Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 208 of 438
Found at i:64398665 original size:40 final size:40
Alignment explanation
Indices: 64398620--64398786 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
64398610 CGGAATATAA
64398620 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** *
64398660 CCGGATAGAATGTCTCGCACGAAA-GCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCAC-AAATGCCTTCGGGTCTTAGC
* * * *
64398700 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
64398740 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
64398779 CCGGATAT
1 CCGGATAT
64398787 TATTCAATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 16 0.16
40 83 0.81
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64402605 original size:18 final size:18
Alignment explanation
Indices: 64402563--64402605 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
64402553 CAAGGTCACG
* *
64402563 ATCAATAGCGTCACTATC
1 ATCAATAGCATCACTAGC
*
64402581 ATAAATAGCATCACTAGC
1 ATCAATAGCATCACTAGC
64402599 ATCAATA
1 ATCAATA
64402606 TTGTCACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (18 bp):
ATCAATAGCATCACTAGC
Found at i:64407654 original size:26 final size:26
Alignment explanation
Indices: 64407618--64407669 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
64407608 GAACAAGTTA
*
64407618 AATGAATAAATTGTCCGATTTGGAGT
1 AATGAATAAATTGTCCGATTCGGAGT
*
64407644 AATGAATAAATTGTCTGATTCGGAGT
1 AATGAATAAATTGTCCGATTCGGAGT
64407670 CAAAATAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
AATGAATAAATTGTCCGATTCGGAGT
Found at i:64412037 original size:40 final size:40
Alignment explanation
Indices: 64411982--64412191 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64411972 AACATTGGAA
64411982 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64412022 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64412062 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64412102 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64412141 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64412182 CTATATCCGG
1 ATATATCCGG
64412192 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64420172 original size:40 final size:40
Alignment explanation
Indices: 64420117--64420326 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64420107 AACATTGGAA
64420117 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64420157 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64420197 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64420237 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64420276 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64420317 CTATATCCGG
1 ATATATCCGG
64420327 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64421999 original size:21 final size:21
Alignment explanation
Indices: 64421973--64422015 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
64421963 ATAAACTGAG
*
64421973 AACACACGATAAACTAAAACT
1 AACACACGATAAACCAAAACT
64421994 AACACACGATAAACCAAAACT
1 AACACACGATAAACCAAAACT
64422015 A
1 A
64422016 TGCTAGAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.26, G:0.05, T:0.12
Consensus pattern (21 bp):
AACACACGATAAACCAAAACT
Found at i:64427885 original size:2 final size:2
Alignment explanation
Indices: 64427878--64427914 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64427868 ATCATTGGCG
64427878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64427915 GACAAACAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64430198 original size:26 final size:26
Alignment explanation
Indices: 64430162--64430221 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
64430152 GAACAAGTTA
64430162 AATGAATAAATTGTCCGATTCAGAGT
1 AATGAATAAATTGTCCGATTCAGAGT
*
64430188 AATGAATAAATTGTCCGATTCGGAGT
1 AATGAATAAATTGTCCGATTCAGAGT
*
64430214 CA-GAATAA
1 AATGAATAA
64430222 CAAGTGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (26 bp):
AATGAATAAATTGTCCGATTCAGAGT
Found at i:64441030 original size:24 final size:24
Alignment explanation
Indices: 64440786--64441028 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
64440776 GCAAAGACCA
64440786 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64440810 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64440834 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64440858 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64440882 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64440906 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64440930 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64440954 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64440978 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
64441002 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
64441026 TAT
1 TAT
64441029 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:64449040 original size:24 final size:24
Alignment explanation
Indices: 64448796--64449038 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
64448786 GCAAAGACCA
64448796 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64448820 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64448844 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64448868 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64448892 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64448916 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64448940 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64448964 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64448988 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
64449012 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
64449036 TAT
1 TAT
64449039 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:64451886 original size:47 final size:45
Alignment explanation
Indices: 64451776--64451947 Score: 129
Period size: 47 Copynumber: 3.7 Consensus size: 45
64451766 ACTTGTGTGA
* * *
64451776 GCTAGTGTAAGA-CATGCCTGGGACATGCATCAGCCACCTTATGAAA-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCA--TTAAGAAAG
* * *
64451822 GCCAATGTTAGACCATGTCTGGGACATGGCATCGGCATTAAGACAAG
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTAAGA-AAG
* * *
64451869 TGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGC--TACGAGAGG
1 -GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGA-AAG
* *
64451913 GGTCAGTGTAAGACCATGTCTGGGATATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCG
64451948 ACACAGAATG
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 15 0.15
45 17 0.17
46 25 0.25
47 29 0.28
48 14 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGAAAG
Found at i:64451946 original size:46 final size:47
Alignment explanation
Indices: 64451831--64451947 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 47
64451821 AGCCAATGTT
*
64451831 AGACCATGTCTGGGACATGGCATCGGCATTAAGACAAGTGCTAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCA-TAAGACAAGGGCTAGTGTA
* * * *
64451879 AGA-CATGTTTGGGACAT-GCATCGGC-TACGA-GAGGGGTCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCATAAGACAAGGGCT-AGTGTA
*
64451923 AGACCATGTCTGGGATATGGCATCG
1 AGACCATGTCTGGGACATGGCATCG
64451948 ACACAGAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
43 4 0.07
44 13 0.22
45 12 0.20
46 14 0.24
47 13 0.22
48 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
AGACCATGTCTGGGACATGGCATCGGCATAAGACAAGGGCTAGTGTA
Found at i:64453713 original size:24 final size:24
Alignment explanation
Indices: 64453469--64453711 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
64453459 GCAAAGACCA
64453469 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64453493 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64453517 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64453541 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64453565 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64453589 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64453613 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64453637 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64453661 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
64453685 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
64453709 TAT
1 TAT
64453712 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:64456558 original size:47 final size:45
Alignment explanation
Indices: 64456448--64456619 Score: 129
Period size: 47 Copynumber: 3.7 Consensus size: 45
64456438 ACTTGTGTGA
* * *
64456448 GCTAGTGTAAGA-CATGCCTGGGACATGCATCAGCCACCTTATGAAA-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCA--TTAAGAAAG
* * *
64456494 GCCAATGTTAGACCATGTCTGGGACATGGCATCGGCATTAAGACAAG
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTAAGA-AAG
* * *
64456541 TGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGC--TACGAGAGG
1 -GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGA-AAG
* *
64456585 GGTCAGTGTAAGACCATGTCTGGGATATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCG
64456620 ACACAGATAT
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 15 0.15
45 17 0.17
46 25 0.25
47 29 0.28
48 14 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGAAAG
Found at i:64456618 original size:46 final size:47
Alignment explanation
Indices: 64456503--64456619 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 47
64456493 AGCCAATGTT
*
64456503 AGACCATGTCTGGGACATGGCATCGGCATTAAGACAAGTGCTAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCA-TAAGACAAGGGCTAGTGTA
* * * *
64456551 AGA-CATGTTTGGGACAT-GCATCGGC-TACGA-GAGGGGTCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCATAAGACAAGGGCT-AGTGTA
*
64456595 AGACCATGTCTGGGATATGGCATCG
1 AGACCATGTCTGGGACATGGCATCG
64456620 ACACAGATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
43 4 0.07
44 13 0.22
45 12 0.20
46 14 0.24
47 13 0.22
48 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
AGACCATGTCTGGGACATGGCATCGGCATAAGACAAGGGCTAGTGTA
Found at i:64460075 original size:20 final size:20
Alignment explanation
Indices: 64460052--64460089 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64460042 CACATCCAAA
*
64460052 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
64460072 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
64460090 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:64467421 original size:20 final size:20
Alignment explanation
Indices: 64467398--64467435 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64467388 CACATCCAAA
*
64467398 TACAAAATTTTAAAAATCCT
1 TACAAAATATTAAAAATCCT
*
64467418 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
64467436 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
TACAAAATATTAAAAATCCT
Found at i:64470506 original size:46 final size:46
Alignment explanation
Indices: 64470351--64470572 Score: 173
Period size: 46 Copynumber: 4.8 Consensus size: 46
64470341 TCACTTGTGT
* * * *** *
64470351 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACCCTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGA
* * * * *
64470397 GAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACGA
* * * *
64470445 GTGCTAGTCTAAGACATGTCTGGGACATGCTTCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACG-A
* * *
64470492 -AGCCAGTGTAAGACATATATAGGACATGCATCGA-CTACGAGA--A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGACGA
* *
64470535 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
64470573 ACAGATATGC
Statistics
Matches: 137, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 13 0.09
46 64 0.47
47 27 0.20
48 21 0.15
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGA
Found at i:64477183 original size:38 final size:38
Alignment explanation
Indices: 64477123--64477216 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 38
64477113 TGAACCGTAC
*
64477123 TGTTATTCAAGCTTAGTGCCTAGCAGGCTTAATGTCGA
1 TGTTATTCTAGCTTAGTGCCTAGCAGGCTTAATGTCGA
* * *
64477161 TGTTCTTCTAGCTTAGTGCCTAGCAGGCTTAGTGTCGG
1 TGTTATTCTAGCTTAGTGCCTAGCAGGCTTAATGTCGA
64477199 TGTTATT-TAGGCTTAGTG
1 TGTTATTCTA-GCTTAGTG
64477217 TTTAGTAAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
37 2 0.04
38 48 0.96
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (38 bp):
TGTTATTCTAGCTTAGTGCCTAGCAGGCTTAATGTCGA
Found at i:64477692 original size:15 final size:15
Alignment explanation
Indices: 64477672--64477701 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64477662 TAGTCATTTG
*
64477672 TAATGTTTTGGTATA
1 TAATGTTTTAGTATA
64477687 TAATGTTTTAGTATA
1 TAATGTTTTAGTATA
64477702 ATTGTGGTGT
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:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TAATGTTTTAGTATA
Found at i:64479532 original size:39 final size:39
Alignment explanation
Indices: 64479489--64479600 Score: 161
Period size: 39 Copynumber: 2.9 Consensus size: 39
64479479 ATTCACTTTT
* *
64479489 AAGCATATATCATATTACACATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* *
64479528 AAGCAAATGTCACAATACACATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
** *
64479567 AAGCATATATCACAATATTCATATAATAACATAA
1 AAGCATATATCACAATACACATATAATCACATAA
64479601 TGTAACACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:64481319 original size:31 final size:31
Alignment explanation
Indices: 64481278--64481341 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
64481268 CCTTTTCATA
*
64481278 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
64481309 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
64481340 TT
1 TT
64481342 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:64481586 original size:24 final size:24
Alignment explanation
Indices: 64481534--64481675 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
64481524 GCTTTATCAT
*
64481534 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
64481559 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
64481583 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
64481606 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
64481630 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64481653 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
64481676 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 43 0.41
24 50 0.48
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:64481610 original size:47 final size:47
Alignment explanation
Indices: 64481533--64481676 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 47
64481523 TGCTTTATCA
* *
64481533 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTTT
*
64481582 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
*
64481629 GATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
64481676 T
1 T
64481677 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 70 0.80
48 5 0.06
49 13 0.15
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:64481613 original size:23 final size:23
Alignment explanation
Indices: 64481555--64481674 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
64481545 CCTAGCCTCT
*
64481555 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
64481578 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
64481602 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
64481625 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
64481649 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64481672 TTT
1 TTT
64481675 TTCACTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:64481748 original size:9 final size:9
Alignment explanation
Indices: 64481734--64481790 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
64481724 ATCTCGTGTG
64481734 CATATCATA
1 CATATCATA
*
64481743 CATATCATGTG
1 CATATCA--TA
64481754 CATATCATA
1 CATATCATA
* *
64481763 CATGTCATGTG
1 CATATCA--TA
64481774 CATATCATA
1 CATATCATA
64481783 CATATCAT
1 CATATCAT
64481791 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:64481753 original size:20 final size:20
Alignment explanation
Indices: 64481730--64481792 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
64481720 GAACATCTCG
64481730 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
64481750 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
64481770 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
64481790 TGT
1 TGT
64481793 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:64481875 original size:25 final size:25
Alignment explanation
Indices: 64481829--64481876 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
64481819 ATATATAAAC
* * * *
64481829 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
64481854 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
64481877 CATATTATAA
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:64483124 original size:27 final size:27
Alignment explanation
Indices: 64483033--64483116 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
64483023 GGGCATATTC
* *
64483033 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
64483060 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
64483087 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
64483114 GTC
1 GTC
64483117 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:64483133 original size:27 final size:26
Alignment explanation
Indices: 64483033--64483126 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
64483023 GGGCATATTC
* *
64483033 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
64483060 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
64483087 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
64483114 GTCTTTTTACCTA
1 GTCACTTTACCTA
64483127 ATAGGGGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.07
27 53 0.88
28 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:64483208 original size:27 final size:27
Alignment explanation
Indices: 64483155--64483407 Score: 150
Period size: 27 Copynumber: 9.3 Consensus size: 27
64483145 TTTCATCCTA
* * * * * *
64483155 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
64483182 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
64483209 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
* * *
64483238 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
64483265 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * *
64483292 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
64483318 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* * *
64483345 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * *
64483373 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
*
64483400 CGAGGGTA
1 CAAGGGTA
64483408 AAATAGTAAT
Statistics
Matches: 178, Mismatches: 43, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 147 0.83
28 14 0.08
29 15 0.08
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:64483283 original size:56 final size:54
Alignment explanation
Indices: 64483175--64483344 Score: 166
Period size: 54 Copynumber: 3.1 Consensus size: 54
64483165 TTGGTAAATC
* * *
64483175 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
64483230 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTTTGGTAATTTT
** * **
64483285 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTT
64483339 TACAAA
1 TACAAA
64483345 CTAGGGGTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.03
54 43 0.45
55 14 0.15
56 36 0.38
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:64483416 original size:27 final size:27
Alignment explanation
Indices: 64483386--64483650 Score: 338
Period size: 27 Copynumber: 9.8 Consensus size: 27
64483376 GGGTATTTCT
* *
64483386 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64483413 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64483440 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
64483466 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
64483494 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64483521 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
64483548 GTAATTCTGTAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64483574 GATAATTTTGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
64483602 GTAATTATGTAAATCGGGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
64483628 GATAATTCTGTAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
64483651 CTTTGGTAAT
Statistics
Matches: 211, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.01
27 206 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:64483417 original size:81 final size:81
Alignment explanation
Indices: 64483266--64483418 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
64483256 TTTGTAAATC
***
64483266 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAAT
*
64483331 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *** *
64483347 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAG-GGTAAAA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTAAAA
64483411 TAGTAATT
65 TAGTAATT
64483419 CTGTAAATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 59 0.95
82 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAAT
AGTAATTTTACAAACT
Found at i:64483661 original size:54 final size:54
Alignment explanation
Indices: 64483386--64483650 Score: 379
Period size: 54 Copynumber: 4.9 Consensus size: 54
64483376 GGGTATTTCT
* * * * *
64483386 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACA
* *
64483440 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * *
64483494 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
*
64483548 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * * *
64483602 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
64483651 CTTTGGTAAT
Statistics
Matches: 190, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 189 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
Found at i:64483677 original size:27 final size:27
Alignment explanation
Indices: 64483656--64483712 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
64483646 GGGTACTTTG
*
64483656 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
64483683 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
64483710 GTA
1 GTA
64483713 CCGCTATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:64484000 original size:11 final size:11
Alignment explanation
Indices: 64483971--64484019 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
64483961 GATTTTGATA
*
64483971 TACATGATTTG
1 TACATGATATG
*
64483982 -ATATGATATG
1 TACATGATATG
64483992 TACATGATATG
1 TACATGATATG
64484003 T--ATGATATG
1 TACATGATATG
*
64484012 CACATGAT
1 TACATGAT
64484020 GTATTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (11 bp):
TACATGATATG
Found at i:64484008 original size:20 final size:21
Alignment explanation
Indices: 64483971--64484019 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
64483961 GATTTTGATA
*
64483971 TACATGATTTGATATGATATG
1 TACATGATATGATATGATATG
64483992 TACATGATATG-TATGATATG
1 TACATGATATGATATGATATG
*
64484012 CACATGAT
1 TACATGAT
64484020 GTATTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (21 bp):
TACATGATATGATATGATATG
Found at i:64484101 original size:25 final size:25
Alignment explanation
Indices: 64484067--64484136 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
64484057 GAAGAAGTGC
*
64484067 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
64484092 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
64484117 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
64484137 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:64484149 original size:24 final size:25
Alignment explanation
Indices: 64484066--64484149 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
64484056 GGAAGAAGTG
* *
64484066 CAAAAG-GGCTTTGCCCTAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGTTTAT
*
64484090 CGAAAAG-GGCTTTGCCCTAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAGTTTAT
64484115 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
64484139 TAAAAGAGGCT
1 CAAAAGAGGCT
64484150 AGGCCTTCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 17 0.32
25 36 0.68
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:64484419 original size:30 final size:32
Alignment explanation
Indices: 64484383--64484447 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
64484373 TGATATGATC
64484383 TGTGAATTAT-AAAAGGCTTCGGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
* *
64484413 TGTGAATTATGAAGAGGCTTCGTCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
64484445 TGT
1 TGT
64484448 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:64491914 original size:11 final size:11
Alignment explanation
Indices: 64491896--64491933 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
64491886 ACATGATTTG
64491896 ATATGATATGC
1 ATATGATATGC
*
64491907 ACATGATATG-
1 ATATGATATGC
64491917 -TATGATATGC
1 ATATGATATGC
64491927 ATATGAT
1 ATATGAT
64491934 GTATTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (11 bp):
ATATGATATGC
Found at i:64491922 original size:20 final size:21
Alignment explanation
Indices: 64491886--64491933 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
64491876 ATTTTGATAT
*
64491886 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
64491907 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
*
64491927 ATATGAT
1 ACATGAT
64491934 GTATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:64492057 original size:24 final size:25
Alignment explanation
Indices: 64491980--64492050 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
64491970 GGAGGAAGTG
* *
64491980 CAAAAA-GGCTTTGCCCTAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
64492004 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
64492029 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
64492051 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 5 0.12
25 37 0.88
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:64492063 original size:24 final size:24
Alignment explanation
Indices: 64491980--64492077 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
64491970 GGAGGAAGTG
* *
64491980 CAAAA-AGGCTTTGCCCTAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
64492004 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
64492029 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
64492053 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
64492078 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 20 0.32
25 43 0.68
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:64492333 original size:30 final size:32
Alignment explanation
Indices: 64492297--64492361 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
64492287 TGATATGATT
*
64492297 TGTGAATTAT-AAAAGGCTTCGGCCTAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
*
64492327 TGTGAATTATGAAGAGGCTTCGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
64492359 TGT
1 TGT
64492362 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:64494831 original size:9 final size:9
Alignment explanation
Indices: 64494817--64494999 Score: 91
Period size: 9 Copynumber: 21.0 Consensus size: 9
64494807 GTTGGCATAT
64494817 CATAACTTA
1 CATAACTTA
*
64494826 CATAACTCA
1 CATAACTTA
*
64494835 CATAACATA
1 CATAACTTA
64494844 CATAA--TA
1 CATAACTTA
*
64494851 CATAA-ATA
1 CATAACTTA
* * *
64494859 TATATCATAA
1 CATAAC-TTA
*
64494869 CATAAATGT-
1 CATAACT-TA
64494878 CATAACTTA
1 CATAACTTA
64494887 CATAACTTA
1 CATAACTTA
64494896 CATAACTTA
1 CATAACTTA
64494905 CATAA--TA
1 CATAACTTA
*
64494912 CATAA-ATA
1 CATAACTTA
* * *
64494920 TATATCATAA
1 CATAAC-TTA
*
64494930 CATAAATGT-
1 CATAACT-TA
*
64494939 CATAGCTTA
1 CATAACTTA
64494948 CATAACTTA
1 CATAACTTA
64494957 CATAA--TA
1 CATAACTTA
*
64494964 CATAA-ATA
1 CATAACTTA
* * *
64494972 GATATCATA
1 CATAACTTA
64494981 TCATAACTTA
1 -CATAACTTA
64494991 CATAACTTA
1 CATAACTTA
64495000 ATTATACTTA
Statistics
Matches: 133, Mismatches: 28, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
7 21 0.16
8 17 0.13
9 81 0.61
10 14 0.11
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:64494890 original size:52 final size:52
Alignment explanation
Indices: 64494826--64494999 Score: 197
Period size: 52 Copynumber: 3.2 Consensus size: 52
64494816 TCATAACTTA
*
64494826 CATAACTCACATAACATACATAATACATAAATATATATCATAACATAAATGT
1 CATAACTTACATAACATACATAATACATAAATATATATCATAACATAAATGT
64494878 CATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATGT
1 CATAACTTACAT-A---AC---A--TACATAATACATAAATATATATCATAACATAAATGT
* * * * *
64494939 CATAGCTTACATAACTTACATAATACATAAATAGATATCATATCATAACT-T
1 CATAACTTACATAACATACATAATACATAAATATATATCATAACATAAATGT
64494990 ACATAACTTA
1 -CATAACTTA
64495000 ATTATACTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
51 1 0.01
52 50 0.48
53 1 0.01
56 2 0.02
57 2 0.02
59 1 0.01
60 1 0.01
61 47 0.45
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (52 bp):
CATAACTTACATAACATACATAATACATAAATATATATCATAACATAAATGT
Found at i:64494911 original size:61 final size:60
Alignment explanation
Indices: 64494816--64494968 Score: 263
Period size: 61 Copynumber: 2.5 Consensus size: 60
64494806 TGTTGGCATA
*
64494816 TCATAACTTACATAACTCACATAACATACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAAC-TACATAATACATAAATATATATCATAACATAAATG
64494877 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAAC-TACATAATACATAAATATATATCATAACATAAATG
*
64494938 TCATAGCTTACATAACTTACATAA-TACATAA
1 TCATAACTTACATAACTTACATAACTACATAA
64494969 ATAGATATCA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
59 7 0.08
61 82 0.92
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (60 bp):
TCATAACTTACATAACTTACATAACTACATAATACATAAATATATATCATAACATAAATG
Found at i:64494994 original size:61 final size:59
Alignment explanation
Indices: 64494818--64494995 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 59
64494808 TTGGCATATC
* * * *
64494818 ATAACTTACATAACTCACATAACATACATAATACATAAATATATATCATAACATAAATGT-C
1 ATAAATTACATAACTTACATAACTTACATAATACATAAATA-ATATCATATCAT-AAT-TAC
*
64494879 ATAACTTACATAACTTACATAACTTACATAATACAT--A-AATAT-ATATCAT-A--AC
1 ATAAATTACATAACTTACATAACTTACATAATACATAAATAATATCATATCATAATTAC
*
64494931 ATAAATGT-CATAGCTTACATAACTTACATAATACATAAATAGATATCATATCATAACTTAC
1 ATAAAT-TACATAACTTACATAACTTACATAATACATAAATA-ATATCATATCATAA-TTAC
64494992 ATAA
1 ATAA
64494996 CTTAATTATA
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
52 33 0.33
53 1 0.01
54 2 0.02
55 1 0.01
56 10 0.10
57 11 0.11
58 2 0.02
59 1 0.01
61 40 0.40
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (59 bp):
ATAAATTACATAACTTACATAACTTACATAATACATAAATAATATCATATCATAATTAC
Found at i:64500567 original size:27 final size:28
Alignment explanation
Indices: 64500537--64500604 Score: 106
Period size: 26 Copynumber: 2.5 Consensus size: 28
64500527 ATAGTGAGTC
64500537 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
64500564 CGCACACTTAGTG--ATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
64500590 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64500605 GTACAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 7 0.19
26 17 0.46
27 13 0.35
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:64508403 original size:28 final size:27
Alignment explanation
Indices: 64508340--64508409 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
64508330 ATAGTGAGTC
64508340 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
64508367 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
64508395 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64508410 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:64510726 original size:13 final size:14
Alignment explanation
Indices: 64510710--64510738 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64510700 TTTTAAATAT
64510710 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
64510723 TTATAATGGTTTAA
1 TTATAATGGTTTAA
64510737 TT
1 TT
64510739 TGTCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:64511213 original size:21 final size:21
Alignment explanation
Indices: 64511180--64511241 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
64511170 ACTTAAAGGA
*
64511180 AGGCAGTAGTGAGGGAAGCAG
1 AGGCAGCAGTGAGGGAAGCAG
** *
64511201 AGGTGGCAGTGAGGGAAGTAG
1 AGGCAGCAGTGAGGGAAGCAG
*
64511222 AGGCAGCAGCGAGGGAAGCA
1 AGGCAGCAGTGAGGGAAGCA
64511242 AGGGAAGCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.48, T:0.08
Consensus pattern (21 bp):
AGGCAGCAGTGAGGGAAGCAG
Found at i:64511624 original size:43 final size:43
Alignment explanation
Indices: 64511571--64511663 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
64511561 CACAAACGCT
* ** * *
64511571 GCTAAAGAACAAT-AATTTTAGCGGCGCTTTTACCAAAAATACC
1 GCTAAAGAAC-ATGAACTTTAGCAACGCTTCTACCAAAAACACC
* *
64511614 GCTACAGAACATGACCTTTAGCAACGCTTCTACCAAAAACACC
1 GCTAAAGAACATGAACTTTAGCAACGCTTCTACCAAAAACACC
64511657 GCTAAAG
1 GCTAAAG
64511664 GTCATGTTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (43 bp):
GCTAAAGAACATGAACTTTAGCAACGCTTCTACCAAAAACACC
Found at i:64511695 original size:43 final size:44
Alignment explanation
Indices: 64511648--64511765 Score: 168
Period size: 43 Copynumber: 2.7 Consensus size: 44
64511638 CGCTTCTACC
* *
64511648 AAAAACACCGCTAAAGGTCATGTTCTATAGCGA-CGTTTGTGGA
1 AAAAACGCCGCTAAAGGTCACGTTCTATAGCGAGCGTTTGTGGA
* *
64511691 AAAAACGCCGCTAAAGGTCACGTTCTGTAGC-AGCGTTTGTTGA
1 AAAAACGCCGCTAAAGGTCACGTTCTATAGCGAGCGTTTGTGGA
* *
64511734 AAAAATGCCACTAAAGGTCACGTTCTATAGCG
1 AAAAACGCCGCTAAAGGTCACGTTCTATAGCG
64511766 GTGTTTTTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
AAAAACGCCGCTAAAGGTCACGTTCTATAGCGAGCGTTTGTGGA
Found at i:64515685 original size:33 final size:33
Alignment explanation
Indices: 64515648--64515739 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
64515638 AATCAAATTG
64515648 TTTCAAACAATTCCATGCAATTCAATTAGATCA
1 TTTCAAACAATTCCATGCAATTCAATTAGATCA
*
64515681 TTTCAAACAATTCCATGCAATTTAATTAGATCA
1 TTTCAAACAATTCCATGCAATTCAATTAGATCA
*
64515714 TTTCAAACAATTCCATGTAATTCAAT
1 TTTCAAACAATTCCATGCAATTCAAT
64515740 CAAAATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (33 bp):
TTTCAAACAATTCCATGCAATTCAATTAGATCA
Found at i:64515750 original size:33 final size:33
Alignment explanation
Indices: 64515634--64515752 Score: 141
Period size: 33 Copynumber: 3.6 Consensus size: 33
64515624 CCCAAATGTG
* **
64515634 ATTCAATCAAATTGTTTCAAACAATTCCATGCA
1 ATTCAATAAAATCATTTCAAACAATTCCATGCA
* *
64515667 ATTCAATTAGATCATTTCAAACAATTCCATGCA
1 ATTCAATAAAATCATTTCAAACAATTCCATGCA
* * * *
64515700 ATTTAATTAGATCATTTCAAACAATTCCATGTA
1 ATTCAATAAAATCATTTCAAACAATTCCATGCA
64515733 ATTCAATCAAAAT-ATTTCAA
1 ATTCAAT-AAAATCATTTCAA
64515753 GCCGCCTCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
33 73 0.96
34 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.35
Consensus pattern (33 bp):
ATTCAATAAAATCATTTCAAACAATTCCATGCA
Found at i:64526503 original size:47 final size:47
Alignment explanation
Indices: 64526434--64526636 Score: 325
Period size: 47 Copynumber: 4.3 Consensus size: 47
64526424 CCCTTCGGGA
* *
64526434 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
64526481 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
64526528 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
64526575 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
64526622 CTTATCACACATATA
1 CTTATCACACATATA
64526637 TGTATATCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:64526595 original size:94 final size:94
Alignment explanation
Indices: 64526434--64526636 Score: 388
Period size: 94 Copynumber: 2.2 Consensus size: 94
64526424 CCCTTCGGGA
*
64526434 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64526499 TTTCACATTCATCACATTGGCCGTTCGGC
66 TTTCACATTCATCACATTGGCCGTTCGGC
*
64526528 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64526593 TTTCACATTCATCACATTGGCCGTTCGGC
66 TTTCACATTCATCACATTGGCCGTTCGGC
64526622 CTTATCACACATATA
1 CTTATCACACATATA
64526637 TGTATATCAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 107 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCGTTCGGC
Found at i:64542977 original size:21 final size:21
Alignment explanation
Indices: 64542951--64542992 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64542941 GTACTGAAAA
* *
64542951 CCTGTCTGCCAATTACAATGT
1 CCTGTCAGCCAATTAAAATGT
*
64542972 CCTGTCAGCTAATTAAAATGT
1 CCTGTCAGCCAATTAAAATGT
64542993 TATTTGAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTGTCAGCCAATTAAAATGT
Found at i:64546163 original size:22 final size:22
Alignment explanation
Indices: 64546138--64546212 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
64546128 AAACACATAT
*
64546138 ACAGAGAACTTCCTACTTACAC
1 ACAGAGAACTTCCTACTAACAC
*
64546160 ACAGCA-AACTT--TAC-ACACAT
1 ACAG-AGAACTTCCTACTA-ACAC
* *
64546180 ACAGAGCATTTCCTACTAACAC
1 ACAGAGAACTTCCTACTAACAC
*
64546202 ACAGCGAACTT
1 ACAGAGAACTT
64546213 TACCTTTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
19 1 0.03
20 13 0.33
22 23 0.59
23 2 0.05
ACGTcount: A:0.39, C:0.31, G:0.09, T:0.21
Consensus pattern (22 bp):
ACAGAGAACTTCCTACTAACAC
Found at i:64546193 original size:42 final size:42
Alignment explanation
Indices: 64546130--64546215 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
64546120 AACTACACAA
* *
64546130 ACACATATACAGAGAACTTCCTACTTACACACAGCAAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
* * *
64546172 ACACACATACAGAGCATTTCCTACTAACACACAGCGAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
64546214 AC
1 AC
64546216 CTTTTTGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (42 bp):
ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
Found at i:64548964 original size:49 final size:49
Alignment explanation
Indices: 64548906--64549488 Score: 860
Period size: 49 Copynumber: 11.9 Consensus size: 49
64548896 GTATGAGATG
*
64548906 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
64548955 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
64549004 TATATATGTAATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
64549053 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
64549100 TATATATGTGATAAGGCCTAACGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
64549149 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
64549196 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
64549243 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
64549292 TATACATGTGATAAGGCCTAATGGCCAATGTTATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
64549339 TATATATGTGATAAGGCCTAATGGCCAATGTG-GGCCAATGTGATGAATGTGAAAGA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATG--AATGTGA--AA-GTG---TA
* *
64549395 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 -TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
64549445 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
64549489 TATATGTGTG
Statistics
Matches: 491, Mismatches: 27, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
46 1 0.00
47 166 0.34
48 7 0.01
49 269 0.55
50 3 0.01
51 2 0.00
53 3 0.01
54 1 0.00
56 7 0.01
57 31 0.06
58 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:64549132 original size:96 final size:95
Alignment explanation
Indices: 64548905--64549488 Score: 875
Period size: 96 Copynumber: 6.0 Consensus size: 95
64548895 TGTATGAGAT
* *
64548905 GTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA-ATGTGATAAG
* *
64548970 GCCTAATGGCCAATGTGATGAACGTGAAAGT
65 GCCTAATGGCCAATGTGATGAATGTGAAAGA
*
64549001 GTATATATATGTAATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA-ATGTGATA
64549066 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
63 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
64549099 GTATATATGTGATAAGGCCTAACGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA-ATGTGATAAG
64549164 GCCTAATGGCCAATGTGATGAATGTGAAAGA
65 GCCTAATGGCCAATGTGATGAATGTGAAAGA
64549195 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATAATGTGATAAGG
*
64549259 CCTAATGGCCAATGTGATGAATGTGAAAGT
66 CCTAATGGCCAATGTGATGAATGTGAAAGA
*
64549289 GTATATACATGTGATAAGGCCTAATGGCCAATGTTATGAATGTGAAAGAGTATAT-ATGTGATAA
1 GTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATAATGTGATAA
64549353 GGCCTAATGGCCAATGTGGGCCAATGTGATGAATGTGAAAGA
64 GGCC---T----AA--T-GGCCAATGTGATGAATGTGAAAGA
* * *
64549395 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA-ATGTGATAAG
*
64549460 GCCTAATGGCCGATGTGATGAATGTGAAA
65 GCCTAATGGCCAATGTGATGAATGTGAAA
64549489 TATATGTGTG
Statistics
Matches: 453, Mismatches: 19, Indels: 32
0.90 0.04 0.06
Matches are distributed among these distances:
94 46 0.10
96 224 0.49
97 1 0.00
98 90 0.20
99 3 0.01
103 3 0.01
104 43 0.09
105 1 0.00
106 42 0.09
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (95 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATAATGTGATAAGG
CCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:64549385 original size:57 final size:57
Alignment explanation
Indices: 64549314--64549427 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
64549304 AAGGCCTAAT
*
64549314 GGCCAATGTTATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTG
1 GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
64549371 GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTG
64549428 ATGAATGTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (57 bp):
GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTG
Found at i:64549393 original size:106 final size:105
Alignment explanation
Indices: 64549265--64549476 Score: 336
Period size: 106 Copynumber: 2.0 Consensus size: 105
64549255 AAGGCCTAAT
* *
64549265 GGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTTATGAAT
1 GGCCAATGTGATGAATGTGAAAGAGTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAAT
64549330 GTGAAAGAG-TATATATGTGATAAGGCCTAATGGCCAATGTG
64 GTGAAAGAGATATATATGTGATAAGGCCTAATGGCCAATGTG
*
64549371 GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* * *
64549436 GAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
66 GAAAGAG-ATATATATGTGATAAGGCCTAATGGCCAATGTG
64549477 ATGAATGTGA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
104 38 0.39
106 60 0.61
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (105 bp):
GGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
GAAAGAGATATATATGTGATAAGGCCTAATGGCCAATGTG
Found at i:64549532 original size:153 final size:148
Alignment explanation
Indices: 64548908--64549534 Score: 835
Period size: 143 Copynumber: 4.2 Consensus size: 148
64548898 ATGAGATGTA
* * *
64548908 TATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCC-AAGGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCC
* * *
64548973 TAATGGCCAATGTGATGAACGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCAATGTGAT
63 TAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGAT
64549038 GAATGTGAAAGAG--TATA--
128 GAATGTGAAAGAGTATATATG
* *
64549055 TACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCC-AAGGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTA
*
64549120 ACGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGA
65 ATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGA
64549185 ATGTGAAAGAG----TA--
130 ATGTGAAAGAGTATATATG
*
64549198 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCC-AAGGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTA
*
64549263 ATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTTATGA
65 ATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGA
64549328 ATGTGAAAGAGTATATATG
130 ATGTGAAAGAGTATATATG
* *
64549347 TGATAAG-GCCTAATGGCCAATGTGGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAG
1 T-ATATGTG-ATAA-GGCCAA---GGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAG
* * * *
64549411 GCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
60 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGT
* *
64549476 GATGAATGTGAAATATATGTGTGATATG
125 GATGAATGTG-AA-AGA-GTAT-ATATG
* * *
64549504 TATATGTGGTAAAGCCGAAGGGCTAATGTGA
1 TATATGTGATAAGGCC-AAGGGCCAATGTGA
64549535 AATATATGTG
Statistics
Matches: 438, Mismatches: 24, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
143 140 0.32
145 92 0.21
147 44 0.10
149 2 0.00
150 9 0.02
151 4 0.01
153 121 0.28
154 2 0.00
155 5 0.01
156 12 0.03
157 7 0.02
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (148 bp):
TATATGTGATAAGGCCAAGGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAA
TGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAA
TGTGAAAGAGTATATATG
Found at i:64549537 original size:48 final size:48
Alignment explanation
Indices: 64549480--64549631 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
64549470 CGATGTGATG
*
64549480 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
64549528 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
64549576 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
64549624 AATGTGAA
1 AATGTGAA
64549632 TGTTGTAACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:64549725 original size:37 final size:37
Alignment explanation
Indices: 64549671--64549798 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
64549661 AACTTGGAAA
*
64549671 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64549709 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
64549746 TATGTCCGGGTAAGACCTGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64549783 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
64549799 TTCGTAATAA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
37 84 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:64552469 original size:37 final size:37
Alignment explanation
Indices: 64552419--64552495 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
64552409 TCTCACTTTA
64552419 TAATAGGATCTTTCAGTTACTAGAACATAAAATAAAC
1 TAATAGGATCTTTCAGTTACTAGAACATAAAATAAAC
*
64552456 TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
1 TAATAGGATCTTTCAGTTACTAGAACATAAAATAAAC
64552493 TAA
1 TAA
64552496 GTACAACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (37 bp):
TAATAGGATCTTTCAGTTACTAGAACATAAAATAAAC
Found at i:64555778 original size:36 final size:36
Alignment explanation
Indices: 64555738--64555826 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 36
64555728 ATTAGCGCTA
* *
64555738 GGCACATAAC-ATTGTCAGTTTATCCGACCACTGTGG
1 GGCACA-AACTATTGTCAGTTTATCCAACCACTGTAG
*
64555774 GGCAC-AACTATTGTCAGTTTATCCAACCAGTGTAG
1 GGCACAAACTATTGTCAGTTTATCCAACCACTGTAG
*
64555809 GGCAC-AATTATTGTCAGT
1 GGCACAAACTATTGTCAGT
64555827 ATATTTGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
34 3 0.06
35 40 0.83
36 5 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (36 bp):
GGCACAAACTATTGTCAGTTTATCCAACCACTGTAG
Found at i:64555794 original size:35 final size:35
Alignment explanation
Indices: 64555748--64555826 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
64555738 GGCACATAAC
* *
64555748 ATTGTCAGTTTATCCGACCACTGTGGGGCACAACT
1 ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
* *
64555783 ATTGTCAGTTTATCCAACCAGTGTAGGGCACAATT
1 ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
64555818 ATTGTCAGT
1 ATTGTCAGT
64555827 ATATTTGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
Found at i:64567827 original size:11 final size:11
Alignment explanation
Indices: 64567813--64567842 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64567803 TTTATTCATT
64567813 TTTTAATTTTG
1 TTTTAATTTTG
64567824 TTTTAATTTTG
1 TTTTAATTTTG
*
64567835 TTTAAATT
1 TTTTAATT
64567843 ACAAAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTAATTTTG
Found at i:64577770 original size:69 final size:69
Alignment explanation
Indices: 64577659--64577793 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
64577649 ACTATATCAG
*
64577659 CCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCTG
1 CCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCTG
64577724 TCAA
66 TCAA
* *
64577728 CCCTACCACAATTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAGCCTG
1 CCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCTG
64577793 T
66 T
64577794 TTTTCCTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
CCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCTG
TCAA
Found at i:64580891 original size:45 final size:45
Alignment explanation
Indices: 64580807--64580893 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
64580797 AAACCTTATT
* * *
64580807 CTATTAACCCTCTAGTAGGGTATTTCTCCTAAAAGTCTTACTGTC
1 CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
* *
64580852 CTATTAACCTTCTAGT-GGAGTATTTATACTAGAACTCTTACT
1 CTATTAACCCTCTAGTAGG-GTATTTATACTAAAACTCTTACT
64580894 ATTAACAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
Found at i:64588217 original size:5 final size:5
Alignment explanation
Indices: 64588207--64588241 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
64588197 TTTTAATGTG
64588207 AAAAT AAAAT AAAAT AAAAT AAAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AAA
64588242 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:64588610 original size:29 final size:29
Alignment explanation
Indices: 64588578--64588651 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
64588568 ACACGAATTT
*
64588578 TCAATGAACAAGTTCTTCATCGCGAACTC
1 TCAACGAACAAGTTCTTCATCGCGAACTC
*
64588607 TCAACGAACAAGTTCTTCATTGCGAACTC
1 TCAACGAACAAGTTCTTCATCGCGAACTC
64588636 TCAACGAACAAGTTCT
1 TCAACGAACAAGTTCT
64588652 CCAGTTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (29 bp):
TCAACGAACAAGTTCTTCATCGCGAACTC
Found at i:64591599 original size:29 final size:29
Alignment explanation
Indices: 64591544--64591613 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
64591534 GCGTAGATCA
64591544 CGAAATTACCCCT-AAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
64591572 CGAAATTACCCCTAAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
*
64591601 CGATA-TACCCCTA
1 CGAAATTACCCCTA
64591614 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (29 bp):
CGAAATTACCCCTAAAAGAGCAAAATTAC
Found at i:64596160 original size:40 final size:40
Alignment explanation
Indices: 64596105--64596268 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
64596095 TGAATGATAC
* * *
64596105 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
64596145 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
64596185 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
64596225 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
64596265 CCGG
1 CCGG
64596269 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:64596238 original size:80 final size:80
Alignment explanation
Indices: 64596105--64596282 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
64596095 TGAATGATAC
* * * * * *
64596105 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
64596169 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
64596185 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
64596250 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
64596265 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
64596283 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:64599122 original size:489 final size:489
Alignment explanation
Indices: 64598197--64599177 Score: 1881
Period size: 489 Copynumber: 2.0 Consensus size: 489
64598187 TTAGATTTAC
* *
64598197 CGCGAGGATTTCGTTCTTGTGTCCTTCCACGATCATCATTAGCATTCCGATCTTGTCTCCCACGA
1 CGCGAGAATTTCGTTCTTGTGTCCTTCCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGA
64598262 ACAATAAAACCCTCTCCTTGAGAGTCGGGTTTAACCATAAGATGCTTCATTTTATCATACGAGGT
66 ACAATAAAACCCTCTCCTTGAGAGTCGGGTTTAACCATAAGATGCTTCATTTTATCATACGAGGT
64598327 CAAAGAATCATAAACCTTATCAACTGTGAGAGACTCGCGGCTATATAAAATCGTGTCTCTAAAGG
131 CAAAGAATCATAAACCTTATCAACTGTGAGAGACTCGCGGCTATATAAAATCGTGTCTCTAAAGG
64598392 TTGAATAAGACGGGGGCAACGAATAAAGTAGAATCAATCCTAGATCTTCCTTATCATACTGAACC
196 TTGAATAAGACGGGGGCAACGAATAAAGTAGAATCAATCCTAGATCTTCCTTATCATACTGAACC
* *
64598457 TCCATAGCCTCTAAGTTTGAGAGAATTTCTTTAAACACTGTTAAGTGTTCGTGTATAGACGCACC
261 TCCATAGCCTCTAAGTTTGAGAGAATTTCTTTAAACACTGTTAAGTGTTCATGTATAGACACACC
64598522 TTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
326 TTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
64598587 TACATATTTGTTCTAGCCTCTTCCATAACGCACGTCGGTCTTCTCTTTCAAAACATCCTGCAAAA
391 TACATATTTGTTCTAGCCTCTTCCATAACGCACGTCGGTCTTCTCTTTCAAAACATCCTGCAAAA
64598652 TTTCGTTGGACAAATGCAGATGTAATTGTGTTAA
456 TTTCGTTGGACAAATGCAGATGTAATTGTGTTAA
64598686 CGCGAGAATTTCGTTCTTGTGTCCTTCCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGA
1 CGCGAGAATTTCGTTCTTGTGTCCTTCCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGA
64598751 ACAATAAAACCCTCTCCTTGAGAGTCGGGTTTAACCATAAGATGCTTCATTTTATCATACGAGGT
66 ACAATAAAACCCTCTCCTTGAGAGTCGGGTTTAACCATAAGATGCTTCATTTTATCATACGAGGT
* *
64598816 TAAAGAATCATAAACCTTATCAACTGTGAGAGGCTCGCGGCTATATAAAATCGTGTCTCTAAAGG
131 CAAAGAATCATAAACCTTATCAACTGTGAGAGACTCGCGGCTATATAAAATCGTGTCTCTAAAGG
64598881 TTGAATAAGACGGGGGCAACGAATAAAGTAGAATCAATCCTAGATCTTCCTTATCATACTGAACC
196 TTGAATAAGACGGGGGCAACGAATAAAGTAGAATCAATCCTAGATCTTCCTTATCATACTGAACC
*
64598946 TCCATGGCCTCTAAGTTTGAGAGAATTTCTTTAAACACTGTTAAGTGTTCATGTATAGACACACC
261 TCCATAGCCTCTAAGTTTGAGAGAATTTCTTTAAACACTGTTAAGTGTTCATGTATAGACACACC
64599011 TTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
326 TTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
* *
64599076 TACATATTTGTTCTAGCCTCTTCCATAATGCACGTCGGTCTTCTCTTTCAAAACATCCTGTAAAA
391 TACATATTTGTTCTAGCCTCTTCCATAACGCACGTCGGTCTTCTCTTTCAAAACATCCTGCAAAA
64599141 TTTCGTTGGACAAATGCAGATGTAATTGTGTTAA
456 TTTCGTTGGACAAATGCAGATGTAATTGTGTTAA
64599175 CGC
1 CGC
64599178 CTTTCAATCC
Statistics
Matches: 483, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
489 483 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (489 bp):
CGCGAGAATTTCGTTCTTGTGTCCTTCCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGA
ACAATAAAACCCTCTCCTTGAGAGTCGGGTTTAACCATAAGATGCTTCATTTTATCATACGAGGT
CAAAGAATCATAAACCTTATCAACTGTGAGAGACTCGCGGCTATATAAAATCGTGTCTCTAAAGG
TTGAATAAGACGGGGGCAACGAATAAAGTAGAATCAATCCTAGATCTTCCTTATCATACTGAACC
TCCATAGCCTCTAAGTTTGAGAGAATTTCTTTAAACACTGTTAAGTGTTCATGTATAGACACACC
TTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
TACATATTTGTTCTAGCCTCTTCCATAACGCACGTCGGTCTTCTCTTTCAAAACATCCTGCAAAA
TTTCGTTGGACAAATGCAGATGTAATTGTGTTAA
Found at i:64599409 original size:5 final size:5
Alignment explanation
Indices: 64599399--64599442 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
64599389 CCAATTTGTG
*
64599399 AAAAT AAAAT AAAAT AAAA- AATA- AAAAT -AAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
64599443 GAACACACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:64599427 original size:13 final size:13
Alignment explanation
Indices: 64599404--64599442 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
64599394 TTGTGAAAAT
64599404 AAAAT-AAAATAA
1 AAAATAAAAATAA
64599416 AAAATAAAAATAA
1 AAAATAAAAATAA
64599429 AAAA-ATAAAATAA
1 AAAATA-AAAATAA
64599442 A
1 A
64599443 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:64601169 original size:46 final size:45
Alignment explanation
Indices: 64601119--64601290 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 45
64601109 ATAATGCCTA
* *
64601119 GTCACCCATTAGGGTTGAACTTACACAAATCAAATAATAGTGAATG
1 GTCACCCATTAGGGTTGAACCTACACAAAT-AAATAATAGTGCATG
* * * ** * * *
64601165 GTCACTCGTCAGGGTTGAACCTACATGAATAATATAATAATGCCTA
1 GTCACCCATTAGGGTTGAACCTACACAAATAA-ATAATAGTGCATG
* * * * * *
64601211 GTCACTCGTTAGGGTTAAACCTACACGAATAGGATAATAGTGCTTG
1 GTCACCCATTAGGGTTGAACCTACACAAATA-AATAATAGTGCATG
*
64601257 GTTACCCATTAGGGTTGAACCTACACAAA-AAATA
1 GTCACCCATTAGGGTTGAACCTACACAAATAAATA
64601291 GCCTAGCTAG
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 95 0.94
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (45 bp):
GTCACCCATTAGGGTTGAACCTACACAAATAAATAATAGTGCATG
Found at i:64601223 original size:92 final size:92
Alignment explanation
Indices: 64601036--64601281 Score: 233
Period size: 92 Copynumber: 2.7 Consensus size: 92
64601026 TTACTCGTTT
* * * ** * * * *
64601036 GGGTTAAACCTATACGAATAATGAATCATAGTGCTTGGTTACCCATCAGGGTTAAACCTAAACGA
1 GGGTTAAACCTACACAAAT-A-GAATAATAGTGAATGGTCACCCATCAGGGTTGAACCTACATGA
*** *
64601101 ATCGGATGATAATGCCTAGTCACCCATTA
64 ATAATATAATAATGCCTAGTCACCCATTA
* * * *
64601130 GGGTTGAACTTACACAAATCA-AATAATAGTGAATGGTCACTCGTCAGGGTTGAACCTACATGAA
1 GGGTTAAACCTACACAAAT-AGAATAATAGTGAATGGTCACCCATCAGGGTTGAACCTACATGAA
* *
64601194 TAATATAATAATGCCTAGTCACTCGTTA
65 TAATATAATAATGCCTAGTCACCCATTA
* * ** * *
64601222 GGGTTAAACCTACACGAATAGGATAATAGTGCTTGGTTACCCATTAGGGTTGAACCTACA
1 GGGTTAAACCTACACAAATAGAATAATAGTGAATGGTCACCCATCAGGGTTGAACCTACA
64601282 CAAAAAATAG
Statistics
Matches: 121, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
91 1 0.01
92 104 0.86
94 16 0.13
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (92 bp):
GGGTTAAACCTACACAAATAGAATAATAGTGAATGGTCACCCATCAGGGTTGAACCTACATGAAT
AATATAATAATGCCTAGTCACCCATTA
Found at i:64610926 original size:27 final size:26
Alignment explanation
Indices: 64610878--64610929 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64610868 GCGAGGCTGC
*
64610878 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
64610904 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64610930 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64611659 original size:11 final size:11
Alignment explanation
Indices: 64611639--64611667 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64611629 TGGGCCTACA
64611639 GACC-CATTGG
1 GACCACATTGG
64611649 GACCACATTGG
1 GACCACATTGG
64611660 GACCACAT
1 GACCACAT
64611668 GGCCCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (11 bp):
GACCACATTGG
Found at i:64613651 original size:93 final size:93
Alignment explanation
Indices: 64613539--64613710 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64613529 CGCCCATAAG
* *
64613539 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64613604 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64613632 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64613697 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64613711 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64613707 original size:46 final size:46
Alignment explanation
Indices: 64613532--64613707 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
64613522 TGTAACCCGC
* * *
64613532 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
64613578 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64613628 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64613671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64613708 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64614161 original size:30 final size:30
Alignment explanation
Indices: 64614127--64614183 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
64614117 ATTTAATACG
64614127 AACTTTGGAAAAACTACACTTTTGCCCCTA
1 AACTTTGGAAAAACTACACTTTTGCCCCTA
* * * *
64614157 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAACTACACTTTTGCCC
64614184 TAGGCTCGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAACTACACTTTTGCCCCTA
Found at i:64615878 original size:15 final size:16
Alignment explanation
Indices: 64615845--64615888 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
64615835 CTTCTTCCTC
64615845 TCTTTTTCCTCTATTT
1 TCTTTTTCCTCTATTT
64615861 TCTTTCTTCCT-T-TTT
1 TCTTT-TTCCTCTATTT
*
64615876 TCTTTTTCTTCTA
1 TCTTTTTCCTCTA
64615889 GCCGAAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 6 0.25
17 5 0.21
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTTCCTCTATTT
Found at i:64617252 original size:65 final size:64
Alignment explanation
Indices: 64617172--64617301 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 64
64617162 TTACTAGGGT
*
64617172 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTT-CTACATGCCATGTTATTATTATCTGA
* *
64617237 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGTTATTATTATTTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTCTACATGCCATGTTATTATTATCTGA
64617301 T
1 T
64617302 GCATGAGACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 25 0.40
65 37 0.60
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (64 bp):
TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTCTACATGCCATGTTATTATTATCTGA
Found at i:64620513 original size:2 final size:2
Alignment explanation
Indices: 64620506--64620546 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
64620496 GGCCATTTGC
64620506 AT AT AT 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 AT AT AT A
64620547 CAGAACCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64636613 original size:37 final size:37
Alignment explanation
Indices: 64636554--64636662 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
64636544 AGCTCAGATG
* *
64636554 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
64636591 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
64636628 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
64636663 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:64636863 original size:48 final size:48
Alignment explanation
Indices: 64636809--64637163 Score: 505
Period size: 48 Copynumber: 7.2 Consensus size: 48
64636799 ACACATCGCC
*
64636809 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
64636857 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAAATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
64636907 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
64636955 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
64637007 TATATATTTCACATTAACCATTCAGCTTTACTACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
64637059 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64637107 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64637155 TACATATTT
1 TACATATTT
64637164 TGTAACACCC
Statistics
Matches: 282, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
48 146 0.52
49 2 0.01
50 42 0.15
52 92 0.33
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:64636962 original size:98 final size:98
Alignment explanation
Indices: 64636812--64637163 Score: 530
Period size: 100 Copynumber: 3.6 Consensus size: 98
64636802 CATCGCCTAC
* *
64636812 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
64636877 TTCGGCTTTACCACATATACAAATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
64636910 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
64636974 ATTCGGCTTTACCACATATACATATCTCATATATAT
65 ATTCGGCTTTACCACATATACATATCTC--ATATAT
* * * * *
64637010 ATATTTCACATTAACCATTCAGCTTTACTACATATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
64637075 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
64637110 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
64637164 TGTAACACCC
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
96 9 0.04
97 1 0.00
98 86 0.37
100 89 0.39
104 46 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:64637113 original size:152 final size:149
Alignment explanation
Indices: 64636809--64637161 Score: 552
Period size: 152 Copynumber: 2.4 Consensus size: 149
64636799 ACACATCGCC
* *
64636809 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC---ATACATATTTCACAC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAATATATATTTCACAC
* *
64636871 TAGCCATTCGGCTTTACCACATATACAAATCTCATATATATATTTCACATTGACCATTCGGCTTT
66 TAACCATTCAGCTTTACCACATATACAAATCTCATATATATATTTCACATTGACCATTCGGCTTT
*
64636936 ACCACATATGCATATCTCA
131 ACCACATATACATATCTCA
64636955 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA-ATATATATTTCACA
* * * *
64637020 TTAACCATTCAGCTTTACTACATATACATATCTCATATATATATATTTCGCATT-AGCCATTCGG
65 CTAACCATTCAGCTTTACCACATATACAAATCTC--ATATATATATTTCACATTGA-CCATTCGG
64637084 CTTTACCACATATACATATCTCA
127 CTTTACCACATATACATATCTCA
64637107 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA-ATAT
64637162 TTTGTAACAC
Statistics
Matches: 190, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
146 46 0.24
150 42 0.22
151 1 0.01
152 101 0.53
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (149 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAATATATATTTCACAC
TAACCATTCAGCTTTACCACATATACAAATCTCATATATATATTTCACATTGACCATTCGGCTTT
ACCACATATACATATCTCA
Found at i:64638572 original size:40 final size:39
Alignment explanation
Indices: 64638527--64638734 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
64638517 CGGAATACAA
*
64638527 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
64638567 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
64638607 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
64638647 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
64638687 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
64638727 CCGGATAT
1 CCGGATAT
64638735 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:64638667 original size:80 final size:80
Alignment explanation
Indices: 64638527--64638733 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
64638517 CGGAATACAA
* * *
64638527 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
64638591 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
64638607 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
64638671 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
64638687 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
64638734 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:64646615 original size:40 final size:39
Alignment explanation
Indices: 64646570--64646777 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
64646560 CGGAATACAA
*
64646570 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
64646610 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
64646650 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
64646690 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
64646730 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
64646770 CCGGATAT
1 CCGGATAT
64646778 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:64646710 original size:80 final size:80
Alignment explanation
Indices: 64646570--64646776 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
64646560 CGGAATACAA
* * *
64646570 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
64646634 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
64646650 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
64646714 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
64646730 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
64646777 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:64648502 original size:48 final size:48
Alignment explanation
Indices: 64648446--64648641 Score: 338
Period size: 48 Copynumber: 4.1 Consensus size: 48
64648436 TTGGGCTGTC
*
64648446 ACATATTTCACATTAGCCATTCGGCTTTACCACATATAGATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
*
64648494 ACATATTTCACATTAGCCATACGGCTTTACCACATATACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
*
64648542 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
* * *
64648590 ACATATTTCACATTAGCCATTCAGTTTTACCACATATACATATCTTAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
64648638 ACAT
1 ACAT
64648642 CAATTTCAGT
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 140 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
Found at i:64662515 original size:39 final size:39
Alignment explanation
Indices: 64662434--64662557 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
64662424 TATGGTAACC
* *
64662434 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
64662474 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
64662513 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
64662552 CGCACA
1 CGCACA
64662558 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:64666266 original size:40 final size:40
Alignment explanation
Indices: 64666211--64666380 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
64666201 AACATTGGAA
64666211 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64666251 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64666291 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64666330 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64666371 CTATATCCGG
1 ATATATCCGG
64666381 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64673793 original size:40 final size:41
Alignment explanation
Indices: 64673738--64673819 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
64673728 CATTCGGTTT
64673738 GAGGCAAGCATATTGATGCCTATTCTTGGCTTAG-AAATTC
1 GAGGCAAGCATATTGATGCCTATTCTTGGCTTAGAAAATTC
64673778 GAGGCAAGCATATTGATGCCTATTCTTGGCTTAGAAAATTC
1 GAGGCAAGCATATTGATGCCTATTCTTGGCTTAGAAAATTC
64673819 G
1 G
64673820 GCTAAGAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 34 0.83
41 7 0.17
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (41 bp):
GAGGCAAGCATATTGATGCCTATTCTTGGCTTAGAAAATTC
Found at i:64674400 original size:40 final size:40
Alignment explanation
Indices: 64674345--64674514 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
64674335 AACATTGGAA
64674345 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64674385 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64674425 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64674464 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64674505 CTATATCCGG
1 ATATATCCGG
64674515 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64682220 original size:46 final size:45
Alignment explanation
Indices: 64682170--64682334 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 45
64682160 TGTAGCCAAC
*
64682170 GCATGTCCCAGACATGTCTTACACTGGCTTAT-GTCCCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACT-GCTTATCGTCACGA-GCCGAT
* * *
64682216 GCATGTCGCAGACATGTCTTACACTAGC--ACTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACT-GCTTA-TCGTCACGA-GCCGAT
* ** * * *
64682262 GCCATGTCTCAGACATGGTCTTACACTAATTCTCGTAATGTAGCCGAT
1 G-CATGTCCCAGACAT-GTCTTACACTGCTTATCGTCACG-AGCCGAT
64682310 GCATGTCCCAGACATGTCTTACACT
1 GCATGTCCCAGACATGTCTTACACT
64682335 AGCTCACACA
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 48 0.49
47 26 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTGCTTATCGTCACGAGCCGAT
Found at i:64682315 original size:47 final size:46
Alignment explanation
Indices: 64682210--64682335 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
64682200 ATGTCCCGAG
* * *
64682210 GCCGATGCATGTCGCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTATCAAT
* ** **
64682256 GCCGATGCCATGTCTCAGACATGGTCTTACACTAATTCTCGTAATGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTCGT-ATCAAT
64682304 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
64682336 GCTCACACAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 18 0.26
47 26 0.38
48 23 0.33
49 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTATCAAT
Found at i:64690565 original size:47 final size:48
Alignment explanation
Indices: 64690508--64690635 Score: 172
Period size: 47 Copynumber: 2.7 Consensus size: 48
64690498 CTCAATCGAT
* *
64690508 AAGTATCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATC-CCA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCTCCA
* * *
64690555 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGCAACTTCTCTCTA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCTCCA
*
64690603 AA-TACCTATACCATGGCCCT-TAACCAAATCAAG
1 AAGTACCTATACCATGG-CCTGTAGCCAAATCAAG
64690636 CTATTATTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 66 0.92
48 6 0.08
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCTCCA
Found at i:64694204 original size:40 final size:40
Alignment explanation
Indices: 64694121--64694333 Score: 282
Period size: 40 Copynumber: 5.3 Consensus size: 40
64694111 GTATCTGGGC
* * *
64694121 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGT
*
64694162 TAAGTCCCGAAGGCATTTGTACGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
64694202 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* * * *
64694242 TAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* * * * * *
64694282 TAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
*
64694322 TATGTCCCGAAG
1 TAAGTCCCGAAG
64694334 ACAACCGAGC
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
40 135 0.87
41 20 0.13
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
Found at i:64694358 original size:80 final size:80
Alignment explanation
Indices: 64694117--64694359 Score: 218
Period size: 80 Copynumber: 3.0 Consensus size: 80
64694107 AATGGTATCT
** * * * * ***
64694117 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACCAAAACCGGGCTAAGTCCCGAAGACAACCGT
* * *
64694182 ACGAGTTACCAAAACC
65 ACGAGTCACTAAATCC
* * * * * ***
64694198 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTA
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCGTA
*
64694263 CGAGTTACTAAATCC
66 CGAGTCACTAAATCC
* * * *
64694278 GGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAACCG-A
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCGTA
* *
64694342 GCGAGTCGCTATATCC
66 -CGAGTCACTAAATCC
64694358 GG
1 GG
64694360 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 113 0.81
81 25 0.18
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCGTA
CGAGTCACTAAATCC
Found at i:64702319 original size:40 final size:40
Alignment explanation
Indices: 64702230--64702408 Score: 223
Period size: 40 Copynumber: 4.5 Consensus size: 40
64702220 CGAATGGTAT
* * *
64702230 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
*
64702271 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
64702311 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
64702351 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
64702391 CCGGGCTATGTCCTGAAG
1 CCGGGCTAAGTCCCGAAG
64702409 ACAACCGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 97 0.79
41 26 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:64702433 original size:80 final size:80
Alignment explanation
Indices: 64702271--64702434 Score: 175
Period size: 80 Copynumber: 2.0 Consensus size: 80
64702261 GTGACCAAAA
* * * * * ***
64702271 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCG
* *
64702336 TGCGAGTTACTAAAT
66 AGCGAGTCACTAAAT
* * * * *
64702351 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCTGAAGACAACCG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCG
* *
64702416 AGCGAGTCGCTATAT
66 AGCGAGTCACTAAAT
64702431 CCGG
1 CCGG
64702435 TTAAATTTCG
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAACCG
AGCGAGTCACTAAAT
Found at i:64705662 original size:42 final size:41
Alignment explanation
Indices: 64705616--64705769 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 41
64705606 TATCGTACCA
*
64705616 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCATATCG
* *
64705658 ATGCCAATAGCCCA-ACTATGGTCTTACATGAAATCTCATATCA
1 ATGCC-ATATCCCAGA-TATGGTCTTACATG-AATCTCATATCG
** * * * *
64705701 ATTTCATATCCTAGATATGGTCTGACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
64705743 ATCCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
64705770 CATAGTCTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 55 0.60
43 35 0.38
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:64722302 original size:42 final size:42
Alignment explanation
Indices: 64722195--64722350 Score: 213
Period size: 42 Copynumber: 3.7 Consensus size: 42
64722185 TACCATACCA
* * *
64722195 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
64722237 ACGCTAATATCCCAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGC-CATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
64722280 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
64722322 ATGCCATATCCCAGATATGCTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
64722351 TAGTTTTAGT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:64735130 original size:26 final size:27
Alignment explanation
Indices: 64735101--64735159 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
64735091 GGATGTTACA
* *
64735101 AATGTCCTATCGAACTATC-CGTGTTT
1 AATGTCCCATCGAACTATCTCGTATTT
64735127 AATGTCCCATCGAACTATCTCGTATTT
1 AATGTCCCATCGAACTATCTCGTATTT
*
64735154 TATGTC
1 AATGTC
64735160 TCGTCAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (27 bp):
AATGTCCCATCGAACTATCTCGTATTT
Found at i:64735169 original size:27 final size:26
Alignment explanation
Indices: 64735101--64735172 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
64735091 GGATGTTACA
* * *
64735101 AATGTCCTATCGAACTATCCGTGTTT
1 AATGTCCCATCAAACTATCCGTATTT
*
64735127 AATGTCCCATCGAACTATCTCGTATTT
1 AATGTCCCATCAAACTATC-CGTATTT
* * *
64735154 TATGTCTCGTCAAACTATC
1 AATGTCCCATCAAACTATC
64735173 AAAGGATGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.46
27 21 0.54
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (26 bp):
AATGTCCCATCAAACTATCCGTATTT
Found at i:64741350 original size:40 final size:39
Alignment explanation
Indices: 64741261--64741603 Score: 393
Period size: 40 Copynumber: 8.6 Consensus size: 39
64741251 TCGAATGATG
* * *
64741261 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64741301 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*** * *
64741341 TCCAAACTAAGATCCGAAGGCATTTGTACGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64741381 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64741420 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
64741459 TTCGGACTAAAATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCT-AAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64741499 TCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
64741538 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
64741579 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
64741604 AACGAGTAGC
Statistics
Matches: 257, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
39 101 0.39
40 145 0.56
41 11 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64741411 original size:79 final size:78
Alignment explanation
Indices: 64741261--64741603 Score: 361
Period size: 79 Copynumber: 4.3 Consensus size: 78
64741251 TCGAATGATG
* * * * *
64741261 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCTGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
64741324 TTGTGCGAGTTACTAAA
62 TTGTGCGAGTTACTAAA
*** * *
64741341 TCCAAACTAAGATCCGAAGGCATTTGTACGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGG
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTG
64741406 TGCGAGTTACTAAA
65 TGCGAGTTACTAAA
* * * **
64741420 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTATTAAATT-CGGACTAAAATCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AATTCCGGGCT-AAGCCCGAAGGCATTT
*
64741484 GTGCGAGTTACTAAT
64 GTGCGAGTTACTAAA
* * * * * *
64741499 TCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
64741564 TGCGAGTTACTATAA
65 TGCGAGTTACTA-AA
*
64741579 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
64741604 AACGAGTAGC
Statistics
Matches: 217, Mismatches: 37, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
78 33 0.15
79 131 0.60
80 44 0.20
81 9 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACTAAA
Done.