTTTATAATTTTAA
Found at i:104850023 original size:9 final size:9
Alignment explanation
Indices: 104849973--104850205 Score: 107
Period size: 9 Copynumber: 24.9 Consensus size: 9
104849963 TTTTTTTTGT
104849973 ATTTTTATAA
1 ATTTTTAT-A
*
104849983 ATTTATATCA
1 ATTTTTAT-A
*
104849993 ATTTTAAT-
1 ATTTTTATA
*
104850001 ATTTTAAT-
1 ATTTTTATA
*
104850009 ACTTTTATA
1 ATTTTTATA
*
104850018 ATTTTTTTA
1 ATTTTTATA
104850027 CAGTTTTTATTA
1 -A-TTTTTA-TA
* * *
104850039 CTTTTAAACA
1 ATTTT-TATA
* *
104850049 ATTCTAATA
1 ATTTTTATA
*
104850058 ATTTTTTTA
1 ATTTTTATA
*
104850067 ATATTTA-A
1 ATTTTTATA
*
104850075 TATTTTAAATA
1 -ATTTT-TATA
104850086 ATTTTTATTA
1 ATTTTTA-TA
104850096 A-TTTTATA
1 ATTTTTATA
** *
104850104 GCTTTTATT
1 ATTTTTATA
104850113 ATTTATTATA
1 ATTT-TTATA
104850123 ATTTTTATA
1 ATTTTTATA
*
104850132 TTTTTTATA
1 ATTTTTATA
*
104850141 ATATTTATA
1 ATTTTTATA
104850150 AGTTTTTATA
1 A-TTTTTATA
*
104850160 CTATTTTATA
1 AT-TTTTATA
*
104850170 ATTTTAATA
1 ATTTTTATA
*
104850179 AGTTTATATCA
1 A-TTTTTAT-A
*
104850190 ATTTTAAT-
1 ATTTTTATA
104850198 ATTTTTAT
1 ATTTTTAT
104850206 TTTTATAATA
Statistics
Matches: 168, Mismatches: 40, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
8 24 0.14
9 68 0.40
10 65 0.39
11 9 0.05
12 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:104850148 original size:37 final size:37
Alignment explanation
Indices: 104850058--104850218 Score: 101
Period size: 37 Copynumber: 4.4 Consensus size: 37
104850048 AATTCTAATA
*
104850058 ATTTTTT-TAATATTTAATA-TTTTA-AATAATTTT-T
1 ATTTTTTATAATATTTATTATTTTTATAAT-ATTTTAT
*
104850092 ATTAATTTTATAGCT-TTTATTATTTATTATAAT-TTTTAT
1 ATT--TTTTATA-ATATTTATTATTT-TTATAATATTTTAT
* *
104850131 ATTTTTTATAATATTTATAAGTTTTTATACTATTTTAT
1 ATTTTTTATAATATTTATTA-TTTTTATAATATTTTAT
* * * *
104850169 AATTTTAATAA-GTTTA-TATCAATTT-TAATATTTT-T
1 ATTTTTTATAATATTTATTAT--TTTTATAATATTTTAT
104850204 A-TTTTTATAATATTT
1 ATTTTTTATAATATTT
104850219 TTTTGAATTT
Statistics
Matches: 100, Mismatches: 13, Indels: 27
0.71 0.09 0.19
Matches are distributed among these distances:
34 11 0.11
35 6 0.06
36 14 0.14
37 34 0.34
38 25 0.25
39 7 0.07
40 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (37 bp):
ATTTTTTATAATATTTATTATTTTTATAATATTTTAT
Found at i:104850167 original size:29 final size:28
Alignment explanation
Indices: 104850118--104850219 Score: 90
Period size: 27 Copynumber: 3.8 Consensus size: 28
104850108 TTATTATTTA
*
104850118 TTATAATTTTTATA-TTTTTTATAATAT
1 TTATAATTTTTATACTATTTTATAATAT
104850145 TTATAAGTTTTTATACTATTTTATAAT-T
1 TTATAA-TTTTTATACTATTTTATAATAT
* *
104850173 TTAATAA-GTTTATA-TCAATTT-TAATAT
1 TT-ATAATTTTTATACT-ATTTTATAATAT
* *
104850200 TT-TTATTTTTATAATATTTT
1 TTATAATTTTTATACTATTTT
104850220 TTTGAATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
25 2 0.03
26 15 0.24
27 20 0.32
28 11 0.18
29 14 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATAATTTTTATACTATTTTATAATAT
Found at i:104850233 original size:19 final size:17
Alignment explanation
Indices: 104850191--104850242 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
104850181 TTTATATCAA
104850191 TTTTAATATTTTTATTT
1 TTTTAATATTTTTATTT
*
104850208 TTATAATATTTTT-TTGAAT
1 TTTTAATATTTTTATT---T
104850227 TTTTAATCATTTTTAT
1 TTTTAAT-ATTTTTAT
104850243 GTGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
19 7 0.25
20 6 0.21
21 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTAATATTTTTATTT
Found at i:104850530 original size:23 final size:24
Alignment explanation
Indices: 104850483--104850531 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
104850473 CTTTCCTCAA
104850483 TTAAAATAAATAATATTAGTTGTCAT
1 TTAAAATAAATAATATTA--TGTCAT
*
104850509 TTAAAATCAATAATATTA-GTCAT
1 TTAAAATAAATAATATTATGTCAT
104850532 CACTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
26 17 0.77
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (24 bp):
TTAAAATAAATAATATTATGTCAT
Found at i:104856617 original size:46 final size:46
Alignment explanation
Indices: 104856562--104856652 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
104856552 TTATTGTAGT
104856562 TTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATCTAG
1 TTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATCTAG
104856608 TTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATCTA
1 TTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATCTA
104856653 CATAAAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (46 bp):
TTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATCTAG
Found at i:104857187 original size:14 final size:16
Alignment explanation
Indices: 104857153--104857193 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
104857143 TTTTGTTGTT
104857153 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
104857169 ATTTTTTTGCT-G-AA
1 TTTTTTTTGCTGGAAA
104857183 TTTTTTTTGCT
1 TTTTTTTTGCT
104857194 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:104857531 original size:60 final size:59
Alignment explanation
Indices: 104857402--104857531 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
104857392 TTCTGGGGCT
** * * * * *
104857402 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATACAATTTAAGGAAAGTTTAAGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGAGTCAAAATAAAAGTTAAGGAAAGTTTAAGGGTCA
* * * *
104857461 AAGTGAAATTTAAAGAAAGTTTAAGAGTCAAAATAAAAGTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGAGTCAAAATAAAAGTTAAGG-AAAGTTTAAGGGTCA
104857521 AAATGTAATTT
1 AAATGTAATTT
104857532 TTATTTTTTG
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
59 20 0.36
60 36 0.64
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGAGTCAAAATAAAAGTTAAGGAAAGTTTAAGGGTCA
Found at i:104859348 original size:4 final size:4
Alignment explanation
Indices: 104859339--104859370 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
104859329 TGGGATATGC
104859339 AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
104859371 CATAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:104863255 original size:17 final size:17
Alignment explanation
Indices: 104863233--104863274 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
104863223 ACAATAATAT
104863233 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
104863250 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
104863267 ATAATATA
1 AAAATATA
104863275 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:104864020 original size:14 final size:14
Alignment explanation
Indices: 104863974--104864013 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
104863964 CTTTTTTGTT
*
104863974 TTTTTTTTGCTGGAA
1 TTTTTTTTGCT-AAA
104863989 TTTTTTTTGCTAAA
1 TTTTTTTTGCTAAA
104864003 TTTTTTTTGCT
1 TTTTTTTTGCT
104864014 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (14 bp):
TTTTTTTTGCTAAA
Found at i:104864291 original size:30 final size:30
Alignment explanation
Indices: 104864236--104864350 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 30
104864226 GTAATTTTTA
* *
104864236 GAAAATTTA-GGGTTAAAAT-ACAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGA-AATTTAAG
** * *
104864265 GAAAGTTTAGGGGTTTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* **
104864295 GAAAGTTTAAGAATCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
104864324 GAAAAGTTTAGGGGTCAAAATGTAAAT
1 G-AAAGTTTAGGGGTCAAAATG-AAAT
104864351 ATTTTTTTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 10 0.15
30 53 0.78
31 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:104864493 original size:3 final size:3
Alignment explanation
Indices: 104864485--104864599 Score: 99
Period size: 3 Copynumber: 37.7 Consensus size: 3
104864475 ATAAACTAAC
*
104864485 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
** * * * * * *
104864530 ACG ATA ATC ATCA ACGA ACA ACA ACA ATA ATA A-A ATA ATA ACA ATA
1 ATA ATA ATA AT-A A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
104864576 ATA TATA ATA ATA ATA ATA ATA AT
1 ATA -ATA ATA ATA ATA ATA ATA AT
104864600 GTAAAGATAG
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.03
3 84 0.89
4 7 0.07
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:104864880 original size:28 final size:28
Alignment explanation
Indices: 104864826--104864880 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
104864816 AAAAGGGAAA
*
104864826 ACAATATAATAATAATAATAGTGGTAAT
1 ACAATATAATAATAATAATAGTCGTAAT
* *
104864854 ACAATAGTAAT-ATACTAATTGTCGTAA
1 ACAATA-TAATAATAATAATAGTCGTAA
104864881 CCATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (28 bp):
ACAATATAATAATAATAATAGTCGTAAT
Found at i:104865985 original size:3 final size:3
Alignment explanation
Indices: 104865935--104865966 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
104865925 GATAACTAAC
104865935 AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
104865967 GAATAAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:104866136 original size:17 final size:18
Alignment explanation
Indices: 104866100--104866136 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
104866090 ATATTTATTG
104866100 AAAATAGTAATAATATAT
1 AAAATAGTAATAATATAT
104866118 AAAA-AGTAACTAATA-AT
1 AAAATAGTAA-TAATATAT
104866135 AA
1 AA
104866137 CGATACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAGTAATAATATAT
Found at i:104866292 original size:24 final size:25
Alignment explanation
Indices: 104866259--104866307 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
104866249 TATACGTAAT
**
104866259 ATATTAAAAAGGTATACATAATATA
1 ATATTAAAAACATATACATAATATA
*
104866284 ATATT-AAAACATTTACATAATATA
1 ATATTAAAAACATATACATAATATA
104866308 TACATGTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAACATATACATAATATA
Found at i:104866430 original size:11 final size:11
Alignment explanation
Indices: 104866414--104866459 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
104866404 TAAAAGTATG
104866414 TACATAATATA
1 TACATAATATA
104866425 TACATAATATA
1 TACATAATATA
** *
104866436 TTGAAAATATA
1 TACATAATATA
104866447 TACATAATATA
1 TACATAATATA
104866458 TA
1 TA
104866460 TAATATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TACATAATATA
Found at i:104867878 original size:9 final size:9
Alignment explanation
Indices: 104867866--104867900 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
104867856 AAAATAGAGA
104867866 TAATAATAG
1 TAATAATAG
*
104867875 TAATAATAA
1 TAATAATAG
104867884 TAATAATAG
1 TAATAATAG
*
104867893 TTATAATA
1 TAATAATA
104867901 ATGAACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (9 bp):
TAATAATAG
Found at i:104871533 original size:38 final size:39
Alignment explanation
Indices: 104871461--104871599 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
104871451 GCTTTGATGA
*
104871461 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
104871500 GCTTCAGTTAGCC-TCTGGGC-TCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* *
104871538 GCTTCAGTTAGCCTTCGAGCTTCCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
104871577 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
104871600 AGATCACGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
38 35 0.39
39 55 0.61
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:104876500 original size:12 final size:13
Alignment explanation
Indices: 104876471--104876499 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104876461 TTTCATTTAA
104876471 TTTTT-ACAATTT
1 TTTTTCACAATTT
104876483 TTTTTCACAATTT
1 TTTTTCACAATTT
104876496 TTTT
1 TTTT
104876500 CCTTACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTCACAATTT
Found at i:104878869 original size:43 final size:42
Alignment explanation
Indices: 104878787--104878879 Score: 96
Period size: 43 Copynumber: 2.2 Consensus size: 42
104878777 GGTTTAGCCT
* * * ** *
104878787 ATAATGCACTTATGTGCCAGTATATTTGCTTCGGTTTGTCCG
1 ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
* *
104878829 ATAATGCACCTCATGTGCTAGTATAATTGATTCTACTTGTCCA
1 ATAATGCA-CTCATGTGCCAGTATAATTGATTCGACTTGTCCA
*
104878872 ATGATGCA
1 ATAATGCA
104878880 TGATGTATGC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
Found at i:104881076 original size:5 final size:5
Alignment explanation
Indices: 104881066--104881090 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104881056 CAAAGATCTA
104881066 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
104881091 TAAACTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:104881111 original size:7 final size:7
Alignment explanation
Indices: 104881085--104881122 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
104881075 TAAAATAAAA
104881085 TAAAA-T
1 TAAAATT
*
104881091 TAAACTT
1 TAAAATT
*
104881098 TAGAATT
1 TAAAATT
104881105 TAAAATT
1 TAAAATT
104881112 TAAAATT
1 TAAAATT
104881119 TAAA
1 TAAA
104881123 CTCTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:104881129 original size:14 final size:14
Alignment explanation
Indices: 104881085--104881131 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
104881075 TAAAATAAAA
104881085 TAAAA-TTAAACTT
1 TAAAATTTAAACTT
* *
104881098 TAGAATTTAAAATT
1 TAAAATTTAAACTT
*
104881112 TAAAATTTAAACTC
1 TAAAATTTAAACTT
104881126 TAAAAT
1 TAAAAT
104881132 AAACTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATTTAAACTT
Found at i:104884150 original size:46 final size:46
Alignment explanation
Indices: 104884098--104884403 Score: 375
Period size: 46 Copynumber: 6.6 Consensus size: 46
104884088 GCTTTTTGAA
* * *
104884098 ATGAAATGTGTAAGACCATCGTTAAAAGATACCATTACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
*
104884144 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* *
104884190 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* * *
104884236 ATGAAATGTGTGAGACCATGGTTGAAAGATACCATGGA-AACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
** * *
104884282 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGA-T
** ** *
104884329 GGGAAATGAATAAGACCATGGTTGAAAGATATCATGGA-AACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
* *
104884375 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
104884404 CACTATGGCA
Statistics
Matches: 231, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.01
46 188 0.81
47 40 0.17
48 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
Found at i:104887568 original size:35 final size:35
Alignment explanation
Indices: 104887523--104887685 Score: 148
Period size: 35 Copynumber: 4.5 Consensus size: 35
104887513 GTACACAATT
*
104887523 GTTGGTTTATCCGACTAGCACTGGGCGCAATTATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
* **
104887558 GTTGGTTTATCCAACTAGCGCTAAGCGCAATTATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
* *
104887593 GTTAGTTTATCCAACTAG-AGCTGGGCCTACAATTATTATC
1 GTTGGTTTATCCAACTAGCA-CTGGG-C-GC-A--ATTATC
* * * * * * *
104887633 GTCGATATATTCAACTAGCACTAGGTGCAAATATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
104887668 GTTGGTTTATCCAACTAG
1 GTTGGTTTATCCAACTAG
104887686 GCTGGGCTCA
Statistics
Matches: 99, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
35 70 0.71
36 1 0.01
37 2 0.02
38 2 0.02
40 23 0.23
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (35 bp):
GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
Found at i:104887724 original size:74 final size:75
Alignment explanation
Indices: 104887565--104887772 Score: 267
Period size: 74 Copynumber: 2.8 Consensus size: 75
104887555 ATCGTTGGTT
* * * * *
104887565 TATCCAACTAGCGCTAAGCGCAATTATCGTTAGTTTATCCAACTAGAGCTGGGC-CTACAATTAT
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTC-ACAATTAT
*
104887629 TATCGTCGATA
65 TATCATCGATA
*
104887640 TATTCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAG-GCTGGGCTCACAATTATT
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
*
104887704 ATCATCGGTA
66 ATCATCGATA
* * * * * *
104887714 TATCCGACTAGTACTGGGTGCAAATATTGCTGGTTTATCCAACTAGAGTTGGGCTCACA
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
104887773 TTCAATATCG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
74 64 0.55
75 52 0.45
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (75 bp):
TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
ATCATCGATA
Found at i:104887759 original size:35 final size:34
Alignment explanation
Indices: 104887644--104887760 Score: 92
Period size: 35 Copynumber: 3.2 Consensus size: 34
104887634 TCGATATATT
* * *
104887644 CAACTAGCACTAGGTGCAAATATCGTTGGTTTATC
1 CAACTAG-ACTGGGTGCAAATATTGCTGGTTTATC
* * *
104887679 CAACTAGGCTGGGCT-CACAATTATTATCATCGGTATATC
1 CAACTAGACTGGG-TGCA-AA-TATT-GC-T-GGTTTATC
*
104887718 CGACTAGTACTGGGTGCAAATATTGCTGGTTTATC
1 CAACTAG-ACTGGGTGCAAATATTGCTGGTTTATC
104887753 CAACTAGA
1 CAACTAGA
104887761 GTTGGGCTCA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
34 7 0.11
35 23 0.37
36 4 0.06
37 1 0.02
38 5 0.08
39 16 0.25
40 7 0.11
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (34 bp):
CAACTAGACTGGGTGCAAATATTGCTGGTTTATC
Done.