Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 203 of 325
Found at i:65851093 original size:10 final size:10
Alignment explanation
Indices: 65850987--65851118 Score: 71
Period size: 10 Copynumber: 13.6 Consensus size: 10
65850977 ATGAATAAAA
65850987 ATAAAAAA-T
1 ATAAAAAATT
*
65850996 AT-TAAAA-T
1 ATAAAAAATT
*
65851004 ATTAAAAATT
1 ATAAAAAATT
* *
65851014 GATATAAACTT
1 -ATAAAAAATT
65851025 ATAAAAAA-T
1 ATAAAAAATT
*
65851034 ATAAAAACTT
1 ATAAAAAATT
* *
65851044 A-CAAATATT
1 ATAAAAAATT
* * *
65851053 ATCACAAAGT
1 ATAAAAAATT
65851063 AT-AAAAA-T
1 ATAAAAAATT
* *
65851071 ATAATAAAGT
1 ATAAAAAATT
65851081 ATAAAAAATT
1 ATAAAAAATT
65851091 ATAAAAAAATT
1 AT-AAAAAATT
*
65851102 ATAAAAATTT
1 ATAAAAAATT
65851112 AATAAAA
1 -ATAAAA
65851119 CTTATTTGAA
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
8 10 0.11
9 28 0.29
10 34 0.36
11 23 0.24
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:65851097 original size:11 final size:11
Alignment explanation
Indices: 65851083--65851108 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65851073 AATAAAGTAT
65851083 AAAAAATTATA
1 AAAAAATTATA
65851094 AAAAAATTATA
1 AAAAAATTATA
65851105 AAAA
1 AAAA
65851109 TTTAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:65851531 original size:9 final size:8
Alignment explanation
Indices: 65851505--65851529 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
65851495 TTTTGGTTTG
65851505 ATAAAAAA
1 ATAAAAAA
65851513 ATAAAAAA
1 ATAAAAAA
65851521 ATAAAAAA
1 ATAAAAAA
65851529 A
1 A
65851530 ATCATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:65851761 original size:22 final size:21
Alignment explanation
Indices: 65851720--65851777 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
65851710 AATTTTTATT
*
65851720 ATTTTT-TAAGAATTAT-AATA
1 ATTTTTATAA-AATTTTAAATA
65851740 CATTTTTATAAAATTTTAAATA
1 -ATTTTTATAAAATTTTAAATA
* *
65851762 AGTTTTAT-TAATTTTA
1 ATTTTTATAAAATTTTA
65851778 CAATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.22
21 18 0.56
22 7 0.22
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTTATAAAATTTTAAATA
Found at i:65852454 original size:30 final size:30
Alignment explanation
Indices: 65852420--65852480 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
65852410 AATTTATTAT
65852420 TAATTTTGTTATTATTTTAAAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGGCATTTGC
* *
65852450 TAATTTTGTTATTATTTTAGAGGTATTTGC
1 TAATTTTGTTATTATTTTAAAGGCATTTGC
65852480 T
1 T
65852481 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGGCATTTGC
Found at i:65853144 original size:41 final size:41
Alignment explanation
Indices: 65853033--65853144 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 41
65853023 GATATTCGGG
* * ** * *
65853033 CTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTAATCGGG
1 CTTTGAGCCTAGCAGGCCTTGTGCCGGTGTATAAAATCAGA
* * *
65853074 C-TTGAAGCCTAGCAGG-CTTATTGCTGGTGTATAAAATTAGA
1 CTTTG-AGCCTAGCAGGCCTT-GTGCCGGTGTATAAAATCAGA
*
65853115 CTTTGAGTCTAGCAGGCCTTGTGCCGGTGT
1 CTTTGAGCCTAGCAGGCCTTGTGCCGGTGT
65853145 GTGATACAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
40 6 0.11
41 43 0.78
42 6 0.11
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (41 bp):
CTTTGAGCCTAGCAGGCCTTGTGCCGGTGTATAAAATCAGA
Found at i:65858119 original size:22 final size:22
Alignment explanation
Indices: 65858099--65858143 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
65858089 TAAGAAAATT
65858099 AAATAAAAGAAAAATAAAAATAA
1 AAATAAAA-AAAAATAAAAATAA
*
65858122 AAATAAAAAGAAAT-AAAATAA
1 AAATAAAAAAAAATAAAAATAA
65858143 A
1 A
65858144 TGGACTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAATAAAAAAAAATAAAAATAA
Found at i:65858123 original size:12 final size:12
Alignment explanation
Indices: 65858099--65858134 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
65858089 TAAGAAAATT
65858099 AAAT-AAAAGAA
1 AAATAAAAAGAA
*
65858110 AAATAAAAATAA
1 AAATAAAAAGAA
65858122 AAATAAAAAGAA
1 AAATAAAAAGAA
65858134 A
1 A
65858135 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:65858952 original size:121 final size:121
Alignment explanation
Indices: 65858775--65859015 Score: 365
Period size: 121 Copynumber: 2.0 Consensus size: 121
65858765 CCATGTGGCC
* * *
65858775 AGGCCGTATGGTCCATACGGTCATGTCACACATCCGTGTGGCTCTACCACAAGCCGTGTGGCTCG
1 AGGCCGTATGGTCCACACGGTCATGTCACACACCCATGTGGCTCTACCACAAGCCGTGTGGCTCG
* *
65858840 ATGCTTGGGAATTTTTAGCCCTGTTTTCACACGGTCGTGGATACACCCGTGTGTCT
66 ATGCTTGGGAATTTTTAGCCCTGTTTTCACACAGCCGTGGATACACCCGTGTGTCT
* * ** * * *
65858896 AGGCCGTGTGGTCCACACGGTCATGTCGCATGCCCATGTGGCTCTATCGCAGGCCGTGTGGCTCG
1 AGGCCGTATGGTCCACACGGTCATGTCACACACCCATGTGGCTCTACCACAAGCCGTGTGGCTCG
*
65858961 ATGCTTGGGAATTTTTAGCCCTGTTTTCACACAGCCGTGGATACATCCGTGTGTC
66 ATGCTTGGGAATTTTTAGCCCTGTTTTCACACAGCCGTGGATACACCCGTGTGTC
65859016 CATGCTGTGT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (121 bp):
AGGCCGTATGGTCCACACGGTCATGTCACACACCCATGTGGCTCTACCACAAGCCGTGTGGCTCG
ATGCTTGGGAATTTTTAGCCCTGTTTTCACACAGCCGTGGATACACCCGTGTGTCT
Found at i:65875707 original size:44 final size:44
Alignment explanation
Indices: 65875405--65875847 Score: 325
Period size: 44 Copynumber: 9.9 Consensus size: 44
65875395 TACAAATTAT
* * * * ** *
65875405 AAATCTTATCTCCCTCAA-TTACAGTGGAGAAAATTGAAGCCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* ** * * *
65875448 AAATCGTATCTCATTGAAGTTGCAGTGGAGTAGATTGAAGATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* *
65875493 AAATCTTAT-TCCCTTGAAGTTGAAGTGG-GACAGGTTGAAGCTATCATGGC
1 AAATCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTGAAG-T-T-A---C
** * * * * * **
65875543 CGATTTTATCTCCCTGAAGTTGTAGGGGAGTAGGTTGAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * *
65875587 TAATCTTATCTCCCTGAAGTAGCAGTGGAACAGATTAAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * ** * * * ** *
65875632 AAATCTCATATCTATGAAGTTTCAGTAGAGCAGATTAAAACTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
65875676 AAATCTTATATCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * *
65875720 AAGTCTTATCTCCCTGAAGTTGCGGTAGAGCATATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
*
65875764 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
65875808 AAATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
65875848 CAATAATTCC
Statistics
Matches: 311, Mismatches: 77, Indels: 23
0.76 0.19 0.06
Matches are distributed among these distances:
43 14 0.05
44 199 0.64
45 62 0.20
47 2 0.01
48 1 0.00
50 28 0.09
51 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
Found at i:65875872 original size:88 final size:88
Alignment explanation
Indices: 65875598--65875875 Score: 223
Period size: 88 Copynumber: 3.1 Consensus size: 88
65875588 AATCTTATCT
* * * * * * ** * *
65875598 CCCTGAAGTAGCAGTGGAACAGATTAAAGATAGCAAATCTCATATCTATGAAGTTTCAGTAGAGC
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTAAAGTTACAGTAGAGC
* * * * ** *
65875663 AGATTAAAACTATAAATCTTATAT
65 AGATTGAAGCAACAAATCCAATAA
* * * * * *
65875687 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCGGTAGAGCA
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCA
* ** ** **
65875752 TATTGAAGTTACAAATCTTATCT
66 GATTGAAGCAACAAATCCAATAA
* * *
65875775 CCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCTTAAAGTTACAGTGGAGCA
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCA
* *
65875840 GATTGAAGCAATAATTCCAATAA
66 GATTGAAGCAACAAATCCAATAA
*
65875863 CCCTAAAGTTGCA
1 CCCTGAAGTTGCA
65875876 ATGGGTTAGA
Statistics
Matches: 151, Mismatches: 38, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
88 125 0.83
89 26 0.17
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (88 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCA
GATTGAAGCAACAAATCCAATAA
Found at i:65876408 original size:22 final size:22
Alignment explanation
Indices: 65876380--65876431 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
65876370 CAACAGTGGC
65876380 TAAACAGTAGCGAAA-AG-GAAA
1 TAAACAGTAG-GAAATAGTGAAA
65876401 GTAAACAGTAGGAAATAGTGAAA
1 -TAAACAGTAGGAAATAGTGAAA
65876424 TAAACAGT
1 TAAACAGT
65876432 GCAATATCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (22 bp):
TAAACAGTAGGAAATAGTGAAA
Found at i:65882879 original size:37 final size:37
Alignment explanation
Indices: 65882829--65883034 Score: 281
Period size: 37 Copynumber: 5.6 Consensus size: 37
65882819 ATACTCCTTG
*
65882829 ATTTGGCATGTTATCGGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
65882866 ATTTGGCGTGTTATCGGGTGGATTAACTCTTATGAGT
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
** *
65882903 ATTTGGCGTGTTATCGGGTATATTAGCTCTTATAAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
** *
65882940 ATTTGTTGTGTTATCGGGTGGATTAGCTTTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
65882977 ATTTGGCGTGTTATCAGGTGGATTAGCTCTTACGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
*
65883014 GA-TTGGCGTGTT-TCGGTTGGA
1 -ATTTGGCGTGTTATCGGGTGGA
65883035 ATATCTGCGT
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
36 7 0.05
37 139 0.95
38 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.30, T:0.40
Consensus pattern (37 bp):
ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
Found at i:65890769 original size:40 final size:40
Alignment explanation
Indices: 65890725--65890809 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
65890715 GCAAGAAGAA
65890725 AAGAAAAAATCTGAATGATGAAGGTAGAGAAAGGGTCAAG
1 AAGAAAAAATCTGAATGATGAAGGTAGAGAAAGGGTCAAG
65890765 AAGAAAAAATCTGAATGATGAAGGTAGAGAAAGGGTCAAG
1 AAGAAAAAATCTGAATGATGAAGGTAGAGAAAGGGTCAAG
65890805 AAGAA
1 AAGAA
65890810 CAACATATCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (40 bp):
AAGAAAAAATCTGAATGATGAAGGTAGAGAAAGGGTCAAG
Found at i:65894495 original size:51 final size:51
Alignment explanation
Indices: 65894437--65894543 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
65894427 ACTGATACAT
65894437 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
65894488 TTATCACTTGTCACTGGTCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
65894539 TTATC
1 TTATC
65894544 GCTTATCGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:65894550 original size:14 final size:14
Alignment explanation
Indices: 65894531--65894571 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
65894521 AAAGCTACCA
65894531 CTTATCACTTATCG
1 CTTATCACTTATCG
* *
65894545 CTTATCGCTTGTCG
1 CTTATCACTTATCG
*
65894559 CTTGTCACTTATC
1 CTTATCACTTATC
65894572 ACTGATAGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.44
Consensus pattern (14 bp):
CTTATCACTTATCG
Found at i:65898007 original size:19 final size:19
Alignment explanation
Indices: 65897991--65898028 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65897981 AGTGTTTTTC
65897991 CTTATTTTTCATGTTTTAT
1 CTTATTTTTCATGTTTTAT
65898010 CTTATTTTTCATGTTTTAT
1 CTTATTTTTCATGTTTTAT
65898029 TAACTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTATTTTTCATGTTTTAT
Found at i:65898801 original size:21 final size:21
Alignment explanation
Indices: 65898777--65898818 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
65898767 TGTAAATTAC
65898777 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
65898798 TAAATAGAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
65898819 GAGATGCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:65899057 original size:25 final size:25
Alignment explanation
Indices: 65899004--65899057 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
65898994 AATCAAAATA
*
65899004 TTATTTCTATTCTTTTTCTTTCTTC
1 TTATTTCTATTCTTTTTCTTTATTC
*
65899029 TTATTTCT-TTTTATTTTCATTTATT-
1 TTATTTCTATTCT-TTTTC-TTTATTC
65899054 TTAT
1 TTAT
65899058 ATTTTACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.12
25 17 0.68
26 5 0.20
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (25 bp):
TTATTTCTATTCTTTTTCTTTATTC
Found at i:65899683 original size:40 final size:38
Alignment explanation
Indices: 65899620--65899765 Score: 186
Period size: 40 Copynumber: 3.7 Consensus size: 38
65899610 CTTTAGTGGT
*
65899620 ATTAGCGGCGCTTTTTGACAAACGCCGCTATATGTCGACC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATA-GT-GACC
*
65899660 ATTAGTGGCGCTTTTAT-AAAAACGCCGCTATAGGTTGACC
1 ATTAGCGGCGCTTTT-TGAAAAACGCCGCTATA-G-TGACC
*
65899700 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATGAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAG-TGACC
*
65899739 ATTAGCGGCGCTTTCTAGAAAAACGCC
1 ATTAGCGGCGCTTT-TTGAAAAACGCC
65899766 TTAAAAAACA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 20 0.21
40 73 0.77
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (38 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGTGACC
Found at i:65900219 original size:14 final size:14
Alignment explanation
Indices: 65900154--65900232 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
65900144 TTAGGGGGGG
65900154 TAAGGGTTAGAGG-T
1 TAAGGGTTA-AGGTT
* *
65900168 TAAGGGCTAGGGTT
1 TAAGGGTTAAGGTT
* * *
65900182 TAAGGTTTATGTTT
1 TAAGGGTTAAGGTT
* **
65900196 TATGATTTAAGGTT
1 TAAGGGTTAAGGTT
*
65900210 TAAGGGTTAAGGGT
1 TAAGGGTTAAGGTT
65900224 TAAGGGTTA
1 TAAGGGTTA
65900233 GGAGTTAGAG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 2 0.04
14 48 0.96
ACGTcount: A:0.27, C:0.01, G:0.34, T:0.38
Consensus pattern (14 bp):
TAAGGGTTAAGGTT
Found at i:65900226 original size:21 final size:21
Alignment explanation
Indices: 65900154--65900228 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
65900144 TTAGGGGGGG
*
65900154 TAAGGGTTAGAGG-TTAAGGGC
1 TAAGGGTTA-AGGTTTAAGGGT
* **
65900175 T-AGGGTTTAAGGTTTATGTTT
1 TAAGGG-TTAAGGTTTAAGGGT
* **
65900196 TATGATTTAAGGTTTAAGGGT
1 TAAGGGTTAAGGTTTAAGGGT
65900217 TAAGGGTTAAGG
1 TAAGGGTTAAGG
65900229 GTTAGGAGTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
20 7 0.18
21 30 0.79
22 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.35, T:0.37
Consensus pattern (21 bp):
TAAGGGTTAAGGTTTAAGGGT
Found at i:65900229 original size:7 final size:7
Alignment explanation
Indices: 65900202--65900232 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
65900192 GTTTTATGAT
*
65900202 TTAAGGT
1 TTAAGGG
65900209 TTAAGGG
1 TTAAGGG
65900216 TTAAGGG
1 TTAAGGG
65900223 TTAAGGG
1 TTAAGGG
65900230 TTA
1 TTA
65900233 GGAGTTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:65900239 original size:14 final size:13
Alignment explanation
Indices: 65900154--65900249 Score: 50
Period size: 14 Copynumber: 6.9 Consensus size: 13
65900144 TTAGGGGGGG
65900154 TAAGGGTTAGAGGT
1 TAAGGGTTAG-GGT
*
65900168 TAAGGGCTAGGGTT
1 TAAGGGTTAGGG-T
* **
65900182 TAAGGTTTATGTTT
1 TAAGGGTTA-GGGT
* ** *
65900196 TATGATTTAAGGTT
1 TAAGGGTT-AGGGT
65900210 TAAGGGTTAAGGGT
1 TAAGGGTT-AGGGT
65900224 TAAGGGTTAGGAGT
1 TAAGGGTTAGG-GT
65900238 T-AGAGGTTAGGG
1 TAAG-GGTTAGGG
65900250 GTTTAGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
13 8 0.12
14 55 0.85
15 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.35
Consensus pattern (13 bp):
TAAGGGTTAGGGT
Found at i:65900239 original size:21 final size:21
Alignment explanation
Indices: 65900202--65900252 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
65900192 GTTTTATGAT
*
65900202 TTAAGGTTTAAGGGTTA-AGGG
1 TTAAGGGTTAAGGGTTAGA-GG
* *
65900223 TTAAGGGTTAGGAGTTAGAGG
1 TTAAGGGTTAAGGGTTAGAGG
*
65900244 TTAGGGGTT
1 TTAAGGGTT
65900253 TAGAGTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTAGAGG
Found at i:65900367 original size:18 final size:16
Alignment explanation
Indices: 65900327--65900368 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
65900317 AGAGATAATA
65900327 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
65900342 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
65900360 TTAAATTAT
1 TTAAATTAT
65900369 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:65900430 original size:17 final size:17
Alignment explanation
Indices: 65900378--65900430 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
65900368 TTTAAGAGAA
65900378 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
*
65900395 ATATA-TTAAA-TGGTTTAT
1 A-ATAGATAAACT--TTTAT
65900413 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
65900430 A
1 A
65900431 TATAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (17 bp):
AATAGATAAACTTTTAT
Found at i:65900447 original size:30 final size:32
Alignment explanation
Indices: 65900378--65900455 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 32
65900368 TTTAAGAGAA
*
65900378 AATAGATAAACTTTTATATATATTAAATGGTTTAT
1 AATAGATAAACTTTTATATATA-TAAATAG--TAT
65900413 AATAGATAAACTTTTATATATA-AAATAG-AT
1 AATAGATAAACTTTTATATATATAAATAGTAT
65900443 AATAGATAAACTT
1 AATAGATAAACTT
65900456 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 15 0.36
33 5 0.12
35 22 0.52
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (32 bp):
AATAGATAAACTTTTATATATATAAATAGTAT
Found at i:65901266 original size:37 final size:37
Alignment explanation
Indices: 65901206--65901332 Score: 164
Period size: 37 Copynumber: 3.4 Consensus size: 37
65901196 TCCCCCAAAT
* **
65901206 CCTTCGCCTCGTGCATTGCAACCCATCTCCTCTGTCG
1 CCTTCGCCCCGTGCATTGCAACCCATCTCCTCAATCG
* *
65901243 CCTTTGCCCGGTGCATTGCAACCCATCTCCTCAATCG
1 CCTTCGCCCCGTGCATTGCAACCCATCTCCTCAATCG
* * * *
65901280 CCTTCGCCCCGTGCATCGCAACCTATCTCCTCCATCA
1 CCTTCGCCCCGTGCATTGCAACCCATCTCCTCAATCG
*
65901317 CCTTCGCCCTGTGCAT
1 CCTTCGCCCCGTGCAT
65901333 CTGCTGCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.13, C:0.44, G:0.15, T:0.28
Consensus pattern (37 bp):
CCTTCGCCCCGTGCATTGCAACCCATCTCCTCAATCG
Found at i:65908506 original size:13 final size:14
Alignment explanation
Indices: 65908490--65908518 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65908480 TTTTAAATAT
65908490 TTATAAT-GTTTAA
1 TTATAATAGTTTAA
65908503 TTATAATAGTTTAA
1 TTATAATAGTTTAA
65908517 TT
1 TT
65908519 CGTCGTTAGT
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:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:65908910 original size:21 final size:21
Alignment explanation
Indices: 65908884--65908923 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65908874 AAATTGCTCA
* *
65908884 ACTTAAAGTGGAGGCAGCATC
1 ACTTAAAGAGAAGGCAGCATC
65908905 ACTTAAAGAGAAGGCAGCA
1 ACTTAAAGAGAAGGCAGCA
65908924 GCGAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (21 bp):
ACTTAAAGAGAAGGCAGCATC
Found at i:65909217 original size:47 final size:47
Alignment explanation
Indices: 65909125--65909218 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
65909115 CGTTGAATTT
* *
65909125 TTGAAGTATCATTTAGGTTTGCTATTATTAGTTGGATTTGGTGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
* * *
65909172 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTTATGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
65909219 AGGAAGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.19, C:0.06, G:0.24, T:0.50
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
Found at i:65909401 original size:43 final size:43
Alignment explanation
Indices: 65909354--65909447 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
65909344 GGTCAGGTTT
* *
65909354 TTTAGCGGCATTTATACAAAAAGCGCTGCTAATGGCCACGTTC
1 TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
* * * * *
65909397 TTTAGCGGCGTTTGTACAAAAAGTGCTGCTAAAGATCATGTTC
1 TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
65909440 TTTAGCGG
1 TTTAGCGG
65909448 AGTTTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTATACAAAAAGCGCTGCTAAAGACCACGTTC
Found at i:65909754 original size:16 final size:16
Alignment explanation
Indices: 65909723--65909756 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
65909713 ATGTGAAGAA
65909723 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
65909739 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
65909755 TA
1 TA
65909757 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:65909884 original size:22 final size:22
Alignment explanation
Indices: 65909859--65909902 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
65909849 ATGTTTAATA
65909859 ATATTGAAAATTAT-AATATTTT
1 ATATT-AAAATTATAAATATTTT
* *
65909881 ATATTAATATTTTAAATATTTT
1 ATATTAAAATTATAAATATTTT
65909903 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTAAAATTATAAATATTTT
Found at i:65918906 original size:15 final size:15
Alignment explanation
Indices: 65918865--65919000 Score: 57
Period size: 15 Copynumber: 8.8 Consensus size: 15
65918855 TTTATTATTT
*
65918865 TAATAAATTATTTAA
1 TAATAAATTTTTTAA
*
65918880 TATTTCAAATTTTTTAA
1 TA-AT-AAATTTTTTAA
65918897 TAATAAA--TTTTAA
1 TAATAAATTTTTTAA
* * * *
65918910 AAATAATAATCTTAAA
1 TAATAA-ATTTTTTAA
*
65918926 TAAT--ATTCTTTCAA
1 TAATAAATT-TTTTAA
* *
65918940 T-ATTAATATTTTAA
1 TAATAAATTTTTTAA
65918954 TAATAAATATTTATTATAA
1 TAAT-AA-ATTT-TT-TAA
* *
65918973 TAATAAATATATTAA
1 TAATAAATTTTTTAA
65918988 TAATAAATGTTTT
1 TAATAAAT-TTTT
65919001 GTAGTCTAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 27
0.66 0.13 0.20
Matches are distributed among these distances:
13 15 0.17
14 12 0.13
15 20 0.22
16 13 0.15
17 18 0.20
18 4 0.04
19 7 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATAAATTTTTTAA
Found at i:65918930 original size:16 final size:17
Alignment explanation
Indices: 65918894--65918930 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
65918884 TCAAATTTTT
*
65918894 TAATAATAAATTTTAAA
1 TAATAATAAATCTTAAA
65918911 -AATAAT-AATCTTAAA
1 TAATAATAAATCTTAAA
65918926 TAATA
1 TAATA
65918931 TTCTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATCTTAAA
Found at i:65918973 original size:19 final size:19
Alignment explanation
Indices: 65918946--65918982 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65918936 TCAATATTAA
*
65918946 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
65918965 TATTATAATAATAAATAT
1 TATTATAATAATAAATAT
65918983 ATTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:65923483 original size:18 final size:18
Alignment explanation
Indices: 65923460--65923499 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
65923450 ATTGTGCTAA
*
65923460 TAGAATGTCAAAATCGTT
1 TAGAATGTCAAAATCGCT
65923478 TAGAATGTCAAAATCGCT
1 TAGAATGTCAAAATCGCT
65923496 TAGA
1 TAGA
65923500 GATTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (18 bp):
TAGAATGTCAAAATCGCT
Found at i:65927488 original size:35 final size:35
Alignment explanation
Indices: 65927436--65927546 Score: 177
Period size: 35 Copynumber: 3.2 Consensus size: 35
65927426 TCTCTTCTCT
* *
65927436 TTTCTTTAGTTCGAAAATCATATATATTCTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
* *
65927471 TTTCTTTATTTCAAAAATCATCTATATTTTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
*
65927506 TTTCTTTATTTCGAAAATCATCTATATTCTTCTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
65927541 TTTCTT
1 TTTCTT
65927547 CTTTTCCAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.03, T:0.55
Consensus pattern (35 bp):
TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
Found at i:65936954 original size:27 final size:27
Alignment explanation
Indices: 65936924--65937164 Score: 235
Period size: 27 Copynumber: 9.2 Consensus size: 27
65936914 GCGACGAAGT
65936924 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
65936951 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
65936978 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
65937005 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
65937032 CACCAGATA-AGATAATTGTGACCAGA--
1 CACCAGATACAGAT-ATTGTG-GCAGAGC
65937058 -A-CAGAT----ATA-TGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* * *
65937078 CACTAGAT-CAAATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
65937105 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
65937132 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
65937159 CACCAG
1 CACCAG
65937165 GACGCTTCCT
Statistics
Matches: 181, Mismatches: 12, Indels: 42
0.77 0.05 0.18
Matches are distributed among these distances:
18 4 0.02
19 4 0.02
20 1 0.01
21 3 0.02
22 4 0.02
24 5 0.03
25 3 0.02
26 13 0.07
27 133 0.73
28 11 0.06
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:65936999 original size:54 final size:54
Alignment explanation
Indices: 65936924--65937164 Score: 365
Period size: 54 Copynumber: 4.6 Consensus size: 54
65936914 GCGACGAAGT
*
65936924 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
65936978 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
65937032 CACCAGATAAGATAA-T-T-G--T-G--ACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
65937078 CACTAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
65937132 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
65937165 GACGCTTCCT
Statistics
Matches: 169, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
46 38 0.22
47 1 0.01
48 2 0.01
49 2 0.01
51 2 0.01
52 2 0.01
53 5 0.03
54 117 0.69
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:65937067 original size:100 final size:100
Alignment explanation
Indices: 65936952--65937151 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
65936942 TGGCAGAGCC
*
65936952 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGA
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
65937017 TATATGTGGCAGAGCCACCAGATAAGATAATTGTG
66 TATATGTGGCAGAGCCACCAGATAAGATAATTGTG
* *
65937052 ACCAGAACAGATATATGTGGCAGAGCCACTAGATCAAATAATTGTGGCATAGCCACCAGAACAGA
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
*
65937117 TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
66 TATATGTGGCAGAGCCACCAGATAAGATAATTGTG
65937152 GCATAGCCAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (100 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
TATATGTGGCAGAGCCACCAGATAAGATAATTGTG
Found at i:65938816 original size:26 final size:26
Alignment explanation
Indices: 65938786--65938841 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
65938776 TGGAATGCCC
65938786 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65938812 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65938838 ATCA
1 ATCA
65938842 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65947704 original size:20 final size:20
Alignment explanation
Indices: 65947681--65947719 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65947671 CCAAAAAACA
* *
65947681 AAAAAGACAATGAAAACATG
1 AAAAAGAAAAGGAAAACATG
*
65947701 AAAAGGAAAAGGAAAACAT
1 AAAAAGAAAAGGAAAACAT
65947720 ATTGAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.08, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAGGAAAACATG
Found at i:65951979 original size:12 final size:13
Alignment explanation
Indices: 65951957--65951985 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65951947 TACATAAAAA
65951957 TATAATAATAAAT
1 TATAATAATAAAT
65951970 TATAAT-ATAAAT
1 TATAATAATAAAT
65951982 TATA
1 TATA
65951986 CAAATCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATAAAT
Found at i:65952433 original size:30 final size:30
Alignment explanation
Indices: 65952399--65952461 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
65952389 GCTTATTTTA
65952399 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
*
65952429 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
65952459 TTG
1 TTG
65952462 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:65953755 original size:16 final size:16
Alignment explanation
Indices: 65953703--65953772 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
65953693 TTTGGTTCGC
* *
65953703 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAAG
* *
65953719 CGTAATAGAATA-AAGG
1 TGTAATGGAATAGAA-G
*
65953735 CGTAATGGAATAGAAG
1 TGTAATGGAATAGAAG
* *
65953751 TGTAATGGATTAGAGG
1 TGTAATGGAATAGAAG
65953767 TGTAAT
1 TGTAAT
65953773 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 41 0.93
17 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAAG
Found at i:65953772 original size:32 final size:32
Alignment explanation
Indices: 65953703--65953772 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
65953693 TTTGGTTCGC
* *
65953703 TGTATTGGAATAGAGGCGTAATAGAATAAAGG
1 TGTAATGGAATAGAAGCGTAATAGAATAAAGG
* * * * *
65953735 CGTAATGGAATAGAAGTGTAATGGATTAGAGG
1 TGTAATGGAATAGAAGCGTAATAGAATAAAGG
65953767 TGTAAT
1 TGTAAT
65953773 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (32 bp):
TGTAATGGAATAGAAGCGTAATAGAATAAAGG
Found at i:65954023 original size:16 final size:16
Alignment explanation
Indices: 65953986--65954027 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65953976 TTAATCATAT
*
65953986 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
65954002 TT-AAATATATTATAA
1 TTAAAATATATTATAA
65954017 TTAAAATATAT
1 TTAAAATATAT
65954028 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:65954034 original size:14 final size:15
Alignment explanation
Indices: 65953995--65954036 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65953985 TTTAAACATA
*
65953995 ATTATTATTAAATAT
1 ATTATAATTAAATAT
65954010 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
65954024 A-TATAATTTAATA
1 ATTATAATTAAATA
65954037 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:65954154 original size:14 final size:15
Alignment explanation
Indices: 65954105--65954156 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65954095 ATAAAATATA
65954105 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
65954120 TATTAAATATATTAT
1 AATTAAATATATTAT
65954135 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
65954148 AATTTAATA
1 AATTAAATA
65954157 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:65954273 original size:14 final size:15
Alignment explanation
Indices: 65954224--65954275 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65954214 TATAAATATA
65954224 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
65954239 TATTAAATATATTAT
1 AATTAAATATATTAT
65954254 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
65954267 AATTTAATA
1 AATTAAATA
65954276 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:65954309 original size:119 final size:120
Alignment explanation
Indices: 65953989--65954391 Score: 763
Period size: 120 Copynumber: 3.4 Consensus size: 120
65953979 ATCATATTTA
65953989 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
65954054 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
65954109 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
65954174 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTAT-AAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
65954228 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
* *
65954293 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
65954348 AACATAATTATTATTAAATATATTATAATTAAAATATATTATTT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
65954392 TTCATATTAT
Statistics
Matches: 278, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 116 0.42
120 162 0.58
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
Found at i:65954384 original size:16 final size:16
Alignment explanation
Indices: 65954344--65954389 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
65954334 ATAAAATATA
*
65954344 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
65954359 TATT-AAATATATTAT
1 AATTAAAATATATTAT
65954374 AATTAAAATATATTAT
1 AATTAAAATATATTAT
65954390 TTTTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:65954400 original size:12 final size:11
Alignment explanation
Indices: 65954382--65954421 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
65954372 ATAATTAAAA
65954382 TATATTATTTT
1 TATATTATTTT
65954393 TCATATTATTTT
1 T-ATATTATTTT
65954405 TGATATTATTTT
1 T-ATATTATTTT
65954417 TATAT
1 TATAT
65954422 CATGTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
TATATTATTTT
Found at i:65960223 original size:27 final size:27
Alignment explanation
Indices: 65960175--65960333 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
65960165 GCGAGGTTGC
* *
65960175 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
65960202 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
65960228 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
65960255 TAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
65960282 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
65960309 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
65960334 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:65960275 original size:54 final size:54
Alignment explanation
Indices: 65960193--65960333 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
65960183 GTGACGAAGT
* *
65960193 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
65960247 CATCAGATTAGATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
65960301 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
65960334 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 73 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:65966122 original size:27 final size:26
Alignment explanation
Indices: 65966084--65966160 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
65966074 ACGAGGCTGC
*
65966084 TAGATATTGTGAC-GAAGTCACCAAATA
1 TAGATATTGTGACAGAA-CCACCAAA-A
*
65966111 TAGATATTGTGACAGAACCACCAGAA
1 TAGATATTGTGACAGAACCACCAAAA
* *
65966137 TAGATATATGTGGCAGAGCCACCA
1 TAGATAT-TGTGACAGAACCACCA
65966161 GATCAGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.18
27 33 0.75
28 3 0.07
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (26 bp):
TAGATATTGTGACAGAACCACCAAAA
Found at i:65966161 original size:27 final size:26
Alignment explanation
Indices: 65966110--65966241 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 26
65966100 GTCACCAAAT
* *
65966110 ATAGATAT-TGTGACAGAACCACCAG
1 ATAGATATATGTGGCAGAGCCACCAG
65966135 AATAGATATATGTGGCAGAGCCACCAG
1 -ATAGATATATGTGGCAGAGCCACCAG
*
65966162 ATCAGATA-ATCGTGGCATAGCCACCAG
1 AT-AGATATAT-GTGGCAGAGCCACCAG
*
65966189 AACAGATATATGTGGCAGAGCCACCAG
1 -ATAGATATATGTGGCAGAGCCACCAG
* *
65966216 ATCAGATA-ATTATGGCATAGCCACCA
1 AT-AGATATA-TGTGGCAGAGCCACCA
65966242 TGACGCTTCC
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
26 14 0.15
27 74 0.81
28 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
ATAGATATATGTGGCAGAGCCACCAG
Found at i:65966188 original size:54 final size:54
Alignment explanation
Indices: 65966128--65966241 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
65966118 TGTGACAGAA
* *
65966128 CCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAG
1 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
*
65966182 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAG
1 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
65966236 CCACCA
1 CCACCA
65966242 TGACGCTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (54 bp):
CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
Found at i:65974245 original size:64 final size:64
Alignment explanation
Indices: 65974126--65974247 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
65974116 AAGAATCATT
* *
65974126 AGAAAAAGTTGGTGTTATTTTAGCATTTTATATTTTTTAAAGTATGTTTCGTTTTCTTGCTTAA
1 AGAAAAAGTTGGTGTTATTTTAGAATTTTATATTTTTTAAAGTATGTTTCATTTTCTTGCTTAA
*
65974190 AGAATAAGTTGGTGTTATTTTAGAATTTT-TATGCTATTTTAAA-TATGTTT-ATTTTCTT
1 AGAAAAAGTTGGTGTTATTTTAGAATTTTATAT--T-TTTTAAAGTATGTTTCATTTTCTT
65974248 TATTCAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
63 3 0.06
64 34 0.65
65 8 0.15
66 7 0.13
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (64 bp):
AGAAAAAGTTGGTGTTATTTTAGAATTTTATATTTTTTAAAGTATGTTTCATTTTCTTGCTTAA
Found at i:65977511 original size:30 final size:30
Alignment explanation
Indices: 65977467--65977529 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
65977457 ACTTAACAAG
*
65977467 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
65977497 CAAATACCTTTAAAATGATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
65977527 CAA
1 CAA
65977530 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:65985965 original size:58 final size:58
Alignment explanation
Indices: 65985903--65986036 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
65985893 AATTCATATT
* * * * *
65985903 ATAATAATTACATTAAGAATGTTATTAAATTATATATTA-TTTTATTAAATTGTATTTA
1 ATAATAATTA-ATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
* * *
65985961 ATAATAATTATTTAAAAATATGATTAAGTTATTTATTATTTTTATTAAAATATATTTA
1 ATAATAATTAATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
*
65986019 ATAATAATCTTATTAAAA
1 ATAATAAT-TAATTAAAA
65986037 TTTAATAACA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 22 0.34
58 35 0.55
59 7 0.11
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (58 bp):
ATAATAATTAATTAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
Found at i:65986239 original size:16 final size:16
Alignment explanation
Indices: 65986218--65986275 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
65986208 ACACTCTATC
65986218 CCATTACAGTTATATT
1 CCATTACAGTTATATT
** *
65986234 CCATTACAACTCTATT
1 CCATTACAGTTATATT
* ** *
65986250 CAATTATGGTCATATT
1 CCATTACAGTTATATT
65986266 CCATTACAGT
1 CCATTACAGT
65986276 GAACCAAATG
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (16 bp):
CCATTACAGTTATATT
Found at i:65986247 original size:32 final size:32
Alignment explanation
Indices: 65986205--65986273 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
65986195 TGAATTACTG
* *
65986205 ATTAC-ACTCTATCCCATTACAGTTATATTCC
1 ATTACAACTCTATCCAATTACAGTCATATTCC
* **
65986236 ATTACAACTCTATTCAATTATGGTCATATTCC
1 ATTACAACTCTATCCAATTACAGTCATATTCC
65986268 ATTACA
1 ATTACA
65986274 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (32 bp):
ATTACAACTCTATCCAATTACAGTCATATTCC
Found at i:65989255 original size:40 final size:41
Alignment explanation
Indices: 65989199--65989385 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
65989189 CGATAACTCA
* *
65989199 GCTATGT-ACGGCACTTAGTGTGCGATTCAAGATAGCTTCA
1 GCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCTTCG
* * * *
65989239 ACTATG-AATGGCACTTAGTGAGCGATTCAAGATAGTTTTG
1 GCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCTTCG
65989279 GCTATGT-ATGGCACTTAGTGTGCGATTCAAGATAGCTTCG
1 GCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCTTCG
* * *
65989319 GCTATGTAA-AGCACTTAGTGTGCGAGATT-AAAATAGCTTCC
1 GCTATGTAATGGCACTTAGTGTGC--GATTCAAGATAGCTTCG
*
65989360 GCTATGTATTGGCACTTAGTGTGCGA
1 GCTATGTAATGGCACTTAGTGTGCGA
65989386 GAATTCGAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
40 90 0.71
41 19 0.15
42 17 0.13
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
GCTATGTAATGGCACTTAGTGTGCGATTCAAGATAGCTTCG
Found at i:65996721 original size:40 final size:39
Alignment explanation
Indices: 65996663--65996767 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
65996653 ACAATTCAGT
* * *
65996663 TATATACGGCACTCAGTGTGCGATTCAGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATT-AAAATAGCTTCGGC
*
65996703 TATATATGGAACTTAGTGTGCGAGATTAAAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC--GATTAAAATAGCTTCGGC
*
65996744 TA-AGTATTGGCATTTAGTGTGCGA
1 TATA-TA-TGGCACTTAGTGTGCGA
65996768 GAATTTGAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
40 21 0.38
41 17 0.31
42 17 0.31
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGCGATTAAAATAGCTTCGGC
Found at i:66002087 original size:18 final size:18
Alignment explanation
Indices: 66002060--66002094 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66002050 ATTTTAAACT
*
66002060 TTAAACTAAATATTAAAA
1 TTAAACTAAATAATAAAA
*
66002078 TTAAATTAAATAATAAA
1 TTAAACTAAATAATAAA
66002095 TAGTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAACTAAATAATAAAA
Found at i:66002589 original size:21 final size:20
Alignment explanation
Indices: 66002542--66002597 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
66002532 ATATATAAAA
66002542 AATATAAATTTTT-TAATTT
1 AATATAAATTTTTATAATTT
66002561 -ATGGATAAAATTTTTATAATTT
1 AAT--AT-AAATTTTTATAATTT
66002583 AATAT-AATTTTTATA
1 AATATAAATTTTTATA
66002598 TAATTGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.06
19 10 0.31
20 2 0.06
21 10 0.31
22 6 0.19
23 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATAAATTTTTATAATTT
Found at i:66021292 original size:40 final size:41
Alignment explanation
Indices: 66021248--66021327 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
66021238 AGGTTTTTGC
*
66021248 ACACGGGCTAA-GACACGGGCGTGTCG-TGGCCGTGTGAGGG
1 ACACGGGCCAATGACACGGGCGTGT-GTTGGCCGTGTGAGGG
* *
66021288 ACACGGGCCAATGGCACTGGCGTGTGTTTGGCCGTGTGAG
1 ACACGGGCCAATGACACGGGCGTGTG-TTGGCCGTGTGAG
66021328 AACCTCTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 11 0.32
41 11 0.32
42 12 0.35
ACGTcount: A:0.16, C:0.23, G:0.42, T:0.19
Consensus pattern (41 bp):
ACACGGGCCAATGACACGGGCGTGTGTTGGCCGTGTGAGGG
Found at i:66025168 original size:23 final size:23
Alignment explanation
Indices: 66025142--66025214 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
66025132 GACTCACCAT
*
66025142 AGCTTGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTGTTTC
* ** * *
66025165 AGCTCATTGGATCTTACTGATTC
1 AGCTCGTAAGAGCTTACTGTTTC
* *
66025188 AGCTCGAAAGAGCTTATTGTTT-
1 AGCTCGTAAGAGCTTACTGTTTC
66025210 AGCTC
1 AGCTC
66025215 AATAGAGCTT
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGTTTC
Found at i:66025221 original size:22 final size:24
Alignment explanation
Indices: 66025150--66025251 Score: 90
Period size: 23 Copynumber: 4.4 Consensus size: 24
66025140 ATAGCTTGTA
*
66025150 AGAGCTTACTG-TTTCAGCTCATT
1 AGAGCTTACTGATTTCAGCTCAAT
* *
66025173 GGATCTTACTGA-TTCAGCTCGAA-
1 AGAGCTTACTGATTTCAGCTC-AAT
*
66025196 AGAGCTTATTG-TTT-AGCTCAAT
1 AGAGCTTACTGATTTCAGCTCAAT
* *
66025218 AGAGCTTA-TCGTTTTCAGGTCAAT
1 AGAGCTTACT-GATTTCAGCTCAAT
66025242 AGAGCTTACT
1 AGAGCTTACT
66025252 ATTATTAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
21 3 0.05
22 14 0.22
23 30 0.47
24 16 0.25
25 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGATTTCAGCTCAAT
Found at i:66025245 original size:24 final size:22
Alignment explanation
Indices: 66025188--66025249 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
66025178 TTACTGATTC
*
66025188 AGCTCGAA-AGAGCTTATTGTTT
1 AGCTC-AATAGAGCTTATCGTTT
66025210 AGCTCAATAGAGCTTATCGTTTT
1 AGCTCAATAGAGCTTATCG-TTT
*
66025233 CAGGTCAATAGAGCTTA
1 -AGCTCAATAGAGCTTA
66025250 CTATTATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 15 0.43
23 3 0.09
24 15 0.43
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (22 bp):
AGCTCAATAGAGCTTATCGTTT
Found at i:66032304 original size:23 final size:22
Alignment explanation
Indices: 66032278--66032350 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
66032268 GACTCACCAT
*
66032278 AGCTTGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTG-TTC
* * * *
66032301 AGCTCATTAGAGCCTATTGATTC
1 AGCTCGTAAGAGCTTACTG-TTC
* *
66032324 AGCTCGAAAGAGTTTACTGTTC
1 AGCTCGTAAGAGCTTACTGTTC
66032346 AGCTC
1 AGCTC
66032351 AATGGAGCTT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
22 8 0.21
23 30 0.79
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (22 bp):
AGCTCGTAAGAGCTTACTGTTC
Found at i:66032375 original size:24 final size:24
Alignment explanation
Indices: 66032343--66032413 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
66032333 GAGTTTACTG
66032343 TTCAGCTCAATGGAGCTTACCGTT
1 TTCAGCTCAATGGAGCTTACCGTT
* * *
66032367 TTCAACTCAATAGAGCTTACTGTT
1 TTCAGCTCAATGGAGCTTACCGTT
*
66032391 ATCAGCTC-ATGAAGAGCTTACCG
1 TTCAGCTCAATG--GAGCTTACCG
66032414 ACCATGTCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 2 0.05
24 27 0.71
25 9 0.24
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (24 bp):
TTCAGCTCAATGGAGCTTACCGTT
Found at i:66037146 original size:12 final size:12
Alignment explanation
Indices: 66037129--66037163 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
66037119 GTTGAAAAGT
66037129 ATATATATATAC
1 ATATATATATAC
66037141 ATATATATATAC
1 ATATATATATAC
*
66037153 ACATATATATA
1 ATATATATATA
66037164 AATGCATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAC
Found at i:66037147 original size:14 final size:14
Alignment explanation
Indices: 66037128--66037163 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
66037118 TGTTGAAAAG
*
66037128 TATATATATATACA
1 TATATATATACACA
66037142 TATATATATACACA
1 TATATATATACACA
66037156 TATATATA
1 TATATATA
66037164 AATGCATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATATATACACA
Found at i:66046647 original size:28 final size:27
Alignment explanation
Indices: 66046557--66046681 Score: 205
Period size: 27 Copynumber: 4.6 Consensus size: 27
66046547 ATATTAAGTC
* *
66046557 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
66046584 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
66046611 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
66046639 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
66046667 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66046682 GTACAATTTA
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 48 0.51
28 47 0.49
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:66046660 original size:55 final size:55
Alignment explanation
Indices: 66046557--66046681 Score: 207
Period size: 55 Copynumber: 2.3 Consensus size: 55
66046547 ATATTAAGTC
* * *
66046557 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
66046611 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
66046667 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66046682 GTACAATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
54 21 0.32
55 26 0.39
56 19 0.29
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:66054881 original size:28 final size:28
Alignment explanation
Indices: 66054774--66054897 Score: 200
Period size: 27 Copynumber: 4.5 Consensus size: 28
66054764 ATATTAAGTC
* *
66054774 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
66054801 CGCACACTTAGTGCTATAT-ATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66054828 CGCACACTTAGTG-TACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66054855 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66054883 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66054898 GTACAATTTA
Statistics
Matches: 92, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.08
27 56 0.61
28 29 0.32
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:66063039 original size:57 final size:55
Alignment explanation
Indices: 66062951--66063077 Score: 202
Period size: 57 Copynumber: 2.3 Consensus size: 55
66062941 GTATTAAGTC
* *
66062951 CGCACACTCAGTGCTATATAATCAAACTCGCACACTTAGTGCTA-ATAAATCAAACGT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAG-GCTACAT-AATCAAAC-T
66063008 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGGCTACATAATCAAACT
66063063 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66063078 GTACAATTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
55 16 0.24
56 12 0.18
57 39 0.58
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGGCTACATAATCAAACT
Found at i:66063058 original size:27 final size:28
Alignment explanation
Indices: 66062951--66063077 Score: 204
Period size: 28 Copynumber: 4.5 Consensus size: 28
66062941 GTATTAAGTC
* *
66062951 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66062979 CGCACACTTAGTGCTA-ATAAATCAAACGT
1 CGCACACTTAGTGCTACAT-AATCAAAC-T
66063008 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66063036 CGCACACTTAG-GCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
66063063 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66063078 GTACAATTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
27 29 0.31
28 38 0.40
29 25 0.27
30 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:66063100 original size:57 final size:56
Alignment explanation
Indices: 66062951--66063103 Score: 179
Period size: 57 Copynumber: 2.7 Consensus size: 56
66062941 GTATTAAGTC
* *
66062951 CGCACACTCAGTGCTATATAATCAAACTCGCACACTTAGTGCTAATAAATCAAACGT
1 CGCACACTTAGTGCT-TACAATCAAACTCGCACACTTAGTGCTAATAAATCAAACGT
66063008 CGCACACTTAGTGC-TACATAATCAAACTCGCACACTTAG-GCTACAT-AATCAAAC-T
1 CGCACACTTAGTGCTTAC--AATCAAACTCGCACACTTAGTGCTA-ATAAATCAAACGT
* *
66063063 CGCACACTTAGTGCTGTACAATTTAAACCCGCAACACTTAG
1 CGCACACTTAGTGCT-TACAA-TCAAACTCGC-ACACTTAG
66063104 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 14
0.83 0.04 0.14
Matches are distributed among these distances:
55 19 0.22
56 20 0.24
57 46 0.54
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.24
Consensus pattern (56 bp):
CGCACACTTAGTGCTTACAATCAAACTCGCACACTTAGTGCTAATAAATCAAACGT
Found at i:66068523 original size:58 final size:57
Alignment explanation
Indices: 66068450--66068577 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 57
66068440 TGTTACAGCA
* *
66068450 ACTAAGTGTGCGAG-TTTGATTATGTAAGCA-CTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGAGTTTTGATTATAT-AGCAGCTAAGTGTGCGAG-TTGATTATATAGC
66068507 ACTAAGTGGTGCGAGTTTTGATTATATAGCAGCTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGT-GTGCGAGTTTTGATTATATAGCAGCTAAGTGTGCGAGTTGATTATATAGC
66068565 ACTGAAGTGTGCG
1 ACT-AAGTGTGCG
66068578 GATTGAATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
57 7 0.11
58 31 0.48
59 27 0.42
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (57 bp):
ACTAAGTGTGCGAGTTTTGATTATATAGCAGCTAAGTGTGCGAGTTGATTATATAGC
Found at i:66068564 original size:28 final size:28
Alignment explanation
Indices: 66068450--66068590 Score: 187
Period size: 28 Copynumber: 4.9 Consensus size: 28
66068440 TGTTACAGCA
*
66068450 ACTAAGTGTGCGAGTTTGATTATGTAAGC
1 ACTAAGTGTGCGAGTTTGATTATAT-AGC
*
66068479 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
66068507 ACTAAGTGGTGCGAGTTTTGATTATATAGC
1 ACTAAGT-GTGCGAG-TTTGATTATATAGC
66068537 AGCTAAGTGTGCGAG-TTGATTATATAGC
1 A-CTAAGTGTGCGAGTTTGATTATATAGC
* *
66068565 ACTGAAGTGTGCG-GATTGAATATATA
1 ACT-AAGTGTGCGAGTTTGATTATATA
66068591 CTTTTGAATC
Statistics
Matches: 105, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.03
28 43 0.41
29 32 0.30
30 21 0.20
31 6 0.06
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATTATATAGC
Found at i:66132646 original size:65 final size:65
Alignment explanation
Indices: 66132542--66132687 Score: 213
Period size: 65 Copynumber: 2.2 Consensus size: 65
66132532 ATGGGACATG
* * * * *
66132542 TTTGGTGTGTAGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTTGAA-TGTATGAGTC
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATAT-ATTCAACTCTATGAGTC
66132606 A
65 A
*
66132607 TTTGGTGCGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
*
66132672 TTTGGTGTGTTTGAGA
1 TTTGGTGTGTTGGAGA
66132688 TTCGTGTATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 4 0.06
65 68 0.94
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
Found at i:66134171 original size:25 final size:26
Alignment explanation
Indices: 66134125--66134188 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
66134115 TGTTACATGG
66134125 AAAG-CTGTAGTGGCGAAATTATCTGA
1 AAAGCCTGT-GTGGCGAAATTATCTGA
* * * *
66134151 AAAGCCTTTGTGGC-AAGTTATTTGG
1 AAAGCCTGTGTGGCGAAATTATCTGA
66134176 AAAGCCTGTGTGG
1 AAAGCCTGTGTGG
66134189 TGAATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 20 0.62
26 9 0.28
27 3 0.09
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (26 bp):
AAAGCCTGTGTGGCGAAATTATCTGA
Found at i:66135597 original size:48 final size:48
Alignment explanation
Indices: 66135539--66135809 Score: 254
Period size: 48 Copynumber: 5.6 Consensus size: 48
66135529 TTTGTAGGCT
*
66135539 AGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * * ** *** * **
66135587 AATGTAAGACCATGTTTGGAACATGACATCGGTATTGTTATGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * *
66135635 AGTGTAAAACCATGTCTAGGACATGGCATCGGCCTCAATATATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * * * *** * *
66135683 AGTGTAAGACCGTGTTTGGAATATGGCATCGGCATTGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* * * *
66135731 AGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAATATGTAAGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
* *
66135779 AGTGTAAGACCATGTTTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
66135810 ACATTTTACC
Statistics
Matches: 164, Mismatches: 59, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
48 164 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
Found at i:66135702 original size:96 final size:96
Alignment explanation
Indices: 66135536--66135814 Score: 407
Period size: 96 Copynumber: 2.9 Consensus size: 96
66135526 TTATTTGTAG
* *
66135536 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
* *
66135601 TTTGGAACATGACATCGGTATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
* * * * *
66135632 GTTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCGTG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
*
66135697 TTTGGAATATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
* * * *
66135728 GCTAGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAATATGTAAGGCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
*
66135793 TTT-GAGACATGGCATCGACATT
66 TTTGGA-ACATGGCATCGGCATT
66135815 TTACCCTTTT
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
95 2 0.01
96 159 0.99
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGGCATTGTTATGAGA
Found at i:66136961 original size:27 final size:27
Alignment explanation
Indices: 66136907--66136984 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
66136897 AAGGTTTAGT
66136907 ACACGGGCGTGTCATGGCCGTGTGAGGG
1 ACACGGGCGTGTCAT-GCCGTGTGAGGG
*
66136935 ACACGTGCGTGTCATGCCGTGTGAGGG
1 ACACGGGCGTGTCATGCCGTGTGAGGG
*
66136962 ACATGGGCGTGTCATGCCGTGTG
1 ACACGGGCGTGTCATGCCGTGTG
66136985 TGCCAGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 33 0.70
28 14 0.30
ACGTcount: A:0.14, C:0.22, G:0.42, T:0.22
Consensus pattern (27 bp):
ACACGGGCGTGTCATGCCGTGTGAGGG
Found at i:66139570 original size:40 final size:40
Alignment explanation
Indices: 66139515--66139738 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
66139505 TATTCGGATG
*
66139515 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
66139555 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * * *
66139598 ATACCCAGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
66139638 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
66139678 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
66139718 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
66139739 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:66139661 original size:83 final size:80
Alignment explanation
Indices: 66139522--66139738 Score: 269
Period size: 83 Copynumber: 2.7 Consensus size: 80
66139512 ATGATATCCG
* * * **
66139522 GGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
66139587 GAGTAGTTG-CTATACCCA
66 ---TAG-TGACTATACCCA
* *
66139605 GGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
* *
66139670 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* *
66139685 GGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
66139739 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.36
81 2 0.02
83 58 0.49
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCA
Found at i:66141530 original size:4 final size:4
Alignment explanation
Indices: 66141521--66141546 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
66141511 TTAGAAAAGA
66141521 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
66141547 GAAGTATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:66143905 original size:13 final size:14
Alignment explanation
Indices: 66143874--66143906 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
66143864 TGTATGCTAA
66143874 TTACTCGGTAAGTT
1 TTACTCGGTAAGTT
66143888 TTACTCGGTAAG-T
1 TTACTCGGTAAGTT
66143901 TTACTC
1 TTACTC
66143907 TTCGGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (14 bp):
TTACTCGGTAAGTT
Found at i:66152780 original size:13 final size:13
Alignment explanation
Indices: 66152762--66152787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66152752 TAATAATTAT
66152762 AATAAAAGGTTAA
1 AATAAAAGGTTAA
66152775 AATAAAAGGTTAA
1 AATAAAAGGTTAA
66152788 TAATTAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AATAAAAGGTTAA
Found at i:66156180 original size:22 final size:22
Alignment explanation
Indices: 66156136--66156180 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66156126 TTAATCATTA
* **
66156136 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
66156158 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
66156180 T
1 T
66156181 CAGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:66156334 original size:18 final size:18
Alignment explanation
Indices: 66156313--66156349 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
66156303 GAATACACCA
66156313 TAACGGCAATAGTAACAG
1 TAACGGCAATAGTAACAG
*
66156331 TAACGGTAATAGTAACAG
1 TAACGGCAATAGTAACAG
66156349 T
1 T
66156350 CAGGTACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (18 bp):
TAACGGCAATAGTAACAG
Found at i:66157756 original size:40 final size:40
Alignment explanation
Indices: 66157719--66157904 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
66157709 GCTACTCGTT
* *
66157719 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
66157759 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66157799 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
66157839 CAAAAGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
66157880 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
66157905 CATCATTCAA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:66159783 original size:28 final size:27
Alignment explanation
Indices: 66159752--66159812 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
66159742 TTACTACATT
*
66159752 TTTCCATATCAATCTACA-TGCAATTCA
1 TTTCCATA-CAATATACATTGCAATTCA
* *
66159779 CTTTCAATACAATATACATTTCAATTCA
1 -TTTCCATACAATATACATTGCAATTCA
66159807 TTTCCA
1 TTTCCA
66159813 ATAATCACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTCCATACAATATACATTGCAATTCA
Found at i:66160743 original size:22 final size:23
Alignment explanation
Indices: 66160705--66160752 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
66160695 TAAAAATCTT
*
66160705 ATAATATAATATAATAA-CAATA
1 ATAATATAATATAATAATAAATA
*
66160727 ATAATATACT-TATATAATAAATA
1 ATAATATAATATA-ATAATAAATA
66160750 ATA
1 ATA
66160753 CTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATAATATAATAATAAATA
Found at i:66161045 original size:13 final size:13
Alignment explanation
Indices: 66160997--66161051 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
66160987 AATTTAATAG
*
66160997 AAATAATATTAAT
1 AAATAATAATAAT
66161010 AAAT-ATAA-AAT
1 AAATAATAATAAT
**
66161021 ATAA-AACCATAAT
1 A-AATAATAATAAT
66161034 AAATAATAATAAT
1 AAATAATAATAAT
66161047 AAATA
1 AAATA
66161052 CATATTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
11 4 0.12
12 9 0.27
13 20 0.61
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:66166332 original size:21 final size:20
Alignment explanation
Indices: 66166286--66166332 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
66166276 TAGTTTACCC
*
66166286 AATTTTAAATTATTAATTTA
1 AATTTTAAATTATTAATTGA
66166306 ATATTTTAAATTATTAATTGA
1 A-ATTTTAAATTATTAATTGA
66166327 TAATTT
1 -AATTT
66166333 AATATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTTTAAATTATTAATTGA
Found at i:66175818 original size:20 final size:20
Alignment explanation
Indices: 66175771--66175819 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
66175761 ACATTTGCAC
*
66175771 ATATGACCAAAGCATCATAA
1 ATATGACCAAAACATCATAA
*
66175791 ACAT-ACCAAAACATACAT-A
1 ATATGACCAAAACAT-CATAA
66175810 ATATGACCAA
1 ATATGACCAA
66175820 TTCAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.18
Consensus pattern (20 bp):
ATATGACCAAAACATCATAA
Found at i:66178161 original size:37 final size:37
Alignment explanation
Indices: 66178118--66178192 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
66178108 ATTCATCAAT
*
66178118 GACAACATTCAAAATCTTTAACTATTTCAACAATGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
*
66178155 GACAACATTCAAAGTCTTTAACTATTTCAACAACGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
66178192 G
1 G
66178193 GTACGAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (37 bp):
GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
Found at i:66184796 original size:14 final size:14
Alignment explanation
Indices: 66184777--66184804 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66184767 TATGGTAGGT
66184777 CATGCATATTGAGA
1 CATGCATATTGAGA
66184791 CATGCATATTGAGA
1 CATGCATATTGAGA
66184805 TGTTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
CATGCATATTGAGA
Found at i:66198816 original size:22 final size:22
Alignment explanation
Indices: 66198739--66198803 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
66198729 AGTCTCTCTA
* *
66198739 AAAAAAATTATAAAAAAGAAATC
1 AAAAAATTTATAAAAAA-AATTC
66198762 AAAATAATTT-T--AAAAAATTC
1 AAAA-AATTTATAAAAAAAATTC
66198782 AAAAAATTTATAAAAAAAATTC
1 AAAAAATTTATAAAAAAAATTC
66198804 CAAATTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 5 0.14
20 9 0.25
21 4 0.11
22 9 0.25
23 5 0.14
24 4 0.11
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAATTTATAAAAAAAATTC
Found at i:66198838 original size:20 final size:20
Alignment explanation
Indices: 66198815--66198883 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
66198805 AAATTTTCAT
66198815 AATTTAAAAAAAATATATAAA
1 AATTTAAAAAAAATATA-AAA
* *
66198836 ATTTTTAAAAAAAT-TAAAA
1 AATTTAAAAAAAATATAAAA
* * *
66198855 AATCTAAATAATATATAAAA
1 AATTTAAAAAAAATATAAAA
66198875 AATTTAAAA
1 AATTTAAAA
66198884 TTTTCAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.32
20 14 0.37
21 12 0.32
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTTAAAAAAAATATAAAA
Found at i:66198854 original size:29 final size:29
Alignment explanation
Indices: 66198822--66198883 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
66198812 CATAATTTAA
* *
66198822 AAAAAATATATAA-AATTTTTAAAAAAATT
1 AAAAAATATA-AATAATATATAAAAAAATT
* *
66198851 AAAAAATCTAAATAATATATAAAAAATTT
1 AAAAAATATAAATAATATATAAAAAAATT
66198880 AAAA
1 AAAA
66198884 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAAATATAAATAATATATAAAAAAATT
Found at i:66206562 original size:13 final size:13
Alignment explanation
Indices: 66206546--66206572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66206536 TTGAATATGG
66206546 AAATTAAATATAT
1 AAATTAAATATAT
66206559 AAATTAAATATAT
1 AAATTAAATATAT
66206572 A
1 A
66206573 TCCTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTAAATATAT
Found at i:66208571 original size:39 final size:39
Alignment explanation
Indices: 66208515--66208591 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
66208505 AGCCATGTCC
* *
66208515 TAAAACTTGTGTGAATTTAACATCTTAAATAAGCTTCAA
1 TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCAA
*
66208554 TAAAACTTGTATAAATTTAACATCTTGAATAAGCTTCA
1 TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCA
66208592 GCTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (39 bp):
TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCAA
Found at i:66214528 original size:101 final size:101
Alignment explanation
Indices: 66214353--66214666 Score: 416
Period size: 101 Copynumber: 3.1 Consensus size: 101
66214343 AATTGACGGA
** * * *
66214353 TAAGACCATGGTTGGACCATGACAGTGTTTATCTGTAGGACCATAGTTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
*
66214418 TGATAAGACCATAATTGAGTTATGGAACTATGGACG
66 TGATAAGACCATAATTGAGTTATGGAACTATGGATG
* *
66214454 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTCTGA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
* *
66214519 TGATAAGACCATAACTGAGTTAT-GACACTCTGGATG
66 TGATAAGACCATAATTGAGTTATGGA-ACTATGGATG
* * * * * *
66214555 TAAGACAATGGTTGGACCAT-GTCAGTGTTTTTATATAATACCATAGTTGGGCTATGACATTATG
1 TAAGACCATGGTTGGACCATGGT-AGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTG
* * * *
66214619 ATGATAAGACCATAATTGGGTTATGGCACTACGAATG
65 ATGATAAGACCATAATTGAGTTATGGAACTATGGATG
66214656 TAAGACCATGG
1 TAAGACCATGG
66214667 CAGGGCTAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
100 4 0.02
101 180 0.97
102 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
TGATAAGACCATAATTGAGTTATGGAACTATGGATG
Found at i:66214531 original size:33 final size:33
Alignment explanation
Indices: 66214486--66214560 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
66214476 TAGTGTTTAT
* * * *
66214486 ATGTAAGACCATAGCTGGGTTATGGCATTCT-G
1 ATGTAAGACCATAACTGAGTTATGACACTCTGG
66214518 ATGATAAGACCATAACTGAGTTATGACACTCTGG
1 ATG-TAAGACCATAACTGAGTTATGACACTCTGG
66214552 ATGTAAGAC
1 ATGTAAGAC
66214561 AATGGTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 3 0.08
33 30 0.81
34 4 0.11
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATAACTGAGTTATGACACTCTGG
Found at i:66225217 original size:26 final size:25
Alignment explanation
Indices: 66225188--66225249 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
66225178 AATTGTCTTA
*
66225188 TTATTATTTTTT-CTTTCTTTTTAAGT
1 TTATTATTTTTTAC-TT-TTTTAAAGT
66225214 TTA-TATTTATTTACTTTTTTAAAGT
1 TTATTATTT-TTTACTTTTTTAAAGT
*
66225239 TTTTTATTTTT
1 TTATTATTTTT
66225250 CCTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 17 0.55
26 13 0.42
27 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (25 bp):
TTATTATTTTTTACTTTTTTAAAGT
Found at i:66225356 original size:21 final size:20
Alignment explanation
Indices: 66225314--66225371 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
66225304 TATTTGAAAT
66225314 ATTTTATAATAT-TTTTTAAA
1 ATTTTA-AATATATTTTTAAA
*
66225334 ATTTTAAATATTATTTTTGAA
1 ATTTTAAATA-TATTTTTAAA
66225355 ATTTTAAATATATTTTT
1 ATTTTAAATATATTTTT
66225372 TTAATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 4 0.11
20 14 0.40
21 17 0.49
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTAAATATATTTTTAAA
Found at i:66225388 original size:21 final size:20
Alignment explanation
Indices: 66225316--66225390 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 20
66225306 TTTGAAATAT
*
66225316 TTTATAATA-TTTTTTAAAA
1 TTTAAAATATTTTTTTAAAA
* *
66225335 TTTTAAATATTATTTTTGAAAT
1 TTTAAAATATT-TTTTT-AAAA
66225357 TTTAAATATATTTTTTTAATAA
1 TTTAAA-ATATTTTTTTAA-AA
*
66225379 TATAAAATATTT
1 TTTAAAATATTT
66225391 AAATATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.16
20 1 0.02
21 13 0.29
22 19 0.42
23 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTAAAATATTTTTTTAAAA
Found at i:66225442 original size:21 final size:20
Alignment explanation
Indices: 66225418--66225468 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
66225408 GACCTTTCAA
66225418 ATTTATTATTAGTTTTATAAT
1 ATTT-TTATTAGTTTTATAAT
*
66225439 ATTTTTAATTTGTTTTATAAT
1 ATTTTT-ATTAGTTTTATAAT
66225460 ATTTTTATT
1 ATTTTTATT
66225469 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTTATTAGTTTTATAAT
Found at i:66225455 original size:95 final size:96
Alignment explanation
Indices: 66225355--66225559 Score: 267
Period size: 95 Copynumber: 2.1 Consensus size: 96
66225345 TATTTTTGAA
66225355 ATTTTAAATATATTTT-TTTAATAATAT-AAAATAT-TTAAATATTTTAAAGATATGACCTTTCA
1 ATTTTAAATAT-TTTTATTTAATAATATAAAAATATATT--AT-TTTTAAAGATATGACCTTTCA
*
66225417 AATTTATTATTAGTTTTATAATATTTTTAAT-T-T
62 AATTTATTATTAGTTTTATAATATTTTAAATGTAT
* * ** *
66225450 GTTTTATAATATTTTTATTTATTTTTTTAAAAATATATTATTTTTAAAGATATGACCTTTCAAAT
1 ATTTTA-AATATTTTTATTTAATAATATAAAAATATATTATTTTTAAAGATATGACCTTTCAAAT
*
66225515 TTATTATTTGTTTTATAATATTTTAAATGTAT
65 TTATTATTAGTTTTATAATATTTTAAATGTAT
66225547 ATTTTAAATATTT
1 ATTTTAAATATTT
66225560 CTAAAATTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
95 59 0.61
96 22 0.23
97 13 0.14
98 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (96 bp):
ATTTTAAATATTTTTATTTAATAATATAAAAATATATTATTTTTAAAGATATGACCTTTCAAATT
TATTATTAGTTTTATAATATTTTAAATGTAT
Found at i:66225475 original size:21 final size:21
Alignment explanation
Indices: 66225429--66225474 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
66225419 TTTATTATTA
66225429 GTTTTATAATATTTTTAATTT
1 GTTTTATAATATTTTTAATTT
66225450 GTTTTATAATATTTTT-ATTT
1 GTTTTATAATATTTTTAATTT
*
66225470 ATTTT
1 GTTTT
66225475 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
GTTTTATAATATTTTTAATTT
Found at i:66225495 original size:17 final size:16
Alignment explanation
Indices: 66225469--66225502 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66225459 TATTTTTATT
66225469 TATTTTTTTAAAAATA
1 TATTTTTTTAAAAATA
*
66225485 TATTATTTTTAAAGATA
1 TATT-TTTTTAAAAATA
66225502 T
1 T
66225503 GACCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTTTTTTAAAAATA
Done.