Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 148 of 253
Found at i:47383361 original size:24 final size:25
Alignment explanation
Indices: 47383279--47383361 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
47383269 AGGAAGTGCT
* *
47383279 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
47383303 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
* *
47383328 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
47383352 AAAAGAGGCT
1 AAAAGAGGCT
47383362 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:47383623 original size:31 final size:30
Alignment explanation
Indices: 47383568--47383650 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
47383558 CGCTTACAGT
*
47383568 AAAGGCTTCGG-CTAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
47383598 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
47383629 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
47383651 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 16 0.32
31 34 0.68
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTTATGA
Found at i:47383748 original size:33 final size:33
Alignment explanation
Indices: 47383656--47383749 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
47383646 ATATGTCGAG
*
47383656 ACTGAATTAGGGCTTAGGCCCATATTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAGATTG-TACTGTT
* **
47383691 --T--A-AGGGCTAAGGCCCAGACCGTACTGTT
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
*
47383719 ACTGAATAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTG
47383750 ACACTGTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
28 7 0.15
29 15 0.33
30 1 0.02
31 1 0.02
32 1 0.02
33 21 0.46
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
Found at i:47389763 original size:46 final size:49
Alignment explanation
Indices: 47389693--47389812 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 49
47389683 GAGTCGATGA
* *
47389693 CATGTTCCAAACATGGTCTTACACTGA-CTA-TCATCTC-ATAGCCGACG-
1 CATGTCCCAGACATGGTCTTACACTGAGC-ACTCATCTCAATA-CCGACGC
* * *
47389740 CATGTCCCAGACAT-GTCTTACACT-AGCACTCGTCTCAATACTGATGC
1 CATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCAATACCGACGC
47389787 CATGTCCCAGACATGGTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
47389813 GTTCTCATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
45 2 0.03
46 21 0.34
47 29 0.47
48 10 0.16
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCAATACCGACGC
Found at i:47395314 original size:14 final size:14
Alignment explanation
Indices: 47395291--47395326 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
47395281 ATCAAACGAT
47395291 AAAA-TTTCTTAAC
1 AAAATTTTCTTAAC
47395304 AAAATTTTCTTAAC
1 AAAATTTTCTTAAC
47395318 AAAATTTTC
1 AAAATTTTC
47395327 ACACAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTTCTTAAC
Found at i:47400838 original size:41 final size:42
Alignment explanation
Indices: 47400793--47400887 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 42
47400783 ACGGCTTGTG
47400793 ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCA-ACC
1 ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCAGACC
* * *
47400834 ACACGGGCGTGTTTTTGGCCATGTGAGACACACGGGCAGGCC
1 ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCAGACC
*
47400876 ACATGGGCGTGT
1 ACACGGGCGTGT
47400888 GTCCCCTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.73
42 13 0.27
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.19
Consensus pattern (42 bp):
ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCAGACC
Found at i:47409731 original size:25 final size:25
Alignment explanation
Indices: 47409703--47409750 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47409693 GTTTTCACAG
47409703 TATAATACCTACAATAGTTTCAGAA
1 TATAATACCTACAATAGTTTCAGAA
* * * *
47409728 TATACTATCTACAGTATTTTCAG
1 TATAATACCTACAATAGTTTCAG
47409751 TTTAAACTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (25 bp):
TATAATACCTACAATAGTTTCAGAA
Found at i:47418368 original size:40 final size:40
Alignment explanation
Indices: 47418313--47418493 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
47418303 TATTCTAATG
* *
47418313 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
47418353 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
47418393 CTATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
47418433 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
47418473 ATATCC-GGCTAA-TCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
47418494 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
38 8 0.06
39 6 0.05
40 112 0.87
41 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:47425208 original size:21 final size:21
Alignment explanation
Indices: 47425184--47425250 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
47425174 TACACGACCG
*
47425184 TGTGACTGAAGCACATGCCTA
1 TGTGACTGAAGAACATGCCTA
* * ** *
47425205 TGTGATTGAGGAACACACCTG
1 TGTGACTGAAGAACATGCCTA
*
47425226 TGTGACTGAAGGACATGACC-A
1 TGTGACTGAAGAACATG-CCTA
47425247 TGTG
1 TGTG
47425251 GGTAGACCGT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (21 bp):
TGTGACTGAAGAACATGCCTA
Found at i:47428125 original size:22 final size:22
Alignment explanation
Indices: 47428098--47428152 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
47428088 CTGTTTCCAA
*
47428098 CATTATTTCTTATGAAAAATGT
1 CATTATTTCATATGAAAAATGT
47428120 CATTATTTCATATGAAAAATGT
1 CATTATTTCATATGAAAAATGT
47428142 CATTATTTCAT
1 CATTATTTCAT
47428153 TTAGATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (22 bp):
CATTATTTCATATGAAAAATGT
Found at i:47431719 original size:46 final size:47
Alignment explanation
Indices: 47431613--47431734 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
47431603 TGTTTTCGAC
** * *
47431613 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
47431663 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
47431709 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
47431735 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:47436130 original size:40 final size:40
Alignment explanation
Indices: 47436073--47436260 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
47436063 AATTATTGTG
*
47436073 TGAATGCACATACGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * * *
47436113 TGAATACACATATGTGCCCCTATTTGTACTTCGGTACCCT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * *
47436153 TAAATGCACATACGCGCCCTTGTTTGTACTTCTGTGCCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* *
47436193 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
47436233 TGAATGCACATAAGTGCCCCTGATTGTA
1 TGAATGCACATACGTGCCCTTGTTTGTA
47436261 TTATGGTACC
Statistics
Matches: 123, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:47436260 original size:80 final size:80
Alignment explanation
Indices: 47436073--47436260 Score: 286
Period size: 80 Copynumber: 2.4 Consensus size: 80
47436063 AATTATTGTG
*
47436073 TGAATGCACATACGTGCCCTTGTTTGTACTTCAGTACCCCTGAATACACATATGTGCCCCTATTT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCAGTACCCCTGAATACACATACGTGCCCCTATTT
47436138 GTACTTCGGTACCCT
66 GTACTTCGGTACCCT
* * * * * *
47436153 TAAATGCACATACGCGCCCTTGTTTGTACTTCTGTGCCCCTGAATGCACATACGTGCCCTTATTT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCAGTACCCCTGAATACACATACGTGCCCCTATTT
47436218 GTACTTCGGTACCCT
66 GTACTTCGGTACCCT
* * *
47436233 TGAATGCACATAAGTGCCCCTGATTGTA
1 TGAATGCACATACGTGCCCTTGTTTGTA
47436261 TTATGGTACC
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 96 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCTTGTTTGTACTTCAGTACCCCTGAATACACATACGTGCCCCTATTT
GTACTTCGGTACCCT
Found at i:47436815 original size:16 final size:16
Alignment explanation
Indices: 47436796--47436835 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47436786 TAATGGTTAG
47436796 ATGACATAAATGCATA
1 ATGACATAAATGCATA
* *
47436812 ATGACATTATTGCATA
1 ATGACATAAATGCATA
47436828 ATGACATA
1 ATGACATA
47436836 TTGGTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
ATGACATAAATGCATA
Found at i:47437862 original size:36 final size:36
Alignment explanation
Indices: 47437806--47437878 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
47437796 CTTGGCCCAT
* * *
47437806 TGCAGTAACAATAAATAGTGCAGTAACAGTAATCAG
1 TGCAATAACAATAAACAGTGCAGTAACAGTAAGCAG
*
47437842 TGCAATAACATTAAACAGTGCAGTAACAGTAAGCAG
1 TGCAATAACAATAAACAGTGCAGTAACAGTAAGCAG
47437878 T
1 T
47437879 ATGCAAGTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (36 bp):
TGCAATAACAATAAACAGTGCAGTAACAGTAAGCAG
Found at i:47437878 original size:18 final size:18
Alignment explanation
Indices: 47437806--47437878 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
47437796 CTTGGCCCAT
* *
47437806 TGCAGTAACAATAAATAG
1 TGCAGTAACAGTAAACAG
*
47437824 TGCAGTAACAGTAATCAG
1 TGCAGTAACAGTAAACAG
* *
47437842 TGCAATAACATTAAACAG
1 TGCAGTAACAGTAAACAG
*
47437860 TGCAGTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
47437878 T
1 T
47437879 ATGCAAGTCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:47438281 original size:27 final size:27
Alignment explanation
Indices: 47438203--47438441 Score: 155
Period size: 27 Copynumber: 9.0 Consensus size: 27
47438193 GAGCATACAT
* ** *
47438203 CACAT-AGGAGCAAAACAGTCATCCTAC
1 CACATAAGG-GCAAAACAATCATTTTAA
* ** *
47438230 CACATAA-AGCAAAACTGTCAATTTAA
1 CACATAAGGGCAAAACAATCATTTTAA
* *
47438256 CACATAAGGGCAAAACAATAATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAA
* *** *
47438283 CACATAAGGTCAAAATTGTCATTTTAT
1 CACATAAGGGCAAAACAATCATTTTAA
* ** * * *
47438310 CACATAAGGGAAAAACTGTTAATGTAA
1 CACATAAGGGCAAAACAATCATTTTAA
* * * **
47438337 CATATAAGGGCAAAATAGTCATTTTTC
1 CACATAAGGGCAAAACAATCATTTTAA
* *
47438364 CACATAAGGGCAAAACCATCATTTTAT
1 CACATAAGGGCAAAACAATCATTTTAA
47438391 CAC--AAGGGCAAAATC-ATCATTTTAA
1 CACATAAGGGCAAAA-CAATCATTTTAA
* *
47438416 CACATAAGGGCAAAATATTCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
47438442 CCTTACAAGA
Statistics
Matches: 163, Mismatches: 43, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
25 22 0.13
26 21 0.13
27 119 0.73
28 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAA
Found at i:47438317 original size:54 final size:54
Alignment explanation
Indices: 47438201--47438430 Score: 193
Period size: 54 Copynumber: 4.3 Consensus size: 54
47438191 TAGAGCATAC
* * ** * * *
47438201 ATCACAT-AGGAGCAAAACAGTCATCCTACCACATAA-AGCAAAACTGTCAATTT
1 ATCACATAAGG-GCAAAACAATAATTTTACCACATAAGGGCAAAATTGTCATTTT
* *
47438254 AACACATAAGGGCAAAACAATAATTTTACCACATAAGGTCAAAATTGTCATTTT
1 ATCACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAATTGTCATTTT
* ** * * * *
47438308 ATCACATAAGGGAAAAACTGTTAA-TGTAACATATAAGGGCAAAATAGTCATTTT
1 ATCACATAAGGGCAAAAC-AATAATTTTACCACATAAGGGCAAAATTGTCATTTT
* * * **
47438362 -TCCACATAAGGGCAAAACCATCATTTTATCAC--AAGGGCAAAATCATCATTTT
1 AT-CACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAATTGTCATTTT
*
47438414 AACACATAAGGGCAAAA
1 ATCACATAAGGGCAAAA
47438431 TATTCATTTT
Statistics
Matches: 143, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
52 33 0.23
53 30 0.21
54 77 0.54
55 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (54 bp):
ATCACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAATTGTCATTTT
Found at i:47438349 original size:81 final size:81
Alignment explanation
Indices: 47438240--47438430 Score: 217
Period size: 81 Copynumber: 2.4 Consensus size: 81
47438230 CACATAAAGC
* * ***
47438240 AAAACTGTCAATTTAACACATAAGGGCAAAACAATAATTTTACCACATAAGGTCAAAATTGTCAT
1 AAAACTGTCAATGTAACACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAACCATCAT
47438305 TTTATCACATAAGGGA
66 TTTATCACATAAGGGA
* * * * * *
47438321 AAAACTGTTAATGTAACATATAAGGGCAAAATAGTCATTTTTCCACATAAGGGCAAAACCATCAT
1 AAAACTGTCAATGTAACACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAACCATCAT
*
47438386 TTTATCAC--AAGGGC
66 TTTATCACATAAGGGA
* * *
47438400 AAAA-TCATCATTTTAACACATAAGGGCAAAA
1 AAAACT-GTCAATGTAACACATAAGGGCAAAA
47438431 TATTCATTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 29 0.32
81 62 0.67
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (81 bp):
AAAACTGTCAATGTAACACATAAGGGCAAAACAATAATTTTACCACATAAGGGCAAAACCATCAT
TTTATCACATAAGGGA
Found at i:47438482 original size:27 final size:27
Alignment explanation
Indices: 47438452--47438534 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
47438442 CCTTACAAGA
* *
47438452 GTATTACAGCCGTTTTACCCTATAGGG
1 GTATTAAAGCCATTTTACCCTATAGGG
* *
47438479 GTATTAAAGTCATTTTACCCTATGGGG
1 GTATTAAAGCCATTTTACCCTATAGGG
* * * * *
47438506 GTATTTAGGTCATTTTACCTTATGGGG
1 GTATTAAAGCCATTTTACCCTATAGGG
47438533 GT
1 GT
47438535 TTTTCGGTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (27 bp):
GTATTAAAGCCATTTTACCCTATAGGG
Found at i:47438510 original size:54 final size:53
Alignment explanation
Indices: 47438452--47438564 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 53
47438442 CCTTACAAGA
*
47438452 GTATTACAGCCGTTTTACCCTATAGGGGTATTAAAGTCATTTTACCCTATGGGG
1 GTATTA-AGCCATTTTACCCTATAGGGGTATTAAAGTCATTTTACCCTATGGGG
* * * * * *** *
47438506 GTATTTAGGTCATTTTACCTTATGGGGGTTTTTCGGTCATTTTATCCTATGGGG
1 GTA-TTAAGCCATTTTACCCTATAGGGGTATTAAAGTCATTTTACCCTATGGGG
47438560 GTATT
1 GTATT
47438565 TCAGTCATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
53 2 0.04
54 43 0.90
55 3 0.06
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (53 bp):
GTATTAAGCCATTTTACCCTATAGGGGTATTAAAGTCATTTTACCCTATGGGG
Found at i:47438543 original size:27 final size:26
Alignment explanation
Indices: 47438464--47438573 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 26
47438454 ATTACAGCCG
* ***
47438464 TTTTACCCTATAGGGGTATTAAAGTCA
1 TTTTA-CCTATGGGGGTATTTCGGTCA
*
47438491 TTTTACCCTATGGGGGTATTTAGGTCA
1 TTTTA-CCTATGGGGGTATTTCGGTCA
*
47438518 TTTTACCTTATGGGGGTTTTTCGGTCA
1 TTTTACC-TATGGGGGTATTTCGGTCA
*
47438545 TTTTATCCTATGGGGGTATTTCAGTCA
1 TTTTA-CCTATGGGGGTATTTCGGTCA
47438572 TT
1 TT
47438574 ATTTCGTCCC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 70 0.95
28 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.44
Consensus pattern (26 bp):
TTTTACCTATGGGGGTATTTCGGTCA
Found at i:47440247 original size:11 final size:10
Alignment explanation
Indices: 47440219--47440253 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
47440209 GTGACCCTTG
47440219 TTTTCAAATT
1 TTTTCAAATT
47440229 TTTTCAAATT
1 TTTTCAAATT
47440239 TTTTCCAAATT
1 TTTT-CAAATT
47440250 TTTT
1 TTTT
47440254 GATTTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTCAAATT
Found at i:47440834 original size:26 final size:26
Alignment explanation
Indices: 47440805--47440854 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47440795 CATAGTTATA
* *
47440805 AGAGCTTCGAATTGATTTGCCTAATG
1 AGAGCTTCAAATTGAATTGCCTAATG
47440831 AGAGCTTCAAATTGAATTGCCTAA
1 AGAGCTTCAAATTGAATTGCCTAA
47440855 GTATATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (26 bp):
AGAGCTTCAAATTGAATTGCCTAATG
Found at i:47450906 original size:42 final size:42
Alignment explanation
Indices: 47450802--47450958 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
47450792 AAATCTCATA
* *
47450802 CAATGCCAACATCCCAGACATGGTCTTACATGTAATCAAATAT
1 CAATGCCAATAT-CCAGACATGGTCTTACATGAAATCAAATAT
* * *
47450845 CAATGCCACTATCCTAGACAGGGTCTTACATGAAATCATATA-
1 CAATGCCAATATCC-AGACATGGTCTTACATGAAATCAAATAT
* * * *
47450887 CGATGCCAATGTTCCAGACATGGTTTTACACAT-AACTCACAA-AT
1 CAATGCCAAT-ATCCAGACATGGTCTT--ACATGAAATCA-AATAT
* * *
47450931 CGATGCCAACATCC-CACATGGTCTTACA
1 CAATGCCAATATCCAGACATGGTCTTACA
47450959 CGATAACACA
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.03
42 29 0.32
43 46 0.50
44 14 0.15
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.25
Consensus pattern (42 bp):
CAATGCCAATATCCAGACATGGTCTTACATGAAATCAAATAT
Found at i:47456795 original size:18 final size:19
Alignment explanation
Indices: 47456747--47456796 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
47456737 CCAAGTTACC
47456747 GAAATTTCAAAAATGTAAA
1 GAAATTTCAAAAATGTAAA
47456766 GAAATTTCAAAAATGTAAA
1 GAAATTTCAAAAATGTAAA
*
47456785 GAACTTT-AAAAA
1 GAAATTTCAAAAA
47456797 CGGGGCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (19 bp):
GAAATTTCAAAAATGTAAA
Found at i:47458459 original size:22 final size:23
Alignment explanation
Indices: 47458423--47458466 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
47458413 AAGTGAATGG
47458423 AGTTATATTGAATTAAAAATATAT
1 AGTTATATTGAATT-AAAATATAT
47458447 AGTTA-ATT-AATTAAAATATA
1 AGTTATATTGAATTAAAATATA
47458467 CCCTATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 3 0.15
24 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
AGTTATATTGAATTAAAATATAT
Found at i:47458847 original size:19 final size:18
Alignment explanation
Indices: 47458825--47458876 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
47458815 AAAGATTGAC
47458825 TGTTACTGAATAATTTAAT
1 TGTTACT-AATAATTTAAT
*
47458844 TGTTACT-ATATATCTAAT
1 TGTTACTAATA-ATTTAAT
*
47458862 TTTTACTAAATAATT
1 TGTTACT-AATAATT
47458877 GACTGTTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
19 9 0.33
20 3 0.11
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (18 bp):
TGTTACTAATAATTTAAT
Found at i:47458912 original size:26 final size:26
Alignment explanation
Indices: 47458873--47458923 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47458863 TTTACTAAAT
* *
47458873 AATTGACTGTTACTGGATAACTGATC
1 AATTGACTGATACTGAATAACTGATC
*
47458899 AATTGATTGATACTGAATAACTGAT
1 AATTGACTGATACTGAATAACTGAT
47458924 TATTATTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (26 bp):
AATTGACTGATACTGAATAACTGATC
Found at i:47458979 original size:18 final size:18
Alignment explanation
Indices: 47458899--47459006 Score: 110
Period size: 18 Copynumber: 6.1 Consensus size: 18
47458889 ATAACTGATC
*
47458899 AATTGATTGATACTGAAT
1 AATTGATTGTTACTGAAT
* * *
47458917 AACTGATTATTATTGAAT
1 AATTGATTGTTACTGAAT
* *
47458935 AATTGTTTGTTACCGAAT
1 AATTGATTGTTACTGAAT
47458953 AATTGATTGTTACTGAAT
1 AATTGATTGTTACTGAAT
* * *
47458971 AAATAATTGTT-CTGATT
1 AATTGATTGTTACTGAAT
* *
47458988 GATTGATTGTTAATGAAT
1 AATTGATTGTTACTGAAT
47459006 A
1 A
47459007 TTACTGATTG
Statistics
Matches: 69, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
17 13 0.19
18 56 0.81
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.44
Consensus pattern (18 bp):
AATTGATTGTTACTGAAT
Found at i:47460180 original size:16 final size:16
Alignment explanation
Indices: 47460155--47460186 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47460145 AGGGGGCAAA
47460155 AATGTAATTTTTGGAT
1 AATGTAATTTTTGGAT
*
47460171 AATGTGATTTTTGGAT
1 AATGTAATTTTTGGAT
47460187 TAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (16 bp):
AATGTAATTTTTGGAT
Found at i:47463979 original size:28 final size:28
Alignment explanation
Indices: 47463948--47464003 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47463938 CCTAATCAGA
47463948 ATGGTGGTTTTGGGACCACAAATCTGAG
1 ATGGTGGTTTTGGGACCACAAATCTGAG
47463976 ATGGTGGTTTTGGGACCACAAATCTGAG
1 ATGGTGGTTTTGGGACCACAAATCTGAG
47464004 TCAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
ATGGTGGTTTTGGGACCACAAATCTGAG
Found at i:47470416 original size:27 final size:27
Alignment explanation
Indices: 47470325--47470423 Score: 162
Period size: 27 Copynumber: 3.7 Consensus size: 27
47470315 GGGGTCAAAT
* *
47470325 AGTCATTTTAGCACATAAGGGCAAAAC
1 AGTCATTTTACCTCATAAGGGCAAAAC
*
47470352 AGTCATTTTACCTTATAAGGGCAAAAC
1 AGTCATTTTACCTCATAAGGGCAAAAC
*
47470379 AATCATTTTACCTCATAAGGGCAAAAC
1 AGTCATTTTACCTCATAAGGGCAAAAC
47470406 AGTCATTTTACCTCATAA
1 AGTCATTTTACCTCATAA
47470424 TGATTCCCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (27 bp):
AGTCATTTTACCTCATAAGGGCAAAAC
Found at i:47474340 original size:57 final size:57
Alignment explanation
Indices: 47474245--47474385 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 57
47474235 CGTATTACAT
** * *
47474245 GATTACCAGTCCAGGTTAAATCCTTTATGTAACCTATGCTC-AGAAGAGCTTA-ATTAG
1 GATTACCAGTCCAGACTAAATCCTTTA-GTAACATATGCTCGAG-AGAGATTATATTAG
*
47474302 GATTACCAGTCCAGACTAAATCCTAGTTA-TAACATATGCTCGAGAGGGATTATATTAG
1 GATTACCAGTCCAGACTAAATCCT--TTAGTAACATATGCTCGAGAGAGATTATATTAG
* ** *
47474360 GATTACCCGTCTGGGCTAAATCCTTT
1 GATTACCAGTCCAGACTAAATCCTTT
47474386 CTATAATGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 2 0.03
57 39 0.55
58 27 0.38
59 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (57 bp):
GATTACCAGTCCAGACTAAATCCTTTAGTAACATATGCTCGAGAGAGATTATATTAG
Found at i:47476296 original size:30 final size:30
Alignment explanation
Indices: 47476234--47476386 Score: 97
Period size: 29 Copynumber: 5.2 Consensus size: 30
47476224 AAGTCACCAT
* *
47476234 AAAGGC-TTTCTCTA-A-AGAGGTTTGCTAC
1 AAAGGCTTTTC-CTATACAGAGGATTGCCAC
* *
47476262 AAAGGCTTTTCCT-TGATAG-GGAATTTCCAC
1 AAAGGCTTTTCCTAT-ACAGAGG-ATTGCCAC
47476292 AAAGGCTTTT-CTATACAGAGGATTGCCAC
1 AAAGGCTTTTCCTATACAGAGGATTGCCAC
* * * *
47476321 AAAGGCTTTT-CTGTACAGAAGTTTTCCAC
1 AAAGGCTTTTCCTATACAGAGGATTGCCAC
** * * *
47476350 AAAGGAATTTCCTTTATAGA-GATTTGTCAC
1 AAAGGCTTTTCCTATACAGAGGA-TTGCCAC
47476380 AAAGGCT
1 AAAGGCT
47476387 CTTCTTTTTA
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
28 8 0.08
29 53 0.54
30 37 0.38
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (30 bp):
AAAGGCTTTTCCTATACAGAGGATTGCCAC
Found at i:47476329 original size:29 final size:29
Alignment explanation
Indices: 47476234--47476354 Score: 106
Period size: 29 Copynumber: 4.2 Consensus size: 29
47476224 AAGTCACCAT
* *
47476234 AAAGGCTTTCTCTA-A-AGAGGTTTGCTAC
1 AAAGGCTTT-TCTATACAGAGGATTGCCAC
* *
47476262 AAAGGCTTTTCCT-TGATAG-GGAATTTCCAC
1 AAAGGCTTTT-CTAT-ACAGAGG-ATTGCCAC
47476292 AAAGGCTTTTCTATACAGAGGATTGCCAC
1 AAAGGCTTTTCTATACAGAGGATTGCCAC
* * * *
47476321 AAAGGCTTTTCTGTACAGAAGTTTTCCAC
1 AAAGGCTTTTCTATACAGAGGATTGCCAC
47476350 AAAGG
1 AAAGG
47476355 AATTTCCTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
27 1 0.01
28 11 0.14
29 45 0.58
30 20 0.26
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAGGCTTTTCTATACAGAGGATTGCCAC
Found at i:47476351 original size:58 final size:58
Alignment explanation
Indices: 47476234--47476354 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 58
47476224 AAGTCACCAT
* * **
47476234 AAAGGCTTTCTCTAAAGAGGTTTGCTACAAAGGCTTTTCCTTGATAGGGAATTTCCAC
1 AAAGGCTTTCTCTAAAGAGGATTGCCACAAAGGCTTTTCCTTGATACAGAATTTCCAC
47476292 AAAGGCTTT-TCTATACAGAGGATTGCCACAAAGGCTTTT-C-TG-TACAGAAGTTTTCCAC
1 AAAGGCTTTCTCTA-A-AGAGGATTGCCACAAAGGCTTTTCCTTGATACAGAA--TTTCCAC
47476350 AAAGG
1 AAAGG
47476355 AATTTCCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
56 5 0.09
57 6 0.11
58 23 0.42
59 21 0.38
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (58 bp):
AAAGGCTTTCTCTAAAGAGGATTGCCACAAAGGCTTTTCCTTGATACAGAATTTCCAC
Found at i:47476417 original size:31 final size:31
Alignment explanation
Indices: 47476362--47476425 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
47476352 AGGAATTTCC
* *
47476362 TTTATAGAGATTTGTCACAAAGGCTCTTCTT
1 TTTATAAAGATTTGCCACAAAGGCTCTTCTT
* * *
47476393 TTTATAAAGGTTTGCCACACAGGCTTTTCTT
1 TTTATAAAGATTTGCCACAAAGGCTCTTCTT
47476424 TT
1 TT
47476426 AGGTATGCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (31 bp):
TTTATAAAGATTTGCCACAAAGGCTCTTCTT
Found at i:47477066 original size:26 final size:26
Alignment explanation
Indices: 47477036--47477093 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
47477026 TAATTCATAC
47477036 ATTTCTCATTAGAATCATCATATCAT
1 ATTTCTCATTAGAATCATCATATCAT
47477062 ATTTCTCATTAGAATCATCATATCAT
1 ATTTCTCATTAGAATCATCATATCAT
47477088 ACTTTC
1 A-TTTC
47477094 CTAGCCTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (26 bp):
ATTTCTCATTAGAATCATCATATCAT
Found at i:47477745 original size:15 final size:15
Alignment explanation
Indices: 47477725--47477753 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47477715 CCATAAGAAG
47477725 TAATTTTGAATTAAA
1 TAATTTTGAATTAAA
47477740 TAATTTTGAATTAA
1 TAATTTTGAATTAA
47477754 CAATATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
TAATTTTGAATTAAA
Found at i:47478476 original size:5 final size:5
Alignment explanation
Indices: 47478466--47478504 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
47478456 TAGATTTAAT
47478466 ATTTA ATTTA ATTTA ATTTAA TATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTT-A -ATTTA ATTTA ATTTA AT
47478505 ATTTATCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:47478479 original size:17 final size:17
Alignment explanation
Indices: 47478471--47478509 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
47478461 TTAATATTTA
47478471 ATTTAATTTAATTTAAT
1 ATTTAATTTAATTTAAT
47478488 ATTTAATTTAATTTAAT
1 ATTTAATTTAATTTAAT
47478505 ATTTA
1 ATTTA
47478510 TCTTAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAATTTAATTTAAT
Found at i:47478484 original size:22 final size:22
Alignment explanation
Indices: 47478459--47478504 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47478449 ATTTTAATAG
47478459 ATTTAATATTTAATTTAATTTA
1 ATTTAATATTTAATTTAATTTA
47478481 ATTTAATATTTAATTTAATTTA
1 ATTTAATATTTAATTTAATTTA
47478503 AT
1 AT
47478505 ATTTATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTAATATTTAATTTAATTTA
Found at i:47478515 original size:17 final size:16
Alignment explanation
Indices: 47478466--47478516 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
47478456 TAGATTTAAT
*
47478466 ATTTAAT-TTAATTTA
1 ATTTAATATTTATTTA
47478481 ATTTAATATTTAATTTA
1 ATTTAATATTT-ATTTA
47478498 ATTTAATATTTATCTTA
1 ATTTAATATTTAT-TTA
47478515 AT
1 AT
47478517 AGTATTTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 21 0.66
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:47478523 original size:22 final size:20
Alignment explanation
Indices: 47478451--47478523 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 20
47478441 ATAATACTAT
47478451 TTTAATAGATTTAATATTTAA
1 TTTAATAGATTTAATATTT-A
47478472 TTTAATTTA-ATTTAATATTTA
1 TTTAA--TAGATTTAATATTTA
*
47478493 ATT--TA-ATTTAATATTTA
1 TTTAATAGATTTAATATTTA
47478510 TCTTAATAGTATTT
1 T-TTAATAG-ATTT
47478524 TGTTAATTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
17 14 0.33
18 2 0.05
20 2 0.05
21 8 0.19
22 15 0.35
23 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTAATAGATTTAATATTTA
Found at i:47492341 original size:25 final size:27
Alignment explanation
Indices: 47492307--47492366 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
47492297 AAAACTTCAA
* *
47492307 TTCCTCCTTTTCTTT-CTTTCTCT-TT
1 TTCCTTCTTTTCTTTCCCTTCTCTGTT
47492332 TTCCTTC-TTTCTTTCCCTTCTCTGTT
1 TTCCTTCTTTTCTTTCCCTTCTCTGTT
*
47492358 TTCGTTCTT
1 TTCCTTCTT
47492367 CATTCTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.24
25 13 0.45
26 8 0.28
27 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (27 bp):
TTCCTTCTTTTCTTTCCCTTCTCTGTT
Found at i:47492703 original size:21 final size:21
Alignment explanation
Indices: 47492679--47492725 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47492669 AATATCTTAT
*
47492679 AATATAATTATTTAATTAATA
1 AATATAATTATTTAACTAATA
** *
47492700 AATATCTTTTTTTAACTAATA
1 AATATAATTATTTAACTAATA
47492721 AATAT
1 AATAT
47492726 CTATTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAATTATTTAACTAATA
Found at i:47496545 original size:48 final size:49
Alignment explanation
Indices: 47496504--47496678 Score: 196
Period size: 48 Copynumber: 3.6 Consensus size: 49
47496494 ATATTGGTGT
* *
47496504 CGATGCCATGTATCAGACATGGTCTTACACTTGCACACATA-TCATCAC
1 CGATGCCATGTACCAGACATGGTCTTACACTGGCACACATATTCATCAC
* *
47496552 CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATA-TCAAT-AC
1 CGATGCCATGTACCAGACATGGTCTTACACTGGCACACATATTC-ATCAC
* * * * * * *
47496600 CGAAGCCATGTCCCAAACATGGTCATACACTGGCATACATA-TCAACGC
1 CGATGCCATGTACCAGACATGGTCTTACACTGGCACACATATTCATCAC
* *
47496648 CAATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTACCAGACATGGTCTTACACT
47496679 AGATCTCACT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 109 0.97
49 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (49 bp):
CGATGCCATGTACCAGACATGGTCTTACACTGGCACACATATTCATCAC
Found at i:47509334 original size:40 final size:40
Alignment explanation
Indices: 47509290--47509417 Score: 202
Period size: 40 Copynumber: 3.1 Consensus size: 40
47509280 TTAAGTCCGG
* * *
47509290 ATATAGTACCAGCACTAAGCCTGCGAGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
*
47509332 ATATATTACCAACACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
47509372 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
47509412 ATATAT
1 ATATAT
47509418 GTTATATCGA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 47 0.58
42 34 0.42
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:47509352 original size:42 final size:42
Alignment explanation
Indices: 47509290--47509417 Score: 206
Period size: 42 Copynumber: 3.1 Consensus size: 42
47509280 TTAAGTCCGG
* * *
47509290 ATATAGTACCAGCACTAAGCCTGCGAGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
47509332 ATATATTACCAACACGAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
47509372 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
47509414 ATAT
1 ATAT
47509418 GTTATATCGA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
40 39 0.49
42 40 0.51
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:47527137 original size:24 final size:26
Alignment explanation
Indices: 47527092--47527139 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
47527082 TTATAGAGAG
47527092 AAAATTCTCTGAACAGATTATTTCAA
1 AAAATTCTCTGAACAGATTATTTCAA
47527118 AAAATT-TCT-AA-AGATATATTTC
1 AAAATTCTCTGAACAGAT-TATTTC
47527140 TTAGTTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 8 0.38
25 3 0.14
26 6 0.29
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (26 bp):
AAAATTCTCTGAACAGATTATTTCAA
Found at i:47529687 original size:24 final size:25
Alignment explanation
Indices: 47529660--47529717 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
47529650 GACTCTCCAC
* *
47529660 AAGGGTTTCTAGAGGATTCCT-ACA
1 AAGGCTTTCTAGAGAATTCCTCACA
* *
47529684 AAGGCTTTTTAGAGAATTCGTCACA
1 AAGGCTTTCTAGAGAATTCCTCACA
*
47529709 AAGCCTTTC
1 AAGGCTTTC
47529718 CATGAAATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
AAGGCTTTCTAGAGAATTCCTCACA
Found at i:47533488 original size:27 final size:28
Alignment explanation
Indices: 47533453--47533509 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
47533443 AGGGTAAATT
*
47533453 ATGACTAAATT-TTCGTTTTAATCA-TTA
1 ATGAATAAATTCTT-GTTTTAATCACTTA
*
47533480 ATGAATAAATTCTTGTTTTGATCACTTA
1 ATGAATAAATTCTTGTTTTAATCACTTA
47533508 AT
1 AT
47533510 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (28 bp):
ATGAATAAATTCTTGTTTTAATCACTTA
Found at i:47535976 original size:21 final size:20
Alignment explanation
Indices: 47535907--47535981 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
47535897 TCCTTTCCAC
* *
47535907 TTTGAATAGATTGTTTTGTTA
1 TTTGAATAGATT-CTTTCTTA
* *
47535928 TTTGAATAGATTCATTCTTG
1 TTTGAATAGATTCTTTCTTA
* *
47535948 TTTAAATCGATTCTTCTCTTA
1 TTTGAATAGATTCTT-TCTTA
*
47535969 TTTGAATCGATTC
1 TTTGAATAGATTC
47535982 ATTGTGGTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (20 bp):
TTTGAATAGATTCTTTCTTA
Found at i:47536525 original size:21 final size:21
Alignment explanation
Indices: 47536483--47536536 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
47536473 TATTGCATGC
47536483 TATATATTAT-TTTTTTAATAT
1 TATATATTATATTTTTT-ATAT
47536504 TATATATTATATATTTTT-TAT
1 TATATATTATAT-TTTTTATAT
47536525 TA-AT-TTATATTT
1 TATATATTATATTT
47536537 AAATAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 2 0.06
21 15 0.48
22 1 0.03
23 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATATTATATTTTTTATAT
Found at i:47536611 original size:24 final size:24
Alignment explanation
Indices: 47536559--47536611 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
47536549 TATTAAGAAT
*
47536559 ATTATTAAATTATATATTTTTATT
1 ATTATTAAATTATATATTTTTATA
*
47536583 TTTATTAAATT-T-TATTTTATAATA
1 ATTATTAAATTATATATTTT-T-ATA
47536607 ATTAT
1 ATTAT
47536612 ACTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 6 0.25
23 2 0.08
24 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATTAAATTATATATTTTTATA
Found at i:47536644 original size:62 final size:63
Alignment explanation
Indices: 47536497--47536640 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 63
47536487 TATTATTTTT
* * *
47536497 TTAATATTATATATTATATATTTTTTATTAATTTATATTTAAATAATAATTATATTAAGAATATT
1 TTAA-ATTATATATT-TTTA-TTTTTATTAATTTATATTTAAATAATAATTATACTAAGAATATG
47536562 A
63 A
*
47536563 TTAAATTATATATTTTTATTTTTATTAAATTT-TATTT-TATAATAATTATACTAA-AATATGA
1 TTAAATTATATATTTTTATTTTTATT-AATTTATATTTAAATAATAATTATACTAAGAATATGA
*
47536624 TTAAATTATTTATTTTT
1 TTAAATTATATATTTTT
47536641 TATTAAATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 22 0.31
62 15 0.21
63 13 0.18
64 8 0.11
65 10 0.14
66 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (63 bp):
TTAAATTATATATTTTTATTTTTATTAATTTATATTTAAATAATAATTATACTAAGAATATGA
Found at i:47540347 original size:15 final size:15
Alignment explanation
Indices: 47540327--47540357 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47540317 ATCTAGAAAG
47540327 ATAGGCTAGGCAAAA
1 ATAGGCTAGGCAAAA
47540342 ATAGGCTAGGCAAAA
1 ATAGGCTAGGCAAAA
47540357 A
1 A
47540358 GGATAACCAA
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:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (15 bp):
ATAGGCTAGGCAAAA
Found at i:47540839 original size:39 final size:38
Alignment explanation
Indices: 47540795--47540872 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
47540785 TAAATATATT
* *
47540795 TATATGGATGTAATTGAGATATATTATGTATATATAACA
1 TATATGGATGTAATTGAGATAAATCATGTAT-TATAACA
47540834 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
1 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
47540872 T
1 T
47540873 TTAAGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.22
39 29 0.78
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (38 bp):
TATATGGATGTAATTGAGATAAATCATGTATTATAACA
Found at i:47542033 original size:194 final size:194
Alignment explanation
Indices: 47541685--47542072 Score: 609
Period size: 194 Copynumber: 2.0 Consensus size: 194
47541675 CCTAAGTTTC
* * *
47541685 CATTCGTCCTAATTTGCTACCTGAGTTTGGCTTCAATGTTGACATTGGTACCTAAACCAAATGGC
1 CATTCATCCTAATTTGCTACCTGAGTTTGACTTCAATGTTCACATTGGTACCTAAACCAAATGGC
47541750 ATCATGTAGTCCAACGAGTATTTGATGTATAATCTAGTAAAAAGAATATAGATACTTAATTGGGA
66 ATCATGTAGTCCAACGAGTATTTGATGTATAATCTAGTAAAAAGAATATAGATACTTAATTGGGA
* *
47541815 CCAAAACATTCTCGGATACTAAATAGAACATTGAAGTCAAACTTGGGTACTTGGGAAAAATATT
131 CCAAAACATTCCCGGATACTAAATAGAACATTGAAGTCAAACTTGGGTACTTGAGAAAAATATT
*
47541879 CATTCATCCTAATTTGCTACCTGAGTTTGATTTCAATGTTCA-ATTTGGTACCTAAACCAAATGG
1 CATTCATCCTAATTTGCTACCTGAGTTTGACTTCAATGTTCACA-TTGGTACCTAAACCAAATGG
* * * * *
47541943 CATCATGTGGTCCAACGAGTCTTTGATGTCTAATCTAGTAAAAA-AATTATAGATGCTTACTTGG
65 CATCATGTAGTCCAACGAGTATTTGATGTATAATCTAGTAAAAAGAA-TATAGATACTTAATTGG
* * * *
47542007 GACCATAACTTTCCCGGATTCTAAATAGAACATTGAAGTCAAACTTGGGTGCTTGAGAAAAATAT
129 GACCAAAACATTCCCGGATACTAAATAGAACATTGAAGTCAAACTTGGGTACTTGAGAAAAATAT
47542072 T
194 T
47542073 AGTATCAAAT
Statistics
Matches: 177, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
193 3 0.02
194 174 0.98
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (194 bp):
CATTCATCCTAATTTGCTACCTGAGTTTGACTTCAATGTTCACATTGGTACCTAAACCAAATGGC
ATCATGTAGTCCAACGAGTATTTGATGTATAATCTAGTAAAAAGAATATAGATACTTAATTGGGA
CCAAAACATTCCCGGATACTAAATAGAACATTGAAGTCAAACTTGGGTACTTGAGAAAAATATT
Found at i:47546446 original size:10 final size:10
Alignment explanation
Indices: 47546431--47546476 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
47546421 ATTCTAAAAG
47546431 ATAAATACAA-
1 ATAAATA-AAT
47546441 ATAAATAAAT
1 ATAAATAAAT
*
47546451 ATAATTAAAT
1 ATAAATAAAT
*
47546461 ATAAATAAAA
1 ATAAATAAAT
47546471 ATAAAT
1 ATAAAT
47546477 CCTAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 2 0.06
10 30 0.94
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:47546484 original size:24 final size:24
Alignment explanation
Indices: 47546457--47546512 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
47546447 AAATATAATT
*
47546457 AAATATAAAT-AAAAATAAATCCTA
1 AAAT-TAAATCAAAAAGAAATCCTA
*
47546481 AAATTAAATCTAAAAGAAATCCTTA
1 AAATTAAATCAAAAAGAAATCC-TA
47546506 ATAATTA
1 A-AATTA
47546513 TCCTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 3 0.11
26 5 0.19
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATTAAATCAAAAAGAAATCCTA
Found at i:47547135 original size:20 final size:19
Alignment explanation
Indices: 47547102--47547139 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
47547092 CCTCCTTCTT
*
47547102 CTTTTTTCTTTTTTTTTTC
1 CTTTTTTCTCTTTTTTTTC
47547121 CTTTTTCTCTCTTTTTTTT
1 CTTTTT-TCTCTTTTTTTT
47547140 AATTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
CTTTTTTCTCTTTTTTTTC
Found at i:47548116 original size:18 final size:17
Alignment explanation
Indices: 47548083--47548137 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 17
47548073 TTAATATCTG
47548083 AAAATAATAAAT--AAT
1 AAAATAATAAATAAAAT
47548098 AAAATAATAAGATAAAAT
1 AAAATAATAA-ATAAAAT
47548116 AAAAATAA-AAATAAAAAT
1 -AAAATAATAAAT-AAAAT
47548134 AAAA
1 AAAA
47548138 ATTGGGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 6 0.17
18 10 0.29
19 7 0.20
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAATAAATAAAAT
Found at i:47548122 original size:6 final size:6
Alignment explanation
Indices: 47548088--47548139 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
47548078 ATCTGAAAAT
47548088 AATAAA TAAT-AA AATAATA AGAT-AA AATAAA AATAAA AATAAA AATAAA
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AATAAA
47548137 AAT
1 AAT
47548140 TGGGTTGCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.12
6 28 0.68
7 6 0.15
8 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:47554315 original size:40 final size:40
Alignment explanation
Indices: 47554259--47554514 Score: 374
Period size: 40 Copynumber: 6.4 Consensus size: 40
47554249 AATGATAACA
* *
47554259 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
47554299 AGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47554339 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47554379 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
47554419 AGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
47554459 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
47554499 -GGCCAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
47554515 TACTTGGTTG
Statistics
Matches: 198, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:47556890 original size:40 final size:40
Alignment explanation
Indices: 47556806--47556990 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
47556796 TCGAATGATG
* *
47556806 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
47556845 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47556886 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
47556925 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47556964 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47556991 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 81 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47556942 original size:79 final size:81
Alignment explanation
Indices: 47556806--47556988 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
47556796 TCGAATGATG
* *
47556806 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
47556870 TGTGTGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
47556885 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
47556947 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
47556965 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47556989 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:47557012 original size:79 final size:78
Alignment explanation
Indices: 47556807--47557023 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
47556797 CGAATGATGT
* *
47556807 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
* *
47556870 TGTGTGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
47556887 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
47556950 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
47556966 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
47557024 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 46 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:47570003 original size:10 final size:10
Alignment explanation
Indices: 47569984--47570033 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
47569974 TTAAATTCTA
47569984 AAAGATAAAT
1 AAAGATAAAT
47569994 ACAA-ATAAAT
1 A-AAGATAAAT
*
47570004 AAAGATAATT
1 AAAGATAAAT
47570014 AAAGATAAAT
1 AAAGATAAAT
47570024 GAAA-ATAAAT
1 -AAAGATAAAT
47570034 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:47571507 original size:19 final size:21
Alignment explanation
Indices: 47571465--47571509 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
47571455 CACACGGGCA
47571465 TGTGTGGCCTTCACATGAGCG
1 TGTGTGGCCTTCACATGAGCG
47571486 TGTGTGGCCTTCACATG-G-G
1 TGTGTGGCCTTCACATGAGCG
47571505 TGTGT
1 TGTGT
47571510 AGACCTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 17 0.71
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.33
Consensus pattern (21 bp):
TGTGTGGCCTTCACATGAGCG
Found at i:47579064 original size:46 final size:46
Alignment explanation
Indices: 47578963--47579066 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 46
47578953 GGTGGTATGT
* * *
47578963 GAGCCAATGTAAGACATGTCTGGGACATGCATCGACCATATCATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAACACGA
* ** * *
47579009 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTTAAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAACACGA
*
47579055 GAGCTAGTGTAA
1 GAGCCAGTGTAA
47579067 TATCTATTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAACACGA
Found at i:47579172 original size:49 final size:49
Alignment explanation
Indices: 47579104--47579223 Score: 152
Period size: 49 Copynumber: 2.4 Consensus size: 49
47579094 GTTAGGTGTT
* * *
47579104 AGTGTAAGACCTGTCTGGGACAGGGCATCAACA-CCGATAAATGAGAGCC
1 AGTGTAAGACCTATTTGGGACAGGGCAT-AACATCCGATAAATGAAAGCC
* * * * *
47579153 AGTGTAAGACCTATTTGGGACATGGCATAAGATGCGATATATGAAAGTC
1 AGTGTAAGACCTATTTGGGACAGGGCATAACATCCGATAAATGAAAGCC
47579202 AGTGTAAGACCTATTTGGGACA
1 AGTGTAAGACCTATTTGGGACA
47579224 CAACATCGAC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 3 0.05
49 59 0.95
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTATTTGGGACAGGGCATAACATCCGATAAATGAAAGCC
Found at i:47586544 original size:27 final size:27
Alignment explanation
Indices: 47586472--47586536 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
47586462 TAAAGTAATT
47586472 TTTTGTATACCGATGTAAGCTGCCTAC
1 TTTTGTATACCGATGTAAGCTGCCTAC
47586499 TTTTGTATACCGATGTAAGCTGCCTAC
1 TTTTGTATACCGATGTAAGCTGCCTAC
47586526 TTTTGTATACC
1 TTTTGTATACC
47586537 AAGGTAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (27 bp):
TTTTGTATACCGATGTAAGCTGCCTAC
Found at i:47586791 original size:46 final size:47
Alignment explanation
Indices: 47586719--47586847 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 47
47586709 GGTGGTATGT
* * *
47586719 GAGCCAGTGTAGGACATGTCTGGGACATGCATCAGCCA-CAACATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAACACGA
* * * ** *
47586765 GTGCTAGTGTAAGACATGTCTGGGACATGCAT-TGGCATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAACACGA
*
47586811 GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGC
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC
47586848 TTGTTGAGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 3 0.04
46 59 0.88
47 4 0.06
48 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAACACGA
Found at i:47586979 original size:49 final size:49
Alignment explanation
Indices: 47586857--47586971 Score: 160
Period size: 49 Copynumber: 2.3 Consensus size: 49
47586847 CTTGTTGAGT
* *
47586857 GTCAGTGTAAGACTTGTCTGGGACATGGCATCGACACCGATAAATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAAA
* * * *
47586906 GCCAGTGTAAGACCTATCTGGGACATGGCATCGGC-CTCGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAAATGAAA
47586955 GTCAGTGTAAGACCTGT
1 GTCAGTGTAAGACCTGT
47586972 ATAGGACACA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAAA
Found at i:47595528 original size:30 final size:30
Alignment explanation
Indices: 47595494--47595554 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47595484 TCCTTAACTC
47595494 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47595524 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47595554 A
1 A
47595555 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47598864 original size:13 final size:13
Alignment explanation
Indices: 47598843--47598875 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47598833 TTTGATTTAA
*
47598843 TTAGTTAATTAGT
1 TTAGATAATTAGT
47598856 TTAGATAATTAGT
1 TTAGATAATTAGT
47598869 TTA-ATAA
1 TTAGATAA
47598876 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:47602622 original size:27 final size:27
Alignment explanation
Indices: 47602585--47602789 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
47602575 TAAATTGTAC
47602585 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
47602612 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47602639 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47602665 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47602693 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47602721 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47602748 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47602775 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47602790 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47602724 original size:109 final size:108
Alignment explanation
Indices: 47602586--47602789 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
47602576 AAATTGTACA
* *
47602586 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
47602651 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
47602694 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
47602759 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
47602790 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:47610788 original size:27 final size:27
Alignment explanation
Indices: 47610751--47610951 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
47610741 TAAATTGTAC
47610751 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
47610778 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47610805 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47610831 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47610859 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47610887 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47610914 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47610941 AGCACTGAGTG
1 AGCACTAAGTG
47610952 AGCGGACTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47615769 original size:16 final size:16
Alignment explanation
Indices: 47615748--47615809 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
47615738 ATCCTCCTAT
*
47615748 TTTATTTTTATTTTTA
1 TTTATTCTTATTTTTA
47615764 TTTATTCTTATTTTTA
1 TTTATTCTTATTTTTA
*
47615780 TTTTATT-TTATTTAT-
1 -TTTATTCTTATTTTTA
47615795 TTTATTCTTATTTTT
1 TTTATTCTTATTTTT
47615810 CTTTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.15
15 7 0.17
16 22 0.54
17 6 0.15
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTCTTATTTTTA
Found at i:47615802 original size:31 final size:32
Alignment explanation
Indices: 47615745--47615820 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 32
47615735 TGAATCCTCC
*
47615745 TATTTTATTTTTATTTTTATTTATTCTTATTTT
1 TATTTTA-TTTTATTTATATTTATTCTTATTTT
47615778 TATTTTATTTTATTTAT-TTTATTCTTATTTT
1 TATTTTATTTTATTTATATTTATTCTTATTTT
*
47615809 TCTTTTTATTTT
1 T-ATTTTATTTT
47615821 TAGTTTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
31 15 0.38
32 18 0.45
33 7 0.17
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (32 bp):
TATTTTATTTTATTTATATTTATTCTTATTTT
Found at i:47615820 original size:5 final size:5
Alignment explanation
Indices: 47615745--47615808 Score: 69
Period size: 5 Copynumber: 12.2 Consensus size: 5
47615735 TGAATCCTCC
47615745 TATTT TATTTT TATTT T-TATT TATTCT TATTTT TATTT TATTT TA-TT
1 TATTT TA-TTT TATTT TAT-TT TATT-T TA-TTT TATTT TATTT TATTT
47615792 TATTT TATTCT TATTT T
1 TATTT TATT-T TATTT T
47615809 TCTTTTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.10
5 28 0.54
6 17 0.33
7 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:47615827 original size:7 final size:6
Alignment explanation
Indices: 47615747--47615827 Score: 78
Period size: 6 Copynumber: 13.7 Consensus size: 6
47615737 AATCCTCCTA
* *
47615747 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTA- TTTTAT TTTATTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* * *
47615793 ATTTTAT TCTTAT TTTTCT TTTTAT TTTTAG TTTT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
47615828 CAATTTTCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
4 4 0.07
5 5 0.08
6 45 0.74
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:47615834 original size:37 final size:33
Alignment explanation
Indices: 47615745--47615827 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 33
47615735 TGAATCCTCC
47615745 TATTTTATTTTTATTTT-TATTTATTCTTATTTT
1 TATTTTATTTTTATTTTAT-TTTATTCTTATTTT
47615778 TATTTTA-TTTTA-TTTATTTTATTCTTATTTT
1 TATTTTATTTTTATTTTATTTTATTCTTATTTT
*
47615809 TCTTTTTATTTTTAGTTTT
1 T-ATTTTATTTTTA-TTTT
47615828 CAATTTTCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
31 18 0.41
32 11 0.25
33 12 0.27
35 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (33 bp):
TATTTTATTTTTATTTTATTTTATTCTTATTTT
Found at i:47618214 original size:13 final size:13
Alignment explanation
Indices: 47618198--47618224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47618188 AAGGGGGATA
47618198 AAACCTATGATGG
1 AAACCTATGATGG
47618211 AAACCTATGATGG
1 AAACCTATGATGG
47618224 A
1 A
47618225 TCTTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AAACCTATGATGG
Found at i:47618733 original size:13 final size:13
Alignment explanation
Indices: 47618717--47618749 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47618707 TTTGATTAAA
*
47618717 TTAGTTAATTAGT
1 TTAGATAATTAGT
47618730 TTAGATAATTAGT
1 TTAGATAATTAGT
47618743 TTA-ATAA
1 TTAGATAA
47618750 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:47621862 original size:51 final size:47
Alignment explanation
Indices: 47621690--47621874 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 47
47621680 ATCTGGTACG
* * *
47621690 CATAGTAGCCTGCAGTTAGTACTACACATGCGACCAATTATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC-G-ACA
* * * **
47621739 CGTAGTAGCGTGCACTTAGTACTACACACGTGACCTAACTATCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC--CGACA
* *
47621789 CATAGTAGCCTGCACTTAGTACTACACACGTGATTCAAGTTATCGGCGACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC--CGACA
*
47621840 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
47621875 TAGCTACATA
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 30 0.27
50 43 0.38
51 39 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (47 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGACA
Found at i:47621873 original size:101 final size:99
Alignment explanation
Indices: 47621676--47621876 Score: 253
Period size: 99 Copynumber: 2.0 Consensus size: 99
47621666 TATGTAGCCA
** * * * *
47621676 AACTATCTGGTACGCATAGTAGCCTGCAGTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 AACTATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACA
*
47621741 TAGTAGCGTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
* *
47621775 AACTATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGATTCAAGTTATCGGC-G-A
1 AACTATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC--CAGTA
* *
47621838 CGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
62 CACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
47621876 A
1 A
47621877 GCTACATATA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
99 41 0.47
100 3 0.03
101 41 0.47
102 1 0.01
103 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
AACTATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACA
TAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:47624236 original size:56 final size:53
Alignment explanation
Indices: 47624125--47624283 Score: 169
Period size: 55 Copynumber: 2.9 Consensus size: 53
47624115 CATGACATAG
* * *
47624125 CACGCCTCTCAACAGAGCTACATATGAGCAT-CCGAACCTAGCATGCATCACATTA
1 CACGCCTCTCAACAGGGCTACATA--AGC-TCCCGGACCTAGCATGCATCAAATTA
*
47624180 CCACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGACCA-CATAATTA
1 -CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATG--CATCA-AATTA
* * * *
47624236 CATGCCTCTCAACGGGGCTACACAAGCTCCCGGACCTAGCATGTATCA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGCATCA
47624284 TGTCATCAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
53 2 0.02
54 17 0.19
55 41 0.46
56 29 0.33
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (53 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGCATCAAATTA
Found at i:47631645 original size:43 final size:44
Alignment explanation
Indices: 47631575--47631698 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 44
47631565 AGACTTTTAT
* * *
47631575 TCATTCACCGGCATT-TCGCCTGCTAGGCTCAAGGCTC-GATA-
1 TCATTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCAAATAG
47631616 TCATGTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAG
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCAAATAG
*
47631662 T-ATCTCACCGGCATAATAGCCTGCTAGGCTCAAGGCC
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCTCAAGGCC
47631699 TGAATATAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
41 4 0.05
42 11 0.15
43 14 0.19
44 12 0.16
45 31 0.42
46 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (44 bp):
TCATTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCAAATAG
Found at i:47631745 original size:38 final size:38
Alignment explanation
Indices: 47631702--47631918 Score: 353
Period size: 38 Copynumber: 5.7 Consensus size: 38
47631692 CAAGGCCTGA
* * *
47631702 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
47631740 ATATAATACCAGCAAGAAGCCTACGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
47631778 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
47631816 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
47631854 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
47631892 ATATAATACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
47631919 TCTTTAAGCC
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 166 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:47632280 original size:43 final size:44
Alignment explanation
Indices: 47632212--47632297 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
47632202 TAACATTTCA
* * * *
47632212 TTTCACTGGCATTATATCATTCTAGGCTCAAAGCCCG-ATATCG
1 TTTCACCGGCATTATAGCATGCTAGGCCCAAAGCCCGAATATCG
* *
47632255 TTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATC
1 TTTCACCGGCATTATAGCATGCTAGGCCCAAAGCCCGAATATC
47632298 ATATTTTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
TTTCACCGGCATTATAGCATGCTAGGCCCAAAGCCCGAATATCG
Found at i:47635605 original size:46 final size:46
Alignment explanation
Indices: 47635504--47635610 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
47635494 GGTGGTATGT
* * *
47635504 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAACATGA
1 GAGCTAGTGTAAGACATGTATGGGACATGCATCGGCCACAACACGA
* * * ** *
47635550 GTGCCAGTGTAAGACATGTATGGGATATGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGACATGTATGGGACATGCATCGGCCA-CAACACGA
47635596 GAGCTAGTGTAAGAC
1 GAGCTAGTGTAAGAC
47635611 CTATCTAGGA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTATGGGACATGCATCGGCCACAACACGA
Found at i:47635705 original size:49 final size:49
Alignment explanation
Indices: 47635645--47635774 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 49
47635635 GTTGGGTGTT
* *
47635645 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CAATAAATGAGAGCC
1 AGTGTAAGACCTATCTAGGACATGGCATCGAC-CTCAATAAATGAAAGCC
* * * *
47635694 AGTGTAAGACCTATCTAGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTATCTAGGACATGGCATCGACCTCAATAAATGAAAGCC
* **
47635743 AGTGTAAGACCTGTCTAGGACAAAGCATCGAC
1 AGTGTAAGACCTATCTAGGACATGGCATCGAC
47635775 TTTAATGTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCTATCTAGGACATGGCATCGACCTCAATAAATGAAAGCC
Found at i:47637998 original size:93 final size:93
Alignment explanation
Indices: 47637839--47638010 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
47637829 CGCCCATAAG
*
47637839 CGAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47637904 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* **
47637932 CGAACTCGGACTTAACTCAACGAG-TTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
47637996 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
47638011 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47638026 original size:46 final size:46
Alignment explanation
Indices: 47637832--47638012 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 46
47637822 TGTAACCCGC
* * * *
47637832 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCT-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCGCAT
*
47637878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * * * ***
47637928 -C-TCA-CGAACTCGGACTTAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
47637971 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
47638013 AATCATCCTA
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 63 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:47642854 original size:13 final size:13
Alignment explanation
Indices: 47642836--47642860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47642826 TGTTTGTATA
47642836 TAAAAAAATAATC
1 TAAAAAAATAATC
47642849 TAAAAAAATAAT
1 TAAAAAAATAAT
47642861 ATGGGTGGCC
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAATAATC
Found at i:47644085 original size:9 final size:9
Alignment explanation
Indices: 47644071--47644120 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
47644061 TATTTTTTAA
47644071 TAAAATTTT
1 TAAAATTTT
47644080 TAAAATTTT
1 TAAAATTTT
**
47644089 TATGATTTT
1 TAAAATTTT
47644098 TAAGTAA-TTT
1 TAA--AATTTT
47644108 TAAAA-TTT
1 TAAAATTTT
47644116 TAAAA
1 TAAAA
47644121 GGCTTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 10 0.29
9 18 0.51
10 6 0.17
11 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (9 bp):
TAAAATTTT
Found at i:47645821 original size:21 final size:21
Alignment explanation
Indices: 47645795--47645835 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47645785 GAAATTAAAA
47645795 TAAAATAATAAAATAATTTTT
1 TAAAATAATAAAATAATTTTT
* *
47645816 TAAAATTATAAATTAATTTT
1 TAAAATAATAAAATAATTTT
47645836 AAATCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATAATAAAATAATTTTT
Found at i:47646325 original size:18 final size:18
Alignment explanation
Indices: 47646280--47646328 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47646270 AACCCAACCC
*
47646280 AAATAATTAATTT-TATT
1 AAATAAATAATTTATATT
*
47646297 ATAA-AACTAATTTATATT
1 A-AATAAATAATTTATATT
47646315 AAATAAATAATTTA
1 AAATAAATAATTTA
47646329 ATAAAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAATAATTTATATT
Found at i:47652449 original size:40 final size:40
Alignment explanation
Indices: 47652389--47652474 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
47652379 TAATTTTCCC
47652389 ATTTACCTTGATTTTTCACCCGATCTTGATCTAAATTAATA
1 ATTT-CCTTGATTTTTCACCCGATCTTGATCTAAATTAATA
47652430 ATTTCCTTGATTTTTCACCCGATCTTGATCTAAATTAATA
1 ATTTCCTTGATTTTTCACCCGATCTTGATCTAAATTAATA
47652470 ATTTC
1 ATTTC
47652475 ATTCAATACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (40 bp):
ATTTCCTTGATTTTTCACCCGATCTTGATCTAAATTAATA
Found at i:47658533 original size:12 final size:12
Alignment explanation
Indices: 47658516--47658540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47658506 TGACATCTCG
47658516 TATGATATTTGA
1 TATGATATTTGA
47658528 TATGATATTTGA
1 TATGATATTTGA
47658540 T
1 T
47658541 GCATTTCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATGATATTTGA
Found at i:47658828 original size:28 final size:28
Alignment explanation
Indices: 47658796--47658865 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
47658786 ATAGTAAGTC
47658796 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
47658824 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
47658852 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47658866 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:47666528 original size:28 final size:28
Alignment explanation
Indices: 47666496--47666565 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
47666486 ATAGTAAGTC
47666496 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
47666524 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
47666552 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47666566 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:47670976 original size:41 final size:41
Alignment explanation
Indices: 47670924--47671002 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
47670914 TTTTTAATCC
47670924 AAAATAATGAAAATATTAGTAAGTAAGAATATTTGGTTTAA
1 AAAATAATGAAAATATTAGTAAGTAAGAATATTTGGTTTAA
*
47670965 AAAATAATGAAAATATTAGTAAGTAATAATATTTGGTT
1 AAAATAATGAAAATATTAGTAAGTAAGAATATTTGGTT
47671003 GAGAGAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (41 bp):
AAAATAATGAAAATATTAGTAAGTAAGAATATTTGGTTTAA
Found at i:47672266 original size:2 final size:2
Alignment explanation
Indices: 47672261--47672295 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47672251 GTTTTTTTTA
47672261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47672296 AAAGGACTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47678190 original size:13 final size:13
Alignment explanation
Indices: 47678172--47678196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47678162 GTTCATAGGC
47678172 ATGTCAAAGATGT
1 ATGTCAAAGATGT
47678185 ATGTCAAAGATG
1 ATGTCAAAGATG
47678197 AGAATATGTG
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:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (13 bp):
ATGTCAAAGATGT
Found at i:47680863 original size:24 final size:24
Alignment explanation
Indices: 47680831--47680901 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
47680821 CTGTCAGGAG
47680831 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
47680855 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
47680879 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
47680902 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:47682351 original size:27 final size:27
Alignment explanation
Indices: 47682319--47682430 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
47682309 AGGAAGTGTC
* *
47682319 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
47682346 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
47682373 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
47682401 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
47682427 CTGG
1 CTGG
47682431 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:47682425 original size:54 final size:54
Alignment explanation
Indices: 47682319--47682430 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
47682309 AGGAAGTGTC
* * *
47682319 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
47682373 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
47682427 CTGG
1 CTGG
47682431 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:47686621 original size:24 final size:24
Alignment explanation
Indices: 47686589--47686635 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
47686579 CTGTCAAGAG
**
47686589 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
47686613 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
47686636 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:47688144 original size:28 final size:29
Alignment explanation
Indices: 47688051--47688162 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 29
47688041 AGGAAGCGTC
* *
47688051 CTGGTGGCTATGCCACA-ATTATTTG-AT
1 CTGGTGGCTCTGCCACATATTATCTGTAT
47688078 CTGGTGGCTCTGCCACATATT-TCTGT-T
1 CTGGTGGCTCTGCCACATATTATCTGTAT
47688105 CTGGTGGCTCTG-CA-ATGATTATCTGTAT
1 CTGGTGGCTCTGCCACAT-ATTATCTGTAT
* *
47688133 CTGGTGACTCTGTCAC--ATTATCTGT-T
1 CTGGTGGCTCTGCCACATATTATCTGTAT
47688159 CTGG
1 CTGG
47688163 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.03
26 10 0.13
27 46 0.61
28 15 0.20
29 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (29 bp):
CTGGTGGCTCTGCCACATATTATCTGTAT
Found at i:47692605 original size:45 final size:45
Alignment explanation
Indices: 47692549--47692639 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
47692539 GAATTATGTG
47692549 ATTTAAACTCATTCAGCTGTGGTCTGAGTTCATGACATATGTGAC
1 ATTTAAACTCATTCAGCTGTGGTCTGAGTTCATGACATATGTGAC
* * * **
47692594 ATTTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATTTAAACTCATTCAGCTGTGGTCTGAGTTCATGACATATGTGAC
47692639 A
1 A
47692640 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (45 bp):
ATTTAAACTCATTCAGCTGTGGTCTGAGTTCATGACATATGTGAC
Found at i:47699384 original size:40 final size:40
Alignment explanation
Indices: 47699293--47699505 Score: 204
Period size: 40 Copynumber: 5.4 Consensus size: 40
47699283 ACCCAAGTAT
* ** * *
47699293 CTTCGGGATTTAGCC-GGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* * *
47699331 CTTCGGGTCTTAGCCTGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* * * *
47699371 CTGCGGGACTTAGCCCGTATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* *
47699411 CTTCGGGTCTTAG-CTCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCT-GGATATAGTC-ACTAGCACAAATGC
* *
47699451 CTTC-GGATCTTAGTCC-GGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAG-CCTGGATATAGTCACTAGCACAAATGC
47699491 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
47699506 CGAATATCAT
Statistics
Matches: 141, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
38 13 0.09
39 19 0.13
40 104 0.74
41 4 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
Found at i:47706651 original size:40 final size:40
Alignment explanation
Indices: 47706558--47706776 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
47706548 ACCCAAGTAT
* ** * * *
47706558 CTTCGGGATTTAG-CCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
*
47706596 CTTCGGG-CTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
*
47706635 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* * *
47706675 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATAAATGC
* *
47706715 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCATAAATGC
47706755 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
47706777 CATTCGAATA
Statistics
Matches: 155, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
37 4 0.03
38 22 0.14
39 14 0.09
40 111 0.72
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
Found at i:47709481 original size:20 final size:21
Alignment explanation
Indices: 47709456--47709494 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47709446 GCAAATGTAC
47709456 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
47709476 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
47709495 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:47709773 original size:41 final size:43
Alignment explanation
Indices: 47709666--47709777 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 43
47709656 ATATTGTACA
* * *
47709666 ATGCCAAC-GTCCCAGACGTGGTCTTACATGCTATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
* * * *
47709709 ATGCCACTGTCCCAAATAGGGTCTTACATG-AATTAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
47709750 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
47709778 AGAGAACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 25 0.44
42 9 0.16
43 23 0.40
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
Found at i:47709840 original size:57 final size:57
Alignment explanation
Indices: 47709749--47709912 Score: 274
Period size: 57 Copynumber: 2.9 Consensus size: 57
47709739 AATTAAATAC
* * * * *
47709749 GATGCCGATGTCCCAGACATGGTCTTACAAGAGAACACATATAGGAAATCACATATT
1 GATGCCAACGTCCCAGACGTGATCTTACACGAGAACACATATAGGAAATCACATATT
47709806 GATGCCAACGTCCCAGACGTGATCTTACACGAGAACACATATAGGAAATCACATATT
1 GATGCCAACGTCCCAGACGTGATCTTACACGAGAACACATATAGGAAATCACATATT
*
47709863 GATGCCAACGTCCCAGATGTGATCTTACACGAGAACACATATAGGAAATC
1 GATGCCAACGTCCCAGACGTGATCTTACACGAGAACACATATAGGAAATC
47709913 CCATGTCATG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 101 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (57 bp):
GATGCCAACGTCCCAGACGTGATCTTACACGAGAACACATATAGGAAATCACATATT
Done.