Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 211 of 284
Found at i:70071012 original size:2 final size:2
Alignment explanation
Indices: 70071005--70071055 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
70070995 GGCTTCTTCT
70071005 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70071047 TC TC TC TC T
1 TC TC TC TC T
70071056 TTGCTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:70076248 original size:25 final size:25
Alignment explanation
Indices: 70076212--70076267 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
70076202 AGAGCAAAGA
70076212 AAGTTT-CCAAGGGCAAGGTTTGCC
1 AAGTTTACCAAGGGCAAGGTTTGCC
70076236 AAGTTTACCAAGGGCAAGGTTTGCC
1 AAGTTTACCAAGGGCAAGGTTTGCC
70076261 AAGTTTA
1 AAGTTTA
70076268 GGTTCCATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (25 bp):
AAGTTTACCAAGGGCAAGGTTTGCC
Found at i:70077471 original size:59 final size:59
Alignment explanation
Indices: 70077398--70077510 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
70077388 GTGTCTCCAT
70077398 AGATTAAGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
1 AGATTAAGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
* * *
70077457 AGATTAGGTCGAGATGAGTTAAGCCTATATTAATGGGGTTTTCATATAGAATAC
1 AGATTAAGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATAC
70077511 GTAAGAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (59 bp):
AGATTAAGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
Found at i:70081426 original size:15 final size:16
Alignment explanation
Indices: 70081401--70081430 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70081391 GTTTATACAT
70081401 AAAAGAAATTTGTGGG
1 AAAAGAAATTTGTGGG
70081417 AAAA-AAATTTGTGG
1 AAAAGAAATTTGTGG
70081431 CTGTGGGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (16 bp):
AAAAGAAATTTGTGGG
Found at i:70088219 original size:42 final size:42
Alignment explanation
Indices: 70088165--70088348 Score: 174
Period size: 42 Copynumber: 4.4 Consensus size: 42
70088155 TTTTAGAAAT
70088165 AAACGCCGCTAAAAAACAAGACCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAAAACAAGACCTTTAGCGGCGCTTTTCCAC
* * * * *
70088207 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTATCAAC
1 AAACGCCGCTAAAAAACAAGACCTTTAGCGGCGCTTTTCCAC
* * * * *
70088249 AATCGCCGCT-AAAGACTATGACCTTTAGCAGCGCTTTTATCAC
1 AAACGCCGCTAAAAAAC-AAGACCTTTAGCGGCGCTTTT-CCAC
* * * * * * *
70088292 AAACGCCGCTATAGATCAA-ACCTTTAGTGACGCTTCTTGCAA
1 AAACGCCGCTAAAAAACAAGACCTTTAGCGGCGCTT-TTCCAC
70088334 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
70088349 CATAACTTTA
Statistics
Matches: 110, Mismatches: 28, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
41 3 0.03
42 91 0.83
43 14 0.13
44 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAAAACAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:70091765 original size:21 final size:20
Alignment explanation
Indices: 70091737--70091775 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
70091727 GTTTGCAAAG
*
70091737 TTAGGGTTTCAGTGGGAAAA
1 TTAGGGTTTCAGGGGGAAAA
70091757 TTAGAGGTTTCAGGGGGAA
1 TTAG-GGTTTCAGGGGGAA
70091776 TTTGGAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.05, G:0.38, T:0.28
Consensus pattern (20 bp):
TTAGGGTTTCAGGGGGAAAA
Found at i:70092824 original size:15 final size:15
Alignment explanation
Indices: 70092804--70092832 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70092794 ACCTTAACAT
70092804 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
70092819 CTAACCCCTAAACC
1 CTAACCCCTAAACC
70092833 TTAAATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:70092831 original size:36 final size:36
Alignment explanation
Indices: 70092776--70092853 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
70092766 CCCTAAACCT
* * *
70092776 TAAATCCCTAACTCTTAAACCTTAACATCT-AACCCC
1 TAAACCCCTAACCCCTAAACCTTAA-ATCTCAACCCC
*
70092812 TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCT
1 TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCC
70092848 TAAACC
1 TAAACC
70092854 ATAATCACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 4 0.11
36 33 0.89
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.24
Consensus pattern (36 bp):
TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCC
Found at i:70093101 original size:15 final size:15
Alignment explanation
Indices: 70093081--70093109 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70093071 AACACGTCGA
70093081 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
70093096 CTAACCCCTAAACC
1 CTAACCCCTAAACC
70093110 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:70093128 original size:21 final size:22
Alignment explanation
Indices: 70093089--70093141 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
70093079 GACTAACCCC
* *
70093089 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
70093111 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
70093132 T-AATCCCTAA
1 TAAATCCCTAA
70093142 ACCCAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:70093156 original size:14 final size:14
Alignment explanation
Indices: 70093108--70093157 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
70093098 AACCCCTAAA
70093108 CCTTAAATCCCAAC-
1 CCTTAAA-CCCAACT
*
70093122 CCTTAAA-CCATAAT
1 CCTTAAACCCA-ACT
*
70093136 CCCTAAACCCAACT
1 CCTTAAACCCAACT
70093150 CCTTAAAC
1 CCTTAAAC
70093158 TAAAAACCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 1 0.03
14 22 0.76
15 3 0.10
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTTAAACCCAACT
Found at i:70093167 original size:28 final size:27
Alignment explanation
Indices: 70093105--70093171 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
70093095 CCTAACCCCT
* *
70093105 AAACCTTAAATCCCAACCCTTAAACCAT
1 AAACCCTAAA-CCCAACCCTTAAACCAA
* *
70093133 AATCCCTAAACCCAACTCCTTAAACTAA
1 AAACCCTAAACCCAAC-CCTTAAACCAA
70093161 AAACCCTAAAC
1 AAACCCTAAAC
70093172 TATAGTGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (27 bp):
AAACCCTAAACCCAACCCTTAAACCAA
Found at i:70093501 original size:41 final size:41
Alignment explanation
Indices: 70093444--70093597 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
70093434 TAAAATGTTT
70093444 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
*
70093485 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGTA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
*
70093526 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGAACAGAGCA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
70093567 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAA
70093598 TCCCCAAAAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
Found at i:70093727 original size:40 final size:41
Alignment explanation
Indices: 70093637--70093773 Score: 149
Period size: 40 Copynumber: 3.4 Consensus size: 41
70093627 TAGGTTTAGG
* *
70093637 TTTTAGCGGCGCTTTTTGGAAAA-CGCCGCTAATTCTC-AT
1 TTTTAGCGGCGCTTTTTAGAAAAGCGCCGCTAATACTCGAT
*
70093676 TTTTAGTGGCG-TTTTTAGAAAAGCGCCGCTAATACTCGAT
1 TTTTAGCGGCGCTTTTTAGAAAAGCGCCGCTAATACTCGAT
* * * *
70093716 CTTTAGCGGCGTTTTTTAG-ATAGCGCCGCTAATGA-TTGAT
1 TTTTAGCGGCGCTTTTTAGAAAAGCGCCGCTAAT-ACTCGAT
* *
70093756 TTTTAGCGGTGTTTTTTA
1 TTTTAGCGGCGCTTTTTA
70093774 TCCAAACGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.12
39 23 0.27
40 44 0.52
41 8 0.09
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTTTAGAAAAGCGCCGCTAATACTCGAT
Found at i:70094842 original size:86 final size:86
Alignment explanation
Indices: 70094691--70094862 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
70094681 GATTGTAATA
* *
70094691 GCGGTTTAGAAACTGTTGCAAAAGGTAATAGTACTGAAAATTATAATAAGTATTCTTCATATAAG
1 GCGGTTCAGAAACTGTTGCAAAAGGTAATAGTACTGAAAATTATAATAAGTATTCGTCATATAAG
70094756 TATTGTAGAAAACAGAATCAT
66 TATTGTAGAAAACAGAATCAT
* *
70094777 GCGGTTCAGAAACTGTTGCAAAAGGTAATAGTACTGAAAGTTATAATAAGTATTCGTCATGTAAG
1 GCGGTTCAGAAACTGTTGCAAAAGGTAATAGTACTGAAAATTATAATAAGTATTCGTCATATAAG
*
70094842 TATTGTGGAAAACAGAATCAT
66 TATTGTAGAAAACAGAATCAT
70094863 CCCATTTCAG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (86 bp):
GCGGTTCAGAAACTGTTGCAAAAGGTAATAGTACTGAAAATTATAATAAGTATTCGTCATATAAG
TATTGTAGAAAACAGAATCAT
Found at i:70115206 original size:3 final size:3
Alignment explanation
Indices: 70115198--70115231 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
70115188 CAATTTTGCA
70115198 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
70115232 GGTGAGTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:70115955 original size:14 final size:13
Alignment explanation
Indices: 70115934--70115963 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
70115924 ATAAAATGTT
70115934 TTTCGGAAAATAA
1 TTTCGGAAAATAA
70115947 TTTCTGGAAAATAA
1 TTTC-GGAAAATAA
70115961 TTT
1 TTT
70115964 ACTTTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATAA
Found at i:70116094 original size:18 final size:18
Alignment explanation
Indices: 70116068--70116110 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
70116058 AAAAGCTATT
*
70116068 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
70116086 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
70116104 TTTATAT
1 TTTATAT
70116111 TTTAAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:70116793 original size:54 final size:54
Alignment explanation
Indices: 70116729--70116836 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
70116719 TGTGCCAGAT
70116729 GAAGATACTTTTGTTCTTACCTCTTCAGTCTCTTCATTGTCCCAGTCTATATGC
1 GAAGATACTTTTGTTCTTACCTCTTCAGTCTCTTCATTGTCCCAGTCTATATGC
70116783 GAAGATACTTTTGTTCTTACCTCTTCAGTCTCTTCATTGTCCCAGTCTATATGC
1 GAAGATACTTTTGTTCTTACCTCTTCAGTCTCTTCATTGTCCCAGTCTATATGC
70116837 ACTGAATCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.43
Consensus pattern (54 bp):
GAAGATACTTTTGTTCTTACCTCTTCAGTCTCTTCATTGTCCCAGTCTATATGC
Found at i:70117470 original size:32 final size:32
Alignment explanation
Indices: 70117424--70117503 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
70117414 TGTCAATCAT
*
70117424 TTCAATATCCAACAAGGTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
70117456 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
70117488 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
70117504 CTAAAATTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:70119793 original size:2 final size:2
Alignment explanation
Indices: 70119788--70119824 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
70119778 ATATCTATTT
* *
70119788 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC TC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
70119825 TATATATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.46, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:70128708 original size:57 final size:58
Alignment explanation
Indices: 70128636--70128756 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 58
70128626 TTTCAGGTCT
* * * *
70128636 TTTTCATTTTTATTTTGGAGATAACCA-CATCCATTTCCAAATGATTT-C-ATTTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAACCATAAT-CATTTCCAAATG-TTTCCTATTTCTCCA
70128693 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
70128751 TTTTCA
1 TTTTCA
70128757 CTATTTCTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
56 3 0.05
57 38 0.67
58 16 0.28
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.47
Consensus pattern (58 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
Found at i:70134914 original size:17 final size:17
Alignment explanation
Indices: 70134892--70134925 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70134882 CCTTAGACTA
70134892 CTATTTATATACTATTT
1 CTATTTATATACTATTT
70134909 CTATTTATATACTATTT
1 CTATTTATATACTATTT
70134926 AATGATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
CTATTTATATACTATTT
Found at i:70135366 original size:5 final size:5
Alignment explanation
Indices: 70135358--70135385 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70135348 AATATAGTGG
70135358 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
70135386 GAATCCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:70140395 original size:39 final size:39
Alignment explanation
Indices: 70140351--70140434 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
70140341 AAGTGACCAT
*
70140351 ATCCGGACTAAGA-TCAAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAA-ACCCAAAGGCATTTGTGCGAGATACTAA
* * * *
70140390 TTCCGGGCTAAACCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAACCCAAAGGCATTTGTGCGAGATACTAA
70140429 ATCCGG
1 ATCCGG
70140435 GTTAAGTCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGACTAAACCCAAAGGCATTTGTGCGAGATACTAA
Found at i:70140462 original size:40 final size:40
Alignment explanation
Indices: 70140312--70140495 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
70140302 TTGAATGATG
* * * *
70140312 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
70140352 TCCGGACTAAGAT--CAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70140391 TCCGGGCTAA-ACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
70140430 TCCGGGTTAAGTCTCGAAGGCAATTGTCCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
70140471 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
70140496 AACGAGTAGC
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 52 0.45
40 60 0.52
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:70153178 original size:5 final size:5
Alignment explanation
Indices: 70153168--70153195 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70153158 TTGTGTGTTC
70153168 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
70153196 CACAGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:70158752 original size:19 final size:20
Alignment explanation
Indices: 70158723--70158760 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
70158713 TTTAAAAAAA
70158723 AAAACTAAAAATATCAAATT
1 AAAACTAAAAATATCAAATT
*
70158743 AAAA-TAAAAATATTAAAT
1 AAAACTAAAAATATCAAAT
70158761 CTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACTAAAAATATCAAATT
Found at i:70160252 original size:5 final size:5
Alignment explanation
Indices: 70160242--70160266 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70160232 GGTTTTTAAA
70160242 AGATT AGATT AGATT AGATT AGATT
1 AGATT AGATT AGATT AGATT AGATT
70160267 TTATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
AGATT
Found at i:70163822 original size:20 final size:20
Alignment explanation
Indices: 70163797--70163868 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
70163787 TGTGGTTCAA
70163797 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
* *
70163817 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
* * *
70163837 CTCATTCAAGCTCAATTTAA
1 CTCATTCGAGCTCAAGTTAG
70163857 CTCATT-GAGCTC
1 CTCATTCGAGCTC
70163869 GTTATTAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:70164234 original size:45 final size:45
Alignment explanation
Indices: 70164184--70164377 Score: 289
Period size: 45 Copynumber: 4.3 Consensus size: 45
70164174 GAACGGCATG
*
70164184 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
70164229 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
70164274 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
70164319 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
70164364 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
70164378 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:70165204 original size:68 final size:67
Alignment explanation
Indices: 70164996--70165203 Score: 386
Period size: 67 Copynumber: 3.1 Consensus size: 67
70164986 TTACGGTTTT
70164996 GTAAAAAAATC--AAAAAAAAA-TTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGAT
1 GTAAAAAAATCAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGAT
70165058 CC
66 CC
70165060 GTAAAAAAATCAAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGA
1 GTAAAAAAATC-AAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGA
70165125 TCC
65 TCC
70165128 GTAAAAAAATCAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGAT
1 GTAAAAAAATCAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGAT
70165193 CC
66 CC
70165195 GTAAAAAAA
1 GTAAAAAAA
70165204 AAGAGAAATT
Statistics
Matches: 140, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
64 11 0.08
67 74 0.53
68 55 0.39
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.16
Consensus pattern (67 bp):
GTAAAAAAATCAAAAAAAAAAATTTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGAT
CC
Found at i:70167548 original size:20 final size:20
Alignment explanation
Indices: 70167523--70167577 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
70167513 TGTGGTTCAA
*
70167523 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
70167543 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
70167563 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
70167578 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:70167980 original size:45 final size:45
Alignment explanation
Indices: 70167916--70168103 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
70167906 CCTGAAATTA
70167916 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
70167961 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
70168006 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * * *
70168051 AGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
70168096 AGGAAGCA
1 AGGAAGCA
70168104 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:70172746 original size:6 final size:6
Alignment explanation
Indices: 70172731--70172777 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
70172721 TGAAGACAAT
* * *
70172731 ATAAAC ATAAAA ATAAAA ATAAAA ATAAAA ATAAAC ATAAAG ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
70172778 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:70174544 original size:15 final size:15
Alignment explanation
Indices: 70174514--70174555 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
70174504 TGCAAGAATC
70174514 AAAATAAAAT-AATT
1 AAAATAAAATAAATT
*
70174528 AAACTAAAATAAATT
1 AAAATAAAATAAATT
*
70174543 AAAAGAAAATAAA
1 AAAATAAAATAAA
70174556 AAGAATAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAATT
Found at i:70174564 original size:9 final size:9
Alignment explanation
Indices: 70174544--70174579 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
70174534 AAATAAATTA
70174544 AAAGAAAAT
1 AAAGAAAAT
70174553 AAA-AAGAAT
1 AAAGAA-AAT
70174562 AAAGAAAAT
1 AAAGAAAAT
70174571 AAAGAAAAT
1 AAAGAAAAT
70174580 GGAGAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.08
9 21 0.84
10 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAAGAAAAT
Found at i:70175210 original size:71 final size:71
Alignment explanation
Indices: 70175127--70175280 Score: 236
Period size: 71 Copynumber: 2.2 Consensus size: 71
70175117 GGTCGTATCG
* * * * *
70175127 CACGGCCGTGTGTAATGTTGTTCGCTTTTCCTTCGCTCGTGTGGCTTCCCACATGCCCGTGTGTC
1 CACGGCCGTGTGTAATGTTGTTCGCTTCTCCTCCACTCGTGTGGCTTCCCACACGCCCGTCTGTC
70175192 TGAACA
66 TGAACA
* *
70175198 CACGGCCGTGTGTAATGTTGTTCGCTTCTCCTCCACTTGTGTGGCTTCCCACACGCCCGTCTGTT
1 CACGGCCGTGTGTAATGTTGTTCGCTTCTCCTCCACTCGTGTGGCTTCCCACACGCCCGTCTGTC
70175263 TGAACA
66 TGAACA
*
70175269 CATGGCCGTGTG
1 CACGGCCGTGTG
70175281 CCTCGCCTGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.12, C:0.31, G:0.25, T:0.32
Consensus pattern (71 bp):
CACGGCCGTGTGTAATGTTGTTCGCTTCTCCTCCACTCGTGTGGCTTCCCACACGCCCGTCTGTC
TGAACA
Found at i:70175955 original size:27 final size:27
Alignment explanation
Indices: 70175923--70175991 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
70175913 CAAACTAGTT
* *
70175923 CATGTTTAACATCCCGTCGGGCTATCC
1 CATGTTTAACATCCCGTCAGACTATCC
* * * *
70175950 CGTGTTTAACTTTCCGTCAGACTATCT
1 CATGTTTAACATCCCGTCAGACTATCC
*
70175977 CATGTTTAACGTCCC
1 CATGTTTAACATCCC
70175992 ATCAAACCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (27 bp):
CATGTTTAACATCCCGTCAGACTATCC
Found at i:70178788 original size:9 final size:9
Alignment explanation
Indices: 70178774--70178798 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
70178764 CCAAGTTTTG
70178774 CAATTTATT
1 CAATTTATT
70178783 CAATTTATT
1 CAATTTATT
70178792 CAATTTA
1 CAATTTA
70178799 GTCCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:70179100 original size:45 final size:45
Alignment explanation
Indices: 70179051--70179151 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
70179041 AGCCATAGTT
* * *
70179051 TTACTCATTTTCA-TCATGATGCCATAGCATCTTTTAGCTATGGTC
1 TTACTCATTTTCATTC-TGATGCCATAGCACCTTTCAGCTATGATC
* ** *
70179096 TTACTCATTTCCATTCTGATGCCATAGTGCCTTTCAGCTATGATT
1 TTACTCATTTTCATTCTGATGCCATAGCACCTTTCAGCTATGATC
70179141 TTACTCATTTT
1 TTACTCATTTT
70179152 AGGCATATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.45
Consensus pattern (45 bp):
TTACTCATTTTCATTCTGATGCCATAGCACCTTTCAGCTATGATC
Found at i:70192056 original size:25 final size:25
Alignment explanation
Indices: 70192021--70192078 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
70192011 CTTCGCGAGT
70192021 TTCCCGATTAAAGGCCCTTTGTAAGC
1 TTCCCGATTAAAGGCCCTTTG-AAGC
* * *
70192047 TTCCC-ATTAATGGCTCTTTGGAGC
1 TTCCCGATTAAAGGCCCTTTGAAGC
70192071 TTCCCGAT
1 TTCCCGAT
70192079 ATTAGCTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 8 0.29
25 15 0.54
26 5 0.18
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (25 bp):
TTCCCGATTAAAGGCCCTTTGAAGC
Found at i:70192210 original size:25 final size:25
Alignment explanation
Indices: 70192178--70192225 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
70192168 CTTCCCATTA
70192178 TATGGCTCGAAAGAGC-TTCCTGTT
1 TATGGCTCGAAAGAGCATTCCTGTT
* *
70192202 TATGTGCTCGTATGAGCATTCCTG
1 TATG-GCTCGAAAGAGCATTCCTG
70192226 AATATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (25 bp):
TATGGCTCGAAAGAGCATTCCTGTT
Found at i:70192231 original size:26 final size:24
Alignment explanation
Indices: 70192177--70192231 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
70192167 GCTTCCCATT
*
70192177 ATATGGCTCGAAAGAGCTTCCTGT
1 ATATGGCTCGAAAGAGCTTCCTGA
* * *
70192201 TTATGTGCTCGTATGAGCATTCCTGA
1 ATATG-GCTCGAAAGAGC-TTCCTGA
70192227 ATATG
1 ATATG
70192232 AATTGACAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 4 0.17
25 10 0.42
26 10 0.42
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (24 bp):
ATATGGCTCGAAAGAGCTTCCTGA
Found at i:70198477 original size:30 final size:30
Alignment explanation
Indices: 70198442--70198499 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
70198432 CAGGCACTTC
* *
70198442 CACACGGGTAAACCACTCGCCCGTGTGTGA
1 CACACGGGCAAACCACACGCCCGTGTGTGA
*
70198472 CACACGGGCAAGCCACACGCCCGTGTGT
1 CACACGGGCAAACCACACGCCCGTGTGT
70198500 CATGGCCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGTGA
Found at i:70203138 original size:3 final size:3
Alignment explanation
Indices: 70203130--70203172 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
70203120 ACCCCTCCCA
*
70203130 ATT ATT ATT ATT ATT ATT ATT ATT GA-A ATT ATT ATT -TT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT
70203173 GCATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 31 0.89
4 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:70209516 original size:13 final size:13
Alignment explanation
Indices: 70209486--70209510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70209476 TGATGCACAC
70209486 GGCCGAGTCGCAT
1 GGCCGAGTCGCAT
70209499 GGCCGAGTCGCA
1 GGCCGAGTCGCA
70209511 CTGCCGTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
GGCCGAGTCGCAT
Found at i:70213682 original size:13 final size:13
Alignment explanation
Indices: 70213664--70213697 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
70213654 TCTTCTTTAT
70213664 CAGCTTCTGGTTG
1 CAGCTTCTGGTTG
70213677 CAGCTTCTGGTTG
1 CAGCTTCTGGTTG
70213690 CAGCTTCT
1 CAGCTTCT
70213698 TTTCATATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.38
Consensus pattern (13 bp):
CAGCTTCTGGTTG
Found at i:70215449 original size:49 final size:49
Alignment explanation
Indices: 70215386--70215481 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
70215376 TATAGTTATG
70215386 GGGAAACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
1 GGGAAACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
*
70215435 GGGAGACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAAT
1 GGGAAACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAAT
70215482 CACTATCTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (49 bp):
GGGAAACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
Found at i:70232886 original size:17 final size:16
Alignment explanation
Indices: 70232841--70232890 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
70232831 GCATATATAA
70232841 TTTTTTAT-ATTACTTC
1 TTTTTTATAATTA-TTC
70232857 TTTTTAATATAATTATTC
1 TTTTT--TATAATTATTC
70232875 TTATTTTATAATTATT
1 TT-TTTTATAATTATT
70232891 TGTAAATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.17
17 10 0.33
18 8 0.27
19 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTTATAATTATTC
Found at i:70240860 original size:17 final size:17
Alignment explanation
Indices: 70240834--70240874 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
70240824 ATATACATAA
70240834 TTTATCATTT-TAAATAT
1 TTTATCATTTATAAA-AT
*
70240851 TTTATTATTTATAAAA-
1 TTTATCATTTATAAAAT
70240867 TTTATCAT
1 TTTATCAT
70240875 AAAAACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATCATTTATAAAAT
Found at i:70241165 original size:17 final size:18
Alignment explanation
Indices: 70241143--70241188 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
70241133 TTTTTAATTA
70241143 TTTATATAATAAAT-AAT
1 TTTATATAATAAATAAAT
* *
70241160 TTTATATTATATATAAAT
1 TTTATATAATAAATAAAT
70241178 TTTATA-AATAA
1 TTTATATAATAA
70241189 TGCACTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATAATAAATAAAT
Found at i:70241714 original size:6 final size:6
Alignment explanation
Indices: 70241703--70241733 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
70241693 ATAACATCAT
70241703 TTTATA TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
70241734 ATTACGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:70241898 original size:12 final size:12
Alignment explanation
Indices: 70241871--70241905 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
70241861 ATTACACCAA
70241871 ATTAAAGTTCATAT
1 ATTAAA-TT-ATAT
70241885 ATTAAATTATAT
1 ATTAAATTATAT
70241897 ATTAAATTA
1 ATTAAATTA
70241906 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 2 0.10
14 6 0.29
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (12 bp):
ATTAAATTATAT
Found at i:70246055 original size:19 final size:18
Alignment explanation
Indices: 70246020--70246063 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
70246010 TTTAAAAATT
*
70246020 ATTTTTATCATACTAATA
1 ATTTTTATAATACTAATA
*
70246038 ATTTTTATAATAATTAATA
1 ATTTTTATAAT-ACTAATA
*
70246057 TTTTTTA
1 ATTTTTA
70246064 AAACTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTTATAATACTAATA
Found at i:70246059 original size:18 final size:17
Alignment explanation
Indices: 70246019--70246061 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
70246009 ATTTAAAAAT
*
70246019 TATTTTTATCATACTAA
1 TATTTTTATAATACTAA
*
70246036 TAATTTTTATAATAATTAA
1 T-ATTTTTATAAT-ACTAA
70246055 TATTTTT
1 TATTTTT
70246062 TAAAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:70247635 original size:14 final size:14
Alignment explanation
Indices: 70247614--70247659 Score: 74
Period size: 14 Copynumber: 3.2 Consensus size: 14
70247604 TACATTTCAC
70247614 AAAATAAAAAAATA
1 AAAATAAAAAAATA
*
70247628 ATAATAAAAAAATA
1 AAAATAAAAAAATA
70247642 AAAATAAAAAACATA
1 AAAATAAAAAA-ATA
70247657 AAA
1 AAA
70247660 TGCAGGAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:70257196 original size:95 final size:95
Alignment explanation
Indices: 70257033--70257221 Score: 351
Period size: 95 Copynumber: 2.0 Consensus size: 95
70257023 ATACTCACTA
70257033 AAGGTAGCATATCCTTGATATCAAGCTAGTTGAATGTGAGCAAATACAAGTAGTAGTTTGTTTGT
1 AAGGTAGCATATCCTTGATATCAAGCTAGTTGAATGTGAGCAAATACAAGTAGTAGTTTGTTTGT
*
70257098 TTGTTTTCAACGAACTTTAAGCTTTTTATC
66 TTGTTTTCAACGAACTTTAAACTTTTTATC
* *
70257128 AAGGTAGCATATCCTTGATATCAAGCTAGTTGAATGTGAGCAAATACAAGTTGTGGTTTGTTTGT
1 AAGGTAGCATATCCTTGATATCAAGCTAGTTGAATGTGAGCAAATACAAGTAGTAGTTTGTTTGT
70257193 TTGTTTTCAACGAACTTTAAACTTTTTAT
66 TTGTTTTCAACGAACTTTAAACTTTTTAT
70257222 TATCAATCAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (95 bp):
AAGGTAGCATATCCTTGATATCAAGCTAGTTGAATGTGAGCAAATACAAGTAGTAGTTTGTTTGT
TTGTTTTCAACGAACTTTAAACTTTTTATC
Found at i:70261957 original size:21 final size:21
Alignment explanation
Indices: 70261931--70261971 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70261921 AGACGAGCAA
* *
70261931 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
70261952 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
70261972 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:70263910 original size:16 final size:16
Alignment explanation
Indices: 70263877--70263910 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
70263867 GGAGATTGTT
* *
70263877 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
70263893 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
70263909 AA
1 AA
70263911 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:70266737 original size:21 final size:21
Alignment explanation
Indices: 70266711--70266751 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70266701 AGACGAGCAA
* *
70266711 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
70266732 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
70266752 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:70268690 original size:16 final size:16
Alignment explanation
Indices: 70268657--70268690 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
70268647 GGAGATTGTT
* *
70268657 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
70268673 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
70268689 AA
1 AA
70268691 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:70275768 original size:71 final size:71
Alignment explanation
Indices: 70275693--70275855 Score: 168
Period size: 71 Copynumber: 2.3 Consensus size: 71
70275683 TTTTCAACAA
* * * * * *
70275693 CTTGAGTGAGCAACATCGAATTATATTTTAGT-ATTTGCTGAGATCTT-GCATAAGTTGCGTATT
1 CTTGAGTGAGTAACATCGAATTATACTTTAGTGA-TGGCTGAGAT-TTAGCACAAGTTACGGATT
* *
70275756 CTCGATAG
64 CACAATAG
* * * * *
70275764 CTTGAGTAAGTAGCACCGAATTATACTTTATTGATGGCTGAGATTTAGCACATGTTACGGATTCA
1 CTTGAGTGAGTAACATCGAATTATACTTTAGTGATGGCTGAGATTTAGCACAAGTTACGGATTCA
70275829 CAATAG
66 CAATAG
*
70275835 CTTGAGTGAGTAACATTGAAT
1 CTTGAGTGAGTAACATCGAAT
70275856 AAAACTTATT
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
70 2 0.03
71 70 0.96
72 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (71 bp):
CTTGAGTGAGTAACATCGAATTATACTTTAGTGATGGCTGAGATTTAGCACAAGTTACGGATTCA
CAATAG
Found at i:70282729 original size:30 final size:30
Alignment explanation
Indices: 70282693--70282753 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
70282683 CATGGGCTGG
* * *
70282693 CACATGGGCGTGTGGCCTGCCCGTGTGGAT
1 CACATGGGCATGTGCCCAGCCCGTGTGGAT
70282723 CACATGGGCATGTGCCCAGCCCGTGTGGAT
1 CACATGGGCATGTGCCCAGCCCGTGTGGAT
70282753 C
1 C
70282754 CTGAAAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.13, C:0.30, G:0.36, T:0.21
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCGTGTGGAT
Found at i:70284575 original size:12 final size:11
Alignment explanation
Indices: 70284532--70284609 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 11
70284522 AGTTGAAGAG
70284532 AAAAAAA-ATA
1 AAAAAAATATA
* *
70284542 AAACAACTA-A
1 AAAAAAATATA
*
70284552 AACAAAAT-TA
1 AAAAAAATATA
70284562 AAAAGAAATATA
1 AAAA-AAATATA
70284574 AAAAATAATA-A
1 AAAAA-AATATA
*
70284585 TAAAAAA-AT-
1 AAAAAAATATA
70284594 AAAAAAATA-A
1 AAAAAAATATA
70284604 AAAAAA
1 AAAAAA
70284610 TAAACTCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
9 7 0.13
10 24 0.46
11 11 0.21
12 10 0.19
ACGTcount: A:0.81, C:0.04, G:0.01, T:0.14
Consensus pattern (11 bp):
AAAAAAATATA
Found at i:70284590 original size:14 final size:15
Alignment explanation
Indices: 70284568--70284612 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
70284558 ATTAAAAAGA
70284568 AATATAAAAAATAAT
1 AATATAAAAAATAAT
*
70284583 AATA-AAAAAATAAA
1 AATATAAAAAATAAT
*
70284597 AAAATAAAAAA-AAT
1 AATATAAAAAATAAT
70284611 AA
1 AA
70284613 ACTCAATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AATATAAAAAATAAT
Found at i:70284598 original size:9 final size:9
Alignment explanation
Indices: 70284532--70284613 Score: 67
Period size: 9 Copynumber: 8.3 Consensus size: 9
70284522 AGTTGAAGAG
70284532 AAAAAAAAT
1 AAAAAAAAT
* *
70284541 AAAACAACT
1 AAAAAAAAT
70284550 AAAACAAAATT
1 AAAA-AAAA-T
70284561 AAAAAGAAATAT
1 -AAAA-AAA-AT
70284573 AAAAAATAAT
1 AAAAAA-AAT
70284583 AATAAAAAA-
1 AA-AAAAAAT
70284592 ATAAAAAAAT
1 A-AAAAAAAT
70284602 AAAAAAAAT
1 AAAAAAAAT
70284611 AAA
1 AAA
70284614 CTCAATGATA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
9 29 0.48
10 12 0.20
11 10 0.17
12 8 0.13
13 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.15
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:70284735 original size:16 final size:16
Alignment explanation
Indices: 70284714--70284761 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
70284704 GCAAAATAAA
*
70284714 ATATAATAA-TAAAAGT
1 ATATAAAAATTAAAA-T
70284730 ATATAAAAATTAAAAT
1 ATATAAAAATTAAAAT
*
70284746 ATAAAAAAATTAAAAT
1 ATATAAAAATTAAAAT
70284762 TAAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 24 0.83
17 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
ATATAAAAATTAAAAT
Found at i:70284747 original size:14 final size:14
Alignment explanation
Indices: 70284706--70284768 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 14
70284696 TAGAAATAGC
70284706 AAAA-TAAAATATA
1 AAAATTAAAATATA
* *
70284719 ATAATAAAAGTATATA
1 AAAATTAAA--ATATA
70284735 AAAATTAAAATATAAA
1 AAAATTAAAATAT--A
70284751 AAAATTAAAAT-TA
1 AAAATTAAAATATA
70284764 AAAAT
1 AAAAT
70284769 ATAAGTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 9 0.22
14 7 0.17
15 1 0.02
16 24 0.59
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:70284767 original size:16 final size:16
Alignment explanation
Indices: 70284723--70284767 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
70284713 AATATAATAA
*
70284723 TAAAAGTATATAAAAAT
1 TAAAA-TATAAAAAAAT
70284740 TAAAATATAAAAAAAT
1 TAAAATATAAAAAAAT
70284756 TAAAAT-TAAAAA
1 TAAAATATAAAAA
70284768 TATAAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
TAAAATATAAAAAAAT
Found at i:70284841 original size:22 final size:20
Alignment explanation
Indices: 70284811--70284862 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
70284801 AATTAATTAG
*
70284811 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
70284831 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
70284853 TAAAATAAAA
1 TAAAATAAAA
70284863 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:70287629 original size:31 final size:31
Alignment explanation
Indices: 70287588--70287650 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
70287578 GCCTTATTTC
70287588 TCAACAAGAAGGGGAATAATCCAAATGAGTA
1 TCAACAAGAAGGGGAATAATCCAAATGAGTA
*
70287619 TCAACGAGAAGGGGAATAATCCAAATGAGTA
1 TCAACAAGAAGGGGAATAATCCAAATGAGTA
70287650 T
1 T
70287651 TTGGGTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (31 bp):
TCAACAAGAAGGGGAATAATCCAAATGAGTA
Found at i:70288934 original size:26 final size:30
Alignment explanation
Indices: 70288875--70288934 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
70288865 CCATATTATA
70288875 AATTGATTGGTTAATGATTTTCAATGGATG
1 AATTGATTGGTTAATGATTTTCAATGGATG
*
70288905 AATTGTTTGG-TAA-GATTTT-AATGGAT-
1 AATTGATTGGTTAATGATTTTCAATGGATG
70288931 AATT
1 AATT
70288935 TGAATGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 7 0.24
28 6 0.21
29 3 0.10
30 9 0.31
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.45
Consensus pattern (30 bp):
AATTGATTGGTTAATGATTTTCAATGGATG
Found at i:70292372 original size:31 final size:31
Alignment explanation
Indices: 70292331--70292393 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
70292321 GCCTTATTTC
70292331 TCAACAAGAAGGGGAATAATCCAAATGAGTA
1 TCAACAAGAAGGGGAATAATCCAAATGAGTA
*
70292362 TCAACGAGAAGGGGAATAATCCAAATGAGTA
1 TCAACAAGAAGGGGAATAATCCAAATGAGTA
70292393 T
1 T
70292394 TTGGGTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (31 bp):
TCAACAAGAAGGGGAATAATCCAAATGAGTA
Found at i:70293677 original size:26 final size:30
Alignment explanation
Indices: 70293618--70293677 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
70293608 CCATATTATA
70293618 AATTGATTGGTTAATGATTTTCAATGGATG
1 AATTGATTGGTTAATGATTTTCAATGGATG
*
70293648 AATTGTTTGG-TAA-GATTTT-AATGGAT-
1 AATTGATTGGTTAATGATTTTCAATGGATG
70293674 AATT
1 AATT
70293678 TGAATGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 7 0.24
28 6 0.21
29 3 0.10
30 9 0.31
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.45
Consensus pattern (30 bp):
AATTGATTGGTTAATGATTTTCAATGGATG
Found at i:70298152 original size:26 final size:26
Alignment explanation
Indices: 70298122--70298178 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
70298112 TCGAGCTCTC
70298122 GAGCCA-TATAACGGGAAGCTCACAAA
1 GAGCCACTA-AACGGGAAGCTCACAAA
*
70298148 GAGCCACTAATCGGGAAGCTCACAAA
1 GAGCCACTAAACGGGAAGCTCACAAA
70298174 GAGCC
1 GAGCC
70298179 TATCAGGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.39, C:0.26, G:0.25, T:0.11
Consensus pattern (26 bp):
GAGCCACTAAACGGGAAGCTCACAAA
Found at i:70299431 original size:30 final size:30
Alignment explanation
Indices: 70299378--70299438 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
70299368 TTATTTAATT
*
70299378 AATTATCATCTTTTATTTTTTTTACTTTCC
1 AATTATCATCTTTTATTTATTTTACTTTCC
* *
70299408 AATT-TCATCCTTTTCTTTATTTTATTTTCC
1 AATTATCAT-CTTTTATTTATTTTACTTTCC
70299438 A
1 A
70299439 TGGATGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (30 bp):
AATTATCATCTTTTATTTATTTTACTTTCC
Found at i:70300409 original size:12 final size:13
Alignment explanation
Indices: 70300391--70300422 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
70300381 GAACAATTTA
70300391 ATTTCTTCTTCTT
1 ATTTCTTCTTCTT
70300404 -TTTCTTCTTCTT
1 ATTTCTTCTTCTT
70300416 ATTTCTT
1 ATTTCTT
70300423 TCATTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTCTTCTT
Found at i:70304652 original size:27 final size:26
Alignment explanation
Indices: 70304588--70304653 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
70304578 CAGTAAAACA
* *
70304588 TATCA-TAGGGGGATATCAGTCATTT
1 TATCATTAGGGGTATAACAGTCATTT
70304613 TACCTC-TTAGGGGTATAACAGTCATTT
1 TA--TCATTAGGGGTATAACAGTCATTT
70304640 TATCATTATGGGGT
1 TATCATTA-GGGGT
70304654 CCAAATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 4 0.12
26 3 0.09
27 27 0.79
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (26 bp):
TATCATTAGGGGTATAACAGTCATTT
Found at i:70304788 original size:17 final size:19
Alignment explanation
Indices: 70304752--70304788 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
70304742 AAGGCCCATA
70304752 ACACGGCCCATGTGGGCCC
1 ACACGGCCCATGTGGGCCC
70304771 ACAC-GCCCATGT-GGCCC
1 ACACGGCCCATGTGGGCCC
70304788 A
1 A
70304789 ATAAGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.19, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTGGGCCC
Found at i:70310774 original size:20 final size:20
Alignment explanation
Indices: 70310751--70310788 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70310741 CTTTATTTCT
*
70310751 TTTATTTTTTTATTATATGC
1 TTTATTTTATTATTATATGC
70310771 TTTATTTTATTATTATAT
1 TTTATTTTATTATTATAT
70310789 TATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTTATTATTATATGC
Found at i:70310783 original size:8 final size:8
Alignment explanation
Indices: 70310772--70310821 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
70310762 ATTATATGCT
*
70310772 TTATTTTA
1 TTATTATA
70310780 TTATTATA
1 TTATTATA
70310788 TTA-TAT-
1 TTATTATA
70310794 TATATTATA
1 T-TATTATA
*
70310803 TTAATATA
1 TTATTATA
70310811 TTATTATA
1 TTATTATA
70310819 TTA
1 TTA
70310822 ATTTCTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 29 0.81
9 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:70310799 original size:23 final size:24
Alignment explanation
Indices: 70310750--70310814 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
70310740 TCTTTATTTC
* * *
70310750 TTTTATTTTTTTATTATATGCTTTA
1 TTTTATTATTATATTATAT-CTATA
70310775 TTTTATTATTATATTATAT-TATA
1 TTTTATTATTATATTATATCTATA
* *
70310798 TTATATTAATATATTAT
1 TTTTATTATTATATTAT
70310815 TATATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.51
25 17 0.49
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTATTATTATATTATATCTATA
Found at i:70310802 original size:5 final size:5
Alignment explanation
Indices: 70310781--70310821 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
70310771 TTTATTTTAT
70310781 TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
70310822 ATTTCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.82
6 2 0.06
7 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:70312048 original size:109 final size:109
Alignment explanation
Indices: 70311897--70312111 Score: 403
Period size: 109 Copynumber: 2.0 Consensus size: 109
70311887 CAATAAAGAA
70311897 TAAAAAAGAAATCTTTTTTTTTATTCTTTCTTTCATAAATATAGAGAGATCTAATCCATGTCATG
1 TAAAAAAGAAATCTTTTTTTTTATTCTTTCTTTCATAAATATAGAGAGATCTAATCCATGTCATG
70311962 ATTTATGAGCTAATGGAATGTTTCATTGTTTTCGTAATAGACGG
66 ATTTATGAGCTAATGGAATGTTTCATTGTTTTCGTAATAGACGG
* *
70312006 TAAAAAAGAAATCTTTTTTTTTATTCTTTCTTTCATAGATATAGAGAGATCTAATCCGTGTCATG
1 TAAAAAAGAAATCTTTTTTTTTATTCTTTCTTTCATAAATATAGAGAGATCTAATCCATGTCATG
*
70312071 ATTTATGAGCTAATGGAATGTTTCATTTTTTTCGTAATAGA
66 ATTTATGAGCTAATGGAATGTTTCATTGTTTTCGTAATAGA
70312112 AAACAATGGG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (109 bp):
TAAAAAAGAAATCTTTTTTTTTATTCTTTCTTTCATAAATATAGAGAGATCTAATCCATGTCATG
ATTTATGAGCTAATGGAATGTTTCATTGTTTTCGTAATAGACGG
Found at i:70313065 original size:317 final size:319
Alignment explanation
Indices: 70312459--70313100 Score: 1047
Period size: 317 Copynumber: 2.0 Consensus size: 319
70312449 TTGACTCTAT
*
70312459 CCCACGTTGGTAAAACTCTCCCGAAACATAACCTAAAATCAGATCTTCATTATCTAAAGGAATCC
1 CCCACGTTGGTAAAACTCTCCAGAAACATAACCTAAAATCAGATCTTCATTATCTAAAGGAATCC
*
70312524 AGAGTGGGAGTGATTTACTAATTAAATTAAACCTTCATGAATCCATTTTTTTGTTCTTTTATTCC
66 AGAGTGGGAGTGATTTAC--A-TAAATTAAACCTTCATAAATCCATTTTTTTGTTCTTTTATTCC
* *
70312589 AGGTAAAACTTCCTTGACGTATCAACTACCGTAGGGCAGGAGGAGTTCTATTAGACAACCCGTGC
128 AGGTAAAACTTCCTTGACGTATCAACTACCGTAGGGCAAGAGGAGTTCTATTAAACAACCCGTGC
* * ** * *
70312654 TTTTTTCTTTTTTTTTTGCACAAATGGAGAGTTTCGGATACAATTCGTATACCGGACAGATTACC
193 TTTTTTCTTCTTTTCTTGCACAAATGGAGAGTTTCAAATACAATTCGTATACCAGACAAATTACC
* *
70312719 ATATATAACACAAAATTTCTCCACCGATTCCTTCTAGTCGAGCTTTCCGGTCTGTCATTATA
258 ATATATAACACAAAATTTCTCCACCGATTCCTTCTAGTCGAGCCTCCCGGTCTGTCATTATA
70312781 CCCACGTTGGTAAAACTCTCCAGAAACATAACCTAAAATCAGATCTTCATTATCTAAAGGAATCC
1 CCCACGTTGGTAAAACTCTCCAGAAACATAACCTAAAATCAGATCTTCATTATCTAAAGGAATCC
* *
70312846 GGAGTGGGAGTGATTTAC-T-AATTAAACCTTCATAAATCCATTTTTTTTGTTCTTTTATTCCAT
66 AGAGTGGGAGTGATTTACATAAATTAAACCTTCATAAATCCA-TTTTTTTGTTCTTTTATTCCAG
* * * *
70312909 GTAAAACTTCCTTGATGTATCAACTACTGTAGGGCAAGAGGAGTTCTTTTAAACAACCCGTGGTT
130 GTAAAACTTCCTTGACGTATCAACTACCGTAGGGCAAGAGGAGTTCTATTAAACAACCCGTGCTT
* *
70312974 TTTTCTTCTTTTCTT-CACAAATGGAGAGTTTCAAATACAATTCTTATACTAGACAAATTACCAT
195 TTTTCTTCTTTTCTTGCACAAATGGAGAGTTTCAAATACAATTCGTATACCAGACAAATTACCAT
70313038 ATATAACACAAAATTTCTCCACCGATTCCTTCTAGTCGAGCCTCCCGGTCTGTCATTATA
260 ATATAACACAAAATTTCTCCACCGATTCCTTCTAGTCGAGCCTCCCGGTCTGTCATTATA
70313098 CCC
1 CCC
70313101 CGAGAAGTAG
Statistics
Matches: 299, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
317 124 0.41
318 94 0.31
322 81 0.27
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (319 bp):
CCCACGTTGGTAAAACTCTCCAGAAACATAACCTAAAATCAGATCTTCATTATCTAAAGGAATCC
AGAGTGGGAGTGATTTACATAAATTAAACCTTCATAAATCCATTTTTTTGTTCTTTTATTCCAGG
TAAAACTTCCTTGACGTATCAACTACCGTAGGGCAAGAGGAGTTCTATTAAACAACCCGTGCTTT
TTTCTTCTTTTCTTGCACAAATGGAGAGTTTCAAATACAATTCGTATACCAGACAAATTACCATA
TATAACACAAAATTTCTCCACCGATTCCTTCTAGTCGAGCCTCCCGGTCTGTCATTATA
Found at i:70314574 original size:18 final size:17
Alignment explanation
Indices: 70314551--70314584 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
70314541 CTCGTGTTTA
70314551 TTTTATATTATCTTTTTC
1 TTTTATATTAT-TTTTTC
*
70314569 TTTTATTTTATTTTTT
1 TTTTATATTATTTTTT
70314585 GCGGTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATATTATTTTTTC
Found at i:70322751 original size:2 final size:2
Alignment explanation
Indices: 70322744--70322768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70322734 TTATTCAACA
70322744 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
70322769 AAAGCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:70326672 original size:19 final size:19
Alignment explanation
Indices: 70326630--70326672 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
70326620 AAAGTAAGGT
*
70326630 ATAAATATTAATTACATTG
1 ATAAATATTAATTACAGTG
70326649 ATAAATATTAAATTA-AGTG
1 ATAAATATT-AATTACAGTG
*
70326668 GTAAA
1 ATAAA
70326673 ATACATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (19 bp):
ATAAATATTAATTACAGTG
Found at i:70327877 original size:22 final size:22
Alignment explanation
Indices: 70327838--70327896 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
70327828 AAAAATAATT
*
70327838 AAAATT-TAATTTAATATTTTA
1 AAAATTATAATTTAATATTATA
* * *
70327859 AAACTTATATTTTACTATTATA
1 AAAATTATAATTTAATATTATA
70327881 AAAATTATAATTTAAT
1 AAAATTATAATTTAAT
70327897 TTCAACCCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTATAATTTAATATTATA
Found at i:70329360 original size:17 final size:17
Alignment explanation
Indices: 70329338--70329409 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 17
70329328 TGATAAAAAT
70329338 ATAATTTTATTATTTTA
1 ATAATTTTATTATTTTA
70329355 ATAA-TTTATATATTTATA
1 ATAATTTTAT-TATTT-TA
** **
70329373 AT-ATTTATAAAAAATT-
1 ATAATTT-TATTATTTTA
70329389 AT-ATTTTATTATTTTA
1 ATAATTTTATTATTTTA
70329405 ATAAT
1 ATAAT
70329410 CTATATATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
15 5 0.12
16 13 0.32
17 13 0.32
18 8 0.20
19 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAATTTTATTATTTTA
Found at i:70329395 original size:50 final size:50
Alignment explanation
Indices: 70329332--70329430 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
70329322 TTACTATGAT
*
70329332 AAAAATATAATTTTATTATTTTAATAATTTATATATTTATAATATTTATA
1 AAAAATATAATTTTATTATTTTAATAATCTATATATTTATAATATTTATA
*
70329382 AAAAAT-TATATTTTATTATTTTAATAATCTATATATTTATAATCTTTAT
1 AAAAATATA-ATTTTATTATTTTAATAATCTATATATTTATAATATTTAT
70329431 CAATTTAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.96
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (50 bp):
AAAAATATAATTTTATTATTTTAATAATCTATATATTTATAATATTTATA
Found at i:70329429 original size:25 final size:23
Alignment explanation
Indices: 70329343--70329429 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 23
70329333 AAAATATAAT
*
70329343 TTTATTATTTTAATAATTTATATA
1 TTTATAATTTTAATAA-TTATATA
*
70329367 TTTATAATATTTATAAAAAATTATAT-
1 TTTAT-A-ATTT-T-AATAATTATATA
*
70329393 TTTATTATTTTAATAATCTATATA
1 TTTATAATTTTAATAAT-TATATA
70329417 TTTATAATCTTTA
1 TTTATAAT-TTTA
70329430 TCAATTTAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.10
23 6 0.12
24 16 0.31
25 4 0.08
26 9 0.18
27 7 0.14
28 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATAATTTTAATAATTATATA
Found at i:70344267 original size:4 final size:4
Alignment explanation
Indices: 70344260--70344294 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
70344250 TTAAAAAAAA
70344260 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
70344295 TTGGTAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:70350531 original size:20 final size:20
Alignment explanation
Indices: 70350506--70350545 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
70350496 AATAGAACAG
70350506 TAAAGAGTTGTTTGATTTTT
1 TAAAGAGTTGTTTGATTTTT
70350526 TAAAGAGTTGTTTGATTTTT
1 TAAAGAGTTGTTTGATTTTT
70350546 CTATTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (20 bp):
TAAAGAGTTGTTTGATTTTT
Found at i:70352960 original size:18 final size:17
Alignment explanation
Indices: 70352918--70352960 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
70352908 AAAATTTTTG
* *
70352918 AAATGAATTATTTTATA
1 AAATAAATTAATTTATA
*
70352935 AAACAAATTAATTTATAA
1 AAATAAATTAATTTAT-A
70352953 AAATAAAT
1 AAATAAAT
70352961 AAATAAATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATAAATTAATTTATA
Found at i:70353449 original size:19 final size:19
Alignment explanation
Indices: 70353425--70353462 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
70353415 GTGTGATTAT
70353425 TGTGAATCTTGTATTTGAA
1 TGTGAATCTTGTATTTGAA
70353444 TGTGAATCTTGTATTTGAA
1 TGTGAATCTTGTATTTGAA
70353463 AATTGACATA
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:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TGTGAATCTTGTATTTGAA
Found at i:70354080 original size:24 final size:24
Alignment explanation
Indices: 70354053--70354121 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
70354043 TTCCATTATT
*
70354053 TATAATTTTTAT-ATTTTTAGAT-
1 TATAATTTTTATAATTTTTAAATA
70354075 TATATATTTTTATGAATTTTTAAATA
1 TATA-ATTTTTAT-AATTTTTAAATA
70354101 T-TAATTTTTATAATTTTTAAA
1 TATAATTTTTATAATTTTTAAA
70354122 AGTTCACGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
22 4 0.10
23 18 0.43
24 8 0.19
25 11 0.26
26 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
TATAATTTTTATAATTTTTAAATA
Found at i:70354864 original size:29 final size:31
Alignment explanation
Indices: 70354810--70354871 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
70354800 TCTTAATATT
*
70354810 TGTTATTTGTATTTTCATAAAATATTTAATA
1 TGTTATTTGTACTTTCATAAAATATTTAATA
*
70354841 TGTTATTTTTACTTT-A-AAAATATTTAATA
1 TGTTATTTGTACTTTCATAAAATATTTAATA
70354870 TG
1 TG
70354872 GTACATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.52
30 1 0.03
31 13 0.45
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (31 bp):
TGTTATTTGTACTTTCATAAAATATTTAATA
Found at i:70357283 original size:46 final size:43
Alignment explanation
Indices: 70357176--70357328 Score: 162
Period size: 46 Copynumber: 3.4 Consensus size: 43
70357166 TACATGTTTG
* * *
70357176 GGTTAAACCTACACAAATCGGATAATAGTGTCCAGTCACCCGTAA
1 GGTTGAACCTACACAAATCGGATAATAGTG-CCGGTCA-CCGTTA
*
70357221 GGTTGAACCTACACAAATTGGATAATAGTGCCTGGTCAGCCGTTA
1 GGTTGAACCTACACAAATCGGATAATAGTGCC-GGTCA-CCGTTA
** * *
70357266 GGATTGAACCTACACAAATCATATAATAATGCCCGATCACCTGTTA
1 GG-TTGAACCTACACAAATCGGATAATAGTG-CCGGTCACC-GTTA
70357312 GGGTTGAACCTACACAA
1 -GGTTGAACCTACACAA
70357329 CATATAGCCT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
44 2 0.02
45 41 0.44
46 46 0.49
47 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
GGTTGAACCTACACAAATCGGATAATAGTGCCGGTCACCGTTA
Found at i:70368168 original size:43 final size:44
Alignment explanation
Indices: 70368083--70368168 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 44
70368073 TCTTCTAGGG
* *
70368083 TTTTCATAGTTTTAGGTTAGGTTTTCCTTTCTTTTTCTTTTTTTT
1 TTTTCATA-TTTTAGATTAAGTTTTCCTTTCTTTTTCTTTTTTTT
70368128 TTTTCAT-TTTTAGATTAAGTTTTCTCTTT-TCTTTTCTTTTT
1 TTTTCATATTTTAGATTAAGTTTTC-CTTTCT-TTTTCTTTTT
70368169 AAATTAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
43 16 0.43
44 14 0.38
45 7 0.19
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.70
Consensus pattern (44 bp):
TTTTCATATTTTAGATTAAGTTTTCCTTTCTTTTTCTTTTTTTT
Found at i:70368926 original size:29 final size:29
Alignment explanation
Indices: 70368884--70368941 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
70368874 TTTCTGTGTA
70368884 CATGCACATATGGTCAATTACATTAATAT
1 CATGCACATATGGTCAATTACATTAATAT
70368913 CATGCACATATGGTCAATTACATTAATAT
1 CATGCACATATGGTCAATTACATTAATAT
70368942 ACTTTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (29 bp):
CATGCACATATGGTCAATTACATTAATAT
Found at i:70370311 original size:26 final size:25
Alignment explanation
Indices: 70370282--70370347 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
70370272 GAAAAAGTAG
*
70370282 TTTAAGTATCAATTGAGAAAAAAAAA
1 TTTAAATATCAATTGA-AAAAAAAAA
*
70370308 TTTAAATA-CTAAGATGAAAAAAAAAA
1 TTTAAATATC-AA-TTGAAAAAAAAAA
70370334 TTTAAATATCAATT
1 TTTAAATATCAATT
70370348 TGTGAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 2 0.06
26 28 0.82
27 4 0.12
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (25 bp):
TTTAAATATCAATTGAAAAAAAAAA
Found at i:70370984 original size:34 final size:34
Alignment explanation
Indices: 70370946--70371011 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
70370936 AAAGTTCAAA
70370946 TAATTTTTAA-ATTTTAAAATATT-TATAAAAATTT
1 TAATTTTTAATATTTTAAAA-ATTCTA-AAAAATTT
*
70370980 TAATTTTTAATTTTTTAAAAATTCTAAAAAAT
1 TAATTTTTAATATTTTAAAAATTCTAAAAAAT
70371012 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 19 0.66
35 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (34 bp):
TAATTTTTAATATTTTAAAAATTCTAAAAAATTT
Found at i:70372429 original size:23 final size:23
Alignment explanation
Indices: 70372401--70372444 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
70372391 AACAACACAT
70372401 AAAATTTGAAACTAATAATAATA
1 AAAATTTGAAACTAATAATAATA
70372424 AAAATTTGAAACTAATAATAA
1 AAAATTTGAAACTAATAATAA
70372445 AACAGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (23 bp):
AAAATTTGAAACTAATAATAATA
Found at i:70372791 original size:22 final size:21
Alignment explanation
Indices: 70372745--70372791 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
70372735 ATTAAAAACC
* *
70372745 TTTAACAATTTATATTTACTT
1 TTTAAAAATTTATATTTACTA
70372766 TTTAAAAATTATATAATTTA-TA
1 TTTAAAAATT-TAT-ATTTACTA
70372788 TTTA
1 TTTA
70372792 CTTTCTCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAAAATTTATATTTACTA
Found at i:70392392 original size:7 final size:7
Alignment explanation
Indices: 70392380--70392405 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70392370 ATATATATAA
70392380 AAAAAAG
1 AAAAAAG
70392387 AAAAAAG
1 AAAAAAG
70392394 AAAAAAG
1 AAAAAAG
70392401 AAAAA
1 AAAAA
70392406 CAAGAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:70394361 original size:36 final size:37
Alignment explanation
Indices: 70394316--70394389 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
70394306 GATTACCTAA
70394316 AAATAAAGTTAACT-AACAAATCGATACTTAAACTAT
1 AAATAAAGTTAACTAAACAAATCGATACTTAAACTAT
*
70394352 AAATAAAGTTAACTAAACAAATTGATACTTAAACTAT
1 AAATAAAGTTAACTAAACAAATCGATACTTAAACTAT
70394389 A
1 A
70394390 CTCTTTTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 14 0.39
37 22 0.61
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.28
Consensus pattern (37 bp):
AAATAAAGTTAACTAAACAAATCGATACTTAAACTAT
Found at i:70399719 original size:18 final size:18
Alignment explanation
Indices: 70399679--70399741 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
70399669 TATCAATATC
*
70399679 ATTCAGTAACGATCAATT
1 ATTCAGTAACAATCAATT
* * *
70399697 GTTCAGTAACAATTAGTT
1 ATTCAGTAACAATCAATT
* *
70399715 ATTCAGTATCAGTCAATT
1 ATTCAGTAACAATCAATT
70399733 ATTCAGTAA
1 ATTCAGTAA
70399742 TAGTCAGTCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:70399746 original size:18 final size:19
Alignment explanation
Indices: 70399679--70399758 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 19
70399669 TATCAATATC
70399679 ATTCAGTAA-C-GATCAATT
1 ATTCAGTAATCAG-TCAATT
* * * *
70399697 GTTCAGTAA-CAATTAGTT
1 ATTCAGTAATCAGTCAATT
70399715 ATTCAGT-ATCAGTCAATT
1 ATTCAGTAATCAGTCAATT
* *
70399733 ATTCAGTAAT-AGTCAGTC
1 ATTCAGTAATCAGTCAATT
70399751 ATTCAGTA
1 ATTCAGTA
70399759 CTTTTATTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
17 1 0.02
18 46 0.94
19 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (19 bp):
ATTCAGTAATCAGTCAATT
Found at i:70399755 original size:36 final size:36
Alignment explanation
Indices: 70399677--70399758 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
70399667 TTTATCAATA
* *
70399677 TCATTCAGTAACGATCAATTGTTCAGTAACAATTAG
1 TCATTCAGTAACGATCAATTATTCAGTAACAATCAG
* * * *
70399713 TTATTCAGTATC-AGTCAATTATTCAGTAATAGTCAG
1 TCATTCAGTAACGA-TCAATTATTCAGTAACAATCAG
70399749 TCATTCAGTA
1 TCATTCAGTA
70399759 CTTTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (36 bp):
TCATTCAGTAACGATCAATTATTCAGTAACAATCAG
Found at i:70399983 original size:44 final size:44
Alignment explanation
Indices: 70399933--70400022 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
70399923 ATAGTAACAA
*
70399933 TAACAGTACGACACA-CA-AGGTGCCTCATCGACTTAAAGTCGAAG
1 TAACAGTACGACA-ATCATA-GTGCCTCATCGACTCAAAGTCGAAG
* *
70399977 TAACAGTACGACAATTATAGTGCCTCATCGACTCAAGGTCGAAG
1 TAACAGTACGACAATCATAGTGCCTCATCGACTCAAAGTCGAAG
70400021 TA
1 TA
70400023 TCCCTAAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 39 0.95
45 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (44 bp):
TAACAGTACGACAATCATAGTGCCTCATCGACTCAAAGTCGAAG
Found at i:70401470 original size:25 final size:25
Alignment explanation
Indices: 70401420--70401470 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
70401410 ATAATATTAC
*
70401420 AAATGTACATATATATTTTATTCAT
1 AAATGTACATATATATTTTATCCAT
70401445 AAATGTACA-ATATCA-TTTATACCAT
1 AAATGTACATATAT-ATTTTAT-CCAT
70401470 A
1 A
70401471 CACTTGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (25 bp):
AAATGTACATATATATTTTATCCAT
Found at i:70401892 original size:20 final size:20
Alignment explanation
Indices: 70401846--70401893 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
70401836 AGTCTTTTTT
*
70401846 CCTAATTACTCTTAATTAAG
1 CCTAATTACACTTAATTAAG
70401866 -CTAAATT-CACTTAATTAAAG
1 CCT-AATTACACTTAATT-AAG
70401886 CCTAATTA
1 CCTAATTA
70401894 ACCACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAG
Found at i:70415416 original size:43 final size:42
Alignment explanation
Indices: 70415363--70415477 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
70415353 GTCTGAGACA
* **
70415363 TCGTGTAAGACCATGTCTGGGACAGAGGCCTTG-AT-TGAGATT
1 TCGTATAAGACCATGTCTGGGACAGAGGCAATGTATCT--GATT
**
70415405 TACGTATAAGACCATGTCTGGGACATCGGCAATGTATCTGATT
1 T-CGTATAAGACCATGTCTGGGACAGAGGCAATGTATCTGATT
* *
70415448 TCGTGTAAGACCATGTCTAGGACAGAGGCA
1 TCGTATAAGACCATGTCTGGGACAGAGGCA
70415478 TCTATATTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.43
43 32 0.52
44 2 0.03
45 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACAGAGGCAATGTATCTGATT
Found at i:70415500 original size:85 final size:85
Alignment explanation
Indices: 70415363--70415525 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 85
70415353 GTCTGAGACA
* * * *
70415363 TCGTGTAAGACCATGTCTGGGACAGAGGCCTTGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCATGTCTAGGACAGAGGCCTTGATTGAGATTTACATATAAGACCACGTCCGGGA
70415428 CA-TCGGCAATGTATCTGATT
66 -AGTCGGCAATGTATCTGATT
*
70415448 TCGTGTAAGACCATGTCTAGGACAGAGGCATCTAT-ATTGA-A-TTACATGTAAGACCACGTCCG
1 TCGTGTAAGACCATGTCTAGGACAGAGGC--CT-TGATTGAGATTTACATATAAGACCACGTCCG
*
70415510 GGAAGTCGGCATTGTA
63 GGAAGTCGGCAATGTA
70415526 CTTGTTTATG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
84 1 0.01
85 58 0.85
86 1 0.01
87 7 0.10
88 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCATGTCTAGGACAGAGGCCTTGATTGAGATTTACATATAAGACCACGTCCGGGA
AGTCGGCAATGTATCTGATT
Found at i:70416303 original size:13 final size:13
Alignment explanation
Indices: 70416285--70416309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70416275 AGCTAAGAAT
70416285 CACACGGGCGTGG
1 CACACGGGCGTGG
70416298 CACACGGGCGTG
1 CACACGGGCGTG
70416310 TCTGTTGGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGG
Found at i:70416696 original size:14 final size:15
Alignment explanation
Indices: 70416679--70416707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
70416669 TTATATCACG
70416679 AATCA-TATAAAATT
1 AATCATTATAAAATT
70416693 AATCATTATAAAATT
1 AATCATTATAAAATT
70416708 CAGTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCATTATAAAATT
Found at i:70419001 original size:22 final size:22
Alignment explanation
Indices: 70418976--70419041 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
70418966 CTTTTTCTTG
* * *
70418976 TTTTTTTATTTTATTTTATTTA
1 TTTTATTATTATATTATATTTA
70418998 TTTTATTATTATATTATATTAATA
1 TTTTATTATTATATTATATT--TA
*
70419022 TATTATTATTATATTA-ATTT
1 TTTTATTATTATATTATATTT
70419042 CTTAAATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 17 0.45
23 3 0.08
24 17 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATTATTATATTATATTTA
Found at i:70419006 original size:8 final size:8
Alignment explanation
Indices: 70418986--70419037 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
70418976 TTTTTTTATT
70418986 TTATTTTA
1 TTATTTTA
70418994 TTTATTTTA
1 -TTATTTTA
*
70419003 TTATTATA
1 TTATTTTA
*
70419011 TTATATTA
1 TTATTTTA
* *
70419019 ATATATTA
1 TTATTTTA
*
70419027 TTATTATA
1 TTATTTTA
70419035 TTA
1 TTA
70419038 ATTTCTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTTA
Done.