Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 27 of 378
Found at i:6619756 original size:15 final size:16
Alignment explanation
Indices: 6619731--6619768 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6619721 TGAATTGGTT
*
6619731 TTTTCTATTTTA-AATA
1 TTTT-TATTTTATAAAA
6619747 TTTTTATTTTATAAAA
1 TTTTTATTTTATAAAA
6619763 TTTTTA
1 TTTTTA
6619769 ATAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATTTTATAAAA
Found at i:6622328 original size:14 final size:14
Alignment explanation
Indices: 6622309--6622339 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6622299 GAACTCAAAG
6622309 ATTTTACTTAAAAA
1 ATTTTACTTAAAAA
6622323 ATTTTACTTAAAAA
1 ATTTTACTTAAAAA
6622337 ATT
1 ATT
6622340 GTCTAACTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTACTTAAAAA
Found at i:6623508 original size:17 final size:17
Alignment explanation
Indices: 6623476--6623509 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6623466 ATGAGCTCTA
6623476 GTTATTATTATAGAGTT
1 GTTATTATTATAGAGTT
6623493 GTTAGTTATTAT-GAGTT
1 GTTA-TTATTATAGAGTT
6623510 AATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (17 bp):
GTTATTATTATAGAGTT
Found at i:6626059 original size:36 final size:36
Alignment explanation
Indices: 6626019--6626090 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
6626009 TGCAGGTCAC
* * *
6626019 TTAAAGCTTTTCTTCTTAATTTTTGTTCTCTTTTGG
1 TTAAAGATTTTCTTCTTAATTTCTATTCTCTTTTGG
6626055 TTAAAGATTTTCTTCTTAATTTCTATTCTCTTTTGG
1 TTAAAGATTTTCTTCTTAATTTCTATTCTCTTTTGG
6626091 GTTTCTAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (36 bp):
TTAAAGATTTTCTTCTTAATTTCTATTCTCTTTTGG
Found at i:6637425 original size:2 final size:2
Alignment explanation
Indices: 6637413--6637448 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6637403 TCTTGTTTAA
*
6637413 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6637449 TAATACATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6638613 original size:130 final size:131
Alignment explanation
Indices: 6638380--6638718 Score: 474
Period size: 130 Copynumber: 2.6 Consensus size: 131
6638370 AGTTTTATAA
* *
6638380 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATCGTG
*
6638445 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATT-CTTTGGAATTTCA
66 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
*
6638509 T
131 C
* * *
6638510 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAACATTCGGTGTTTGGTAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATCGTG
*
6638575 CCCTATCGTGCTGTGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
66 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
6638640 C
131 C
** * * *** * *
6638641 TCATGT-TTTCTAAATTC--TAAAAC-AAGGCAATATTCAATGTCTAAAAATTCGAGGAACCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATCGTG
6638702 CCCTA-CTGTGCTGGGTT
66 CCCTATC-GTGCTGGGTT
6638719 TCGGTTTTTT
Statistics
Matches: 187, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 43 0.23
128 6 0.03
130 119 0.64
131 18 0.10
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATCGTG
CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
C
Found at i:6650405 original size:89 final size:88
Alignment explanation
Indices: 6650071--6650634 Score: 575
Period size: 87 Copynumber: 6.4 Consensus size: 88
6650061 GTGAATTCAC
** * *
6650071 AGATCTTGCCTCCCTGAAGTTGTAGTGGAACAGATCAAAGATGGCAAGCCTTAACCCCTTAAGTA
1 AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGA-AGCAAGCCTTAACCCCCTAAGTA
* *
6650136 GTAGGGTAACAGGCCGAAGATTGT
65 GTAGGGTAACAGGCTGAAGATTGA
** * ** * * * * * *
6650160 AGATCTTGCCTTCCT-AAGCAGTAGTGGAGCAGATCGAAGAAACAAGGCTTAACCTCCTAAATAG
1 AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAG
* *
6650224 TAGGGTAACAGGCTAAAGATTGT
66 TAGGGTAACAGGCTGAAGATTGA
* * *** * * *
6650247 AGATCTTGTTTCCCT-AAACAGTAGTGGAGCAAATCAAAGAAGCAAGCCTTAACCACCTAAGTAG
1 AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAG
*
6650311 TAGGGTAATAGGCTGAAGATTGA
66 TAGGGTAACAGGCTGAAGATTGA
* * * * **
6650334 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCCTTAACCCCCTAAGTA
1 AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGA-AGCAAGCCTTAACCCCCTAAGTA
6650399 GTAGGGTAACAGGCTG-A-ATT-A
65 GTAGGGTAACAGGCTGAAGATTGA
*
6650420 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGT
1 -AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAG-AAGCAAGCCTTAACCCCCTAAGT
* * * *
6650485 GGTAAGGTAACAGGTTGAAGA-TCA
64 AGTAGGGTAACAGGCTGAAGATTGA
* * * * *
6650509 TAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAAGACGGTGAA-CCTTAACCCCCTAAG
1 -AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGA-AG-CAAGCCTTAACCCCCTAAG
* * *
6650573 CAGTAGGGTAACAGGCTGAAAATTGC
63 TAGTAGGGTAACAGGCTGAAGATTGA
* *
6650599 AGATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATC
1 AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATC
6650635 GAAGCCACAA
Statistics
Matches: 399, Mismatches: 66, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
86 1 0.00
87 199 0.50
88 44 0.11
89 152 0.38
90 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (88 bp):
AGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAG
TAGGGTAACAGGCTGAAGATTGA
Found at i:6650474 original size:176 final size:174
Alignment explanation
Indices: 6650062--6650634 Score: 632
Period size: 176 Copynumber: 3.3 Consensus size: 174
6650052 GCAACATCGG
** **
6650062 TGAATTCACAGATCTTGCCTCCCTGAAGTTGTAGTGGAACAGATCAAAGATGGCAAGCCTTAACC
1 TGAATT-ACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAACC
* * * * ** * *
6650127 CCTTAAGTAGTAGGGTAACAGGCCGAAGATTGTAGATCTTGCCTTCCTAAGCAGTAGTGGAGCAG
65 CC-TAAGTAGTAGGGTAACAGGCTGAAGATTGAAGATCTTGTCTCCCTAAGTTGCAGTGGAACAG
**** * * *
6650192 ATCGAAGA-AACAAGGCTTAACCTCCTAAATAGTAGGGTAACAGGC
129 ATCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
* ** * * *** * *
6650237 TAAAGATTGTAGATCTTGTTTCCCT-AAACAGTAGTGGAGCAAATCAAAG-AAGCAAGCCTTAAC
1 T-GA-ATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
* * *
6650300 CACCTAAGTAGTAGGGTAATAGGCTGAAGATTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
64 C-CCTAAGTAGTAGGGTAACAGGCTGAAGATTGAAGATCTTGTCTCCCT-AAGTTGCAGTGGAAC
6650365 AGATCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
127 AGATCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
*
6650413 TGAATTACAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCC
1 TGAATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAA-CC
* * * *
6650478 CCTAAGTGGTAAGGTAACAGGTTGAAGA-TCATAGATCTTGTCTCCCTAAAGTTGCAGTGGAACA
65 CCTAAGTAGTAGGGTAACAGGCTGAAGATTGA-AGATCTTGTCTCCCT-AAGTTGCAGTGGAACA
* * *
6650542 GATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGC
128 GATCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
* * *
6650589 TGAAAATTGCAGATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATC
1 TG--AATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATC
6650635 GAAGCCACAA
Statistics
Matches: 331, Mismatches: 56, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
174 67 0.20
175 64 0.19
176 157 0.47
177 5 0.02
178 38 0.11
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (174 bp):
TGAATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCC
CTAAGTAGTAGGGTAACAGGCTGAAGATTGAAGATCTTGTCTCCCTAAGTTGCAGTGGAACAGAT
CGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
Found at i:6653342 original size:130 final size:130
Alignment explanation
Indices: 6653048--6653437 Score: 518
Period size: 130 Copynumber: 3.0 Consensus size: 130
6653038 GAATTTAGAG
* *
6653048 AACATGAGTGAAA-TTCTAAAGGAATATTCGATTATTTTGAACAAAT-AGGAAATTGCAACCCAG
1 AACATGAGTGAAATTTC-AAAGGAATATTCGATTGTTTTGAACAAATGA-GAAATCGCAACCCAG
* * * ** * **
6653111 CATGATAAGGCACGATTCCCCAAATTACCAAACATCGAGTATTACCTTCGTTTTGAAGAGCTTTT
64 CACGATAAGGCACGATT-CCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTT
6653176 AAA
128 AAA
* * *
6653179 GAC-TCGAGTGAAATTCCAAAGGAATCTTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGC
1 AACAT-GAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGC
* * *
6653243 ACGATAAGGCACGATTCTCGAATTGCCATACATCGAGTATCGCCTTTGTTTTAAAGAATTTTTAA
65 ACGATAAGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTTAA
6653308 A
130 A
* *
6653309 AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCA
1 AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCA
* * * *
6653374 CGATAGGGCACGATTCCCGAATTGCCAAACATTGAGTGTCGCCTTCG-CTTAAAGAATTTTTAAA
66 CGATAAGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTTAAA
6653438 TGAATAATTA
Statistics
Matches: 227, Mismatches: 28, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
129 16 0.07
130 140 0.62
131 68 0.30
132 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (130 bp):
AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCA
CGATAAGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTTAAA
Found at i:6654532 original size:18 final size:17
Alignment explanation
Indices: 6654511--6654563 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
6654501 GTATAGGTTT
6654511 AATAATGTATATAAATCA
1 AATAATGTATATAAAT-A
6654529 AATACATGTA-ATAATATA
1 AATA-ATGTATATAA-ATA
*
6654547 AATAA-GTATAAAAATA
1 AATAATGTATATAAATA
6654563 A
1 A
6654564 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 13 0.42
19 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (17 bp):
AATAATGTATATAAATA
Found at i:6655757 original size:17 final size:17
Alignment explanation
Indices: 6655732--6655764 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6655722 TATAATTTTT
6655732 TGCTATTTTCTTGTGTC
1 TGCTATTTTCTTGTGTC
*
6655749 TGCTGTTTTCTTGTGT
1 TGCTATTTTCTTGTGT
6655765 TTGATGTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.15, G:0.21, T:0.61
Consensus pattern (17 bp):
TGCTATTTTCTTGTGTC
Found at i:6657297 original size:131 final size:129
Alignment explanation
Indices: 6657063--6657402 Score: 463
Period size: 131 Copynumber: 2.6 Consensus size: 129
6657053 AGTTTTATAA
* * *
6657063 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTTTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTC-GGGAATCGTG
* *
6657128 CCCTATCGTGCTAGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCA
64 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCA
*
6657193 T
129 C
* *
6657194 TCATGTCTTTAAAAATTTTTTAAAATGAAGGCAACGTTCGATGTTTGGTAATTCAGGGAATCGTG
1 TCATGTCTTTAAAAATTTTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTC-GGGAATCGTG
6657259 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCA
64 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCA
6657324 C
129 C
** * * * * *
6657325 TCATGT-TTTCTAAA--TTCTAAAACAAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGC
1 TCATGTCTTTAAAAATTTTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCG-GGAATCGTGC
6657387 CCTA-CTGTGCTGGGTT
65 CCTATC-GTGCTGGGTT
6657403 TCGGTTTTTT
Statistics
Matches: 189, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 2 0.01
127 46 0.24
128 7 0.04
130 6 0.03
131 128 0.68
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (129 bp):
TCATGTCTTTAAAAATTTTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCGGGAATCGTGCC
CTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCAC
Found at i:6660333 original size:39 final size:39
Alignment explanation
Indices: 6660204--6660333 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 39
6660194 ATACTTTGTA
* * *
6660204 ATAATA-ATATATACACAATATGGTATTTAAAATATATAT
1 ATAATATATATATACACTA-ATGGTATTAAAAATATATAC
* * * *
6660243 ATATATATATGTATATA-TAATAGTATTTAAGAATATATAC
1 ATA-ATATATATATACACTAATGGTA-TTAAAAATATATAC
* *
6660283 ATAAGAAATATATA-ACTAATGGTATTAAAAAATATATAC
1 ATAATATATATATACACTAATGGTATT-AAAAATATATAC
6660322 ATAATATATATA
1 ATAATATATATA
6660334 AAATACCTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.04
39 44 0.61
40 18 0.25
41 7 0.10
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (39 bp):
ATAATATATATATACACTAATGGTATTAAAAATATATAC
Found at i:6660335 original size:24 final size:24
Alignment explanation
Indices: 6660277--6660336 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
6660267 ATTTAAGAAT
* *
6660277 ATATACATAAGAAATATATAACTA
1 ATATATATAAAAAATATATAACTA
*
6660301 ATGGTAT-TAAAAAATATAT-ACATA
1 AT-ATATATAAAAAATATATAAC-TA
6660325 ATATATATAAAA
1 ATATATATAAAA
6660337 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
ATATATATAAAAAATATATAACTA
Found at i:6661723 original size:30 final size:30
Alignment explanation
Indices: 6661687--6661748 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6661677 TTTTGAAAAA
6661687 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
6661717 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
6661747 CA
1 CA
6661749 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:6661867 original size:14 final size:14
Alignment explanation
Indices: 6661844--6661878 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6661834 TGAGTTGATT
6661844 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
6661857 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
6661871 TTTGAAAA
1 TTTGAAAA
6661879 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:6662179 original size:72 final size:73
Alignment explanation
Indices: 6661896--6662236 Score: 380
Period size: 72 Copynumber: 4.5 Consensus size: 73
6661886 ACATGTAACC
* * * *
6661896 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
6661961 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
6661974 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
6662039 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
6662052 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
6662117 ACGTGTCT
66 GCGTGTCT
* ** * * *
6662125 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
6662189 GCGTGTCC
66 GCGTGTCT
6662197 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6662237 TTTTTTTTTT
Statistics
Matches: 224, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
72 65 0.29
73 33 0.15
75 21 0.09
76 10 0.04
77 41 0.18
78 5 0.02
79 49 0.22
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:6662391 original size:177 final size:168
Alignment explanation
Indices: 6662093--6662576 Score: 658
Period size: 165 Copynumber: 2.9 Consensus size: 168
6662083 TGATTTTTTG
* * * ** * *
6662093 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
6662156 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
6662220 ATATGAGTTGATTTTTTTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA--------TTTTTTTTTTTGAAAGGCAAAAATTGA
*
6662266 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
6662331 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
6662396 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
6662431 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
6662496 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGT
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
6662561 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
6662577 GAAAAAGTAG
Statistics
Matches: 281, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
165 155 0.55
173 27 0.10
174 1 0.00
175 30 0.11
177 68 0.24
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:6662395 original size:74 final size:75
Alignment explanation
Indices: 6662272--6662416 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
6662262 TTGAAAAATG
*
6662272 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
6662337 TTTTGACAATA
65 TTTTGACAATA
* * *
6662348 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
6662411 TTTTGA
65 TTTTGA
6662417 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:6662572 original size:74 final size:75
Alignment explanation
Indices: 6662437--6662576 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
6662427 TTGAAAAACG
* *
6662437 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
6662502 TTTTGACAACA
65 TTTTGACAACA
* * * *
6662513 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
6662577 GAAAAAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 36 0.62
76 22 0.38
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:6662767 original size:71 final size:71
Alignment explanation
Indices: 6662641--6662805 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
6662631 TGAACAACGT
* * * *
6662641 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
6662706 GAGTTG
66 GAGTTG
6662712 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
6662776 TGAGTTG
65 TGAGTTG
**
6662783 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
6662806 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 4 0.05
71 53 0.62
72 29 0.34
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:6662963 original size:71 final size:70
Alignment explanation
Indices: 6662805--6663067 Score: 345
Period size: 70 Copynumber: 3.8 Consensus size: 70
6662795 AAAAATTAAA
* * * * *
6662805 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
6662868 GCCCG
66 GCCCG
* *
6662873 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
**
6662938 GTCTTG
66 G-CCCG
* * *
6662944 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
6663007 TGCCCCG
65 TG-CCCG
*
6663014 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
6663068 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
68 26 0.16
69 10 0.06
70 82 0.49
71 32 0.19
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCG
Found at i:6663041 original size:141 final size:140
Alignment explanation
Indices: 6662805--6663067 Score: 411
Period size: 141 Copynumber: 1.9 Consensus size: 140
6662795 AAAAATTAAA
* * *
6662805 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAAACAAAAACTAAAAATACCTCAGCGTGC
* *
6662870 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAATACCTCA
66 CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCA
6662934 ACGTGTCTTG
131 ACGTGTCTTG
* ** * *
6662944 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAA-ACAAAAACTAAAAATACCTCAGCGTG
6663009 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
65 -CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
6663068 GGCTTAACTC
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
139 33 0.30
140 23 0.21
141 39 0.35
142 16 0.14
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (140 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAAACAAAAACTAAAAATACCTCAGCGTGC
CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCA
ACGTGTCTTG
Found at i:6663062 original size:262 final size:256
Alignment explanation
Indices: 6662644--6663234 Score: 1031
Period size: 257 Copynumber: 2.3 Consensus size: 256
6662634 ACAACGTAAA
* * * * * *
6662644 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
6662709 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAA
6662774 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
129 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
6662839 TAAAACATAAACTAAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
194 T-----A-AAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
6662903 GATT
253 GATT
6662907 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
6662972 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAAT
6663037 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
130 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
6663102 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
195 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
6663164 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
6663229 TTGATT
66 TTGATT
6663235 TTCCTTGAAA
Statistics
Matches: 319, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
256 22 0.07
257 109 0.34
261 34 0.11
262 92 0.29
263 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (256 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
AAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:6670296 original size:25 final size:25
Alignment explanation
Indices: 6670241--6670296 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6670231 ATTTGTAATA
*
6670241 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
6670266 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
6670291 ATAATA
1 ATAATA
6670297 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:6670327 original size:37 final size:37
Alignment explanation
Indices: 6670260--6670355 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 37
6670250 ACACAATATG
* * * *
6670260 GTATTTAAAATATATATAT-ATATATGTATATA-TAAT
1 GTATTTAAAATATATACATAAGAAATATATA-ACTAAT
6670296 AGTATTTAAGAATATATACATAAGAAATATATAACTAAT
1 -GTATTTAA-AATATATACATAAGAAATATATAACTAAT
* *
6670335 GGATTAAAAATATATACATAA
1 GTATTTAAAATATATACATAA
6670356 TATATAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
37 21 0.42
38 17 0.34
39 12 0.24
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (37 bp):
GTATTTAAAATATATACATAAGAAATATATAACTAAT
Found at i:6674696 original size:27 final size:27
Alignment explanation
Indices: 6674666--6674724 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
6674656 CTTTTATTCT
*
6674666 CAATCCAACTAAACACCTCATTTGATC
1 CAATCCAACTAAACACCTCATTTAATC
* *
6674693 CAATGCAATTAAACACCTCATTTAATC
1 CAATCCAACTAAACACCTCATTTAATC
6674720 CAATC
1 CAATC
6674725 TCAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.27
Consensus pattern (27 bp):
CAATCCAACTAAACACCTCATTTAATC
Found at i:6676259 original size:15 final size:15
Alignment explanation
Indices: 6676218--6676253 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6676208 CTCTCTCTCC
6676218 CCCTTCTCC-TTTCT
1 CCCTTCTCCTTTTCT
6676232 CCCTTCTCCTTTTCT
1 CCCTTCTCCTTTTCT
*
6676247 CTCTTCT
1 CCCTTCT
6676254 TTTTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
CCCTTCTCCTTTTCT
Found at i:6677521 original size:30 final size:30
Alignment explanation
Indices: 6677450--6677510 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6677440 TTATAGTATT
6677450 CCTAATATATATTGCGTATATACATTTATA
1 CCTAATATATATTGCGTATATACATTTATA
6677480 CCTAATATATATTGCGTATATACATTTATA
1 CCTAATATATATTGCGTATATACATTTATA
6677510 C
1 C
6677511 TATGTGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (30 bp):
CCTAATATATATTGCGTATATACATTTATA
Found at i:6683219 original size:17 final size:18
Alignment explanation
Indices: 6683188--6683225 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6683178 AAATTGCAGA
**
6683188 AAACAAATATTAATAT-T
1 AAACAAATAAAAATATGT
6683205 AAACAAATAAAAATATGT
1 AAACAAATAAAAATATGT
6683223 AAA
1 AAA
6683226 TATTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
AAACAAATAAAAATATGT
Found at i:6683371 original size:6 final size:6
Alignment explanation
Indices: 6683360--6683399 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
6683350 TATTTAATAA
6683360 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAA
6683400 TTACTTTCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:6688002 original size:48 final size:48
Alignment explanation
Indices: 6687944--6688038 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
6687934 CTTAATCTCT
* * * *
6687944 AATGTGAACATAAATGTATAGAATTAAAACTTGTTTAACCTAATTATG
1 AATGTCAACATAAAGGCATAGAATTAAAACTCGTTTAACCTAATTATG
* **
6687992 AATGTCAACATATAGGCATAGAATTAAAACTCGTTTAATTTAATTAT
1 AATGTCAACATAAAGGCATAGAATTAAAACTCGTTTAACCTAATTAT
6688039 AAGATGTAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (48 bp):
AATGTCAACATAAAGGCATAGAATTAAAACTCGTTTAACCTAATTATG
Found at i:6695600 original size:24 final size:24
Alignment explanation
Indices: 6695573--6695620 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6695563 AATAAATACG
6695573 TAATAATATTAGAATAAAATAATA
1 TAATAATATTAGAATAAAATAATA
6695597 TAATAATATTAGAATAAAATAATA
1 TAATAATATTAGAATAAAATAATA
6695621 AGTATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATAATATTAGAATAAAATAATA
Found at i:6695635 original size:19 final size:19
Alignment explanation
Indices: 6695586--6695658 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
6695576 TAATATTAGA
6695586 ATAA-AATAATATAATAA-T
1 ATAAGAATAA-ATAATAAGT
*
6695604 ATTAGAATAAAATAATAAGT
1 ATAAGAAT-AAATAATAAGT
*
6695624 ATAAGGATAAAT-ATAAGGAT
1 ATAAGAATAAATAATAA-G-T
*
6695644 ATATGAA-AAATAATA
1 ATAAGAATAAATAATA
6695659 CTATTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.16
19 19 0.43
20 18 0.41
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
ATAAGAATAAATAATAAGT
Found at i:6695722 original size:21 final size:21
Alignment explanation
Indices: 6695691--6695750 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
6695681 TGCGTATAAC
* * *
6695691 AAAATACATATATTAATATTA
1 AAAATAAATATAATAATAATA
* * **
6695712 ATAATAAATATACTAGGAATA
1 AAAATAAATATAATAATAATA
6695733 AAAATAAATATAATAATA
1 AAAATAAATATAATAATA
6695751 GTATATATAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAATAAATATAATAATAATA
Found at i:6695794 original size:2 final size:2
Alignment explanation
Indices: 6695781--6695823 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6695771 TAAAAAGATG
*
6695781 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6695823 T
1 T
6695824 GTAATAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6696131 original size:23 final size:23
Alignment explanation
Indices: 6696100--6696156 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
6696090 TATAACTAAT
6696100 AATACTAAAGCTATATAC-ATA-AC
1 AATA-TAAAGC-ATATACGATACAC
*
6696123 ATATATAAAAACATATACGATACAC
1 A-ATAT-AAAGCATATACGATACAC
6696148 AATATAAAG
1 AATATAAAG
6696157 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 11 0.39
24 14 0.50
25 3 0.11
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (23 bp):
AATATAAAGCATATACGATACAC
Found at i:6696491 original size:11 final size:10
Alignment explanation
Indices: 6696472--6696504 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
6696462 TAAAAAGTAG
6696472 ATATAATAAT
1 ATATAATAAT
6696482 ATATACATAAT
1 ATATA-ATAAT
6696493 ATATAA-AAT
1 ATATAATAAT
6696502 ATA
1 ATA
6696505 ACATCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
ATATAATAAT
Found at i:6698058 original size:22 final size:21
Alignment explanation
Indices: 6698024--6698072 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6698014 GGCTGAAGGG
* *
6698024 TTGTTAAATGGGTCAAACGGGT
1 TTGTAAAAGGGGT-AAACGGGT
* *
6698046 TTGTAAAAGGGGTAAATGTGT
1 TTGTAAAAGGGGTAAACGGGT
6698067 TTGTAA
1 TTGTAA
6698073 GGGGTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (21 bp):
TTGTAAAAGGGGTAAACGGGT
Found at i:6702808 original size:17 final size:17
Alignment explanation
Indices: 6702788--6702824 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6702778 AACCTAACCC
*
6702788 AAAAAAAAA-ACAAAGA
1 AAAAAAAAAGAAAAAGA
6702804 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
6702821 AAAA
1 AAAA
6702825 CCTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:6702823 original size:11 final size:11
Alignment explanation
Indices: 6702791--6702824 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6702781 CTAACCCAAA
6702791 AAAAAAACAAAG
1 AAAAAAA-AAAG
6702803 AAAAAAAAAAG
1 AAAAAAAAAAG
6702814 AAAAAGAAAAA
1 AAAAA-AAAAA
6702825 CCTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6702839 original size:16 final size:15
Alignment explanation
Indices: 6702820--6702854 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6702810 AAAGAAAAAG
*
6702820 AAAAACCTACCCCAA
1 AAAAACCTAACCCAA
6702835 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
6702850 AAAAA
1 AAAAA
6702855 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:6702855 original size:16 final size:15
Alignment explanation
Indices: 6702820--6702855 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
6702810 AAAGAAAAAG
*
6702820 AAAAACCTACCCCAA
1 AAAAACCTACCCAAA
6702835 AAAAACCTAACCCAAA
1 AAAAACCT-ACCCAAA
6702851 AAAAA
1 AAAAA
6702856 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTACCCAAA
Found at i:6703383 original size:16 final size:16
Alignment explanation
Indices: 6703364--6703398 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6703354 AACCTAACCC
*
6703364 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
6703379 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
6703395 AAAA
1 AAAA
6703399 CCTACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:6703413 original size:16 final size:18
Alignment explanation
Indices: 6703394--6703432 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6703384 AAAGAAAAAG
*
6703394 AAAAACCT-A-CCCTAAA
1 AAAAACCTAACCCCCAAA
6703410 AAAAACCTAACCCCCAAA
1 AAAAACCTAACCCCCAAA
6703428 AAAAA
1 AAAAA
6703433 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 1 0.05
18 11 0.55
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAACCTAACCCCCAAA
Found at i:6706027 original size:12 final size:12
Alignment explanation
Indices: 6706010--6706045 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6706000 ATTCATTTGA
6706010 CATTCATGCATT
1 CATTCATGCATT
6706022 CATTCATGCATT
1 CATTCATGCATT
*
6706034 CATTCATACATT
1 CATTCATGCATT
6706046 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:6711353 original size:70 final size:69
Alignment explanation
Indices: 6711234--6711688 Score: 451
Period size: 71 Copynumber: 6.7 Consensus size: 69
6711224 GAGTTAAGCC
*
6711234 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
6711298 TGAGGTA
63 TGAGGTA
* * ** * *
6711305 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
6711370 AGGTA
65 AGGTA
* * *
6711375 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
6711440 GAGGTA
64 GAGGTA
* * * ** * * *
6711446 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
6711502 ---A
66 GGTA
*** ** *
6711503 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
6711564 GGTA
66 GGTA
*
6711568 TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGC
1 TTTTCAATTTTTGT-TTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
6711632 TGAGGTA
63 TGAGGTA
*
6711639 TTTTCAATTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGA
6711689 ACCTTTTAAT
Statistics
Matches: 317, Mismatches: 42, Indels: 51
0.77 0.10 0.12
Matches are distributed among these distances:
53 31 0.10
57 9 0.03
60 2 0.01
62 2 0.01
65 9 0.03
69 36 0.11
70 85 0.27
71 93 0.29
72 50 0.16
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:6711542 original size:122 final size:123
Alignment explanation
Indices: 6711376--6711622 Score: 372
Period size: 122 Copynumber: 2.0 Consensus size: 123
6711366 GTTGAGGTAT
6711376 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
* * **
6711441 AGGTATTTTTAGTTTATGT-TTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATTTATGTGTTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
6711497 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACT
* * *
6711562 GAGGTATTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATTTATGTGTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
6711622 T
1 T
6711623 CGGGCACGCT
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 12 0.11
122 66 0.59
123 3 0.03
125 31 0.28
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
AGGTATTTTCAATTTATGTGTTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:6711545 original size:193 final size:195
Alignment explanation
Indices: 6711324--6711783 Score: 685
Period size: 193 Copynumber: 2.4 Consensus size: 195
6711314 TTTGTGTTTT
* * * *
6711324 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
*
6711389 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTT-TAG
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACACTGAGGTATTTTCAAG
* **
6711453 TTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TTGTTTTTC
130 TTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTC
6711515 AA
194 AA
* * *
6711517 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * * *
6711582 GTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAAT
66 -TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTCAAG
* *
6711647 TTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCA
130 TTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCA
6711712 A
195 A
* * *
6711713 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
6711778 TTTCAA
66 TTTCAA
6711784 TTTACGTTGT
Statistics
Matches: 240, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
193 76 0.32
194 53 0.22
195 40 0.17
196 71 0.30
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (195 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTCAAGT
TTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAA
Found at i:6711583 original size:263 final size:258
Alignment explanation
Indices: 6711065--6711688 Score: 1038
Period size: 263 Copynumber: 2.4 Consensus size: 258
6711055 CTTTTCAAGG
*
6711065 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
*
6711130 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTA
66 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTA
6711195 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
131 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
6711260 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
196 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
*
6711323 -TAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
*
6711387 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTA
66 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTA---TT-
6711452 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
127 -TTTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
6711517 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
190 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
6711582 GTTT
255 GTTT
* * * * * *
6711586 CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
** *
6711650 GTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 -TGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGA
6711689 ACCTTTTAAT
Statistics
Matches: 343, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
257 119 0.35
260 2 0.01
262 4 0.01
263 128 0.37
264 51 0.15
265 39 0.11
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (258 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTA
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
Found at i:6711618 original size:72 final size:71
Alignment explanation
Indices: 6711497--6711688 Score: 316
Period size: 72 Copynumber: 2.7 Consensus size: 71
6711487 GAGTTAAGCC
*
6711497 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGC
6711561 TGAGGTA
65 TGAGGTA
6711568 TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCT
1 TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCT
6711633 GAGGTA
66 GAGGTA
* ** *
6711639 TTTTCAA-TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
6711689 ACCTTTTAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
70 39 0.34
71 26 0.23
72 50 0.43
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (71 bp):
TTTTCAATTTTTGTGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCT
GAGGTA
Found at i:6711842 original size:140 final size:140
Alignment explanation
Indices: 6711661--6712066 Score: 715
Period size: 140 Copynumber: 2.9 Consensus size: 140
6711651 TGTTTTAATT
*
6711661 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
6711726 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
66 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
6711791 TGTTCAAGAA
131 TGTTCAAGAA
*
6711801 TCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
*
6711866 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTATGT
66 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
6711931 TGTTCAAGAA
131 TGTTCAAGAA
* *
6711941 TCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTTTCAAAATCTGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
*
6712006 TGCGAGAGGAGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAA
66 TGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TTTCAA
6712067 AAAAAAAAAT
Statistics
Matches: 255, Mismatches: 7, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
139 2 0.01
140 224 0.88
142 23 0.09
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
TGTTCAAGAA
Found at i:6711922 original size:13 final size:13
Alignment explanation
Indices: 6711904--6711937 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6711894 CGCTGAGGTA
*
6711904 TTTTCAATTTCTG
1 TTTTCAATTTATG
6711917 TTTTCAATTTATG
1 TTTTCAATTTATG
6711930 TTGTTCAA
1 TT-TTCAA
6711938 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:6712151 original size:49 final size:49
Alignment explanation
Indices: 6712094--6712189 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
6712084 ATATTGCGAG
*
6712094 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
6712143 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
6712190 TTCAAAATTC
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:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:6712308 original size:77 final size:74
Alignment explanation
Indices: 6712143--6712481 Score: 373
Period size: 77 Copynumber: 4.7 Consensus size: 74
6712133 TTTCTGTTCA
*
6712143 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAA-TTTCAATTTCTGTTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGG-AATTTTCAATTTCTGTTTTCAAAAAAATCAACTC
6712205 ATATTGTGAG
65 ATATTGTGAG
* *
6712215 AAATTAGTTGAGCCTCAAGACATGCTGAGGAATTTTCAATTTCTGTTTTCAAAAAAAAAATCAAC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGAATTTTCAATTTCTGTTTTC---AAAAAAATCAAC
6712280 TCATATTGTGAG
63 TCATATTGTGAG
* *
6712292 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGAATTTTCAATTTCTG-TTTTCAAAAAAATCAACTC
6712357 --A----G-G
65 ATATTGTGAG
* *
6712360 ---TGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGG-AATTTTCAATTTCTGTTTTCAAAAAAATCAACTC
*
6712421 GTATTGTGAG
65 ATATTGTGAG
*** * * * *
6712431 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTT
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGAATTTTCAATTTCTGTTTT
6712482 TCAATTTCTG
Statistics
Matches: 232, Mismatches: 14, Indels: 38
0.82 0.05 0.13
Matches are distributed among these distances:
64 18 0.08
65 37 0.16
66 2 0.01
68 1 0.00
69 1 0.00
70 1 0.00
71 3 0.01
72 45 0.19
73 1 0.00
74 15 0.06
75 15 0.06
76 24 0.10
77 64 0.28
78 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGAATTTTCAATTTCTGTTTTCAAAAAAATCAACTCA
TATTGTGAG
Found at i:6712384 original size:65 final size:64
Alignment explanation
Indices: 6712295--6712420 Score: 207
Period size: 65 Copynumber: 2.0 Consensus size: 64
6712285 TTGTGAGAAA
* * *
6712295 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCAGG
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTCAGG
*
6712360 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTC
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTC
6712421 GTATTGTGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 18 0.32
65 39 0.68
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (64 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCAGG
Found at i:6712577 original size:93 final size:93
Alignment explanation
Indices: 6712407--6712578 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
6712397 TTCTGTTGTC
* * *
6712407 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
* *
6712472 TTTCCGTTTTTCAATTTCTGCCTTTCAA
66 TTTCCATCTTTCAATTTCTGCCTTTCAA
* * * *
6712500 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
*
6712564 ATTTCTATCTTTCAA
65 ATTTCCATCTTTCAA
6712579 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCCATCTTTCAATTTCTGCCTTTCAA
Found at i:6712641 original size:79 final size:78
Alignment explanation
Indices: 6712478--6712863 Score: 266
Period size: 79 Copynumber: 4.8 Consensus size: 78
6712468 TCAATTTCCG
** *
6712478 TTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GG
1 TTTTTCAATTTCTATCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAG
* * *
6712542 CTCACGCGCTGAGCTA
63 ATCACACACTGAGCTA
6712558 -TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
6712622 ACACACTGAAG-TA
66 ACACACTG-AGCTA
* * * * * * *
6712635 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGATATGTGAGTTGAGCCTCAGGT
1 -TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
*
6712700 CA-A-ACGTCGAG-GA
65 CACACAC-T-GAGCTA
* * *** * *
6712713 ATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTTC--AA------TTTC-TA-TCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * **
6712778 AGCCTT-GGCTCACGTACTGAGCTA
55 AG-CTTCAGATCACACACTGAGCTA
* *
6712802 -TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 TTTTTCAATTTC---TATCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
6712864 TTTAATTTCT
Statistics
Matches: 243, Mismatches: 39, Indels: 48
0.74 0.12 0.15
Matches are distributed among these distances:
76 3 0.01
77 54 0.22
78 7 0.03
79 78 0.32
80 14 0.06
81 29 0.12
85 3 0.01
86 3 0.01
87 2 0.01
88 44 0.18
89 4 0.02
90 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (78 bp):
TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGCTA
Found at i:6712733 original size:14 final size:13
Alignment explanation
Indices: 6712714--6712749 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
6712704 CGTCGAGGAA
6712714 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
6712727 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
6712741 TTTTCAAAA
1 TTTTCAAAA
6712750 AGCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:6712926 original size:248 final size:245
Alignment explanation
Indices: 6712408--6713067 Score: 789
Period size: 248 Copynumber: 2.7 Consensus size: 245
6712398 TCTGTTGTCA
* * * * *
6712408 AAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTATTTTCAAA
* * *
6712473 TTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 ATCTGTTTTTCAAATTCTG--TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
6712538 TTGGCTCACGCGCTGAGCTATTTTCAATTTC--TATCTTTCAAAAAAATCAACTCATATTGCGAG
126 TTGGCTCACGCGCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAG
*
6712601 AGGTGAGTTGAGCTTCAGATCACACACTGAAGTATTTTTTCAATTTATATTTTTC
191 AGGTGAGTTGAGCTTCAGATCACACACTGAAGTATCTTTTCAATTTATATTTTTC
* * * * *
6712656 AAAAAAATCAACTCACATTGCGATATGTGAGTTGAGCCTCAGGTCAAACGTCGAGGAATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTATTTTCAA
* *
6712721 AATCTGTTTTTCAAATTCTGTTTTC-AAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
65 AATCTGTTTTTCAAATTCTG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
**
6712785 GCTCACGTACTGAGCTATTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGA
129 GCTCACGCGCTGAGCTATTTTCAATTTC-TTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGA
* ** ** * *
6712850 GGTGAGTTGAGCTTTTTA-ATTTC-TGC-GAGAGTTGAGTCTTTT-AATTTCTGTTTTTC
192 GGTGAGTTGAGC--TTCAGATCACACACTGA-AG-T-A-TCTTTTCAATTTATATTTTTC
* **
6712906 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCA-GTCACATATCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGGTCACACGTCGAGGTATTTTCAA
* * * **
6712969 AATATGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
65 AATCTGTTTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
*
6713034 CTCACGCGCTGAGCTATTTTCAATTTCTATTTTT
130 CTCACGCGCTGAGCTATTTTCAATTTCTTTTTTT
6713068 AATGTCTGTT
Statistics
Matches: 353, Mismatches: 46, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
244 63 0.18
247 25 0.07
248 167 0.47
249 77 0.22
250 16 0.05
251 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (245 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTATTTTCAAA
ATCTGTTTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
TCACGCGCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCTTCAGATCACACACTGAAGTATCTTTTCAATTTATATTTTTC
Found at i:6713730 original size:11 final size:11
Alignment explanation
Indices: 6713713--6713746 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6713703 ACCTAACCCA
6713713 AAAAAAACAAAG
1 AAAAAAA-AAAG
6713725 AAAAAAAAAAG
1 AAAAAAAAAAG
6713736 AAAAAGAAAAA
1 AAAAA-AAAAA
6713747 CCTACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6713732 original size:17 final size:17
Alignment explanation
Indices: 6713712--6713746 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6713702 AACCTAACCC
*
6713712 AAAAAAA-ACAAAGAAA
1 AAAAAAAGAAAAAGAAA
6713728 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
6713745 AA
1 AA
6713747 CCTACCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:6713761 original size:16 final size:16
Alignment explanation
Indices: 6713742--6713777 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6713732 AAAGAAAAAG
*
6713742 AAAAACCT-ACCCTAA
1 AAAAACCTAACCCCAA
6713757 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
6713773 AAAAA
1 AAAAA
6713778 AAAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.31, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:6721693 original size:12 final size:12
Alignment explanation
Indices: 6721676--6721718 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6721666 ATATTATTTC
6721676 AATATTCTATAT
1 AATATTCTATAT
* *
6721688 AATATTTTGTAT
1 AATATTCTATAT
6721700 AAATATTCTATAT
1 -AATATTCTATAT
*
6721713 ATTATT
1 AATATT
6721719 ATTATTATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (12 bp):
AATATTCTATAT
Found at i:6721727 original size:27 final size:27
Alignment explanation
Indices: 6721667--6721732 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 27
6721657 TTTTGCATCA
*
6721667 TATTATT-TCAATATTCTATATAATAT
1 TATTATTATAAATATTCTATATAATAT
* *
6721693 T-TT-GTATAAATATTCTATATATTAT
1 TATTATTATAAATATTCTATATAATAT
*
6721718 TATTATTATATATAT
1 TATTATTATAAATAT
6721733 GTTTCGTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.03
25 20 0.62
26 3 0.09
27 8 0.25
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (27 bp):
TATTATTATAAATATTCTATATAATAT
Found at i:6725317 original size:20 final size:20
Alignment explanation
Indices: 6725287--6725331 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6725277 CTGTTTTATT
6725287 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
6725306 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
6725326 ATGGGC
1 ATGGGC
6725332 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:6725472 original size:27 final size:28
Alignment explanation
Indices: 6725420--6725472 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6725410 TTACTGTAAG
* *
6725420 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
6725448 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
6725473 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:6731849 original size:18 final size:18
Alignment explanation
Indices: 6731826--6731917 Score: 112
Period size: 18 Copynumber: 5.1 Consensus size: 18
6731816 CCAACTACTG
*
6731826 TATACGTGAACAGTACCA
1 TATACGTGAATAGTACCA
*
6731844 TATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCA
* * *
6731862 TATACGTAAATAGTATCG
1 TATACGTGAATAGTACCA
* **
6731880 TATACGTGAATAGTGCTG
1 TATACGTGAATAGTACCA
6731898 TATACGTGAATAGTACCA
1 TATACGTGAATAGTACCA
6731916 TA
1 TA
6731918 AACGGTCGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (18 bp):
TATACGTGAATAGTACCA
Found at i:6731884 original size:36 final size:36
Alignment explanation
Indices: 6731826--6731917 Score: 130
Period size: 36 Copynumber: 2.6 Consensus size: 36
6731816 CCAACTACTG
*
6731826 TATACGTGAACAGTACCATATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCATATACGTGAATAGTGCCA
* * * **
6731862 TATACGTAAATAGTATCGTATACGTGAATAGTGCTG
1 TATACGTGAATAGTACCATATACGTGAATAGTGCCA
6731898 TATACGTGAATAGTACCATA
1 TATACGTGAATAGTACCATA
6731918 AACGGTCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (36 bp):
TATACGTGAATAGTACCATATACGTGAATAGTGCCA
Found at i:6732615 original size:39 final size:39
Alignment explanation
Indices: 6732561--6732637 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
6732551 AAAGAATTTT
6732561 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
1 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
6732600 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACAT
1 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACAT
6732638 CATTAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (39 bp):
ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
Found at i:6738005 original size:12 final size:12
Alignment explanation
Indices: 6737988--6738012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6737978 GGATAGAAGG
6737988 GTCCTAAGTAAA
1 GTCCTAAGTAAA
6738000 GTCCTAAGTAAA
1 GTCCTAAGTAAA
6738012 G
1 G
6738013 CTCCAGCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (12 bp):
GTCCTAAGTAAA
Found at i:6744402 original size:454 final size:454
Alignment explanation
Indices: 6743546--6745859 Score: 2946
Period size: 454 Copynumber: 5.0 Consensus size: 454
6743536 GCTTCGATTG
* * * *
6743546 AAACTTATAGACTTGTTTTTGAACAATTTATATAGAGAAATCCCATTATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTGATTCCTTCCC
* *
6743611 TAAACTTCAATACTTGTCTGTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
*
6743676 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCTGGCAAAATTCCATTG
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
*
6743741 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAACAGGTTGGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
*
6743806 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
* * * * *
6743871 GTAAATAGAAAGCAATTGAATGTTATTTTAATTTGTTGTCTTTCCCCAACTGTAATATTTGA-TT
326 GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCT-ACTT
* * * * *
6743935 TATTTGCTAAGAAAGCTTTAATTATTTTTAATTTTTTTACTAAGTAAAATTTTAAAGTTCAGTTT
390 TGTTTGGTAAGAAAGCTTCAATTATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
** * *
6744000 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATTTCGTCATGGTTTGATTTCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTGATTCCTTCCC
* * *
6744065 TAAACTTCAATACTTGTCTTTGAACTCTAACAATCTTGTAGGTGAGATCCCATCCAACATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
*
6744130 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGAAAAATTCCATTG
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
** *
6744195 GGTTTATTCAAGTGCAAAGAGTTAGTTTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
** * *
6744260 ACCAAAAGAAATAGGAAACTTGACAATGCTTACAAAACTATATCTCTACAACAACCTGTTCGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
* * * *
6744325 GTAAACCGAAAGTAGTTGAATGTTATTTTAATTTGTTTTCTTTCTCCAACAGCAATATCTACTTT
326 GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTACTTT
* ** *
6744390 GTTTGGTAAGAAAGCTTCAATT-TTTATCTTTTTTTTACCAAGTAAAATTTTAAATTTCATTTT
391 GTTTGGTAAGAAAGCTTCAATTATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
* * * * *
6744453 AAACTTATAGAGTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGATTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTGATTCCTTCCC
6744518 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * * ** *
6744583 ATCGTCTACCTAGATTGCAAGAGCTTTACTTAGAAGGGAACAAGCTCTTTGGCAAAATTCCATTA
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
*
6744648 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTCGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
*
6744713 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCTACAACAACCTGTTCGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
* ** * *
6744778 GTAAACCA-AAAGTAGTTGAATGTTATTTTAATTTGTTGTC-TT-TAAAAGTAGTTGAATGTTAT
326 GTAAA-CAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACT-G--CAA---TA-
* * ** * * * * * *
6744840 TTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGC-TTTGTTTCGTAAGAAAGCTTCAATTCTT
383 TCT-A-CT-TTGT-TTGGT--AA--G-AA-AGCTTCAATTATTT--T---TAA--TT---TTTTT
*** **** **
6744904 ATCTCTTTTTTTTTTTTACCAAGTAAAATTTT
428 A-C-CAAGTAAAATTTTA--AAGT-TCATTTT
* * *
6744936 AAATTTCATTTTAGACTTACACTTGTTTTGGAACAATTTCTATAGAGAAATCTCATCATGGTTTG
1 AAA---C-TTATAG------ACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTG
* *
6745001 ATTCCTTCCCTAAACTTCAATACTTGTCTTTAAGCTCTAACAATCTTGCAGGAGAGATCCCATCC
56 ATTCCTTCCCTAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCC
* * * *
6745066 AATATGTTTGATCATCTACCTGGACTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCAGTAA
121 AATATGTTTGATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAA
** *
6745131 AATTCCATTGGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGG
186 AATTCCATTGGGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGG
*
6745196 AAGGGATTCTACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAGTCTATATCTCGACAACAAC
251 AAGGGATTCTACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAAC
** * *
6745261 CTGTTCGAAGGTAAATGGAAAGCAGTTGGATGTTATTTTAATTTGTTGTCTTTCTCTAACTGCAA
316 CTGTTCGAAGGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAA
* *
6745326 TATCTACTTTGTTTGGTATGAAAGCTTCAATTCTTTTTTAA-TTTTTTACCAAGTAAAATTTTAA
381 TATCTACTTTGTTTGGTAAGAAAGCTTCAATT-ATTTTTAATTTTTTTACCAAGTAAAATTTTAA
6745390 AGTTCATTTT
445 AGTTCATTTT
* * *
6745400 AAACTTATAGACTTGTTTTGGAACAATTTCTACGGAGAAAGCCCATCATGGTTTGATTCCTTCTC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTGATTCCTTCCC
* * * * *
6745465 TAAACTTCAATACTTGTTTTTGAGTTATAACAATCTTGCAGGTGAAATACCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * * * *
6745530 ATCATCTAGCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGTAAAATTCCATTA
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
** ** * **
6745595 GGTTTATTCAAGTGCAAAGAGTTAGAGGACATAGGCTTCAG-TTCTAATAGGTTGGAAGGGATTC
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTT-GGCTGATAATAGGTTGGAAGGGATTC
* * * *
6745659 TACCAAAAGAAATAGGAAACTTGACAATGCTTAAGACTCTATATCTCGACATCAACCTGTTTGAA
260 TACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAA
* * * *
6745724 GGTAAACAGAAAGCAGTTTAATATTATTTTAATTTTTTGTCTTTCTCCAACTGCAATATCTGCTT
325 GGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTACTT
* *
6745789 TGTTTGGTAAGAAAGCTTCAATTCA----T--TTTTTTTACCAAGTAAAAATTTCAAGTTCATTT
390 TGTTTGGTAAGAAAGCTTCAATT-ATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCATTT
*
6745848 C
454 T
6745849 AAACTTATAGA
1 AAACTTATAGA
6745860 TAGAGGTGAT
Statistics
Matches: 1616, Mismatches: 192, Indels: 109
0.84 0.10 0.06
Matches are distributed among these distances:
449 41 0.03
450 1 0.00
451 3 0.00
452 3 0.00
453 373 0.23
454 738 0.46
455 1 0.00
457 2 0.00
458 2 0.00
459 1 0.00
460 6 0.00
461 5 0.00
462 3 0.00
464 10 0.01
465 4 0.00
466 1 0.00
467 11 0.01
468 8 0.00
469 5 0.00
472 1 0.00
475 4 0.00
478 10 0.01
479 5 0.00
480 11 0.01
482 4 0.00
483 8 0.00
484 3 0.00
485 4 0.00
486 2 0.00
487 6 0.00
488 2 0.00
489 2 0.00
492 2 0.00
493 327 0.20
494 3 0.00
495 4 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (454 bp):
AAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAAATCCCATCATGGTTTGATTCCTTCCC
TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTACTTT
GTTTGGTAAGAAAGCTTCAATTATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
Found at i:6744832 original size:36 final size:36
Alignment explanation
Indices: 6744785--6744856 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
6744775 AAGGTAAACC
6744785 AAAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTT
1 AAAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTT
6744821 AAAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTT
1 AAAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTT
6744857 CTCCAACTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (36 bp):
AAAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTT
Found at i:6747221 original size:2 final size:2
Alignment explanation
Indices: 6747216--6747255 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6747206 TAGAAATTCT
6747216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6747256 ACTCACGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6751827 original size:21 final size:23
Alignment explanation
Indices: 6751782--6751827 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
6751772 TCAATTAGAT
* *
6751782 TTATTTTTATGAATTTTTCATAA
1 TTATTTTTATGAATTTTTAAGAA
6751805 TTATTTTT-T-AATTTTTAAGAA
1 TTATTTTTATGAATTTTTAAGAA
6751826 TT
1 TT
6751828 TCTAATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 1 0.05
23 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTTTATGAATTTTTAAGAA
Found at i:6756216 original size:17 final size:18
Alignment explanation
Indices: 6756183--6756215 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6756173 CGGGTAAGTC
6756183 CCCTTCTTTGATTTTTTA
1 CCCTTCTTTGATTTTTTA
6756201 CCCTT-TTTG-TTTTTT
1 CCCTTCTTTGATTTTTT
6756216 TTTTCGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (18 bp):
CCCTTCTTTGATTTTTTA
Found at i:6757161 original size:43 final size:42
Alignment explanation
Indices: 6757111--6757349 Score: 151
Period size: 43 Copynumber: 5.6 Consensus size: 42
6757101 TTTCAACCTA
*
6757111 TTACCCTACAGCTTAGGGGGTTAAGGCTCGTAAATTTAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTCGT-AATTTAGCTTG
* * * * * * *
6757154 TTACCCTACTGCTCA-GGGGTTAAAGCCCATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTCGTAAT-TTAGCT-TG
* * * * *
6757197 TTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAATTCAACCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTC-GTAATTTAGCTTG
* * *** * *
6757239 TTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTCGT-AATTTAGCT-TG
* * * ***
6757283 TTTCCCTACTGCTTAGGGGGTT-AGGATCTATAAATGCGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTC-GT-AATTTAGCTTG
6757326 TTACCCTACTGCTTAGGGGGTTAA
1 TTACCCTACTGCTTAGGGGGTTAA
6757350 AGCTTGTGAA
Statistics
Matches: 143, Mismatches: 44, Indels: 17
0.70 0.22 0.08
Matches are distributed among these distances:
41 2 0.01
42 42 0.29
43 61 0.43
44 38 0.27
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCTCGTAATTTAGCTTG
Found at i:6757259 original size:86 final size:87
Alignment explanation
Indices: 6757114--6757352 Score: 322
Period size: 86 Copynumber: 2.8 Consensus size: 87
6757104 CAACCTATTA
* * * *
6757114 CCCTACAGCTTAGGGGGTTAAG-GCTCGTAAATTTAGCTTGTTACCCTACTGCTCA-GGGGTTAA
1 CCCTACTGCTTAGGGGGTTAAGATCT-GTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
*
6757177 AGCCCATCATCTTCGATCTGTTT
65 AGCCCATCACCTTCGATCTGTTT
* * *
6757200 CCCTACTGCTTAGGGGGTTAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
* *
6757264 GCCCTTCGCCTTCGATCTGTTT
66 GCCCATCACCTTCGATCTGTTT
* * * *
6757286 CCCTACTGCTTAGGGGGTTAGGATCTATAAATGCGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
6757351 GC
66 GC
6757353 TTGTGAACTT
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 22 0.17
86 76 0.57
87 35 0.26
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
GCCCATCACCTTCGATCTGTTT
Found at i:6757299 original size:44 final size:42
Alignment explanation
Indices: 6757152--6757305 Score: 152
Period size: 44 Copynumber: 3.6 Consensus size: 42
6757142 AAATTTAGCT
*
6757152 TGTTACCCTACTGCTCA-GGGGTTAAAGCCCATC-ATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTT-AAGCCC-TCGA-CTTCGATC
* ** * * *
6757195 TGTTTCCCTACTGCTTAGGGGGTTAAGATCT-GTAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGCCCTCG-ACTTCGATC
*
6757237 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GCCC-TCGACTTCGATC
*
6757281 TGTTTCCCTACTGCTTAGGGGGTTA
1 TGTTACCCTACTGCTTAGGGGGTTA
6757306 GGATCTATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 31 0.34
43 22 0.24
44 36 0.40
45 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (42 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGCCCTCGACTTCGATC
Found at i:6757546 original size:66 final size:65
Alignment explanation
Indices: 6757440--6757605 Score: 226
Period size: 66 Copynumber: 2.5 Consensus size: 65
6757430 TGCTATGGTC
* * ** * *
6757440 GAATCAAATGCTCCTAACTAGA-TGTGATGAATGTGTCAAATAATTAGGATGGTATGATCGAAAT
1 GAATCAAATGCTCCTAATTAGAGTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAAT
* * *
6757504 GAATCAAATGCTCTTAATTAAACGTGTTATGAATGAATCAAATAACTAGGATGCTATGATTGAAA
1 GAATCAAATGCTCCTAATTAGA-GTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAA
6757569 T
65 T
6757570 GAATCAAATGCTCCTAATTAGATGTGTTATGAATGA
1 GAATCAAATGCTCCTAATTAGA-GTGTTATGAATGA
6757606 TGTATGAATG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 19 0.22
66 69 0.78
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (65 bp):
GAATCAAATGCTCCTAATTAGAGTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAAT
Found at i:6765565 original size:19 final size:20
Alignment explanation
Indices: 6765538--6765578 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6765528 TCTTTTCACA
* *
6765538 AAATTTAATGCACATG-ATG
1 AAATGTAATGCAAATGAATG
6765557 AAATGTAATGCAAATGAATG
1 AAATGTAATGCAAATGAATG
6765577 AA
1 AA
6765579 TGCAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGAATG
Found at i:6773073 original size:33 final size:30
Alignment explanation
Indices: 6773029--6773098 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
6773019 AAAATAATAT
*
6773029 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
6773060 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
6773092 ATATATA
1 ATATATA
6773099 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:6773273 original size:14 final size:16
Alignment explanation
Indices: 6773244--6773275 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6773234 AGGTAAATAT
6773244 AATAAAATGATATTAA
1 AATAAAATGATATTAA
6773260 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
6773274 AA
1 AA
6773276 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:6773309 original size:3 final size:3
Alignment explanation
Indices: 6773301--6773341 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6773291 TATATACACC
6773301 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6773342 TTGAAACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6773459 original size:3 final size:3
Alignment explanation
Indices: 6773445--6773520 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
6773435 AATGTATTTC
*
6773445 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6773493 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6773521 TTGAAATGCA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6774149 original size:11 final size:11
Alignment explanation
Indices: 6774133--6774160 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6774123 GGTAAATTTT
6774133 TTTTTTGTATA
1 TTTTTTGTATA
6774144 TTTTTTGTATA
1 TTTTTTGTATA
6774155 TTTTTT
1 TTTTTT
6774161 TTATGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTGTATA
Found at i:6774588 original size:35 final size:35
Alignment explanation
Indices: 6774543--6774611 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
6774533 GAGTGTGTGA
*
6774543 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
6774578 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
6774612 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:6776873 original size:46 final size:46
Alignment explanation
Indices: 6776803--6776924 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
6776793 AATAATATTA
* * * *
6776803 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
6776849 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
6776895 TCCAAGTGCATAACTAATATTACACCACAT
1 TCCAAGTGCATAACTAATATTACACCACAT
6776925 TAAAAGTATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.25
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:6777923 original size:32 final size:32
Alignment explanation
Indices: 6777877--6777937 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6777867 TGTCAATCAT
6777877 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
6777909 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
6777938 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:6777944 original size:27 final size:30
Alignment explanation
Indices: 6777877--6777950 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
6777867 TGTCAATCAT
*
6777877 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
6777909 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
6777937 -TCAATATCTAACAA
1 TTCAATATCTAACAA
6777951 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:6777961 original size:27 final size:27
Alignment explanation
Indices: 6777910--6777964 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
6777900 CATAATAAAT
* *
6777910 TCAATATCTAACAAGCTTGAAACATAA
1 TCAATATCTAACAAGATTCAAACATAA
6777937 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTCAA-ACATAA
6777964 T
1 T
6777965 AATTTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTCAAACATAA
Found at i:6780116 original size:22 final size:22
Alignment explanation
Indices: 6780091--6780133 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6780081 TTACAATATC
6780091 AATACTTTGAAAACTCAATTAA
1 AATACTTTGAAAACTCAATTAA
*
6780113 AATATTTTGAAAACTCAATTA
1 AATACTTTGAAAACTCAATTA
6780134 CTTTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (22 bp):
AATACTTTGAAAACTCAATTAA
Found at i:6784728 original size:21 final size:21
Alignment explanation
Indices: 6784703--6784758 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6784693 AATAATTAAC
*
6784703 AAATAT-ATAATACAAGTAAAA
1 AAATATAATAATA-AAGCAAAA
*
6784724 AAATATAATAATAATGCAAAA
1 AAATATAATAATAAAGCAAAA
* *
6784745 AAATAAAAAAATAA
1 AAATATAATAATAA
6784759 TATACAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (21 bp):
AAATATAATAATAAAGCAAAA
Found at i:6784759 original size:21 final size:21
Alignment explanation
Indices: 6784720--6784759 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6784710 TAATACAAGT
* *
6784720 AAAAAAATATAATAATAATGC
1 AAAAAAATAAAAAAATAATGC
6784741 AAAAAAATAAAAAAATAAT
1 AAAAAAATAAAAAAATAAT
6784760 ATACAATAAA
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:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAAAATAAAAAAATAATGC
Found at i:6787363 original size:26 final size:26
Alignment explanation
Indices: 6787326--6787461 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6787316 TGATACAAAT
* *
6787326 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6787352 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6787378 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6787404 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6787430 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6787456 TGATAA
1 TGATAA
6787462 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6789487 original size:136 final size:137
Alignment explanation
Indices: 6789242--6789527 Score: 493
Period size: 136 Copynumber: 2.1 Consensus size: 137
6789232 GAGTAGTCTC
6789242 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6789307 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGACTTTGGCCCAGTATC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGACTCTGGCCCAGTACC
6789372 ACTGTTA
131 ACTGTTA
* *
6789379 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTGTGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6789443 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGACTCTGGCCCAGTACC
6789508 ACTGTTA
131 ACTGTTA
**
6789515 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6789528 AGGCCCAATG
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 121 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGACTCTGGCCCAGTACC
ACTGTTA
Found at i:6797057 original size:51 final size:52
Alignment explanation
Indices: 6796936--6797058 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 52
6796926 TCCCAAACTT
* * * *
6796936 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
6796987 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
6797038 GCTTCATATTTCATCCGGATA
1 ACTTCATATTTCATCCGGATA
6797059 ACTTAGTTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 64 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:6797955 original size:16 final size:16
Alignment explanation
Indices: 6797911--6797956 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
6797901 AATTCATTTT
6797911 ATAATTTAAATAAAATA
1 ATAATTT-AATAAAATA
*
6797928 ATAA-TTATATAATATA
1 ATAATTTA-ATAAAATA
6797944 ATAATTTAATAAA
1 ATAATTTAATAAA
6797957 GTAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 17 0.68
17 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATTTAATAAAATA
Found at i:6804752 original size:51 final size:52
Alignment explanation
Indices: 6804631--6804753 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 52
6804621 TCCCAAACTT
* * * *
6804631 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
6804682 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAA-A
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
6804732 AGCTTCATATTTCATCCGGATA
1 A-CTTCATATTTCATCCGGATA
6804754 ACTTAGTTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 2 0.03
51 62 0.95
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:6805832 original size:14 final size:14
Alignment explanation
Indices: 6805815--6805843 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6805805 CACTTAATTA
6805815 AAGCCTAATTAAAC
1 AAGCCTAATTAAAC
6805829 AAGCCTAATTAAAC
1 AAGCCTAATTAAAC
6805843 A
1 A
6805844 CGTTATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGCCTAATTAAAC
Found at i:6808023 original size:42 final size:42
Alignment explanation
Indices: 6807971--6808080 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
6807961 TCGATGCCTT
* *
6807971 TGTCCCAGACAGGGTCTTATACGAAA-ACAAATACGATGTC-G
1 TGTCCCAGACACGGTCTTACACGAAATACAAAT-CGATGTCAG
* * *
6808012 ATGTCCTAGACATGGTCTTACACGTAAATTTCAAATCGATGTCAG
1 -TGTCCCAGACACGGTCTTACACG-AAA-TACAAATCGATGTCAG
6808057 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
6808081 TAATTCAGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 20 0.34
43 4 0.07
44 28 0.48
45 6 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATACAAATCGATGTCAG
Found at i:6815685 original size:20 final size:19
Alignment explanation
Indices: 6815660--6815729 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 19
6815650 TAATTTTAAT
6815660 TTTATTTATTATTATTATTA
1 TTTATTTATTATT-TTATTA
*
6815680 TTTATTTCTTATTTTA-T-
1 TTTATTTATTATTTTATTA
6815697 TTTATTTCATT-TTGTT-TTA
1 TTTATTT-ATTATT-TTATTA
*
6815716 TTT-TTAATTATTTT
1 TTTATTTATTATTTT
6815730 CAGATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
17 14 0.33
18 10 0.24
19 6 0.14
20 12 0.29
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTATTTATTATTTTATTA
Found at i:6815708 original size:10 final size:10
Alignment explanation
Indices: 6815647--6815719 Score: 60
Period size: 10 Copynumber: 6.9 Consensus size: 10
6815637 AATCTTTAAT
6815647 TTTTAATTTTAA
1 TTTT-ATTTT-A
6815659 TTTTA-TTTA
1 TTTTATTTTA
6815668 TTATTATTATTA
1 TT-TTATT-TTA
6815680 -TTTATTTCTTA
1 TTTTA-TT-TTA
6815691 TTTTATTTTA
1 TTTTATTTTA
* *
6815701 TTTCATTTTG
1 TTTTATTTTA
6815711 TTTTATTTT
1 TTTTATTTT
6815720 TAATTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 3 0.06
10 28 0.54
11 10 0.19
12 11 0.21
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:6815714 original size:15 final size:16
Alignment explanation
Indices: 6815658--6815718 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 16
6815648 TTTAATTTTA
6815658 ATTTTA-TTTATTAT-T
1 ATTTTATTTTATT-TCT
6815673 ATTATTA-TTTATTTCTT
1 ATT-TTATTTTATTTC-T
6815690 ATTTTATTTTATTTC-
1 ATTTTATTTTATTTCT
*
6815705 ATTTTGTTTTATTT
1 ATTTTATTTTATTT
6815719 TTAATTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 17 0.41
16 12 0.29
17 12 0.29
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (16 bp):
ATTTTATTTTATTTCT
Found at i:6816031 original size:2 final size:2
Alignment explanation
Indices: 6816024--6816057 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6816014 GTTGCTGCCC
6816024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6816058 TAAGATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6817333 original size:15 final size:15
Alignment explanation
Indices: 6817313--6817342 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6817303 CATTTTATTT
*
6817313 ATATTAGGATAATTA
1 ATATTAAGATAATTA
6817328 ATATTAAGATAATTA
1 ATATTAAGATAATTA
6817343 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:6818427 original size:26 final size:27
Alignment explanation
Indices: 6818378--6818432 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
6818368 CTGAAATGAA
6818378 TACCTCATATATAAAAAAATTTACGAG
1 TACCTCATATATAAAAAAATTTACGAG
6818405 TACCTCATATAT-AAAAAATTTACGAG
1 TACCTCATATATAAAAAAATTTACGAG
6818431 TA
1 TA
6818433 AAGATTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (27 bp):
TACCTCATATATAAAAAAATTTACGAG
Found at i:6819077 original size:29 final size:29
Alignment explanation
Indices: 6819035--6819092 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6819025 TACCGTGTGG
6819035 CCAAAAATATGTATTTCAAATTATGATGA
1 CCAAAAATATGTATTTCAAATTATGATGA
6819064 CCAAAAATATGTATTTCAAATTATGATGA
1 CCAAAAATATGTATTTCAAATTATGATGA
6819093 AATTATAAAT
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:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (29 bp):
CCAAAAATATGTATTTCAAATTATGATGA
Found at i:6819244 original size:31 final size:31
Alignment explanation
Indices: 6819206--6819267 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6819196 AATTTCATTT
6819206 ATATCAAAGTTTTTAAAATCCTAAAAATAAA
1 ATATCAAAGTTTTTAAAATCCTAAAAATAAA
6819237 ATATCAAAGTTTTTAAAATCCTAAAAATAAA
1 ATATCAAAGTTTTTAAAATCCTAAAAATAAA
6819268 TTTACTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (31 bp):
ATATCAAAGTTTTTAAAATCCTAAAAATAAA
Found at i:6819674 original size:16 final size:15
Alignment explanation
Indices: 6819630--6819681 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 15
6819620 ATATTGAATA
6819630 TTTTTTAT-ATTATT
1 TTTTTTATAATTATT
6819644 TATTTTTAATAAATTATT
1 T-TTTTT-AT-AATTATT
6819662 CTTTTTTATAATTACTT
1 -TTTTTTATAATTA-TT
6819679 TTT
1 TTT
6819682 AATTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 10 0.31
17 4 0.12
18 11 0.34
19 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTATAATTATT
Found at i:6828415 original size:21 final size:19
Alignment explanation
Indices: 6828373--6828428 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 19
6828363 TTATATATCA
*
6828373 TTTCTT-AATTCATTTTTT
1 TTTCTTAAATTTATTTTTT
* **
6828391 TCT-TTATTTTTATTTTTT
1 TTTCTTAAATTTATTTTTT
6828409 CTTTCTTAAATTTATTTTTT
1 -TTTCTTAAATTTATTTTTT
6828429 GTCTAATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 2 0.07
18 11 0.39
19 2 0.07
20 13 0.46
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTCTTAAATTTATTTTTT
Found at i:6834731 original size:10 final size:10
Alignment explanation
Indices: 6834712--6834765 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
6834702 GAGGACCTAA
*
6834712 AAATAGTTTG
1 AAATATTTTG
6834722 AAATATTTTG
1 AAATATTTTG
* *
6834732 GAGTCATTTTG
1 AAAT-ATTTTG
6834743 AAATAATTTTG
1 AAAT-ATTTTG
6834754 AAA-ATTTTG
1 AAATATTTTG
6834763 AAA
1 AAA
6834766 ACACTTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 9 0.24
10 11 0.30
11 17 0.46
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (10 bp):
AAATATTTTG
Found at i:6835188 original size:23 final size:21
Alignment explanation
Indices: 6835145--6835190 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
6835135 TTAATTAATT
*
6835145 AATTATTTTATAATAATTTTA
1 AATTATTTTATAATAAATTTA
*
6835166 AATTATTTATTATATTAAATTTA
1 AATTA-TT-TTATAATAAATTTA
6835189 AA
1 AA
6835191 CTTTACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 2 0.10
23 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTATTTTATAATAAATTTA
Found at i:6839756 original size:26 final size:26
Alignment explanation
Indices: 6839726--6839811 Score: 154
Period size: 26 Copynumber: 3.3 Consensus size: 26
6839716 ATATGTTAGG
* *
6839726 CATGATAATAGGTTAGGTAAATGTTC
1 CATGATAATGGGTTAGGTAAATGTTT
6839752 CATGATAATGGGTTAGGTAAATGTTT
1 CATGATAATGGGTTAGGTAAATGTTT
6839778 CATGATAATGGGTTAGGTAAATGTTT
1 CATGATAATGGGTTAGGTAAATGTTT
6839804 CATGATAA
1 CATGATAA
6839812 GAATTTCATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
CATGATAATGGGTTAGGTAAATGTTT
Found at i:6841323 original size:26 final size:26
Alignment explanation
Indices: 6841294--6841346 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6841284 TTTACAGTTT
6841294 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6841320 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6841346 T
1 T
6841347 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6842942 original size:21 final size:21
Alignment explanation
Indices: 6842913--6842967 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 21
6842903 GATATATGAC
6842913 TAAAGAATTTAAATAAATT-TT
1 TAAA-AATTTAAATAAATTATT
*
6842934 TAAATAA-TTAGTATAAATTATT
1 TAAA-AATTTA-AATAAATTATT
6842956 TACAAAATTTAA
1 TA-AAAATTTAA
6842968 TTCAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 6 0.22
23 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAAAATTTAAATAAATTATT
Found at i:6846680 original size:21 final size:21
Alignment explanation
Indices: 6846654--6846694 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6846644 ATCTGCTCAA
* *
6846654 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6846675 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6846695 TCGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6854001 original size:19 final size:20
Alignment explanation
Indices: 6853965--6854002 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6853955 TTGGAGTCAT
6853965 TTTGAAATAAAATTGAAAAA
1 TTTGAAATAAAATTGAAAAA
*
6853985 TTTGAAA-AAACTTGAAAA
1 TTTGAAATAAAATTGAAAA
6854003 CAAGGGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (20 bp):
TTTGAAATAAAATTGAAAAA
Found at i:6854046 original size:20 final size:20
Alignment explanation
Indices: 6854021--6854062 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6854011 ACATGGCAGA
6854021 GTGGCCAGGCCATTGATTTG
1 GTGGCCAGGCCATTGATTTG
6854041 GTGGCCAGGCCATTGATTTG
1 GTGGCCAGGCCATTGATTTG
6854061 GT
1 GT
6854063 TGAGCGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.36, T:0.31
Consensus pattern (20 bp):
GTGGCCAGGCCATTGATTTG
Found at i:6854436 original size:29 final size:29
Alignment explanation
Indices: 6854398--6854466 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
6854388 GATGTATCAC
*
6854398 TTTATGTATTAGTATAA-ATATTTT-AATTA
1 TTTATTTATTA-TATAATA-ATTTTAAATTA
6854427 TTTATTTATT-TATAATAATTTTAAATTA
1 TTTATTTATTATATAATAATTTTAAATTA
6854455 TTTATTGTATTA
1 TTTATT-TATTA
6854467 AATTTAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 10 0.29
28 12 0.34
29 13 0.37
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTATTTATTATATAATAATTTTAAATTA
Done.