Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 23
Found at i:2020690 original size:41 final size:41
Alignment explanation
Indices: 2020639--2020718 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
2020629 GTCCAGCATA
* * * *
2020639 TGCATGTTTAATTCAACACTATAGTGTGCAATGACACTTTG
1 TGCATATTTAATTCAACACTACAGCGTGCAAGGACACTTTG
* *
2020680 TGCATATTTAATTCAATATTACAGCGTGCAAGGACACTT
1 TGCATATTTAATTCAACACTACAGCGTGCAAGGACACTT
2020719 AGTACAATGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (41 bp):
TGCATATTTAATTCAACACTACAGCGTGCAAGGACACTTTG
Found at i:2024332 original size:15 final size:15
Alignment explanation
Indices: 2024291--2024336 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
2024281 CCAAAAAAGG
2024291 TAATTTTCCAAAAGTT
1 TAATTTT-CAAAAGTT
***
2024307 TAATGACCAAAAGTT
1 TAATTTTCAAAAGTT
2024322 TAATTTTCAAAAGTT
1 TAATTTTCAAAAGTT
2024337 ATGTATTTGG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (15 bp):
TAATTTTCAAAAGTT
Found at i:2029791 original size:74 final size:74
Alignment explanation
Indices: 2029679--2029911 Score: 283
Period size: 74 Copynumber: 3.1 Consensus size: 74
2029669 TACTTGATCG
* * *
2029679 ATACGATGTTTTCAATTGATTTTCTAAAGAAGTCAAGTTTGATTTTCAAAAGTTTCTTGATGATT
1 ATACGATGTTTTCAAATGATTTTCTAAAGAAGACAAGTTTGATTTTCAAAGGTTTCTTGATGATT
* *
2029744 ACTCGACG-A
66 AC-CCAAGTA
* * * *
2029753 ATACAATGTTTTCAAATGAATTTT-GAAATAAGACAAGTTTGATTTTCAAAGGTTTCTTAATGAT
1 ATACGATGTTTTCAAATG-ATTTTCTAAAGAAGACAAGTTTGATTTTCAAAGGTTTCTTGATGAT
*
2029817 TACCCAAGTG
65 TACCCAAGTA
* * * *
2029827 ATACGATGTTTTTAAATGATTTTCTAAAGAAGCCAAGTTTTATTTTCAAAGGTTTCTTGATGATA
1 ATACGATGTTTTCAAATGATTTTCTAAAGAAGACAAGTTTGATTTTCAAAGGTTTCTTGATGATT
*
2029892 ACCCAA-TCG
66 ACCCAAGT-A
2029901 ATACGATGTTT
1 ATACGATGTTT
2029912 AAAGAAGCCA
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
73 9 0.07
74 123 0.90
75 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (74 bp):
ATACGATGTTTTCAAATGATTTTCTAAAGAAGACAAGTTTGATTTTCAAAGGTTTCTTGATGATT
ACCCAAGTA
Found at i:2029990 original size:42 final size:42
Alignment explanation
Indices: 2029944--2030034 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
2029934 AAAGGTTTCT
*
2029944 TGATGATTAAATCCTTCGGGTCATC-AGTAAGTCTTTCGAGCA
1 TGATGATTAAATCCTTCGAGTCATCTA-TAAGTCTTTCGAGCA
*
2029986 TGATGATTAAATCCTTCGAGTCATCTATAAGTTTTTCGAGCA
1 TGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCA
*
2030028 GGATGAT
1 TGATGAT
2030035 AAGCCCTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (42 bp):
TGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCA
Found at i:2035104 original size:131 final size:131
Alignment explanation
Indices: 2034854--2035199 Score: 396
Period size: 131 Copynumber: 2.6 Consensus size: 131
2034844 AGAAACAATA
* * * *
2034854 TCTCATGCCTTAAAGCTGTCATTT-CTTACTCCAATCAAAATAAAGAAATATTACTA-TTCCTTC
1 TCTCATGCCTTAAAGCAGTCATTTAC-TACTCCAATCGAAATAAAGAAATATTACTATTTCATCC
** * *
2034917 TAAAATTTGATATTAATTCAAGAGAAAATGATAATATCTAACCATTTCCAATCGAGAATAAATGG
65 TAAAATTAAATATCAATTCAAGAGAAAATGATAATATCTAACCATTTCCAATCGAGAATAAATGA
2034982 CC
130 CC
* * * * *
2034984 TCTCATGCCTCAAAGAAGTCATTTACTACTCCAATCGAAATGAAGATATATTACTATTTCGTCCT
1 TCTCATGCCTTAAAGCAGTCATTTACTACTCCAATCGAAATAAAGAAATATTACTATTTCATCCT
* ** *
2035049 AAAATTAAATATCAA-TCTGAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATTA
66 AAAATTAAATATCAATTC-AAGAGAAAATGATAATATCTAACCATTTCCAATCGAGAATAAATGA
*
2035113 TC
130 CC
* * * * * *
2035115 TCTCATTCCTTAAAGCATTCATTTATTACTCCAATCGAAATTACGAGATATTACGT-TTTCATCC
1 TCTCATGCCTTAAAGCAGTCATTTACTACTCCAATCGAAATAAAGAAATATTAC-TATTTCATCC
*
2035179 TAAAATTCAATA-CTAATTCAA
65 TAAAATTAAATATC-AATTCAA
2035200 ATGTTATTAG
Statistics
Matches: 182, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
130 51 0.28
131 128 0.70
132 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (131 bp):
TCTCATGCCTTAAAGCAGTCATTTACTACTCCAATCGAAATAAAGAAATATTACTATTTCATCCT
AAAATTAAATATCAATTCAAGAGAAAATGATAATATCTAACCATTTCCAATCGAGAATAAATGAC
C
Found at i:2035665 original size:21 final size:21
Alignment explanation
Indices: 2035643--2035693 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
2035633 TTAGTGACTG
2035643 AAATAAAATAAAAGCAACATGAAA
1 AAATAAAATAAAA-CAACATG--A
*
2035667 AAATTAAAATAAAACAACATGC
1 AAA-TAAAATAAAACAACATGA
2035689 AAATA
1 AAATA
2035694 GGACTAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
24 10 0.40
25 10 0.40
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.16
Consensus pattern (21 bp):
AAATAAAATAAAACAACATGA
Found at i:2036235 original size:109 final size:109
Alignment explanation
Indices: 2036066--2036267 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 109
2036056 AAATAAGGGG
* * *
2036066 GACTAAACAACAAATAATCCAAAAAATACATAAAAGGCATGAAAATGGGTAAATAACAACTTCGG
1 GACTAAACAAAAAATAATCCAAAAAATACATAAAAGGCATAAAAATAGGTAAATAACAACTTCGG
* *
2036131 TCCTTAGAGGTGATCAACATGCAAAAACTCGCTAAACTATAGGA
66 TCCTCAGAGGTGACCAACATGCAAAAACTCGCTAAACTATAGGA
* * * * *
2036175 GACTAAACAAAAAAT-ATCCCAAAAAATATATAACATGTATAAAAATAGGTAAATAGCAACTTCG
1 GACTAAACAAAAAATAAT-CCAAAAAATACATAAAAGGCATAAAAATAGGTAAATAACAACTTCG
*
2036239 GTCCTCATAGGTGACCAACATGCAAAAAC
65 GTCCTCAGAGGTGACCAACATGCAAAAAC
2036268 GTGACTAACT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 2 0.02
109 79 0.98
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.20
Consensus pattern (109 bp):
GACTAAACAAAAAATAATCCAAAAAATACATAAAAGGCATAAAAATAGGTAAATAACAACTTCGG
TCCTCAGAGGTGACCAACATGCAAAAACTCGCTAAACTATAGGA
Found at i:2039930 original size:20 final size:23
Alignment explanation
Indices: 2039879--2039935 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
2039869 ATGCATAGGT
2039879 AGTGCATCGATACACATGTTAAG
1 AGTGCATCGATACACATGTTAAG
*
2039902 GGATGCATCGATACA-ATG-T-AG
1 AG-TGCATCGATACACATGTTAAG
2039923 AGTGCATCGATAC
1 AGTGCATCGATAC
2039936 CAACCTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 1 0.03
23 4 0.13
24 12 0.39
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
AGTGCATCGATACACATGTTAAG
Found at i:2051590 original size:7 final size:7
Alignment explanation
Indices: 2051578--2051607 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2051568 AGAAAAACTA
2051578 TTTTCAC
1 TTTTCAC
2051585 TTTTCAC
1 TTTTCAC
2051592 TTTTCAC
1 TTTTCAC
2051599 TTTT-AC
1 TTTTCAC
2051605 TTT
1 TTT
2051608 AAGGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTTCAC
Found at i:2059186 original size:77 final size:75
Alignment explanation
Indices: 2059084--2059539 Score: 423
Period size: 77 Copynumber: 5.9 Consensus size: 75
2059074 AAATATGGGA
* * * * * * * *
2059084 GTGCCTAAAAATGTTATGATTCACTAAGAAATAGGTTGTGATACGAAATATTTATATTTTTATTA
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGAT-CGAAATGTTAATATTTTTATTA
2059149 ATAAAATAGGTT
65 ATAAAAT-GGTT
** * * * * * *
2059161 GCACCCAAGAATGTCATAGTTCACTAAGAAATATGTTACGATCTGGAATGATAATGTTTTTATTG
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGATC-GAAATGTTAATATTTTTATTA
2059226 ATAAAATAGAG-T
65 ATAAAAT-G-GTT
* * * *
2059238 GAGCCCAAGAATATCATGGTTCACTAAGAAATATGTTGTGATCTAGAATGTTAATATTTTTATTA
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGATCGA-AATGTTAATATTTTTATTA
2059303 ATAAAATGGGTT
65 ATAAAAT-GGTT
* * * * *
2059315 GTGCCCAATAATGTCATGGTTTACTAAGAAATATGTTGAGATGTGGAATGTTAATATTTTTATTT
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGAT-CGAAATGTTAATATTTTTA-TT
2059380 AA-AAAATGGATT
64 AATAAAATGG-TT
* * * * * * * *
2059392 TTGCCCAAGAATATTATGGTTCACTAAGAAATAGGTTGCAATTTGGAATGTTAATACTTTTATTA
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGA-TCGAAATGTTAATATTTTTATTA
2059457 ATAAAATGAGTT
65 ATAAAATG-GTT
* * * * *
2059469 GGGCACAAGAATGTTATGGTTCACTAAGAAAGTAAGTTGCGATCTATAATGTTAATATTTTTATT
1 GTGCCCAAGAATGTCATGGTTCACTAAGAAA-TATGTTGCGATCGA-AATGTTAATATTTTTATT
2059534 -ATAAAA
64 AATAAAA
2059540 ATTTGAAAGT
Statistics
Matches: 312, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
76 8 0.03
77 272 0.87
78 32 0.10
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (75 bp):
GTGCCCAAGAATGTCATGGTTCACTAAGAAATATGTTGCGATCGAAATGTTAATATTTTTATTAA
TAAAATGGTT
Found at i:2059386 original size:154 final size:154
Alignment explanation
Indices: 2059103--2059540 Score: 529
Period size: 154 Copynumber: 2.8 Consensus size: 154
2059093 AATGTTATGA
* * * * *
2059103 TTCACTAAGAAATAGGTTGTGATACGA-AATATTTATATTTTTATTAATAAAATAGGTTGCACCC
1 TTCACTAAGAAATAGGTTGTGAT-CTAGAATGTTAATATTTTTATTAATAAAATGGGTTGCGCCC
* * * * *
2059167 AAGAATGTCATAGTTCACTAAGAAATATGTT-ACGATCTGGAATGATAATGTTTTTATTGATAAA
65 AAGAATGTCATGGTTCACTAAGAAATATGTTGA-GATCTGGAATGTTAATATTTTTATTTAAAAA
2059231 ATAGAGTGAGCCCAAGAATATCATGG
129 ATAGAGTGAGCCCAAGAATATCATGG
* *
2059257 TTCACTAAGAAATATGTTGTGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGTGCCCA
1 TTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGCGCCCA
* * *
2059322 ATAATGTCATGGTTTACTAAGAAATATGTTGAGATGTGGAATGTTAATATTTTTATTTAAAAAAT
66 AGAATGTCATGGTTCACTAAGAAATATGTTGAGATCTGGAATGTTAATATTTTTATTTAAAAAAT
* * ** *
2059387 GGATTTTGCCCAAGAATATTATGG
131 AGAGTGAGCCCAAGAATATCATGG
** * * * * * *
2059411 TTCACTAAGAAATAGGTTGCAATTTGGAATGTTAATACTTTTATTAATAAAATGAGTTGGGCACA
1 TTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGCGCCCA
* * * **
2059476 AGAATGTTATGGTTCACTAAGAAAGTAAGTTGCGATCTATAATGTTAATATTTTTATTATAAAAA
66 AGAATGTCATGGTTCACTAAGAAA-TATGTTGAGATCTGGAATGTTAATATTTTTATT-TAAAAA
2059541 TTTGAAAGTA
Statistics
Matches: 243, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
153 2 0.01
154 206 0.85
155 29 0.12
156 6 0.02
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (154 bp):
TTCACTAAGAAATAGGTTGTGATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGCGCCCA
AGAATGTCATGGTTCACTAAGAAATATGTTGAGATCTGGAATGTTAATATTTTTATTTAAAAAAT
AGAGTGAGCCCAAGAATATCATGG
Found at i:2059983 original size:100 final size:100
Alignment explanation
Indices: 2059878--2060263 Score: 437
Period size: 100 Copynumber: 3.9 Consensus size: 100
2059868 GGTAGTGCAT
* * *
2059878 TTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCGTTTATATGATGCAAAAGTAAAACAA
1 TTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACAA
* * * * *
2059943 AACAAGTTTCTTATGATAACGTAATATGTATCATC
66 AACATGTTGCTCATGATAACGTAATAGGTATCGTC
* * * * * *
2059978 TTTTTTTATGCCAACTGTTTAAGTCATAAGTACGAAACCATTTAATATTATGCAAAAGCAAGACA
1 TTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTT-ATATTATGCAAAAGTAAGACA
* * *
2060043 AAACATGCTGCTCATGACAACGTACTAGGTAGT-GT-
65 AAACATGTTGCTCATGATAACGTAATAGGTA-TCGTC
* * * *
2060078 TTTTTTAATGTCAACTGTTTAAATTATAAGTATGAAACAATTTATATTATACAAAAGTAAGAC-A
1 TTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACAA
* * * *
2060142 AACATGTTGCTCATTATAACATACTAGGTATCGCC
66 AACATGTTGCTCATGATAACGTAATAGGTATCGTC
*
2060177 TTTTTTTAAATGTCAACCGTTTAAGTTATAAGTATGAAA-C--TTAAATATAT--AAAAGTAAGA
1 -TTTTTT-AATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATAT-TATGCAAAAGTAAGA
2060237 CAAAACATGTTGCTCATGATAACGTAA
63 CAAAACATGTTGCTCATGATAACGTAA
2060264 CAGATAGCGC
Statistics
Matches: 241, Mismatches: 37, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
97 12 0.05
98 55 0.23
99 21 0.09
100 80 0.33
101 72 0.30
102 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (100 bp):
TTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACAA
AACATGTTGCTCATGATAACGTAATAGGTATCGTC
Found at i:2060065 original size:101 final size:101
Alignment explanation
Indices: 2059877--2060282 Score: 452
Period size: 101 Copynumber: 4.1 Consensus size: 101
2059867 AGGTAGTGCA
* * *
2059877 TTTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCGTTTATATGATGCAAAAGTAAAACA
1 TTTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACA
* * * * *
2059942 AAACAAGTTTCTTATGATAACGTAATATGTATCATC
66 AAACATGTTGCTCATGATAACGTAATAGGTATCGTC
* * * * *
2059978 TTTTTTT-ATGCCAACTGTTTAAGTCATAAGTACGAAACCATTTAATATTATGCAAAAGCAAGAC
1 TTTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTT-ATATTATGCAAAAGTAAGAC
* * * *
2060042 AAAACATGCTGCTCATGACAACGTACTAGGTA--GTG
65 AAAACATGTTGCTCATGATAACGTAATAGGTATCGTC
* * * *
2060077 TTTTTTTAATGTCAACTGTTTAAATTATAAGTATGAAACAATTTATATTATACAAAAGTAAGAC-
1 TTTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACA
* * * *
2060141 AAACATGTTGCTCATTATAACATACTAGGTATCGCC
66 AAACATGTTGCTCATGATAACGTAATAGGTATCGTC
*
2060177 TTTTTTTAAATGTCAACCGTTTAAGTTATAAGTATGAAA-C--TTAAATATAT--AAAAGTAAGA
1 TTTTTTT-AATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATAT-TATGCAAAAGTAAGA
* * * *
2060237 CAAAACATGTTGCTCATGATAACGTAACAGATAGCGCC
64 CAAAACATGTTGCTCATGATAACGTAATAGGTATCGTC
2060275 TTTTTTTA
1 TTTTTTTA
2060283 TTCAAAAGTA
Statistics
Matches: 258, Mismatches: 40, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
97 12 0.05
98 69 0.27
99 29 0.11
100 70 0.27
101 78 0.30
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (101 bp):
TTTTTTTAATGTCAACCGTTTAAGTTATAAGTATGAAACCATTTATATTATGCAAAAGTAAGACA
AAACATGTTGCTCATGATAACGTAATAGGTATCGTC
Found at i:2060669 original size:73 final size:73
Alignment explanation
Indices: 2060585--2060721 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
2060575 CAACCATCAT
* * ** * * *
2060585 CACATATGTATCGATATTTTAAATTTTGATCTT-TTTATCAACTTTTTCAATTTTTAAAAATATC
1 CACATAAGTATCAATATTTTAAATTTCAATCTTATCT-TCAACTTTTTAAATATTTAAAAATATC
2060649 GATCATTAC
65 GATCATTAC
*
2060658 CACATAAGTATCAATATTTTAAATTTCAATCTTATCTTCAACTTTTTAAATATTTAAAAGTATC
1 CACATAAGTATCAATATTTTAAATTTCAATCTTATCTTCAACTTTTTAAATATTTAAAAATATC
2060722 AATATTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 53 0.96
74 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (73 bp):
CACATAAGTATCAATATTTTAAATTTCAATCTTATCTTCAACTTTTTAAATATTTAAAAATATCG
ATCATTAC
Found at i:2060997 original size:78 final size:80
Alignment explanation
Indices: 2060869--2061018 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
2060859 AAAAATATTT
* **
2060869 ACATTACATTACAAATCACAACCTATTTTCTTGGTGAACCATAACATTATTGGTTGCAACC-TAT
1 ACATTACATTACAAATCACAACCTATTTTCTTAGTGAACCATAACATTATTGGACGCAACCGTAT
2060933 TT-TTATTAATAACA
66 TTCTTATTAATAACA
* *
2060947 ACATTAACATTACAAATCACAA-CT-TGTTTCTTAGTGAACTATGACATTATTGGACGCAACCGT
1 ACATT-ACATTACAAATCACAACCTAT-TTTCTTAGTGAACCATAACATTATTGGACGCAACCGT
2061010 ATTTCTTAT
64 ATTTCTTAT
2061019 ATATATTCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
77 1 0.02
78 37 0.59
79 21 0.33
80 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (80 bp):
ACATTACATTACAAATCACAACCTATTTTCTTAGTGAACCATAACATTATTGGACGCAACCGTAT
TTCTTATTAATAACA
Found at i:2065002 original size:21 final size:22
Alignment explanation
Indices: 2064976--2065028 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
2064966 AAACATCGAA
*
2064976 TATCGATACCCCTATGAATA-G
1 TATCGATACCCCTAAGAATAGG
*
2064997 TATCGATA-ACCTAAGAATAGGG
1 TATCGATACCCCTAAGAATA-GG
2065019 TATCGATACC
1 TATCGATACC
2065029 ACCTTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 9 0.35
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (22 bp):
TATCGATACCCCTAAGAATAGG
Found at i:2069989 original size:6 final size:6
Alignment explanation
Indices: 2069978--2070008 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2069968 GAGAGGATAT
2069978 ATATAC ATATAC ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC ATATAC ATATAC A
2070009 AGAGAATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:2073561 original size:19 final size:19
Alignment explanation
Indices: 2073529--2073586 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
2073519 TTTATTAATG
* *
2073529 AATATAATGTAATGCGAAA
1 AATAAAATGCAATGCGAAA
** *
2073548 GGTAAAATGCAATGTGAAA
1 AATAAAATGCAATGCGAAA
2073567 AATAAAATGCAGATGC-AAA
1 AATAAAATGCA-ATGCGAAA
2073586 A
1 A
2073587 TGCAAGGAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAAATGCAATGCGAAA
Found at i:2077502 original size:17 final size:17
Alignment explanation
Indices: 2077480--2077524 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
2077470 TCTCATTCCC
2077480 AAATTTTAGGTGTGGTT
1 AAATTTTAGGTGTGGTT
2077497 AAATTTTAGGTGTGGTT
1 AAATTTTAGGTGTGGTT
2077514 AAATTTTAGGT
1 AAATTTTAGGT
2077525 TTTCACTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (17 bp):
AAATTTTAGGTGTGGTT
Found at i:2079681 original size:26 final size:26
Alignment explanation
Indices: 2079651--2079742 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 26
2079641 ATATGTATTT
* *
2079651 AAATATTTATATTATGTGCATACATG
1 AAATATATATATTATGTGCATACATC
* * * * *
2079677 TAATATATATATAATATGCGTACTTC
1 AAATATATATATTATGTGCATACATC
* *
2079703 AAATATATATAATTATGTGCATACCTG
1 AAATATATAT-ATTATGTGCATACATC
*
2079730 AAACATATATATT
1 AAATATATATATT
2079743 CATGCATGCC
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 31 0.61
27 20 0.39
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (26 bp):
AAATATATATATTATGTGCATACATC
Found at i:2092523 original size:54 final size:55
Alignment explanation
Indices: 2092405--2092527 Score: 205
Period size: 55 Copynumber: 2.3 Consensus size: 55
2092395 TGTATCAGCT
*
2092405 GTGTATCGGTACACAAAATACATTCGATGTAGGGACTGTATCGGTACATACAAGA
1 GTGTATCGGTACATAAAATACATTCGATGTAGGGACTGTATCGGTACATACAAGA
*
2092460 GTGTATCGGTACATAAAATACATTCGATGTAGGG-GTGTATCGGTACATACCAA-A
1 GTGTATCGGTACATAAAATACATTCGATGTAGGGACTGTATCGGTACATA-CAAGA
2092514 GTGTATCGGTACAT
1 GTGTATCGGTACAT
2092528 CCCTTTGTAC
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
54 29 0.45
55 36 0.55
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (55 bp):
GTGTATCGGTACATAAAATACATTCGATGTAGGGACTGTATCGGTACATACAAGA
Found at i:2094979 original size:59 final size:59
Alignment explanation
Indices: 2094887--2095006 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
2094877 TGTTGTCTGC
2094887 ACTATTTTAATGATCGTAGAAAGATTTGGAGTTGAAAAACAGTTGGATTTCGACTTGAA
1 ACTATTTTAATGATCGTAGAAAGATTTGGAGTTGAAAAACAGTTGGATTTCGACTTGAA
2094946 ACTATTTTAATGATCGTAGAAAGATTTGGAGTTGAAAAACAGTTGGATTTCGACTTGAA
1 ACTATTTTAATGATCGTAGAAAGATTTGGAGTTGAAAAACAGTTGGATTTCGACTTGAA
2095005 AC
1 AC
2095007 GATGATTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (59 bp):
ACTATTTTAATGATCGTAGAAAGATTTGGAGTTGAAAAACAGTTGGATTTCGACTTGAA
Found at i:2098674 original size:61 final size:61
Alignment explanation
Indices: 2098595--2098866 Score: 241
Period size: 61 Copynumber: 4.6 Consensus size: 61
2098585 GCTTCCGCTC
2098595 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
1 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
* ** * *
2098656 TAGTGCTAATCCGTATATGACACATAAGGTTGTG-CCTTCGCCTACACTTATTGTCCTTACAC-A
1 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACAC-TA-GGT--TTACACTA
* * * * * * * * * *
2098719 CTAG-G-TCAA----AATATG---CAT--CGTAGTG-CTA-AACCTACACTAAGCTTCCGCTC
1 -TAGTGCT-AATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
2098769 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
1 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
*
2098830 TAGTGCTAATCCGTATATGACACATAAGGTTGTGCCC
1 TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCC
2098867 TTCGCCTACA
Statistics
Matches: 163, Mismatches: 28, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
49 7 0.04
50 3 0.02
51 2 0.01
52 2 0.01
53 7 0.04
54 11 0.07
56 3 0.02
57 3 0.02
59 10 0.06
60 12 0.07
61 87 0.53
62 3 0.02
63 4 0.02
64 9 0.06
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
TAGTGCTAATCCGGATATGACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTA
Found at i:2098839 original size:174 final size:175
Alignment explanation
Indices: 2098549--2098897 Score: 691
Period size: 174 Copynumber: 2.0 Consensus size: 175
2098539 GGGTATTTGA
2098549 GTCAAAATATGCATCGTAGTGCTAAACCTACACTAAGCTTCCGCTCTAGTGCTAATCCGGATATG
1 GTCAAAATATGCATCGTAGTGCTAAACCTACACTAAGCTTCCGCTCTAGTGCTAATCCGGATATG
2098614 ACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTATAGTGCTAATCCGTATATGACAC
66 ACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTATAGTGCTAATCCGTATATGACAC
2098679 ATAAGGTTGTG-CCTTCGCCTACACTTATTGTCCTTACACACTAG
131 ATAAGGTTGTGCCCTTCGCCTACACTTATTGTCCTTACACACTAG
2098723 GTCAAAATATGCATCGTAGTGCTAAACCTACACTAAGCTTCCGCTCTAGTGCTAATCCGGATATG
1 GTCAAAATATGCATCGTAGTGCTAAACCTACACTAAGCTTCCGCTCTAGTGCTAATCCGGATATG
2098788 ACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTATAGTGCTAATCCGTATATGACAC
66 ACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTATAGTGCTAATCCGTATATGACAC
2098853 ATAAGGTTGTGCCCTTCGCCTACACTTATTGTCCTTACACACTAG
131 ATAAGGTTGTGCCCTTCGCCTACACTTATTGTCCTTACACACTAG
2098898 TATTAATATA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
174 141 0.81
175 33 0.19
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (175 bp):
GTCAAAATATGCATCGTAGTGCTAAACCTACACTAAGCTTCCGCTCTAGTGCTAATCCGGATATG
ACACATAAGGTTGTGCCCACCACCTACACTAGGTTTACACTATAGTGCTAATCCGTATATGACAC
ATAAGGTTGTGCCCTTCGCCTACACTTATTGTCCTTACACACTAG
Found at i:2104688 original size:14 final size:15
Alignment explanation
Indices: 2104669--2104701 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2104659 TAACTTGAAC
*
2104669 AATTATT-ATAAAAT
1 AATTATTCAGAAAAT
2104683 AATTATTCAGAAAAT
1 AATTATTCAGAAAAT
2104698 AATT
1 AATT
2104702 GTAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
AATTATTCAGAAAAT
Found at i:2104865 original size:16 final size:15
Alignment explanation
Indices: 2104844--2104877 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2104834 TTTAATATCA
*
2104844 TAATATTAATTATAAT
1 TAATATTAACTAT-AT
2104860 TAATATTAACTATAT
1 TAATATTAACTATAT
2104875 TAA
1 TAA
2104878 GAAATTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATTAACTATAT
Found at i:2110552 original size:59 final size:57
Alignment explanation
Indices: 2110490--2110984 Score: 453
Period size: 59 Copynumber: 8.5 Consensus size: 57
2110480 TGGCACCTTG
* * * ***
2110490 TGTGCTAAAATCATAAGGAAATTATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGA
* * * *
2110548 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGG-GCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATAT-GGAGCA-CTGA
* ***
2110607 TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGA
* * * *
2110665 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGG-GCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATAT-GGAGCA-CTGA
* * * ***
2110724 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGA
* * * * *
2110782 -GTG-TAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGG-GCATTTTA
1 TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATAT-GGAGCA-CTGA
* *** *
2110838 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGA
* * *
2110896 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATAGG-GCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATAT-GGAGCA-CTGA
* *
2110955 TGTGCTAAAATGGTAAGGGAATCATATTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGA
2110985 CTGTATGGAT
Statistics
Matches: 350, Mismatches: 67, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
55 35 0.10
56 5 0.01
57 6 0.02
58 143 0.41
59 161 0.46
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (57 bp):
TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGA
Found at i:2110696 original size:117 final size:117
Alignment explanation
Indices: 2110490--2111088 Score: 891
Period size: 117 Copynumber: 5.1 Consensus size: 117
2110480 TGGCACCTTG
** *
2110490 TGTGCTAAAATCATAAGGAAATTATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
2110555 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
*
2110607 TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
2110672 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* *
2110724 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGA--GTG-T
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
*
2110786 AAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* *
2110838 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
* *
2110903 AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * * * * ** * * *
2110955 TGTGCTAAAATGGTAAGGGAATCATATTGACTGTATGGATTTCCAGATAAAGTACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
* * ** * * *
2111020 ACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTCACATAGGGCATTTCA
66 A-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCAAATAGGGCATTTTA
*
2111073 TGTGGTAAAATGGTAA
1 TGTGCTAAAATGGTAA
2111089 CAAAATTATA
Statistics
Matches: 442, Mismatches: 35, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
114 106 0.24
115 3 0.01
116 3 0.01
117 275 0.62
118 55 0.12
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
Found at i:2110896 original size:231 final size:233
Alignment explanation
Indices: 2110490--2111084 Score: 874
Period size: 231 Copynumber: 2.5 Consensus size: 233
2110480 TGGCACCTTG
** * *
2110490 TGTGCTAAAATCATAAGGAAATTATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGAG-GTGCT
* *
2110555 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTATGTGCTAAAATGG
65 AAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTATGTGCTAAAATGA
*
2110620 TAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTAAATGATAAGGAA
130 TAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTAAATGATAAGGAA
*
2110685 ATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
195 ATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
2110724 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGA-GTG-TA
1 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGAGGTGCTA
2110787 AATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTATGTGCTAAAATGAT
66 AATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTATGTGCTAAAATGAT
*
2110852 AAGGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGAGTGTGCTAAATGATAAGGAAA
131 AAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTAAATGATAAGGAAA
*
2110917 TCATATTGAAAATATAGATTTCCAGATAGGGCATTTTA
196 TCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* * * * * * ** * *
2110955 TGTGCTAAAATGGTAAGGGAATCATATTGACTGTATGGATTTCCAGATAAAGTACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGA-GGTGCT
* * ** * * *
2111020 ACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTC-ACATAGGGCATTTCATGTGGTAAAA
65 A-AATGATAAGGAAATCATATTGAA-AATATGGA-TTTCAAAATAGGGCATTTTATGTGCTAAAA
2111083 TG
127 TG
2111085 GTAACAAAAT
Statistics
Matches: 328, Mismatches: 27, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
231 212 0.65
232 3 0.01
233 3 0.01
234 58 0.18
235 48 0.15
236 4 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.31
Consensus pattern (233 bp):
TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATATGGAGCACTGAGGTGCTA
AATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTATGTGCTAAAATGAT
AAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTAAATGATAAGGAAA
TCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
Found at i:2111003 original size:59 final size:58
Alignment explanation
Indices: 2110549--2110984 Score: 456
Period size: 59 Copynumber: 7.5 Consensus size: 58
2110539 GAGCACTGAG
*
2110549 TGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
1 TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* *** * * *
2110607 TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
*
2110665 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* * * *** * * *
2110724 TGTGCTAAAATGGTAAGGAAATAATAATGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
* *
2110782 -GTG-TAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTA
1 TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* *** * * * *
2110838 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTTCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
*
2110896 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* *
2110955 TGTGCTAAAATGGTAAGGGAATCATATTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGA
2110985 CTGTATGGAT
Statistics
Matches: 304, Mismatches: 57, Indels: 33
0.77 0.14 0.08
Matches are distributed among these distances:
55 35 0.12
56 5 0.02
57 6 0.02
58 107 0.35
59 151 0.50
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (58 bp):
TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
Found at i:2111324 original size:44 final size:45
Alignment explanation
Indices: 2111277--2111595 Score: 511
Period size: 44 Copynumber: 7.2 Consensus size: 45
2111267 AAATGAGGTT
*
2111277 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTACGGAAT-
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
* * *
2111321 AATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
2111366 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
* *
2111410 AATGGTAAGTATATTGGAAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
2111455 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAA-A
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
2111499 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
* * * *
2111544 AATGG-AAGTATGTTGGTAAAATAAGTTTACGTGCTTATGGGATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
2111588 AATGGTAA
1 AATGGTAA
2111596 ATTTATTGAT
Statistics
Matches: 256, Mismatches: 15, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
44 165 0.64
45 91 0.36
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (45 bp):
AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
Found at i:2111432 original size:89 final size:89
Alignment explanation
Indices: 2111277--2111595 Score: 523
Period size: 89 Copynumber: 3.6 Consensus size: 89
2111267 AAATGAGGTT
*
2111277 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTACGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
2111342 ATAAGCTTACAAGCTTATGGAATA
66 ATAGGCTTACGAGCTTATGGAATA
*
2111366 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGAAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
2111431 ATAGGCTTACGAGCTTATGGAATA
66 ATAGGCTTACGAGCTTATGGAATA
* * *
2111455 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAAAAATGGTAAGTATGTTGGTAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
2111520 ATAGGCTTACGAGCTTATGGAATA
66 ATAGGCTTACGAGCTTATGGAATA
* * * *
2111544 AATGG-AAGTATGTTGGTAAAATAAGTTTACGTGCTTATGGGATAAATGGTAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-AATGGTAA
2111596 ATTTATTGAT
Statistics
Matches: 215, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 32 0.15
89 183 0.85
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (89 bp):
AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
ATAGGCTTACGAGCTTATGGAATA
Found at i:2111603 original size:133 final size:134
Alignment explanation
Indices: 2111276--2111595 Score: 529
Period size: 133 Copynumber: 2.4 Consensus size: 134
2111266 TAAATGAGGT
*
2111276 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTACGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
2111340 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAT
66 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAT
2111405 GGAA
131 GGAA
* *
2111409 TAATGGTAAGTATATTGGAAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
2111474 AAATAGGCTTACGAGCTTATGGAA-AAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAT
66 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAT
2111538 GGAA
131 GGAA
* * * *
2111542 TAAATGG-AAGTATGTTGGTAAAATAAGTTTACGTGCTTATGGGATAAATGGTAA
1 T-AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAA
2111596 ATTTATTGAT
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
133 128 0.74
134 46 0.26
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (134 bp):
TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAT
GGAA
Found at i:2112132 original size:22 final size:23
Alignment explanation
Indices: 2112087--2112141 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
2112077 GATACACTGT
2112087 TCACTGTTCACGAGTAATGTTCA
1 TCACTGTTCACGAGTAATGTTCA
* *
2112110 TTACTGTTCACG-GTACTGTTCA
1 TCACTGTTCACGAGTAATGTTCA
*
2112132 TCACTATTCA
1 TCACTGTTCA
2112142 TAAAAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (23 bp):
TCACTGTTCACGAGTAATGTTCA
Found at i:2114217 original size:3 final size:3
Alignment explanation
Indices: 2114209--2114238 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2114199 AAGAGCTAAA
2114209 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2114239 TAAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2117829 original size:51 final size:52
Alignment explanation
Indices: 2117636--2118090 Score: 211
Period size: 58 Copynumber: 8.0 Consensus size: 52
2117626 GATTTCCATA
*
2117636 TGGAGCACTGATTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
** * * * * * **
2117688 TCCAAATAAGGCATTTTA-TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAT
1 T-----GGA-GCA-CTGAGTGTGCT-AAATGATAAGGAAATCATA-T---TG-A-AAATATGGAT
*
2117752 A
52 T
2117753 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATA-TGAAAATATGGATT
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
2117804 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTT
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA-TT
* * * * * **
2117857 CAAAATAGG-GCATTTTA-TGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCAT
1 -----T-GGAGCA-CTGAGTGTGCT-AAATGATAAGGAAATCATA-T---TG-AAA-ATATGGAT
*
2117920 A
52 T
* *
2117921 TGGAGCACTGATTGTTCTAAATGATAAGGAAATCATATTGAAAATATGGATTT
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA-TT
* * * * **
2117974 CCAAATAGG-GCATTTTA-TGTGCTAAAATGATAAGGAAATCATACTGACTGTATAGATTTCCAT
1 -----T-GGAGCA-CTGAGTGTGCT-AAATGATAAGGAAATCATA-T---TG-A-AAATATGGAT
*
2118037 A
52 T
*
2118038 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATT
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
2118090 T
1 T
2118091 CCAGATAGGG
Statistics
Matches: 301, Mismatches: 52, Indels: 100
0.66 0.11 0.22
Matches are distributed among these distances:
51 43 0.14
52 25 0.08
53 9 0.03
54 4 0.01
57 3 0.01
58 92 0.31
59 92 0.31
60 4 0.01
63 6 0.02
64 7 0.02
65 16 0.05
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (52 bp):
TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
Found at i:2117847 original size:168 final size:169
Alignment explanation
Indices: 2117636--2117973 Score: 606
Period size: 168 Copynumber: 2.0 Consensus size: 169
2117626 GATTTCCATA
* *
2117636 TGGAGCACTGATTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAAGGCA
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAAGGCA
* *
2117701 TTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGT
66 TTTTATGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATATGGAGCACTGAGT
2117766 GTGCTAAATGATAAGGAAATCATA-TGAAAATATGGATT
131 GTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
*
2117804 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCA
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAAGGCA
*
2117869 TTTTATGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATATGGAGCACTGATT
66 TTTTATGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATATGGAGCACTGAGT
*
2117934 GTTCTAAATGATAAGGAAATCATATTGAAAATATGGATT
131 GTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
2117973 T
1 T
2117974 CCAAATAGGG
Statistics
Matches: 162, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
168 147 0.91
169 15 0.09
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (169 bp):
TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAAGGCA
TTTTATGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATATGGAGCACTGAGT
GTGCTAAATGATAAGGAAATCATATTGAAAATATGGATT
Found at i:2118012 original size:117 final size:117
Alignment explanation
Indices: 2117804--2118241 Score: 599
Period size: 117 Copynumber: 3.7 Consensus size: 117
2117794 AATATGGATT
*
2117804 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCA
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCA
* *
2117869 TTTTATGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATA
66 TTTTATGTGCTAAAATGGTAAGGAAATCATACTGACTGTAAAGATTTCCATA
* *
2117921 TGGAGCACTGATTGTTCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCA
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCA
* *
2117986 TTTTATGTGCTAAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATA
66 TTTTATGTGCTAAAATGGTAAGGAAATCATACTGACTGTAAAGATTTCCATA
* *
2118038 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATAGGGCA
1 TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCA
* * * ** *
2118103 TTTTATGTGCTAAAATGGTAAGGGAATCATATTGACTATATGGATTTCCAGA
66 TTTTATGTGCTAAAATGGTAAGGAAATCATACTGACTGTAAAGATTTCCATA
** * * * * * ** * * *
2118155 TAAAGTACTAAGGGTGCTACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTCACATAGGA
1 TGGAGCACTGAGTGTGCTA-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCAAATAGGG
*
2118219 CATTTCATGTGCTAAAATGGTAA
64 CATTTTATGTGCTAAAATGGTAA
2118242 CAAAATTATA
Statistics
Matches: 288, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
117 233 0.81
118 55 0.19
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (117 bp):
TGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCA
TTTTATGTGCTAAAATGGTAAGGAAATCATACTGACTGTAAAGATTTCCATA
Found at i:2118156 original size:59 final size:58
Alignment explanation
Indices: 2117589--2118152 Score: 442
Period size: 59 Copynumber: 9.8 Consensus size: 58
2117579 TGCCACCTTG
* * *** * * *
2117589 TGTGCTAAAATCATAAGGAAATTATATTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
* *
2117647 TTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAAGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* * *** * * *
2117706 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
* * *
2117764 GTGTGCTAAATGATAAGGAAATCATA-TGAAAATATGGA-TT-----T-GGAGCA-CTGA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
* *
2117815 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* * * *** * * * *
2117874 TGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
* *
2117932 TTGTTCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* *** * * *
2117991 TGTGCTAAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGG-GCATTTTA
*
2118049 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
* * ** *
2118108 TGTGCTAAAATGGTAAGGGAATCATATTGACTATATGGATTTCCA
1 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCA
2118153 GATAAAGTAC
Statistics
Matches: 408, Mismatches: 72, Indels: 50
0.77 0.14 0.09
Matches are distributed among these distances:
51 37 0.09
52 12 0.03
53 2 0.00
56 2 0.00
57 8 0.02
58 167 0.41
59 180 0.44
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (58 bp):
TGTGCTAAATGATAAGGAAATCATATTGAAAATATAGATTTCCAAATAGGGCATTTTA
Found at i:2118172 original size:59 final size:59
Alignment explanation
Indices: 2117806--2118192 Score: 302
Period size: 59 Copynumber: 6.6 Consensus size: 59
2117796 TATGGATTTG
* ** * * *
2117806 GAGCACTGAGTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCAAAATA
1 GAGCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* * * * * * * * * * *
2117864 GGGCATTTTA-TGTGCTAAAATGGTAAAGAAATCATACTGAGTGTAAAGATTTCCATATG
1 GAGCA-CTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* * * ** * *
2117923 GAGCACTGATTGTTCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATA
1 GAGCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* * * * * * *
2117981 GGGCATTTTA-TGTGCTAAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATATG
1 GAGCA-CTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* **
2118040 GAGCACTGAGTGTGCT-AAATGATAAGGAAATCATATTGAAAATATAGATTTCCAGATA
1 GAGCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* * * * * *
2118098 GGGCATTTTA-TGTGCTAAAATGGTAAGGGAATCATATTGACTATATGGATTTCCAGATA
1 GAGCA-CTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
* * *
2118157 AAGTACTAAGGGTGCTACAAA-GATAAGGAAATCATA
1 GAGCACTAAGTGTGCTA-AAATGATAAGGAAATCATA
2118193 CTAATGGTAT
Statistics
Matches: 255, Mismatches: 64, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
58 103 0.40
59 149 0.58
60 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (59 bp):
GAGCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGACTATATAGATTTCCAGATA
Found at i:2118231 original size:59 final size:58
Alignment explanation
Indices: 2118168--2118296 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 58
2118158 AGTACTAAGG
** * *
2118168 GTGCTACAAA-GATAAGGAAATCATACTAATGGTATGGATTTTCACATAGGACATTTCAT
1 GTGCTA-AAATGATAACAAAATCATACTAATGGTATGAATTTTCA-ATAGGACACTTCAT
* * * * *
2118227 GTGCTAAAATGGTAACAAAATTATACTAATGGTATGAATTTTTAATAGGTCACTTCGT
1 GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATTTTCAATAGGACACTTCAT
2118285 GTGCTAAAATGA
1 GTGCTAAAATGA
2118297 AAGGGGAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 25 0.42
59 34 0.58
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (58 bp):
GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATTTTCAATAGGACACTTCAT
Found at i:2118476 original size:44 final size:45
Alignment explanation
Indices: 2118429--2118747 Score: 502
Period size: 44 Copynumber: 7.2 Consensus size: 45
2118419 AAATGAGGTT
2118429 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
* *
2118473 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
2118518 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTACGGAAT-
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
** * *
2118562 AATGGTAAGTAAATTGGAAAAATAGGCTTACGAGATTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
2118607 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAA-A
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
2118651 AATGGTAAGTATGTTGGTAAAATAGTCTTACGAGCTTATGGAATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
* * *
2118696 AATGG-AAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGGATA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
2118740 AATGGTAA
1 AATGGTAA
2118748 ATTTATTGAT
Statistics
Matches: 252, Mismatches: 19, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
44 163 0.65
45 89 0.35
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.30
Consensus pattern (45 bp):
AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
Found at i:2118584 original size:89 final size:89
Alignment explanation
Indices: 2118429--2118747 Score: 507
Period size: 89 Copynumber: 3.6 Consensus size: 89
2118419 AAATGAGGTT
2118429 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
2118494 ATAAGCTTACGAGCTTATGGAATA
66 ATAAGCTTACGAGCTTATGGAATA
* * *
2118518 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTACGGAATAATGGTAAGTAAATTGGAAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
2118583 ATAGGCTTACGAGATTATGGAATA
66 ATAAGCTTACGAGCTTATGGAATA
* * *
2118607 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAAAAATGGTAAGTATGTTGGTAAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
2118672 AT-AGTCTTACGAGCTTATGGAATA
66 ATAAG-CTTACGAGCTTATGGAATA
* * *
2118696 AATGG-AAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGGATAAATGGTAA
1 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-AATGGTAA
2118748 ATTTATTGAT
Statistics
Matches: 210, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
88 34 0.16
89 176 0.84
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.30
Consensus pattern (89 bp):
AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
ATAAGCTTACGAGCTTATGGAATA
Found at i:2118603 original size:24 final size:23
Alignment explanation
Indices: 2118576--2118653 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
2118566 GTAAGTAAAT
2118576 TGGAAAAATAGGCTTACGAGATTA
1 TGGAAAAATAGGCTTACGAG-TTA
2118600 TGGAATAAAT-GG--TA--AGTATA
1 TGGAA-AAATAGGCTTACGAGT-TA
*
2118620 TTGGTAAAATAGGCTTACGAGCTTA
1 -TGGAAAAATAGGCTTACGAG-TTA
2118645 TGGAAAAAT
1 TGGAAAAAT
2118654 GGTAAGTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 6 0.14
22 2 0.05
23 2 0.05
24 15 0.35
25 8 0.19
26 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (23 bp):
TGGAAAAATAGGCTTACGAGTTA
Found at i:2118755 original size:133 final size:134
Alignment explanation
Indices: 2118428--2118747 Score: 520
Period size: 133 Copynumber: 2.4 Consensus size: 134
2118418 TAAATGAGGT
2118428 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
2118492 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAC
66 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAC
2118557 GGAA
131 GGAA
** * *
2118561 TAATGGTAAGTAAATTGGAAAAATAGGCTTACGAGATTATGGAATAAATGGTAAGTATATTGGTA
1 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
2118626 AAATAGGCTTACGAGCTTATGGAA-AAATGGTAAGTATGTTGGTAAAATAGTCTTACGAGCTTAT
66 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAC
2118690 GGAA
131 GGAA
* * *
2118694 TAAATGG-AAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGGATAAATGGTAA
1 T-AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAA
2118748 ATTTATTGAT
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
133 124 0.73
134 47 0.27
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (134 bp):
TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTAC
GGAA
Found at i:2123165 original size:26 final size:28
Alignment explanation
Indices: 2123125--2123197 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 28
2123115 TCATTTTTTT
*
2123125 TTATTTTTTC-GTTTTCAT-TC-TTTCA
1 TTATTTTTTCTTTTTTCATCTCATTTCA
2123150 TT-TTTTTTCATTTTTT--TCTCATTTCA
1 TTATTTTTTC-TTTTTTCATCTCATTTCA
2123176 TTCATTTTTTCTTTTTTCATCT
1 TT-ATTTTTTCTTTTTTCATCT
2123198 TCAAGAGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
24 8 0.21
25 4 0.10
26 11 0.28
27 6 0.15
28 7 0.18
29 3 0.08
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.71
Consensus pattern (28 bp):
TTATTTTTTCTTTTTTCATCTCATTTCA
Found at i:2125281 original size:1 final size:1
Alignment explanation
Indices: 2125277--2125367 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
2125267 TTATTTATTC
** ** * * * * * * *
2125277 TTTTTTTTTCCTTTTTTCCTTTTTTTTCTTTTCTTTTCTTTTCTTTCTTTTTTTTCTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2125342 TTTTTTCTTTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
2125368 GCTTCTTATT
Statistics
Matches: 66, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:2125291 original size:7 final size:8
Alignment explanation
Indices: 2125280--2125367 Score: 64
Period size: 8 Copynumber: 11.6 Consensus size: 8
2125270 TTTATTCTTT
2125280 TTTTTTCC
1 TTTTTTCC
2125288 TTTTTTCC
1 TTTTTTCC
2125296 TTTTTT--
1 TTTTTTCC
2125302 TTCTTTT-C
1 TT-TTTTCC
2125310 TTTTCTT--
1 TTTT-TTCC
* *
2125317 TTCTTTCT
1 TTTTTTCC
*
2125325 TTTTTTTC
1 TTTTTTCC
*
2125333 TTTTTTCT
1 TTTTTTCC
*
2125341 TTTTTTTC
1 TTTTTTCC
2125349 TTTTTT-C
1 TTTTTTCC
2125356 TTTTTT-C
1 TTTTTTCC
2125363 TTTTT
1 TTTTT
2125368 GCTTCTTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
6 4 0.06
7 22 0.33
8 41 0.61
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCC
Found at i:2125299 original size:16 final size:15
Alignment explanation
Indices: 2125280--2125367 Score: 76
Period size: 16 Copynumber: 5.8 Consensus size: 15
2125270 TTTATTCTTT
2125280 TTTTTTCCTTTTTTCC
1 TTTTTT-CTTTTTTCC
2125296 TTTTTT-TTCTTTT-C
1 TTTTTTCTT-TTTTCC
* *
2125310 TTTTCTT-TTCTTTCTT
1 TTTT-TTCTTTTTTC-C
*
2125326 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTTC-C
2125342 TTTTTTCTTTTTT-C
1 TTTTTTCTTTTTTCC
2125356 TTTTTTCTTTTT
1 TTTTTTCTTTTT
2125368 GCTTCTTATT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
14 22 0.35
15 10 0.16
16 31 0.49
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTTCC
Found at i:2125308 original size:23 final size:21
Alignment explanation
Indices: 2125277--2125367 Score: 94
Period size: 23 Copynumber: 4.1 Consensus size: 21
2125267 TTATTTATTC
2125277 TTTTTTTTTCCTTTTTTCCTTT
1 TTTTTTTTTCCTTTTTT-CTTT
*
2125299 TTTTTCTTTTCTTTTCTTTTCTTT
1 TTTTT-TTTTC-CTT-TTTTCTTT
*
2125323 CTTTTTTTT-CTTTTTTCTTTT
1 TTTTTTTTTCCTTTTTTC-TTT
*
2125344 TTTTCTTTTTTCTTTTTTCTTT
1 TTTT-TTTTTCCTTTTTTCTTT
2125366 TT
1 TT
2125368 GCTTCTTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.08
21 8 0.14
22 15 0.25
23 17 0.29
24 10 0.17
25 4 0.07
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTTTCCTTTTTTCTTT
Found at i:2125361 original size:9 final size:9
Alignment explanation
Indices: 2125254--2125354 Score: 107
Period size: 9 Copynumber: 11.1 Consensus size: 9
2125244 CTTTTCAATC
*
2125254 TTTCTTATT
1 TTTCTTTTT
*
2125263 TTTATTATTT
1 TTTCTT-TTT
*
2125273 ATTCTTTTTT
1 TTTC-TTTTT
*
2125283 TTTCCTTTT
1 TTTCTTTTT
*
2125292 TTCCTTTTT
1 TTTCTTTTT
2125301 TTTCTTTTCT
1 TTTCTTTT-T
*
2125311 TTTCTTTTC
1 TTTCTTTTT
2125320 TTTCTTTTT
1 TTTCTTTTT
2125329 TTTC--TTT
1 TTTCTTTTT
2125336 TTTCTTTTT
1 TTTCTTTTT
2125345 TTTCTTTTT
1 TTTCTTTTT
2125354 T
1 T
2125355 CTTTTTTCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
7 7 0.09
9 48 0.63
10 19 0.25
11 2 0.03
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:2131059 original size:18 final size:18
Alignment explanation
Indices: 2131028--2131065 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2131018 AAAATGAACT
*
2131028 AAATGTAAACAACATGCAA
1 AAATGTAAAAAACATG-AA
2131047 AAAT-TAAAAAACATGAA
1 AAATGTAAAAAACATGAA
2131064 AA
1 AA
2131066 TAGGACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.16
Consensus pattern (18 bp):
AAATGTAAAAAACATGAA
Found at i:2131206 original size:10 final size:10
Alignment explanation
Indices: 2131191--2131220 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
2131181 ATAGGAGGAC
2131191 TAAATTAAAA
1 TAAATTAAAA
2131201 TAAATTAAAA
1 TAAATTAAAA
2131211 TAAATTAAAA
1 TAAATTAAAA
2131221 CTCTATGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:2132998 original size:3 final size:3
Alignment explanation
Indices: 2132992--2133042 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
2132982 AAAGTTATAT
*
2132992 TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
2133038 TAA TA
1 TAA TA
2133043 TTTGGGATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2134276 original size:20 final size:20
Alignment explanation
Indices: 2134253--2134309 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2134243 TTAGTTGTTT
2134253 TCTATTATTTTTATTATAAA
1 TCTATTATTTTTATTATAAA
*
2134273 TCTAATATTTTTA--ATAAA
1 TCTATTATTTTTATTATAAA
*
2134291 -CTATCATTTTTATT-TAAA
1 TCTATTATTTTTATTATAAA
2134309 T
1 T
2134310 TAATTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 10 0.32
18 9 0.29
20 12 0.39
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTATTATTTTTATTATAAA
Found at i:2134308 original size:18 final size:18
Alignment explanation
Indices: 2134253--2134321 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 18
2134243 TTAGTTGTTT
2134253 TCTATTATTTTTATTATAAA
1 TCTA-TATTTTTATT-TAAA
*
2134273 TCTAATATTTTTA-ATAAA
1 TCT-ATATTTTTATTTAAA
2134291 -CTATCATTTTTATTTAAA
1 TCTAT-ATTTTTATTTAAA
2134309 T-TA-ATTTATTATT
1 TCTATATTT-TTATT
2134322 GAAAATAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
16 6 0.14
17 14 0.33
18 10 0.24
20 11 0.26
21 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
TCTATATTTTTATTTAAA
Found at i:2136504 original size:32 final size:30
Alignment explanation
Indices: 2136441--2136538 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 30
2136431 ATAAGTGCCA
* * *
2136441 ACCTAAGGGATTATCTTGGAGCCTGAGAGCCT
1 ACCTAAGGGAGTA-CTTGG-GCCTAAAAGCCT
2136473 ACCTAAGGGAGTACCTTAGGGCCTAAAAGCCT
1 ACCTAAGGGAGTA-CTT-GGGCCTAAAAGCCT
* *
2136505 AACC-AAGGAAGTACTTGGGGCCTTAAAGCCT
1 -ACCTAAGGGAGTACTT-GGGCCTAAAAGCCT
2136536 ACC
1 ACC
2136539 CAAGAAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 3 0.05
31 16 0.28
32 33 0.58
33 5 0.09
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (30 bp):
ACCTAAGGGAGTACTTGGGCCTAAAAGCCT
Found at i:2136533 original size:31 final size:32
Alignment explanation
Indices: 2136468--2136542 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
2136458 GGAGCCTGAG
*
2136468 AGCCT-ACCTAAGGGAGTACCTTAGGGCCTAAA
1 AGCCTAACC-AAGGAAGTACCTTAGGGCCTAAA
* *
2136500 AGCCTAACCAAGGAAGTA-CTTGGGGCCTTAA
1 AGCCTAACCAAGGAAGTACCTTAGGGCCTAAA
*
2136531 AGCCTACCCAAG
1 AGCCTAACCAAG
2136543 AAAATTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 22 0.58
32 13 0.34
33 3 0.08
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (32 bp):
AGCCTAACCAAGGAAGTACCTTAGGGCCTAAA
Found at i:2139796 original size:7 final size:7
Alignment explanation
Indices: 2139773--2139807 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
2139763 TATGTACTCA
2139773 TTGAATTT
1 TTGAA-TT
2139781 TTAGAATT
1 TT-GAATT
2139789 TTGAATT
1 TTGAATT
2139796 TTGAATT
1 TTGAATT
2139803 TTGAA
1 TTGAA
2139808 CGTGAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 17 0.65
8 6 0.23
9 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (7 bp):
TTGAATT
Found at i:2142220 original size:78 final size:80
Alignment explanation
Indices: 2142075--2142220 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 80
2142065 TAGAAAAAAT
* **
2142075 AACATTTTAGGTAGCTCCCAATATTAACATTTCCGGTAGAAAAAATTAATGTTGTAGGTAATGCT
1 AACATTTTAGGTAGCGCCCAATATTAACATTTCCGGTAGAAAAAATTAATGTTGTAGGTAACACT
2142140 TTACCGAAAATGTTA
66 TTACCGAAAATGTTA
* * * * *
2142155 AACA-TTTAGGTAGCGCTCAATATTAATATTTTCGGTAGAAAAAA-TAATGTTTTAGGTAGCACT
1 AACATTTTAGGTAGCGCCCAATATTAACATTTCCGGTAGAAAAAATTAATGTTGTAGGTAACACT
2142218 TTA
66 TTA
2142221 TCGTATATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 18 0.31
79 36 0.62
80 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (80 bp):
AACATTTTAGGTAGCGCCCAATATTAACATTTCCGGTAGAAAAAATTAATGTTGTAGGTAACACT
TTACCGAAAATGTTA
Found at i:2149757 original size:12 final size:12
Alignment explanation
Indices: 2149740--2149767 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2149730 ATCTTCCCTT
2149740 GTTTTATGGCCA
1 GTTTTATGGCCA
2149752 GTTTTATGGCCA
1 GTTTTATGGCCA
2149764 GTTT
1 GTTT
2149768 GATCATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.46
Consensus pattern (12 bp):
GTTTTATGGCCA
Found at i:2154392 original size:7 final size:7
Alignment explanation
Indices: 2154350--2154406 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
2154340 AAGCAATGAG
2154350 AAAATAA
1 AAAATAA
2154357 AAAGATGAA
1 AAA-AT-AA
*
2154366 TAAATAA
1 AAAATAA
* *
2154373 AATATAC
1 AAAATAA
2154380 AAAATAA
1 AAAATAA
2154387 AAAATAA
1 AAAATAA
2154394 AAAATAA
1 AAAATAA
2154401 AAAATA
1 AAAATA
2154407 CATGTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
7 34 0.81
8 4 0.10
9 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:2154500 original size:36 final size:35
Alignment explanation
Indices: 2154460--2154531 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
2154450 GTAAGATAAT
* * *
2154460 AAAAATTTAGTAATATAAATAAATAAGTAAATAGGAA
1 AAAAATGTA-TAAAATAAATAAATAAATAAA-AGGAA
*
2154497 AAAAATGTATAAAATAAATAATTAAATAAAAGGAA
1 AAAAATGTATAAAATAAATAAATAAATAAAAGGAA
2154532 TATAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 5 0.16
36 18 0.58
37 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (35 bp):
AAAAATGTATAAAATAAATAAATAAATAAAAGGAA
Found at i:2168746 original size:78 final size:78
Alignment explanation
Indices: 2168633--2168819 Score: 213
Period size: 78 Copynumber: 2.4 Consensus size: 78
2168623 ATTTGAAAGC
* * * * * *
2168633 CGAAAATGTTATCAA-TCGCGTAAACAAATTCAGTTGCGGC-CAAAAATGTTATC-AGTCGCTAT
1 CGAAAATGTTAT-AATTTGCTTTAACAAATCCAGTTG-GGCTCAAAAATATTATCGA-TCACTA-
2168695 A-AAATTAGGTTGAGAT
62 AGAAATTAGGTTGAGAT
* *
2168711 CGAAAATGTTATAATTTGCTTTAACAAATCCAGTTGTGCTCAAGAATATTATCGATCACTAAGAA
1 CGAAAATGTTATAATTTGCTTTAACAAATCCAGTTGGGCTCAAAAATATTATCGATCACTAAGAA
2168776 ATTAGGTTGAGAT
66 ATTAGGTTGAGAT
*
2168789 CGAGAATGTTATAAGTTT-CTTTAACAAATCC
1 CGAAAATGTTATAA-TTTGCTTTAACAAATCC
2168820 GGTTTGGACT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 5 0.05
78 86 0.91
79 4 0.04
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (78 bp):
CGAAAATGTTATAATTTGCTTTAACAAATCCAGTTGGGCTCAAAAATATTATCGATCACTAAGAA
ATTAGGTTGAGAT
Found at i:2171464 original size:41 final size:41
Alignment explanation
Indices: 2171403--2171622 Score: 108
Period size: 41 Copynumber: 5.3 Consensus size: 41
2171393 AATGGTACAA
* * *
2171403 TTAGCGACGTTTATACACAAACGCCGCAAAAGAGTAGTACT
1 TTAGCGGCGTTTTTATACAAACGCCGCAAAAGAGTAGTACT
* * *
2171444 TTAGCGGCGTTTTTATACAAATGCCGC--AATAGTGGTCATCT
1 TTAGCGGCGTTTTTATACAAACGCCGCAAAAGAGTAGT-A-CT
* * * * * * *
2171485 ATAGTGGAG-TTTTATTCAACAAAAGCCACAAAAAAGTAATACT
1 TTAGCGGCGTTTTTA-T--ACAAACGCCGCAAAAGAGTAGTACT
** * * * * * *
2171528 TTAGCGGTATTTTTATATAAACACCGTAATAGGGTTAAT-CT
1 TTAGCGGCGTTTTTATACAAACGCCGCAAAAGAG-TAGTACT
* * * *
2171569 ATAGTGGCATTTTT-TCAACAAACGCCGCAATAGAGTAGTACT
1 TTAGCGGCGTTTTTAT--ACAAACGCCGCAAAAGAGTAGTACT
2171611 TTAGCGGCGTTT
1 TTAGCGGCGTTT
2171623 CTACTCAAGC
Statistics
Matches: 130, Mismatches: 37, Indels: 23
0.68 0.19 0.12
Matches are distributed among these distances:
39 7 0.05
40 7 0.05
41 58 0.45
42 29 0.22
43 17 0.13
44 6 0.05
45 6 0.05
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATACAAACGCCGCAAAAGAGTAGTACT
Found at i:2171642 original size:83 final size:83
Alignment explanation
Indices: 2171419--2171776 Score: 310
Period size: 83 Copynumber: 4.3 Consensus size: 83
2171409 ACGTTTATAC
* *
2171419 ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGCAATAGTGG-TCAT
1 ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAG-GGTTAAT
2171483 CTATAGTGG-AGTTTTATTCA
65 CTATAGTGGCA-TTTT-TTCA
* * * * ** * * *
2171503 ACAAAAGCCACAAAAAAGTAATACTTTAGCGGTATTTTTATATAAACACCGTAATAGGGTTAATC
1 ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGGTTAATC
2171568 TATAGTGGCATTTTTTCA
66 TATAGTGGCATTTTTTCA
* * * * *
2171586 ACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTCTACT-CAAGCGCTGCAATA-GTTATAA
1 ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTA-TACAAACGCCGCAATAGGGT-TAA
** *
2171649 TCTATAGTGGTGTTTTTTTTCT
64 TCTATAGT-G-GCATTTTTTCA
* * * * * * * * * * * * *
2171671 ACAAACGTCGCAACATAGTTGTACCTTAGAGGCGTTTTTACACAAATGTCGTAAAAGAGTTCATC
1 ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGGTTAATC
*
2171736 TATAGTGGCGTTTTTTCA
66 TATAGTGGCATTTTTTCA
* *
2171754 ACAAACGCCGCAATATAGTAGTA
1 ACAAACGCCGCAAAAGAGTAGTA
2171777 AAAATTTCAA
Statistics
Matches: 215, Mismatches: 51, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
82 2 0.01
83 86 0.40
84 66 0.31
85 60 0.28
86 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (83 bp):
ACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGGTTAATC
TATAGTGGCATTTTTTCA
Found at i:2173953 original size:133 final size:133
Alignment explanation
Indices: 2173794--2174059 Score: 532
Period size: 133 Copynumber: 2.0 Consensus size: 133
2173784 ACAAAAGAAA
2173794 AGCTGTGCTTCTGCTTAAATTTCTGTACGTCTCTGATTTTGTTAGTGGTAGTATTATTAATAATT
1 AGCTGTGCTTCTGCTTAAATTTCTGTACGTCTCTGATTTTGTTAGTGGTAGTATTATTAATAATT
2173859 TCAAACATTATATGTCATCCACCAACAGTGAATTTGGTCTCTGATAGTGTGATGCTCTACTTCTG
66 TCAAACATTATATGTCATCCACCAACAGTGAATTTGGTCTCTGATAGTGTGATGCTCTACTTCTG
2173924 TTC
131 TTC
2173927 AGCTGTGCTTCTGCTTAAATTTCTGTACGTCTCTGATTTTGTTAGTGGTAGTATTATTAATAATT
1 AGCTGTGCTTCTGCTTAAATTTCTGTACGTCTCTGATTTTGTTAGTGGTAGTATTATTAATAATT
2173992 TCAAACATTATATGTCATCCACCAACAGTGAATTTGGTCTCTGATAGTGTGATGCTCTACTTCTG
66 TCAAACATTATATGTCATCCACCAACAGTGAATTTGGTCTCTGATAGTGTGATGCTCTACTTCTG
2174057 TTC
131 TTC
2174060 GGAAACTTGA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (133 bp):
AGCTGTGCTTCTGCTTAAATTTCTGTACGTCTCTGATTTTGTTAGTGGTAGTATTATTAATAATT
TCAAACATTATATGTCATCCACCAACAGTGAATTTGGTCTCTGATAGTGTGATGCTCTACTTCTG
TTC
Found at i:2177457 original size:16 final size:16
Alignment explanation
Indices: 2177436--2177466 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2177426 ATAAATAAAT
2177436 GAACATAAACGAACAC
1 GAACATAAACGAACAC
2177452 GAACATAAACGAACA
1 GAACATAAACGAACA
2177467 ATTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:2177556 original size:16 final size:16
Alignment explanation
Indices: 2177535--2177599 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
2177525 TAATAAATAA
***
2177535 ACGAACATAAACGCGT
1 ACGAACATAAACGAAC
2177551 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
2177567 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
2177583 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
2177599 A
1 A
2177600 TAAACGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.55, C:0.23, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2177871 original size:12 final size:11
Alignment explanation
Indices: 2177830--2177881 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
2177820 TCGAGACTCG
* *
2177830 AGCTCAATTGA
1 AGCTCGATTCA
2177841 AGCTCGATTCA
1 AGCTCGATTCA
*
2177852 AACTCGATTCA
1 AGCTCGATTCA
2177863 GAGCTCGATTCA
1 -AGCTCGATTCA
2177875 AGCTCGA
1 AGCTCGA
2177882 CATTGCCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
11 26 0.72
12 10 0.28
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:2180432 original size:19 final size:18
Alignment explanation
Indices: 2180410--2180486 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
2180400 TATGAATCAG
*
2180410 AACTTATTTCCAGATTTAT
1 AACTTATTT-CAGATTCAT
*
2180429 AACTTATTTTCAGACTCAT
1 AACTTA-TTTCAGATTCAT
* *
2180448 AGCTTACTATCAGATTCAT
1 AACTTA-TTTCAGATTCAT
*
2180467 AACTTATCTTCAAATTCAT
1 AACTTAT-TTCAGATTCAT
2180486 A
1 A
2180487 GCCCAATCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 1 0.02
19 43 0.91
20 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (18 bp):
AACTTATTTCAGATTCAT
Found at i:2184494 original size:28 final size:28
Alignment explanation
Indices: 2184459--2184524 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
2184449 TTTTTGTTTT
2184459 TTTA-TTTATGTCCTTT-ATT-TTAGAAC
1 TTTATTTTATGTCCTTTGATTATT-GAAC
* *
2184485 TTTAATTTTA-GCCCTTTGATTATTGCAC
1 TTT-ATTTTATGTCCTTTGATTATTGAAC
2184513 TTTATTTTATGT
1 TTTATTTTATGT
2184525 TTATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (28 bp):
TTTATTTTATGTCCTTTGATTATTGAAC
Found at i:2187858 original size:6 final size:6
Alignment explanation
Indices: 2187847--2187887 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
2187837 TTAATCATGA
*
2187847 AAATTT AAATTT ATATTT AAATTT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATT
2187888 GATCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:2187976 original size:11 final size:13
Alignment explanation
Indices: 2187960--2188002 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
2187950 AATTAATGTT
2187960 AAAAT-AAATAA-
1 AAAATAAAATAAC
2187971 AAAATAAAATAAC
1 AAAATAAAATAAC
*
2187984 AAAATAATAATAAT
1 AAAATAA-AATAAC
2187998 AAAAT
1 AAAAT
2188003 CAATAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 5 0.18
12 6 0.21
13 7 0.25
14 10 0.36
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAATAAC
Found at i:2188007 original size:9 final size:8
Alignment explanation
Indices: 2187959--2188010 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
2187949 AAATTAATGT
2187959 TAAAATAAA
1 TAAAAT-AA
2187968 TAAAA-AA
1 TAAAATAA
2187975 TAAAATAA
1 TAAAATAA
*
2187983 CAAAATAA
1 TAAAATAA
2187991 T--AATAA
1 TAAAATAA
2187997 TAAAATCAA
1 TAAAAT-AA
2188006 TAAAA
1 TAAAA
2188011 AGTGTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 6 0.16
7 7 0.19
8 12 0.32
9 12 0.32
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (8 bp):
TAAAATAA
Found at i:2188733 original size:21 final size:20
Alignment explanation
Indices: 2188707--2188760 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
2188697 TTTATTACAT
*
2188707 TATATAATATATATGAAAATA
1 TATATAATATATATCAAAA-A
*
2188728 TATATAATA-ATTTCAAAAA
1 TATATAATATATATCAAAAA
2188747 TATATAATATATAT
1 TATATAATATATAT
2188761 AGTTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 10 0.34
21 9 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TATATAATATATATCAAAAA
Found at i:2188777 original size:28 final size:28
Alignment explanation
Indices: 2188724--2188858 Score: 95
Period size: 28 Copynumber: 4.8 Consensus size: 28
2188714 TATATATGAA
* * *
2188724 AATATATATAATAATTTCAAAA-ATATAT
1 AATATATATAGT-TTTTGAAAACATATAT
2188752 AATATATATAGTTTTTGAAAACATATA-
1 AATATATATAGTTTTTGAAAACATATAT
* *
2188779 ATATAGTTTTAAAATGATTTTTGAAAAC--ATAT
1 A-ATA--TAT-ATA-G-TTTTTGAAAACATATAT
2188811 -ATA-ATATAGTTTTTGAAAACATATAT
1 AATATATATAGTTTTTGAAAACATATAT
*
2188837 ATATATATATACTTTTT-AAAAC
1 A-ATATATATAGTTTTTGAAAAC
2188859 GGTTTTTGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 26
0.72 0.07 0.22
Matches are distributed among these distances:
24 11 0.13
25 1 0.01
26 6 0.07
27 9 0.10
28 27 0.31
29 10 0.12
30 5 0.06
31 5 0.06
32 1 0.01
33 11 0.13
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (28 bp):
AATATATATAGTTTTTGAAAACATATAT
Found at i:2188828 original size:24 final size:25
Alignment explanation
Indices: 2188796--2188843 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
2188786 TTTAAAATGA
2188796 TTTTTGAAAACATATATA-ATATAG
1 TTTTTGAAAACATATATATATATAG
2188820 TTTTTGAAAACATATATATATATA
1 TTTTTGAAAACATATATATATATA
2188844 TATACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTTTGAAAACATATATATATATAG
Found at i:2188899 original size:41 final size:41
Alignment explanation
Indices: 2188819--2188899 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
2188809 ATATAATATA
* *
2188819 GTTTTTGAAAACATATATATATATATATACTTTTTAAAACG
1 GTTTTTGAAAACATATATATATATATATAATTTTGAAAACG
2188860 GTTTTTGAAAACATATATA-ATATATATAATTTCTGAAAAC
1 GTTTTTGAAAACATATATATATATATATAATTT-TGAAAAC
2188900 CTATTGTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 12 0.32
41 25 0.68
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (41 bp):
GTTTTTGAAAACATATATATATATATATAATTTTGAAAACG
Found at i:2189966 original size:21 final size:21
Alignment explanation
Indices: 2189941--2189983 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2189931 AATTTGGGTT
* *
2189941 GAGAGGATTTTTGTAGTTGGG
1 GAGAGGATTTTTGGAGGTGGG
*
2189962 GAGAGGCTTTTTGGAGGTGGG
1 GAGAGGATTTTTGGAGGTGGG
2189983 G
1 G
2189984 TGTGAAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.49, T:0.33
Consensus pattern (21 bp):
GAGAGGATTTTTGGAGGTGGG
Found at i:2195752 original size:103 final size:103
Alignment explanation
Indices: 2195573--2195765 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 103
2195563 CACAGGATGG
*
2195573 CTCTACCTGACTAGCTCGGGGGAGGAAGGTATGCTCCCTTCACTTAGAGTGTGGGATGGTAGGTG
1 CTCTACCTGACTAGCTCGGGGGAGGAAGGTATGCTCCCTTCACCTAGAGTGTGGGATGGTAGGTG
*
2195638 TGATGGGCTGACTCACCTCGAAGTAGTGTTAAAAAAAA
66 TGATGAGCTGACTCACCTCGAAGTAGTGTTAAAAAAAA
* * * *
2195676 CTCTACTTGACTAGCTCGGGGGTGGAAGGTATGCTCCTTTTCACCTATAGTGTGGGATGGTA-GT
1 CTCTACCTGACTAGCTCGGGGGAGGAAGGTATGCTCC-CTTCACCTAGAGTGTGGGATGGTAGGT
* *
2195740 GTGATGAGCTGACTCTCCTTGAAGTA
65 GTGATGAGCTGACTCACCTCGAAGTA
2195766 TGAAAAACAA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 60 0.74
104 21 0.26
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (103 bp):
CTCTACCTGACTAGCTCGGGGGAGGAAGGTATGCTCCCTTCACCTAGAGTGTGGGATGGTAGGTG
TGATGAGCTGACTCACCTCGAAGTAGTGTTAAAAAAAA
Found at i:2207548 original size:18 final size:16
Alignment explanation
Indices: 2207520--2207564 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
2207510 GAAAGCTCTA
2207520 AATTATTTTTCAAAGATTC
1 AATT-TTTTTCAAA-A-TC
*
2207539 ATTTTTTTTCAAAATC
1 AATTTTTTTCAAAATC
2207555 AATTTTTTTC
1 AATTTTTTTC
2207565 TTTCAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.46
17 1 0.04
18 9 0.38
19 3 0.12
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (16 bp):
AATTTTTTTCAAAATC
Found at i:2207559 original size:17 final size:19
Alignment explanation
Indices: 2207520--2207563 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
2207510 GAAAGCTCTA
*
2207520 AATTATTTTTCAAAGATTC
1 AATTTTTTTTCAAAGATTC
2207539 -ATTTTTTTTCAAA-A-TC
1 AATTTTTTTTCAAAGATTC
2207555 AATTTTTTT
1 AATTTTTTT
2207564 CTTTCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 9 0.39
18 12 0.52
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTTTTTTCAAAGATTC
Found at i:2215690 original size:24 final size:24
Alignment explanation
Indices: 2215655--2215713 Score: 88
Period size: 22 Copynumber: 2.6 Consensus size: 24
2215645 ATATATAGTT
*
2215655 TTTTGAAAATATATA-G-TATAGC
1 TTTTGAAAACATATATGATATAGC
2215677 TTTTGAAAACATATATGATATAGC
1 TTTTGAAAACATATATGATATAGC
2215701 -TTTGAAAACATAT
1 TTTTGAAAACATAT
2215714 TTTTGAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 14 0.41
23 14 0.41
24 6 0.18
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (24 bp):
TTTTGAAAACATATATGATATAGC
Found at i:2215829 original size:19 final size:21
Alignment explanation
Indices: 2215786--2215840 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2215776 AGCGTATATA
* * *
2215786 ATATAAATAATTTTTTAAAAC
1 ATATATATAGTTTTTGAAAAC
2215807 ATAT-TATAGTTTTTGAAAA-
1 ATATATATAGTTTTTGAAAAC
2215826 ATATAATATAGTTTT
1 ATAT-ATATAGTTTT
2215841 AAATAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAC
Found at i:2215848 original size:21 final size:21
Alignment explanation
Indices: 2215797--2215851 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
2215787 TATAAATAAT
*
2215797 TTTTTAAAACATAT--TATAG
1 TTTTTAAAAAATATAATATAG
*
2215816 TTTTTGAAAAATATAATATAG
1 TTTTTAAAAAATATAATATAG
2215837 -TTTTAAATAAATATA
1 TTTTTAAA-AAATATA
2215852 GTGTACTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTTTAAAAAATATAATATAG
Found at i:2215871 original size:18 final size:17
Alignment explanation
Indices: 2215848--2215902 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
2215838 TTTAAATAAA
2215848 TATAGTGTACTTATTATT
1 TATA-TGTACTTATTATT
2215866 TATA-GTA-TTATTATTT
1 TATATGTACTTATTA-TT
*
2215882 TATATTTACTTCATTATT
1 TATATGTACTT-ATTATT
2215900 TAT
1 TAT
2215903 TTGTTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.19
16 9 0.28
17 2 0.06
18 11 0.34
19 4 0.12
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATGTACTTATTATT
Found at i:2216956 original size:5 final size:5
Alignment explanation
Indices: 2216946--2216977 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2216936 ATCCTTTTTG
2216946 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
2216978 CTTAACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:2232099 original size:14 final size:14
Alignment explanation
Indices: 2232065--2232098 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2232055 AAAATAAATT
2232065 ACATTTTCTGAAAA
1 ACATTTTCTGAAAA
*
2232079 ACATTTTCTTAAAA
1 ACATTTTCTGAAAA
2232093 AC-TTTT
1 ACATTTT
2232099 TACAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (14 bp):
ACATTTTCTGAAAA
Found at i:2232266 original size:19 final size:20
Alignment explanation
Indices: 2232229--2232267 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2232219 ATTTTTAAAA
2232229 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
*
2232249 TATTAAAAT-ATTTTTTTAT
1 TATTAAAATAATTTATTTAT
2232268 AATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:2232332 original size:31 final size:29
Alignment explanation
Indices: 2232264--2232333 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
2232254 AAATATTTTT
*
2232264 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
2232294 TGATATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
2232327 TTATATT
1 TTATATT
2232334 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:2232340 original size:33 final size:33
Alignment explanation
Indices: 2232277--2232340 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
2232267 TAATTTTATT
* *
2232277 AATAAAAATATTAATATTGATATATTTTATTGA
1 AATAAAAATATTAAAATTGATATATATTATTGA
2232310 AATAAAAATATTATAAATT-ATAT-TAATTATT
1 AATAAAAATATTA-AAATTGATATAT-ATTATT
2232341 TATTACAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 22 0.81
34 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
AATAAAAATATTAAAATTGATATATATTATTGA
Found at i:2232633 original size:24 final size:24
Alignment explanation
Indices: 2232600--2232664 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2232590 TTTATTGTAA
* *
2232600 TATTATAAATA-TAATATTATATAT
1 TATTAGAAATATTAATA-AATATAT
2232624 TATTAGAAATATTAATAAATATAT
1 TATTAGAAATATTAATAAATATAT
*
2232648 T-TTA-AATATTTTAATAA
1 TATTAGAA-ATATTAATAA
2232665 TTAATATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.06
23 12 0.33
24 17 0.47
25 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTAGAAATATTAATAAATATAT
Found at i:2232654 original size:21 final size:22
Alignment explanation
Indices: 2232599--2232657 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 22
2232589 TTTTATTGTA
* *
2232599 ATATTATAAATA-TAATATTAT
1 ATATTTTAAATATTAATATAAT
2232620 ATATTATTAGAAATATTAATA-AAT
1 ATATT-TT--AAATATTAATATAAT
2232644 ATATTTTAAATATT
1 ATATTTTAAATATT
2232658 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 2 0.06
24 12 0.38
25 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTTTAAATATTAATATAAT
Found at i:2248311 original size:21 final size:20
Alignment explanation
Indices: 2248260--2248311 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
2248250 ACCAAGAGTG
2248260 AGTATCAATACTAAAGGGTT
1 AGTATCAATACTAAAGGGTT
*
2248280 -GATATCAATACTAATGGGATT
1 AG-TATCAATACTAAAGGG-TT
*
2248301 AGTAACAATAC
1 AGTATCAATAC
2248312 CATCATACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 10 0.37
22 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
AGTATCAATACTAAAGGGTT
Found at i:2251771 original size:46 final size:46
Alignment explanation
Indices: 2251707--2251799 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
2251697 CAGTTGGTGC
* * ** *
2251707 TCAGGTTATTATTGCACTGAAGTGCATTGTATCGCAGTTTCAGTTA
1 TCAGGTTATGATTACACTGAAGTGCATCATATCGCAGATTCAGTTA
*
2251753 TCAGGTTATGATTACACTGAAGTGCATCATATCGCAGATTCATTTA
1 TCAGGTTATGATTACACTGAAGTGCATCATATCGCAGATTCAGTTA
2251799 T
1 T
2251800 GATTCGACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (46 bp):
TCAGGTTATGATTACACTGAAGTGCATCATATCGCAGATTCAGTTA
Found at i:2253686 original size:17 final size:18
Alignment explanation
Indices: 2253650--2253690 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2253640 TGATTTAGTC
*
2253650 TCCAAACTTGACCAAATT
1 TCCAAATTTGACCAAATT
*
2253668 TCCAAATTTGTCC-AATT
1 TCCAAATTTGACCAAATT
2253685 T-CAAAT
1 TCCAAAT
2253691 AATAACATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 5 0.24
17 5 0.24
18 11 0.52
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (18 bp):
TCCAAATTTGACCAAATT
Found at i:2260460 original size:54 final size:54
Alignment explanation
Indices: 2260378--2260650 Score: 393
Period size: 54 Copynumber: 5.1 Consensus size: 54
2260368 ATATGTGTAC
* * * **
2260378 TATAGGCACTAAGTGTGCAAACCACGAAATTCATAATGTGTTTATAAACAATTG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
*
2260432 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* *
2260486 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATGTGTTTATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* *
2260540 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTTTTTATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* ** * ** *
2260594 TATAGGCACTAAGTGTGCAGCCCGTGGAATTCATAACATGTCTATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
2260648 TAT
1 TAT
2260651 TAACATTGTG
Statistics
Matches: 201, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 201 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
Found at i:2260684 original size:108 final size:108
Alignment explanation
Indices: 2260378--2260685 Score: 323
Period size: 108 Copynumber: 2.9 Consensus size: 108
2260368 ATATGTGTAC
* * ** * * * ** *
2260378 TATAGGCACTAAGTGTGCAAACCACGAAATTCATAATGTGTTTATAAACAATTGTATAGGCACTA
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAACATGTCTATGAACGACCGTATAGACACTA
* * *
2260443 AGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGATCG
66 AGTGTGCAACCAAAGAAATTCATAATGTGTTTATGAACGACCG
** * * *
2260486 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATGTGTTTATGAATGACCGTATAGGCACTA
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAACATGTCTATGAACGACCGTATAGACACTA
* * * *
2260551 AGTGTGCAACCCACGAAATTCATAATGTTTTTATGAATGACCG
66 AGTGTGCAACCAAAGAAATTCATAATGTGTTTATGAACGACCG
* ** *
2260594 TATAGGCACTAAGTGTGCAGCCCGTGGAATTCATAACATGTCTATGAACGACCGTATTA-ACATT
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAACATGTCTATGAACGACCGTA-TAGACACT
** *
2260658 GTGTGTGCATCTCAAAGAAATT-ATAATG
65 AAGTGTGCAAC-CAAAGAAATTCATAATG
2260686 ATTTGAAAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
108 164 0.94
109 10 0.06
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (108 bp):
TATAGGCACTAAGTGTGCAACCCACGGAATTCATAACATGTCTATGAACGACCGTATAGACACTA
AGTGTGCAACCAAAGAAATTCATAATGTGTTTATGAACGACCG
Found at i:2265345 original size:54 final size:54
Alignment explanation
Indices: 2265057--2265329 Score: 393
Period size: 54 Copynumber: 5.1 Consensus size: 54
2265047 CTATGTGTAC
* * *
2265057 TATAGGCAGTAAGTGTGCAACCCACAAAATTCATAATGTGTTTATAAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* * *
2265111 TATAGGCACTAAGTATGCAACCAACGAAATTCATAATGTGTTTATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* * * * **
2265165 TATAGTCACTAAGTGTGCAACCCATGGAATTCATAGTGTGTTTATGAACGGTCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* * *
2265219 TATATGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTCATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
* *
2265273 TATAGGCACTAAGTGTGCAACCCATGAAATTCATAATATGTTTATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
2265327 TAT
1 TAT
2265330 CAACAATATG
Statistics
Matches: 190, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 190 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCG
Found at i:2267787 original size:21 final size:21
Alignment explanation
Indices: 2267763--2267809 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2267753 AAGGGAATAT
2267763 CAATACTACCTGAAATAAAAA
1 CAATACTACCTGAAATAAAAA
2267784 CAATACTACCTGAAATAAAAA
1 CAATACTACCTGAAATAAAAA
2267805 CAATA
1 CAATA
2267810 GTAAATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.19
Consensus pattern (21 bp):
CAATACTACCTGAAATAAAAA
Found at i:2277582 original size:8 final size:8
Alignment explanation
Indices: 2277555--2277592 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2277545 AAATTTAAAC
2277555 TATAAATA
1 TATAAATA
*
2277563 TATAGAAAA
1 TATA-AATA
2277572 TATAAATA
1 TATAAATA
2277580 TATAAATA
1 TATAAATA
2277588 T-TAAA
1 TATAAA
2277593 AGTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 4 0.15
8 16 0.59
9 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (8 bp):
TATAAATA
Found at i:2280477 original size:28 final size:28
Alignment explanation
Indices: 2280420--2280480 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
2280410 AAAATGATTG
* *
2280420 AAATA-CCCTTGAACTGTAAAATTACAA
1 AAATACCCCTTGAACTATAAAATAACAA
*
2280447 AAATACCCCTT-AACTATAAAATAACCTA
1 AAATACCCCTTGAACTATAAAATAA-CAA
2280475 AAATAC
1 AAATAC
2280481 ATCTAAGCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.25
Consensus pattern (28 bp):
AAATACCCCTTGAACTATAAAATAACAA
Found at i:2286347 original size:20 final size:21
Alignment explanation
Indices: 2286314--2286353 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2286304 TTGAGTCTAA
2286314 AACTTGTCATGATTTTAATTC
1 AACTTGTCATGATTTTAATTC
2286335 AACTTGT-ATGATTTTAATT
1 AACTTGTCATGATTTTAATT
2286354 TTGTTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
AACTTGTCATGATTTTAATTC
Found at i:2286714 original size:17 final size:17
Alignment explanation
Indices: 2286692--2286727 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2286682 TAAGCTAACA
2286692 TAAGTTTTTTTATCCAT
1 TAAGTTTTTTTATCCAT
2286709 TAAGTTTTTTTATCCAT
1 TAAGTTTTTTTATCCAT
2286726 TA
1 TA
2286728 GTGCTCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (17 bp):
TAAGTTTTTTTATCCAT
Found at i:2288841 original size:26 final size:27
Alignment explanation
Indices: 2288754--2288842 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
2288744 CTTTGAATAG
* *
2288754 TAAAATGACCAAAATACCCCTAAAG-TG
1 TAAAATGACCAAAATA-CCCTCAAGCTA
*
2288781 TAAAATGACTCAAAATA-CCTCCAAGCCA
1 TAAAATGAC-CAAAATACCCT-CAAGCTA
*
2288809 TATAATGACCAAAA-ACCCTCAAGCTA
1 TAAAATGACCAAAATACCCTCAAGCTA
2288835 TAAAATGA
1 TAAAATGA
2288843 ATAAATCAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
26 17 0.33
27 20 0.38
28 15 0.29
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.19
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTCAAGCTA
Found at i:2290954 original size:14 final size:14
Alignment explanation
Indices: 2290935--2290961 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2290925 ATTTTCATAT
2290935 ATAATTAATTTTTA
1 ATAATTAATTTTTA
2290949 ATAATTAATTTTT
1 ATAATTAATTTTT
2290962 GGTATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATAATTAATTTTTA
Found at i:2300084 original size:47 final size:47
Alignment explanation
Indices: 2300017--2300225 Score: 319
Period size: 47 Copynumber: 4.4 Consensus size: 47
2300007 AATATACCCT
* * * * *
2300017 TTTCAAGCATTTCCAATTATGGCATTCGTTTATGCCTTAATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
* * *
2300064 TTTCATGAATTTTAAATTATGGCATTCGTTCATGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
*
2300111 ATTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
*
2300158 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTTTGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
*
2300205 TTTCATTCATTTTCAATTATG
1 TTTCATGCATTTTCAATTATG
2300226 AAATTGATTT
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (47 bp):
TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
Found at i:2300115 original size:20 final size:20
Alignment explanation
Indices: 2300092--2300165 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
2300082 ATGGCATTCG
2300092 TTCATGCCTTTATGCATCCA
1 TTCATGCCTTTATGCATCCA
* *
2300112 TTCATGCATTTTCAATTATGGCATCCG
1 TTCATGC-----C-TTTAT-GCATCCA
*
2300139 TTCATGCCTTTATGCATCCT
1 TTCATGCCTTTATGCATCCA
2300159 TTCATGC
1 TTCATGC
2300166 ATTTTCAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
20 20 0.47
21 4 0.09
22 1 0.02
25 1 0.02
26 4 0.09
27 13 0.30
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (20 bp):
TTCATGCCTTTATGCATCCA
Found at i:2300136 original size:27 final size:26
Alignment explanation
Indices: 2300101--2300197 Score: 98
Period size: 27 Copynumber: 3.9 Consensus size: 26
2300091 GTTCATGCCT
*
2300101 TTATGCATCCATTCATGCATTTTCAA
1 TTATGCATCCGTTCATGCATTTTCAA
*
2300127 TTATGGCATCCGTTCATGC-----C-T
1 TTAT-GCATCCGTTCATGCATTTTCAA
*
2300148 TTATGCATCCTTTCATGCATTTTCAA
1 TTATGCATCCGTTCATGCATTTTCAA
*
2300174 TTATGGCATCCGTTCATGCCTTTT
1 TTAT-GCATCCGTTCATGCATTTT
2300198 TGCATCCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
20 13 0.23
21 4 0.07
22 1 0.02
25 1 0.02
26 8 0.14
27 30 0.53
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (26 bp):
TTATGCATCCGTTCATGCATTTTCAA
Found at i:2300204 original size:20 final size:20
Alignment explanation
Indices: 2300132--2300210 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
2300122 TTCAATTATG
*
2300132 GCATCCGTTCATGCCTTTAT
1 GCATCCGTTCATGCCTTTTT
* *
2300152 GCATCCTTTCATGCATTTTCAATTAT
1 GCATCCGTTCATGC--CTT---TT-T
2300178 GGCATCCGTTCATGCCTTTTT
1 -GCATCCGTTCATGCCTTTTT
*
2300199 GCATCCTTTCAT
1 GCATCCGTTCAT
2300211 TCATTTTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 24 0.52
21 1 0.02
22 4 0.09
25 3 0.07
26 1 0.02
27 13 0.28
ACGTcount: A:0.16, C:0.28, G:0.13, T:0.43
Consensus pattern (20 bp):
GCATCCGTTCATGCCTTTTT
Found at i:2300802 original size:95 final size:96
Alignment explanation
Indices: 2300636--2300839 Score: 209
Period size: 95 Copynumber: 2.1 Consensus size: 96
2300626 ACCCCTATTT
* * *
2300636 ATGGTATCGATA-CTATCCTGTTAGGGTATTGATACCCCCTTCATGTATCAATACCAAAATTAAC
1 ATGGTATCGATACCCATCATGTTAGGGTATTGATACCCCCTTCAGGTATCAATACCAAAATTAAC
* *
2300700 TTTGATGTAGCCTGGTATCAATACCCTCACC
66 TTCGATGTAGACTGGTATCAATACCCTCACC
* * * * *
2300731 ATGGTATCGATACCCAT-ATGTTATGGTATTGATACCTCC-TCTAGGTATCGATACCCAATTTAG
1 ATGGTATCGATACCCATCATGTTAGGGTATTGATACCCCCTTC-AGGTATCAATACCAAAATTA-
** * * * *
2300794 A-TTCGATGTTTATTGGTATCGATGCCCTTACC
64 ACTTCGATGTAGACTGGTATCAATACCCTCACC
*
2300826 ATAGTATCGATACC
1 ATGGTATCGATACC
2300840 AAATTACTTG
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
94 2 0.02
95 83 0.93
96 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (96 bp):
ATGGTATCGATACCCATCATGTTAGGGTATTGATACCCCCTTCAGGTATCAATACCAAAATTAAC
TTCGATGTAGACTGGTATCAATACCCTCACC
Found at i:2308975 original size:2 final size:2
Alignment explanation
Indices: 2308968--2309023 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
2308958 CCAGTTAATA
*
2308968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2309010 AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT
2309024 GCGTGTGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2311297 original size:29 final size:29
Alignment explanation
Indices: 2311265--2311320 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2311255 TTTTTAAGAT
2311265 TTTTAA-ATATTTAATTTAATAAATTAAAC
1 TTTTAATATA-TTAATTTAATAAATTAAAC
* *
2311294 TTTTAATATATTAATTTTATAATTTAA
1 TTTTAATATATTAATTTAATAAATTAA
2311321 TTATTTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTAATATATTAATTTAATAAATTAAAC
Found at i:2312745 original size:2 final size:2
Alignment explanation
Indices: 2312734--2312768 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2312724 GGATCTCTTT
2312734 TA TA -A 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
2312769 CAGACATGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2321491 original size:183 final size:185
Alignment explanation
Indices: 2321183--2321550 Score: 713
Period size: 183 Copynumber: 2.0 Consensus size: 185
2321173 TTGAAATTAA
2321183 TGTCGGGTTCCTTTGGAGCTAATCCATAATATTGTATTCACTGTGCTTCAAAAAATTCAGGAATT
1 TGTCGGGTTCCTTTGGAGCTAATCCATAATATTGTATTCACTGTGCTTCAAAAAATTCAGGAATT
2321248 CTTTAGCCTCCTAGGTGTGAACTGACTCATTCACCCTTTCCATAGGTTCATCTACCACTACAAAT
66 CTTTAGCCTCCTAGGTGTGAACTGACTCATTCACCCTTTCCATAGGTTCATCTACCACTACAAAT
*
2321313 TTTGTC-TTCCAGCTAGACCAGGGGCATAACATCTACCAGT-CTGGTGAAGCCCC
131 TTTGTCTTTCCAGCTAGACCAAGGGCATAACATCTACCAGTCCTGGTGAAGCCCC
2321366 TGTCGGGTTCCTTTGGAGCTAATCCATAATATTGTATTCACTGTGCTTCAAAAAATTCAGGAATT
1 TGTCGGGTTCCTTTGGAGCTAATCCATAATATTGTATTCACTGTGCTTCAAAAAATTCAGGAATT
2321431 CTTTAGCCTCCTAGGTGTGAACTGACTCATTCACCCTTTCCATAGGTTCATCTACCACTACAAAT
66 CTTTAGCCTCCTAGGTGTGAACTGACTCATTCACCCTTTCCATAGGTTCATCTACCACTACAAAT
2321496 TTTGTCTTTCCAGCTAGACCAAGGGCATAACATCTACCAGTCCTGGTGAAGCCCC
131 TTTGTCTTTCCAGCTAGACCAAGGGCATAACATCTACCAGTCCTGGTGAAGCCCC
2321551 CAACCTCATC
Statistics
Matches: 182, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
183 136 0.75
184 33 0.18
185 13 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (185 bp):
TGTCGGGTTCCTTTGGAGCTAATCCATAATATTGTATTCACTGTGCTTCAAAAAATTCAGGAATT
CTTTAGCCTCCTAGGTGTGAACTGACTCATTCACCCTTTCCATAGGTTCATCTACCACTACAAAT
TTTGTCTTTCCAGCTAGACCAAGGGCATAACATCTACCAGTCCTGGTGAAGCCCC
Found at i:2324507 original size:73 final size:73
Alignment explanation
Indices: 2324427--2324574 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
2324417 ATCTATTTTC
2324427 TATCACCTTCCTAGTATTCTCTCTTTTTCATTTTAGCTTCAAGTTTTTTGAGTTGGCACTTGTTC
1 TATCACCTTCCTAGTATTCTCTCTTTTTCATTTTAGCTTCAAGTTTTTTGAGTTGGCACTTGTTC
2324492 TCATCTTT
66 TCATCTTT
2324500 TATCACCTTCCTAGTATTCTCTCTTTTTCATTTTAGCTTCAAGTTTTTTGAGTTGGCACTTGTTC
1 TATCACCTTCCTAGTATTCTCTCTTTTTCATTTTAGCTTCAAGTTTTTTGAGTTGGCACTTGTTC
2324565 TCATCTTT
66 TCATCTTT
2324573 TA
1 TA
2324575 AAATTTTGAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.52
Consensus pattern (73 bp):
TATCACCTTCCTAGTATTCTCTCTTTTTCATTTTAGCTTCAAGTTTTTTGAGTTGGCACTTGTTC
TCATCTTT
Found at i:2327541 original size:137 final size:140
Alignment explanation
Indices: 2327320--2327596 Score: 533
Period size: 137 Copynumber: 2.0 Consensus size: 140
2327310 AAGAAAATAT
2327320 TTTTACGTAAATTATAATTTAATTTGAATTTAAGAAAATTTTATCTTATCAAAAATTTGATTTGA
1 TTTTACGTAAATTATAATTTAATTTGAATTTAAGAAAATTTTATCTTATCAAAAATTTGATTTGA
2327385 TGAAATAAAATTTATATCCACATATATAAATATATAATTCTTA-TTTA-TTTAT-AAATAATAAT
66 TGAAATAAAATTTATATCCACATATATAAATATATAATTCTTATTTTATTTTATAAAATAATAAT
2327447 TTAATCAAAA
131 TTAATCAAAA
2327457 TTTTACGTAAATTATAATTTAATTTGAATTTAAGAAAATTTTATCTTATCAAAAATTTGATTTGA
1 TTTTACGTAAATTATAATTTAATTTGAATTTAAGAAAATTTTATCTTATCAAAAATTTGATTTGA
2327522 TGAAATAAAATTTATATCCACATATATAAATATATAATTCTTATTTTATTTTATAAAATAATAAT
66 TGAAATAAAATTTATATCCACATATATAAATATATAATTCTTATTTTATTTTATAAAATAATAAT
2327587 TTAATCAAAA
131 TTAATCAAAA
2327597 AATGTATAGC
Statistics
Matches: 137, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
137 108 0.79
138 4 0.03
139 5 0.04
140 20 0.15
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (140 bp):
TTTTACGTAAATTATAATTTAATTTGAATTTAAGAAAATTTTATCTTATCAAAAATTTGATTTGA
TGAAATAAAATTTATATCCACATATATAAATATATAATTCTTATTTTATTTTATAAAATAATAAT
TTAATCAAAA
Found at i:2329494 original size:15 final size:14
Alignment explanation
Indices: 2329474--2329541 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 14
2329464 TGGACCTGAA
2329474 AATAAATAAATATAT
1 AATAAATAAATA-AT
*
2329489 AATAAATAAATAAA
1 AATAAATAAATAAT
*
2329503 AAT-TATAAAT-AT
1 AATAAATAAATAAT
2329515 AAT-AAT-AATAAT
1 AATAAATAAATAAT
2329527 AAT-AAT-AATAAT
1 AATAAATAAATAAT
2329539 AAT
1 AAT
2329542 GAAAAACTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 3 0.06
12 23 0.48
13 6 0.12
14 4 0.08
15 12 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATAAATAAT
Found at i:2329521 original size:3 final size:3
Alignment explanation
Indices: 2329482--2329541 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
2329472 AAAATAAATA
* *
2329482 AAT ATAT AAT AAAT AAAT AAA AAT TAT AA- ATAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT -AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
2329530 AAT AAT AAT AAT
1 AAT AAT AAT AAT
2329542 GAAAAACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 1 0.02
3 37 0.76
4 11 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.