Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 65 of 150
Found at i:19464600 original size:6 final size:6
Alignment explanation
Indices: 19464547--19464601 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
19464537 TTTTTCTTTT
* * * * *
19464547 TCTTCT TCTTCT TCTTCT TCTTCC TTTTCC TCTTTC TCTTCC TCTTCC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC
19464595 TCTTCC T
1 TCTTCC T
19464602 TAAGTGGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (6 bp):
TCTTCC
Found at i:19465427 original size:27 final size:27
Alignment explanation
Indices: 19465383--19465454 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
19465373 CACGACAAGT
* *
19465383 AAGAATAGCCTTTGTGGCGAACTCTGA
1 AAGAATAGCCTTTGTGGCAAACTCTAA
*
19465410 AAGAATAG-CTTGTTTGGCAAACTCTAA
1 AAGAATAGCCTT-TGTGGCAAACTCTAA
*
19465437 AAGGAAT-GCCTTGGTGGC
1 AA-GAATAGCCTTTGTGGC
19465455 GTACTCTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 27 0.73
28 7 0.19
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGCAAACTCTAA
Found at i:19469334 original size:6 final size:6
Alignment explanation
Indices: 19469323--19469355 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
19469313 AATTTTATGT
19469323 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
19469356 TTCATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:19484230 original size:26 final size:26
Alignment explanation
Indices: 19484169--19484231 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
19484159 TGGTTCTCTA
* * *
19484169 ACCAACTCAAACTCAAGGGTCCTTTG
1 ACCAACTTAAACTCAAGAGACCTTTG
*
19484195 ACCAATTTAAACTCAAGAGACCTTTG
1 ACCAACTTAAACTCAAGAGACCTTTG
19484221 ACCAACTTAAA
1 ACCAACTTAAA
19484232 TCGAAGGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (26 bp):
ACCAACTTAAACTCAAGAGACCTTTG
Found at i:19501794 original size:24 final size:24
Alignment explanation
Indices: 19501767--19501813 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19501757 TTTTTAATTT
* *
19501767 TTGTTTGGGTTTAGATAAATGATA
1 TTGTTTAGATTTAGATAAATGATA
*
19501791 TTGTTTAGATTTGGATAAATGAT
1 TTGTTTAGATTTAGATAAATGAT
19501814 TTTTGTTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (24 bp):
TTGTTTAGATTTAGATAAATGATA
Found at i:19501891 original size:23 final size:23
Alignment explanation
Indices: 19501859--19501942 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
19501849 AACTTTGTGT
19501859 TTGGGCTTGGTTGGGTTATATTA
1 TTGGGCTTGGTTGGGTTATATTA
* *** * * *
19501882 TTGGGTTTGGTATATATAACTTTGTGT
1 TTGGGCTTGGT-TGGGTTA-TAT-T-A
19501909 TTGGGCTTGGTTGGGTTATATTA
1 TTGGGCTTGGTTGGGTTATATTA
*
19501932 TTGGGTTTGGT
1 TTGGGCTTGGT
19501943 ATATATTATA
Statistics
Matches: 42, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
23 20 0.48
24 4 0.10
25 4 0.10
26 4 0.10
27 10 0.24
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.50
Consensus pattern (23 bp):
TTGGGCTTGGTTGGGTTATATTA
Found at i:19501893 original size:50 final size:50
Alignment explanation
Indices: 19501830--19501948 Score: 238
Period size: 50 Copynumber: 2.4 Consensus size: 50
19501820 TGGGTAAAAC
19501830 TATTGGGTTTGGTATATATAACTTTGTGTTTGGGCTTGGTTGGGTTATAT
1 TATTGGGTTTGGTATATATAACTTTGTGTTTGGGCTTGGTTGGGTTATAT
19501880 TATTGGGTTTGGTATATATAACTTTGTGTTTGGGCTTGGTTGGGTTATAT
1 TATTGGGTTTGGTATATATAACTTTGTGTTTGGGCTTGGTTGGGTTATAT
19501930 TATTGGGTTTGGTATATAT
1 TATTGGGTTTGGTATATAT
19501949 TATATTTATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.17, C:0.03, G:0.29, T:0.50
Consensus pattern (50 bp):
TATTGGGTTTGGTATATATAACTTTGTGTTTGGGCTTGGTTGGGTTATAT
Found at i:19501918 original size:27 final size:27
Alignment explanation
Indices: 19501832--19501919 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
19501822 GGTAAAACTA
*
19501832 TTGGGTTTGGTATATATAACTTTGTGT
1 TTGGGCTTGGTATATATAACTTTGTGT
*** * * *
19501859 TTGGGCTTGGT-TGGGTTA-TAT-T-A
1 TTGGGCTTGGTATATATAACTTTGTGT
*
19501882 TTGGGTTTGGTATATATAACTTTGTGT
1 TTGGGCTTGGTATATATAACTTTGTGT
19501909 TTGGGCTTGGT
1 TTGGGCTTGGT
19501920 TGGGTTATAT
Statistics
Matches: 42, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
23 10 0.24
24 4 0.10
25 4 0.10
26 4 0.10
27 20 0.48
ACGTcount: A:0.15, C:0.05, G:0.31, T:0.50
Consensus pattern (27 bp):
TTGGGCTTGGTATATATAACTTTGTGT
Found at i:19502279 original size:40 final size:40
Alignment explanation
Indices: 19502149--19502266 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
19502139 TTTATGACAA
* * * *
19502149 AAAAATGCCGCAAAAGGTTGAGCATTAGTGGTGCTTTTTG
1 AAAAATGCCGCCATAGATCGAGCATTAGTGGTGCTTTTTG
* * *
19502189 AAAAATGCCGCCATAGATCAAGCATTAGTAGCGCTTTTTG
1 AAAAATGCCGCCATAGATCGAGCATTAGTGGTGCTTTTTG
* *
19502229 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTT
1 AAAAATGCCGCCATAGATCGAGCATTAGTGGTGCTTTT
19502267 CAGAAAACGC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
AAAAATGCCGCCATAGATCGAGCATTAGTGGTGCTTTTTG
Found at i:19502433 original size:40 final size:40
Alignment explanation
Indices: 19502324--19502421 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
19502314 AGCTTTAGTG
19502324 GCATTAGCGGCGCTTTTTAAAAAACGCCG-TAATAGATCGA
1 GCATTAGCGGCGCTTTTT-AAAAACGCCGCTAATAGATCGA
* * * *
19502364 GCATTAGCTGCTCTATTTTCAAAATGCCGCT-ATAGATCGA
1 GCATTAGCGGCGCT-TTTTAAAAACGCCGCTAATAGATCGA
19502404 GCATTAGCGGCGCTTTTT
1 GCATTAGCGGCGCTTTTT
19502422 GGAAAAGGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.08
40 41 0.82
41 5 0.10
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAACGCCGCTAATAGATCGA
Found at i:19502450 original size:154 final size:152
Alignment explanation
Indices: 19502170--19502685 Score: 558
Period size: 151 Copynumber: 3.4 Consensus size: 152
19502160 AAAAGGTTGA
* * * * ** * *
19502170 GCATTAGTGGTGCTTTTTGAAAAATGCCGCCATAGATCAAGCATTAG-TAGCGCTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGTAATAGATCGAGCATTAGCT-GCGCTTTTT-CAAAA
* *
19502234 TGCCGCTATAGATCGAGCATTAGCGGTGCTTTTCAGAAAACGCCGCAAAAAAGTTGAGCAAAACA
64 TGCCGCTATAGATCGAGCATTAGCGGCGCTTTT-TGAAAACGCCGCAAAAAAGTTGAGCAAAACA
19502299 GGTCGTTTGTTGTTGAGCTTTAGTG
128 GGTCGTTTGTTGTTGAGCTTTAGTG
*
19502324 GCATTAGCGGCGCTTTTTAAAAAACGCCGTAATAGATCGAGCATTAGCTGCTCTATTTTCAAAAT
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGTAATAGATCGAGCATTAGCTGCGCT-TTTTCAAAAT
* *
19502389 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGGAAAAGGCCGCAAAAAAATTGAGCAAAAC-G
65 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTT-GAAAACGCCGCAAAAAAGTTGAGCAAAACAG
* *
19502453 ATAC---TGTTGTTAAGCTTTAGTG
129 GT-CGTTTGTTGTTGAGCTTTAGTG
* * * * * * *
19502475 GCATTAGTGGTGATTTTTAAAAAACTCCGTAATAGATCGAGAATTAGCGGCGC-TTGTCAAAAAA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGTAATAGATCGAGCATTAGCTGCGCTTTTTC--AAAA
* * * * * *
19502539 TGTCGTTATAGATCGAGCATTAGTGGCACTTTTTTAGAAACGTCGCAAAAAAGTTGAGCAAAACG
64 TGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA-AAACGCCGCAAAAAAGTTGAGCAAAAC-
* * *
19502604 ACGTTGTTTGTTTTTGAGCTTTAGTG
127 AGGTCGTTTGTTGTTGAGCTTTAGTG
* * * * * *
19502630 GCATTAGCGGCGCTTTTTAAAAAAATGTCGCAATAGATTGAGAATTAGCGGCGCTT
1 GCATTAGCGGCGCTTTTT-AAAAAACGCCGTAATAGATCGAGCATTAGCTGCGCTT
19502686 GTTGAAAAAC
Statistics
Matches: 304, Mismatches: 44, Indels: 25
0.82 0.12 0.07
Matches are distributed among these distances:
149 4 0.01
150 1 0.00
151 121 0.40
153 3 0.01
154 108 0.36
155 36 0.12
156 30 0.10
157 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (152 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGTAATAGATCGAGCATTAGCTGCGCTTTTTCAAAATG
CCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAACGCCGCAAAAAAGTTGAGCAAAACAGGT
CGTTTGTTGTTGAGCTTTAGTG
Found at i:19502736 original size:115 final size:115
Alignment explanation
Indices: 19502517--19502739 Score: 277
Period size: 116 Copynumber: 1.9 Consensus size: 115
19502507 TAGATCGAGA
* ** * * * * * *
19502517 ATTAGCGGCGCTTGTCAAAAAATGTCGTTATAGATCGAGCATTAGTGGCACTTTTTTAGAAACGT
1 ATTAGCGGCGCTTGTAAAAAAATGTCGCAATAGATCGAGAATTAGCGGCACTTGTTGAAAAACGC
* * * *
19502582 CGCAAAAAAGTTGAGCAAAACGACGTTGTTTGTTTTTGAGCTTTAGTGGC
66 CACAAAAAAGTTAAGCAAAACGACGTCGTTTGTTATTGAGCTTTAGTGGC
* * *
19502632 ATTAGCGGCGCTTTTTAAAAAAATGTCGCAATAGATTGAGAATTAGCGGCGCTTGTTGAAAAACG
1 ATTAGCGGCGC-TTGTAAAAAAATGTCGCAATAGATCGAGAATTAGCGGCACTTGTTGAAAAACG
*
19502697 CCACAAAAAAGTTAAG-AAAATGACGTCGTTTGTTATTGAGCTT
65 CCACAAAAAAGTTAAGCAAAACGACGTCGTTTGTTATTGAGCTT
19502740 AAAAACGTCG
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
115 35 0.39
116 55 0.61
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (115 bp):
ATTAGCGGCGCTTGTAAAAAAATGTCGCAATAGATCGAGAATTAGCGGCACTTGTTGAAAAACGC
CACAAAAAAGTTAAGCAAAACGACGTCGTTTGTTATTGAGCTTTAGTGGC
Found at i:19502904 original size:21 final size:21
Alignment explanation
Indices: 19502864--19502904 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19502854 TAGAGTTTTT
* *
19502864 AGTTTAGGGTTTATGATTTAG
1 AGTTTAAGGTTTAGGATTTAG
*
19502885 AGTTTAAGGTTTAGGGTTTA
1 AGTTTAAGGTTTAGGATTTA
19502905 TTATTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
AGTTTAAGGTTTAGGATTTAG
Found at i:19503094 original size:7 final size:7
Alignment explanation
Indices: 19503066--19503117 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
19503056 TTGTAATATA
*
19503066 TTTAGGA
1 TTTAGGG
19503073 TTTAGGG
1 TTTAGGG
*
19503080 TGTA-GG
1 TTTAGGG
*
19503086 TTTATGG
1 TTTAGGG
*
19503093 TTTGGGG
1 TTTAGGG
*
19503100 TTTAAGG
1 TTTAGGG
19503107 TTTAGGG
1 TTTAGGG
19503114 TTTA
1 TTTA
19503118 TGATTTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:19503101 original size:14 final size:14
Alignment explanation
Indices: 19503066--19503124 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
19503056 TTGTAATATA
* *
19503066 TTTAGGATTTAGGG
1 TTTAGGGTTTATGG
*
19503080 TGTA-GGTTTATGG
1 TTTAGGGTTTATGG
* *
19503093 TTTGGGGTTTAAGG
1 TTTAGGGTTTATGG
*
19503107 TTTAGGGTTTATGA
1 TTTAGGGTTTATGG
19503121 TTTA
1 TTTA
19503125 ATATTAAGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 9 0.26
14 26 0.74
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:19503536 original size:40 final size:40
Alignment explanation
Indices: 19503481--19503558 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
19503471 GTTTTTAGTG
* *
19503481 GCATTAGCGGCGCTAGGTGAAAAACGCCGCAAAAGGTCGA
1 GCATTAGAGGCGCTAGGAGAAAAACGCCGCAAAAGGTCGA
*
19503521 GCATTAGAGGCGCTAGGAGAAAAACGCCTCAAAAGGTC
1 GCATTAGAGGCGCTAGGAGAAAAACGCCGCAAAAGGTC
19503559 ATTTTGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.31, T:0.13
Consensus pattern (40 bp):
GCATTAGAGGCGCTAGGAGAAAAACGCCGCAAAAGGTCGA
Found at i:19503731 original size:18 final size:18
Alignment explanation
Indices: 19503676--19503731 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
19503666 TCCCAACCCA
*
19503676 TCTGTTGCATCGCCTTCC
1 TCTGTTGCATCGCCCTCC
*
19503694 TATGTTGCATCGCCCTCC
1 TCTGTTGCATCGCCCTCC
*
19503712 TCTGATGCATCGCCCTCC
1 TCTGTTGCATCGCCCTCC
19503730 TC
1 TC
19503732 GACCCGACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (18 bp):
TCTGTTGCATCGCCCTCC
Found at i:19507317 original size:45 final size:45
Alignment explanation
Indices: 19507268--19507365 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
19507258 TAGTCAATGA
* * *
19507268 TACTCGGTGGAATTAACACATAGCAATCACCTTCATAATCAATAG
1 TACTCGGTGGAATTAACACACAGCAACCACATTCATAATCAATAG
* ** *
19507313 TACTCGGTGGAATTAGCATGCAGCAACCACATTCATAATCAATGG
1 TACTCGGTGGAATTAACACACAGCAACCACATTCATAATCAATAG
*
19507358 TACCCGGT
1 TACTCGGT
19507366 ACACGTAGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (45 bp):
TACTCGGTGGAATTAACACACAGCAACCACATTCATAATCAATAG
Found at i:19512890 original size:23 final size:23
Alignment explanation
Indices: 19512838--19512892 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
19512828 AAGTTAATTA
19512838 TTAATTT-ATGAATGTATATTTT
1 TTAATTTAATGAATGTATATTTT
* *
19512860 TAATATTTAATGCAAT-TTTATTTT
1 TTA-ATTTAATG-AATGTATATTTT
19512884 TTAATTTAA
1 TTAATTTAA
19512893 AAATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.37
24 12 0.44
25 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAATTTAATGAATGTATATTTT
Found at i:19513188 original size:20 final size:20
Alignment explanation
Indices: 19513152--19513189 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19513142 AAAGATAAAG
*
19513152 ATTAAGAACAGAGAAGAAGA
1 ATTAAGAACAGAAAAGAAGA
19513172 ATTACAGAA-AGAAAAGAA
1 ATTA-AGAACAGAAAAGAA
19513190 TGAGAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.11
Consensus pattern (20 bp):
ATTAAGAACAGAAAAGAAGA
Found at i:19518972 original size:43 final size:43
Alignment explanation
Indices: 19518922--19519146 Score: 319
Period size: 43 Copynumber: 5.3 Consensus size: 43
19518912 TTTTAGAAAT
*
19518922 AAACGCCGCTATAGATCATGACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
19518965 AAACGCCGCTATAGATCAGGAGCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
19519008 AAACGCCGCTATAGATCA-GAACCTTTAGTGGCGCTTTT-ACAC
1 AAACGCCGCTATAGATCATG-ACCTTTAGCGGCGCTTTTCCCAC
* * * * *
19519050 AAACGCCGCTATAGCTCAAGATCTTTAGCGACGCTTATCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
19519093 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
19519136 AAACGCCGCTA
1 AAACGCCGCTA
19519147 AAAACATATA
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
42 35 0.22
43 126 0.78
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:19519085 original size:85 final size:86
Alignment explanation
Indices: 19518922--19519146 Score: 337
Period size: 85 Copynumber: 2.6 Consensus size: 86
19518912 TTTTAGAAAT
* *
19518922 AAACGCCGCTATAGATCATGACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGATCAGGAG
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGAG
* *
19518987 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGACGCTTATCCCAC
* * *
19519008 AAACGCCGCTATAGATCA-GAACCTTTAGTGGCGCTTTT-ACACAAACGCCGCTATAGCTCAAGA
1 AAACGCCGCTATAGATCATG-ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGA
*
19519071 TCTTTAGCGACGCTTATCCCAC
65 GCTTTAGCGACGCTTATCCCAC
* *
19519093 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
19519147 AAAACATATA
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
85 75 0.60
86 49 0.40
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGAG
CTTTAGCGACGCTTATCCCAC
Found at i:19519182 original size:15 final size:17
Alignment explanation
Indices: 19519164--19519196 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
19519154 ATATTTAAAA
19519164 AAATAAT-TTT-TTTCT
1 AAATAATATTTATTTCT
19519179 AAATAATATTTATTTCT
1 AAATAATATTTATTTCT
19519196 A
1 A
19519197 TGATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATAATATTTATTTCT
Found at i:19519375 original size:9 final size:9
Alignment explanation
Indices: 19519361--19519386 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19519351 AATAAATATC
19519361 ATGCTTATA
1 ATGCTTATA
19519370 ATGCTTATA
1 ATGCTTATA
19519379 ATGCTTAT
1 ATGCTTAT
19519387 TGAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
ATGCTTATA
Found at i:19521954 original size:283 final size:285
Alignment explanation
Indices: 19521402--19522041 Score: 966
Period size: 283 Copynumber: 2.2 Consensus size: 285
19521392 TAAAGATATA
* *
19521402 ATAAAAGGTCTCAGACATCCAAGGAAGG-ATAAAAGCAGCACAAGCTCTCAAGCCCGACGAAAAG
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAAT-GAAGCAGCACAAGCTCTCAAGCCCGACGAAAGG
*
19521466 CGAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAA
65 CGAAAGCTCTCAGGCGGCCACTGCAAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAA
** *
19521531 CCCATACACATGAAATATATTATCATTTGACTCAATTTTATGAATATCGTTTATCAATGGAACTG
130 CCCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTG
* *
19521596 AAAAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAATTGGATTTTCAAGCGCAAATA
195 AAAAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATA
19521661 ATGAAAAACAAC-T-ATATACAAGTC
260 ATGAAAAACAACATCATATACAAGTC
*
19521685 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGACGAAAGGC
* ***
19521750 GAAAGCTCTTAGGCGGCCACTGCAAATGTTTTGAGAAACAAGCCTTTGGA-TTATCATCATAAAC
66 GAAAGCTCTCAGGCGGCCACTGCAAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
* * * *
19521814 CCATACACAACAAATATATTTTCCTTTGACTGAATTTTAAGAATATCGTTTATCAATTGAACTGA
131 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTGA
* * * * * *
19521879 AAAAAAAACGGGAAAAAATGTACAACTAGATTTCTGAGGAAGTGACTGGGTTTTCAAGCACAAAT
196 AAAAAAAA-GGG-AAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAAT
*
19521944 AATG-AAAACAACAATCATATAGAAGTC
259 AATGAAAAACAAC-ATCATATACAAGTC
* * *
19521971 ATAAAAGGTCTCAGACATCCAAGGAAGAAAGGAAGCAGCACAAGCTCTCAAGCCCGATGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGACGAAAGGC
19522036 GAAAGC
66 GAAAGC
19522042 CCAAAAATAA
Statistics
Matches: 323, Mismatches: 28, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
282 80 0.25
283 115 0.36
284 50 0.15
285 1 0.00
286 77 0.24
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (285 bp):
ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGACGAAAGGC
GAAAGCTCTCAGGCGGCCACTGCAAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTGA
AAAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAA
TGAAAAACAACATCATATACAAGTC
Found at i:19522644 original size:25 final size:23
Alignment explanation
Indices: 19522616--19522661 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
19522606 CGCTATTGCT
19522616 TATGCAAAAAATTATTTCATTTTAC
1 TATGCAAAAAATT-TTT-ATTTTAC
*
19522641 TATGCTAAAAATTTTTATTTT
1 TATGCAAAAAATTTTTATTTT
19522662 GTTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (23 bp):
TATGCAAAAAATTTTTATTTTAC
Found at i:19523541 original size:21 final size:22
Alignment explanation
Indices: 19523500--19523551 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
19523490 GACCCCGAAT
*
19523500 CTCTAAACCCTAAATCCCTAA-
1 CTCTAAACCCCAAATCCCTAAC
*
19523521 CTCTTAACCCCAAA-CCACTAAC
1 CTCTAAACCCCAAATCC-CTAAC
19523543 CTCTAAACC
1 CTCTAAACC
19523552 TTATTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (22 bp):
CTCTAAACCCCAAATCCCTAAC
Found at i:19523648 original size:89 final size:89
Alignment explanation
Indices: 19523533--19523695 Score: 254
Period size: 89 Copynumber: 1.8 Consensus size: 89
19523523 CTTAACCCCA
* * **
19523533 AACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATTATAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
19523598 ACCCTAACCCGACCCCAAATCCTT
66 ACCCTAACCCGACCCCAAATCCTT
* * * *
19523622 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
19523687 ACCCTAACC
66 ACCCTAACC
19523696 TAACACTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.27
Consensus pattern (89 bp):
AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCGACCCCAAATCCTT
Found at i:19523718 original size:89 final size:89
Alignment explanation
Indices: 19523532--19523719 Score: 243
Period size: 89 Copynumber: 2.1 Consensus size: 89
19523522 TCTTAACCCC
* * **
19523532 AAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATTATA
1 AAACC-CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATA
* *
19523597 AACCCTAACCCGACCCCAAATCCTT
65 AACCCTAACCCAACACCAAATCCTT
* * * *
19523622 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAA
1 AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
* *
19523687 ACCCTAACCTAACACTAAAT-CTAT
66 ACCCTAACCCAACACCAAATCCT-T
19523711 AAACCCTAA
1 AAACCCTAA
19523720 ATCCCTAACT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 2 0.02
89 78 0.93
90 4 0.05
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (89 bp):
AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCAACACCAAATCCTT
Found at i:19523741 original size:14 final size:14
Alignment explanation
Indices: 19523712--19523790 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
19523702 TAAATCTATA
*
19523712 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
19523726 AACTCTTAATCTCT
1 AACCCTTAATCCCT
*
19523740 AACCCTTAACCCCT
1 AACCCTTAATCCCT
*
19523754 AACCCCTAA-CCCAT
1 AACCCTTAATCCC-T
* *
19523768 AAACCTTAAATCAC-
1 AACCCTT-AATCCCT
19523782 AACCCTTAA
1 AACCCTTAA
19523791 ATCAAAATCC
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
13 5 0.10
14 42 0.82
15 2 0.04
16 2 0.04
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:19524226 original size:41 final size:41
Alignment explanation
Indices: 19524177--19524456 Score: 452
Period size: 41 Copynumber: 6.8 Consensus size: 41
19524167 AAATGTTTTT
* *
19524177 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
19524218 GCGACGCTTTCTAAAAAACGCCGCTAAAGATATGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
19524259 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
19524300 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
**
19524341 GCGGCGCTTTCTCAAAAACGTTGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
19524382 GCGGCGCATTCTCAAAAGCGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
19524423 GCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCT
1 GCGGCGC-TTTCTCAAAAACGCCGCTAAAGATCT
19524457 AAAAGGTACA
Statistics
Matches: 221, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
41 199 0.90
42 22 0.10
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:19524575 original size:40 final size:39
Alignment explanation
Indices: 19524511--19524609 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 39
19524501 TTTTTCCAAA
* *
19524511 AAACGCCGCTAATGCT-AATTTTTAGCGGCGCTTTACTGG
1 AAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTAC-GG
* *
19524550 AAACGCCGCTAATGCTCGATCTTTAGCGGCGTTTTACGT
1 AAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTACGG
* *
19524589 AAGGCGCCGCTAATGCGCGAT
1 AA-ACGCCGCTAATGCTCGAT
19524610 TTTTTGTGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 19 0.37
40 33 0.63
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (39 bp):
AAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTACGG
Found at i:19524646 original size:12 final size:12
Alignment explanation
Indices: 19524631--19524656 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19524621 TTTTTTGTCC
19524631 AAACGCCGCTAA
1 AAACGCCGCTAA
19524643 AAACGCCGCTAA
1 AAACGCCGCTAA
19524655 AA
1 AA
19524657 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:19525289 original size:17 final size:17
Alignment explanation
Indices: 19525243--19525290 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
19525233 AGAGTTGAAT
19525243 TAAAA-CAAAATTT-TA
1 TAAAATCAAAATTTATA
*
19525258 T-ATAT-AAAA-TTATA
1 TAAAATCAAAATTTATA
19525272 TAAAATCAAAATTTATA
1 TAAAATCAAAATTTATA
19525289 TA
1 TA
19525291 TATAATTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 2 0.08
14 9 0.35
15 4 0.15
16 4 0.15
17 7 0.27
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATCAAAATTTATA
Found at i:19525314 original size:31 final size:29
Alignment explanation
Indices: 19525243--19525326 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
19525233 AGAGTTGAAT
* *
19525243 TAAAA-CAAAATTTTATATATAAAATTATA
1 TAAAATCAAAA-TTTATATATATAATTACA
19525272 TAAAATCAAAATTTATATATATAATTGCACA
1 TAAAATCAAAATTTATATATATAATT--ACA
* *
19525303 TTAAATTAAAA-TTA-ATATATAATT
1 TAAAATCAAAATTTATATATATAATT
19525327 TTGAAATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 29 0.60
30 8 0.17
31 11 0.23
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (29 bp):
TAAAATCAAAATTTATATATATAATTACA
Found at i:19526945 original size:26 final size:26
Alignment explanation
Indices: 19526909--19526958 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
19526899 TCTCATCCTC
19526909 ATTTTACCCCC-AGTAAAATTTTGAAT
1 ATTTTACCCCCGA-TAAAATTTTGAAT
19526935 ATTTTACCCCCGATAAAATTTTGA
1 ATTTTACCCCCGATAAAATTTTGA
19526959 GAAAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCCGATAAAATTTTGAAT
Found at i:19529311 original size:24 final size:24
Alignment explanation
Indices: 19529278--19529333 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
19529268 AATTACATAG
* *
19529278 AAATATTTAA-AATTATTATATATTA
1 AAATA-TTAACAATAATT-TATAATA
19529303 AAATATTAACAATAATTTATAATA
1 AAATATTAACAATAATTTATAATA
*
19529327 AATTATT
1 AAATATT
19529334 TTTTATATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATATTAACAATAATTTATAATA
Found at i:19529509 original size:13 final size:13
Alignment explanation
Indices: 19529493--19529526 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19529483 CAAAACTTCC
19529493 CAAAAGCACTTTT
1 CAAAAGCACTTTT
*
19529506 CAAAAGTACTTTT
1 CAAAAGCACTTTT
*
19529519 CAACAGCA
1 CAAAAGCA
19529527 ATACTAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (13 bp):
CAAAAGCACTTTT
Found at i:19536131 original size:21 final size:20
Alignment explanation
Indices: 19536105--19536146 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19536095 CCCCGATCTC
*
19536105 AACCACATAAACAAAGCACTT
1 AACCACAGAAACAAAG-ACTT
*
19536126 AACCACAGATACAAAGACTT
1 AACCACAGAAACAAAGACTT
19536146 A
1 A
19536147 GTTATTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.14
Consensus pattern (20 bp):
AACCACAGAAACAAAGACTT
Found at i:19542588 original size:57 final size:57
Alignment explanation
Indices: 19542500--19542617 Score: 202
Period size: 57 Copynumber: 2.1 Consensus size: 57
19542490 CAATTAATAG
19542500 AGAGTTCGACACAACAGACTGTAATGGTGGCC-AGTTCTTTAGGGTTTAGAATGAAGA
1 AGAGTTCGACACAACAGACTGTAATGGTGGCCGA-TTCTTTAGGGTTTAGAATGAAGA
* *
19542557 AGAGTTCGACGCATCAGACTGTAATGGTGGCCGATTCTTTAGGGTTTAGAATGAAGA
1 AGAGTTCGACACAACAGACTGTAATGGTGGCCGATTCTTTAGGGTTTAGAATGAAGA
19542614 AGAG
1 AGAG
19542618 AATGTTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 57 0.98
58 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (57 bp):
AGAGTTCGACACAACAGACTGTAATGGTGGCCGATTCTTTAGGGTTTAGAATGAAGA
Found at i:19546875 original size:23 final size:22
Alignment explanation
Indices: 19546849--19546893 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
19546839 AAAAAATCAC
**
19546849 GGAGGCAGCAAAAAGAAAAGAAA
1 GGAGGCAAAAAAAAG-AAAGAAA
*
19546872 GGAGGGAAAAAAAAGAAAGAAA
1 GGAGGCAAAAAAAAGAAAGAAA
19546894 AAGAAACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.04, G:0.31, T:0.00
Consensus pattern (22 bp):
GGAGGCAAAAAAAAGAAAGAAA
Found at i:19558063 original size:21 final size:24
Alignment explanation
Indices: 19558025--19558069 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
19558015 AAGGATAAAA
*
19558025 AATATTTACTTTTTTTGTT-TTTT
1 AATATTTACTTTTCTTGTTGTTTT
19558048 AATA-TTA-TTTTCTTGTTGTTTT
1 AATATTTACTTTTCTTGTTGTTTT
19558070 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (24 bp):
AATATTTACTTTTCTTGTTGTTTT
Found at i:19566609 original size:24 final size:21
Alignment explanation
Indices: 19566568--19566614 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 21
19566558 AATTGGGTAT
19566568 TAAATAAAAAAATATTAA-TA
1 TAAATAAAAAAATATTAAGTA
19566588 TAAATAATATAAAATATTTTAAGTA
1 TAAATAA-A-AAAATA--TTAAGTA
19566613 TA
1 TA
19566615 GTAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 6 0.27
24 4 0.18
25 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATAAAAAAATATTAAGTA
Found at i:19568132 original size:24 final size:24
Alignment explanation
Indices: 19568104--19568151 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19568094 TTTGGTTATA
19568104 TAATTTAATCATCTTTAAAATCCT
1 TAATTTAATCATCTTTAAAATCCT
19568128 TAATTTAATCATCTTTAAAATCCT
1 TAATTTAATCATCTTTAAAATCCT
19568152 CAATCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (24 bp):
TAATTTAATCATCTTTAAAATCCT
Found at i:19573384 original size:30 final size:31
Alignment explanation
Indices: 19573328--19573385 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19573318 CTTAACAACC
*
19573328 CAGTGAATTCAATAAAAACTTTTGAATAGTT
1 CAGTGAATTAAATAAAAACTTTTGAATAGTT
* *
19573359 CAGTGACTTAAATGAAAAC-TTTGAATA
1 CAGTGAATTAAATAAAAACTTTTGAATA
19573386 ATGTAGTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (31 bp):
CAGTGAATTAAATAAAAACTTTTGAATAGTT
Found at i:19575018 original size:50 final size:50
Alignment explanation
Indices: 19574907--19575204 Score: 269
Period size: 50 Copynumber: 5.9 Consensus size: 50
19574897 CATTTGGGTA
*
19574907 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAGA-C
* *
19574961 ATGAGAGGTCTCATGTAAGACCATGTTTGGGACATGGCATTGGCACTGAGAC
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAC
* * * *
19575013 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAC
* ** * * * * *
19575063 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAC
* ** * * * * * *
19575113 GAGAACTTCCATGTAAGACCATATCTGGGATATGACATTGGCAGTACATGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACT-GA-GAC
* *
19575164 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19575205 TGTTACTATC
Statistics
Matches: 206, Mismatches: 34, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
49 32 0.16
50 122 0.59
51 3 0.01
52 3 0.01
53 5 0.02
54 2 0.01
56 39 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAC
Found at i:19578814 original size:27 final size:27
Alignment explanation
Indices: 19578776--19579032 Score: 232
Period size: 27 Copynumber: 9.6 Consensus size: 27
19578766 ATACGATTCG
** *
19578776 TGGG-AAAATTACTAAAATACCCTCGT
1 TGGGTAAAATTACCGAAATACCCTCGA
*
19578802 TGGGTAAAATTACCGAAATACTCTCGA
1 TGGGTAAAATTACCGAAATACCCTCGA
* *
19578829 TGGGTAAAATTACCAAAATATCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCGA
* * *
19578856 AGGATAAAATTATCGAAATACCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCGA
* *
19578883 TGGGTAAAATTACCAAAATACCCTCAA
1 TGGGTAAAATTACCGAAATACCCTCGA
* * ** *
19578910 AGGGTCAAATTACAAAAATA-CCTCTAA
1 TGGGTAAAATTACCGAAATACCCTC-GA
* * **
19578937 AGGGTAAAATTACTGAAATACCCTTAA
1 TGGGTAAAATTACCGAAATACCCTCGA
** *
19578964 TGAATAAAATTACCGAAATACCCTTGA
1 TGGGTAAAATTACCGAAATACCCTCGA
* *
19578991 AGGGTAAAATTACTGAAATACCC-CTGA
1 TGGGTAAAATTACCGAAATACCCTC-GA
* *
19579018 AGGGTAAAATGACCG
1 TGGGTAAAATTACCG
19579033 TTATACCCCT
Statistics
Matches: 191, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.04
27 180 0.94
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (27 bp):
TGGGTAAAATTACCGAAATACCCTCGA
Found at i:19578878 original size:81 final size:81
Alignment explanation
Indices: 19578780--19579027 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 81
19578770 GATTCGTGGG
* * * * *
19578780 AAAATTACTAAAATACCCTCGTTGGGTAAAATTACCGAAATACTCTCGATGGGTAAAATTACCAA
1 AAAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACAAA
*
19578845 AATATCCTC-GAAGGAT
66 AATA-CCTCTAAAGGAT
* * *
19578861 AAAATTA-TCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCAAAGGGTCAAATTACAA
1 AAAATTACT-GAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACAA
*
19578925 AAATACCTCTAAAGGGT
65 AAATACCTCTAAAGGAT
** ** * **
19578942 AAAATTACTGAAATACCCTTAATGAATAAAATTACCGAAATACCCTTGAAGGGTAAAATTACTGA
1 AAAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACAAA
* * *
19579007 AATACCCCTGAAGGGT
66 AATACCTCTAAAGGAT
19579023 AAAAT
1 AAAAT
19579028 GACCGTTATA
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
80 5 0.04
81 136 0.96
82 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACAAA
AATACCTCTAAAGGAT
Found at i:19579026 original size:54 final size:54
Alignment explanation
Indices: 19578780--19579032 Score: 260
Period size: 54 Copynumber: 4.7 Consensus size: 54
19578770 GATTCGTGGG
** * *
19578780 AAAATTACTAAAATACCCTCGTTGGGTAAAATTACCGAAATACTCTCGATGGGT
1 AAAATTACTAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGT
* * * * *
19578834 AAAATTACCAAAATATCCTCGAAGGATAAAATTATCGAAATACCCTCGATGGGT
1 AAAATTACTAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGT
* * * ** *
19578888 AAAATTACCAAAATACCCTCAAAGGGTCAAATTACAAAAATA-CCTCTAAAGGGT
1 AAAATTACTAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTC-GAAGGGT
* * ** *
19578942 AAAATTACTGAAATACCCT-TAATGAATAAAATTACCGAAATACCCTTGAAGGGT
1 AAAATTACTAAAATACCCTCGAA-GGGTAAAATTACCGAAATACCCTCGAAGGGT
* *
19578996 AAAATTACTGAAATACCC-CTGAAGGGTAAAATGACCG
1 AAAATTACTAAAATACCCTC-GAAGGGTAAAATTACCG
19579033 TTATACCCCT
Statistics
Matches: 164, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
53 6 0.04
54 153 0.93
55 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGT
Found at i:19579284 original size:26 final size:26
Alignment explanation
Indices: 19579229--19579324 Score: 120
Period size: 26 Copynumber: 3.7 Consensus size: 26
19579219 CAAATACCAT
* * * * *
19579229 TACTGGTAGCTTTACTGTAATATTGA
1 TACTGGCAGCTTTGCTGCATTACTGA
* *
19579255 TACTTGCAGCTTTGCTGCATTACTGT
1 TACTGGCAGCTTTGCTGCATTACTGA
*
19579281 TACTGGCAGCTTTGCTGCGTTACTGA
1 TACTGGCAGCTTTGCTGCATTACTGA
19579307 TACTGGCAGCTTTGCTGC
1 TACTGGCAGCTTTGCTGC
19579325 GATATTGGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCATTACTGA
Found at i:19579325 original size:26 final size:26
Alignment explanation
Indices: 19579252--19579325 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
19579242 ACTGTAATAT
* *
19579252 TGATACTTGCAGCTTTGCTGCATTAC
1 TGATACTGGCAGCTTTGCTGCGTTAC
*
19579278 TGTTACTGGCAGCTTTGCTGCGTTAC
1 TGATACTGGCAGCTTTGCTGCGTTAC
19579304 TGATACTGGCAGCTTTGCTGCG
1 TGATACTGGCAGCTTTGCTGCG
19579326 ATATTGGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATACTGGCAGCTTTGCTGCGTTAC
Found at i:19579501 original size:30 final size:29
Alignment explanation
Indices: 19579431--19579553 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 29
19579421 CTGCATTTGT
* *
19579431 ACTGATTACTGTTTTGGGATAAGGCC-CAC
1 ACTGA-TACTGTATTGGGCTAAGGCCACAC
*
19579460 ACTGTTACTGTATTGGGCTAAGGCCTACAC
1 ACTGATACTGTATTGGGCTAAGGCC-ACAC
* *
19579490 TCTGATACTGTATTGGGCTATGGCCCACAC
1 ACTGATACTGTATTGGGCTAAGG-CCACAC
* * * *
19579520 ACTGCTACTGTATAGGGCTTAGGCC-CAG
1 ACTGATACTGTATTGGGCTAAGGCCACAC
19579548 ACTGAT
1 ACTGAT
19579554 TCTGCATGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 25 0.32
29 6 0.08
30 45 0.58
31 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (29 bp):
ACTGATACTGTATTGGGCTAAGGCCACAC
Found at i:19579538 original size:60 final size:59
Alignment explanation
Indices: 19579432--19579544 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
19579422 TGCATTTGTA
* * *
19579432 CTGATTACTGTTTTGGGATAAGGCCCACACTGTTACTGTATTGGGCTAAGGCCTACACT
1 CTGATTACTGTATTGGGATAAGGCCCACACTGCTACTGTATAGGGCTAAGGCCTACACT
* * *
19579491 CTGA-TACTGTATTGGGCTATGGCCCACACACTGCTACTGTATAGGGCTTAGGCC
1 CTGATTACTGTATTGGGATAAGG-CC-CACACTGCTACTGTATAGGGCTAAGGCC
19579545 CAGACTGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 15 0.33
59 6 0.13
60 25 0.54
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (59 bp):
CTGATTACTGTATTGGGATAAGGCCCACACTGCTACTGTATAGGGCTAAGGCCTACACT
Found at i:19584649 original size:41 final size:39
Alignment explanation
Indices: 19584604--19584731 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
19584594 AAACAGGCTT
* *
19584604 TTAGCGGCG-TTTGGATAAAAAACGGCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT--AT-AAAAACGCCGCTAAAAATCAAGCA
** *
19584645 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAGGTCGAGCA
1 TTAGCGGCGC-TTTATAAAAACGCCGCTAAAAATCAAGCA
* *
19584685 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCGCTTTAT-AAAAACGCCGCTAAAAATCAAGCA
19584724 TTAGCGGC
1 TTAGCGGC
19584732 ATTTTTTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
39 16 0.22
40 44 0.59
41 11 0.15
43 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGCTTTATAAAAACGCCGCTAAAAATCAAGCA
Found at i:19584738 original size:39 final size:39
Alignment explanation
Indices: 19584622--19584755 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
19584612 GTTTGGATAA
* * * * *
19584622 AAAACGGCACTAAAAATCAAGCATTAGCGGCGCTTTTATA
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGC-ATTTTTTG
** * * *
19584662 AAAACGCCGCTAAAGGTCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGC-ATTTTTTG
19584702 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCATTTTTTG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCATTTTTTG
19584740 AAAAGCGCCGC-AAAAA
1 AAAA-CGCCGCTAAAAA
19584756 GCCTAAGCCG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
38 15 0.19
39 18 0.22
40 47 0.59
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCATTTTTTG
Found at i:19584857 original size:40 final size:41
Alignment explanation
Indices: 19584791--19585102 Score: 452
Period size: 41 Copynumber: 7.7 Consensus size: 41
19584781 TGAGTTTTTG
*
19584791 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** * *
19584832 GGGCCTTTAGC-GAATTTTTGAAAAAGTGCAGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
19584872 TGGCCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
19584913 GGGCCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
19584954 GGGCCTTTAGCGGCGTTTTTTG-AAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTC
*
19584995 CGGCCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
19585035 CGGCCTTTAGCGGCGTTCTTG-AAAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
19585075 TGGCCTTTAGCGGCGTTTTTGAAAAAGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGC
19585103 ACTACTAATA
Statistics
Matches: 247, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
40 117 0.47
41 124 0.50
42 6 0.02
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:19584907 original size:41 final size:40
Alignment explanation
Indices: 19584791--19585099 Score: 449
Period size: 40 Copynumber: 7.6 Consensus size: 40
19584781 TGAGTTTTTG
*
19584791 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTC
** * *
19584832 GGGCCTTTAGC-GAATTTTTGAAAAAGTGCAGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTC
* *
19584872 TGGCCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTC
*
19584913 GGGCCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTC
19584954 GGGCCTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTTGAAAAGCGCCGCTAATGCTC
*
19584995 CGGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
* * *
19585035 CGGCCTTTAGCGGCGTTCTTGAAAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
*
19585075 TGGCCTTTAGCGGCGTTTTTGAAAA
1 GGGCCTTTAGCGGCGTTTTTGAAAA
19585100 AGCACTACTA
Statistics
Matches: 246, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
40 123 0.50
41 115 0.47
42 8 0.03
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (40 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
Found at i:19585101 original size:81 final size:81
Alignment explanation
Indices: 19584792--19585102 Score: 455
Period size: 81 Copynumber: 3.8 Consensus size: 81
19584782 GAGTTTTTGG
* *
19584792 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTCGGGCCTTTAGC-GAATTTTTGAAAA
1 GGCCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTGAAAA
* * *
19584856 AGTGCAGCTAATGCTCT
65 AGCGCCGCTAATGCTCC
* *
19584873 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTCGGGCCTTTAGCGGCATTTTTGGAAA
1 GGCCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTGAAAA
*
19584938 AGCGCCGCTAATGCTCG
65 AGCGCCGCTAATGCTCC
* *
19584955 GGCCTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCCGGCCTTTAGCGGCGTTTTTG-AAA
1 GGCCTTTAGCGGCG-TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTGAAAA
19585019 AGCGCCGCTAATGCTCC
65 AGCGCCGCTAATGCTCC
* * * *
19585036 GGCCTTTAGCGGCGTTCTTGAAAAGCGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAA
1 GGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTGAAAAA
19585101 GC
66 GC
19585103 ACTACTAATA
Statistics
Matches: 214, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
80 45 0.21
81 87 0.41
82 74 0.35
83 8 0.04
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (81 bp):
GGCCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTGAAAAA
GCGCCGCTAATGCTCC
Found at i:19585754 original size:14 final size:15
Alignment explanation
Indices: 19585726--19585758 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19585716 AAGGTTTATA
19585726 GATTATGGAATTAGG
1 GATTATGGAATTAGG
19585741 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
19585755 GATT
1 GATT
19585759 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:19585980 original size:33 final size:33
Alignment explanation
Indices: 19585924--19585994 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
19585914 ATTAAATAAT
* *
19585924 GTTTAGGGGTTAGGGATTAAGGGTTAGGTTAGG
1 GTTTAGGGATTAGAGATTAAGGGTTAGGTTAGG
* *
19585957 GTTTAGGGATTAGAGATTTAGGGTTGGGTTAGG
1 GTTTAGGGATTAGAGATTAAGGGTTAGGTTAGG
19585990 GTTTA
1 GTTTA
19585995 AGATTTAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (33 bp):
GTTTAGGGATTAGAGATTAAGGGTTAGGTTAGG
Found at i:19585988 original size:26 final size:26
Alignment explanation
Indices: 19585930--19586002 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
19585920 TAATGTTTAG
**
19585930 GGGTTAGGGATTAAGGGTTA-GGTTA
1 GGGTTAGGGATTAAGATTTAGGGTTA
19585955 GGGTTTAGGGATTAGAGATTTAGGGTT-
1 GGG-TTAGGGATTA-AGATTTAGGGTTA
*
19585982 GGGTTAGGGTTTAAGATTTAG
1 GGGTTAGGGATTAAGATTTAG
19586003 ATTAATTAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 11 0.26
26 19 0.45
27 8 0.19
28 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (26 bp):
GGGTTAGGGATTAAGATTTAGGGTTA
Found at i:19586003 original size:33 final size:33
Alignment explanation
Indices: 19585924--19586007 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 33
19585914 ATTAAATAAT
* * *
19585924 GTTTAGGGGTTAGGGATTAAGGGTTAGGTTAGG
1 GTTTAGAGATTAGAGATTAAGGGTTAGGTTAGG
* * *
19585957 GTTTAGGGATTAGAGATTTAGGGTTGGGTTAGG
1 GTTTAGAGATTAGAGATTAAGGGTTAGGTTAGG
*
19585990 GTTTA-AGATT-TAGATTAA
1 GTTTAGAGATTAGAGATTAA
19586008 TTAGTGTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 6 0.14
32 4 0.09
33 34 0.77
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (33 bp):
GTTTAGAGATTAGAGATTAAGGGTTAGGTTAGG
Found at i:19586026 original size:115 final size:122
Alignment explanation
Indices: 19585868--19586165 Score: 362
Period size: 127 Copynumber: 2.5 Consensus size: 122
19585858 ATGGATTTAG
* * *
19585868 GGGTTAGGGGTT-AGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGG
1 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGG
* *
19585932 G-TTAG-GGATTAAGGG-TT-AGGTT-AG-G-GT-TTAGGGATTAGAGATTTAGGGTT
66 GATTAGTGG-TTAAGGGTTTGAGGTTAAGAGTGTATTAGGGATTAGAGATTCAGGGTC
* *
19585982 GGGTTAGGGTTTAAGATTTAGATTAATTAGTGTTTTTTATTTTATATATTAAATAAGGTTTAGGG
1 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGG
* * * *
19586047 GTACTTAGTGGTTAGGGGTTTGGGGTTAAGAGTTAGTGATTAGGGTTTAGAGATTCGGGGTC
66 G-A-TTAGTGGTTAAGGGTTTGAGGTTAAGAG-T-GT-ATTAGGGATTAGAGATTCAGGGTC
* *
19586109 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATACTAAATAAG
1 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAG
19586166 TTCTTATATA
Statistics
Matches: 155, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
114 11 0.07
115 49 0.32
118 10 0.06
119 4 0.03
120 4 0.03
121 2 0.01
122 1 0.01
125 2 0.01
127 72 0.46
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (122 bp):
GGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGG
GATTAGTGGTTAAGGGTTTGAGGTTAAGAGTGTATTAGGGATTAGAGATTCAGGGTC
Found at i:19591316 original size:43 final size:42
Alignment explanation
Indices: 19591269--19591518 Score: 283
Period size: 43 Copynumber: 5.9 Consensus size: 42
19591259 TTTGTAATAG
* *
19591269 AAGCGCCGCTAAAGGTCAT-AGTTTTTAGCGGTGTTTGTGTTAA
1 AAGCGCCGCTAAAGGTCATGA-TCTTTAGCGGCGTTTGTG-TAA
* * *
19591312 AAGCGCTGCTAAAGGTCATGATCTTTAGCGGCATTTTTGATAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG-TAA
** * * *
19591355 AAGCGCCGCTAAAGACCACGATCTTTAGCGACGTTTGTAGTAG
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGT-GTAA
* *
19591398 AAGCGCCGCTAAAGGCCGTGATCTTTAGCGGCGTTTGTGTAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGTAA
19591440 AAGCGCCGCTAAAGGTCATGA-CTTTTAGCGGCGTTT-TAGGTAA
1 AAGCGCCGCTAAAGGTCATGATC-TTTAGCGGCGTTTGT--GTAA
*
19591483 AAGCGCCGCTAAA-GTCCATGATCTTTAGCGGTGTTT
1 AAGCGCCGCTAAAGGT-CATGATCTTTAGCGGCGTTT
19591519 TTTCACATAA
Statistics
Matches: 178, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.01
42 37 0.21
43 136 0.76
44 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGTAA
Found at i:19591363 original size:86 final size:86
Alignment explanation
Indices: 19591254--19591513 Score: 314
Period size: 86 Copynumber: 3.0 Consensus size: 86
19591244 TCATTTATAA
* * *
19591254 CGGCATTTGTAATAGAAGCGCCGCTAAAGGTCAT-AGTTTTTAGCGGTGTTTGT-GTTAAAAGCG
1 CGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGA-TTTTTAGCGGCGTTTGTAG-TAAAAGCG
*
19591317 CTGCTAAAGGTCATGATCTTTAG
64 CCGCTAAAGGTCATGATCTTTAG
* ** * * * *
19591340 CGGCATTTTTGATAAAAGCGCCGCTAAAGACCACGATCTTTAGCGACGTTTGTAGTAGAAGCGCC
1 CGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGTAGTAAAAGCGCC
* *
19591405 GCTAAAGGCCGTGATCTTTAG
66 GCTAAAGGTCATGATCTTTAG
* *
19591426 CGGCGTTTGTG-TAAAAGCGCCGCTAAAGGTCATGACTTTTAGCGGCGTTT-TAGGTAAAAGCGC
1 CGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGTA-GTAAAAGCGC
19591489 CGCTAAA-GTCCATGATCTTTAG
65 CGCTAAAGGT-CATGATCTTTAG
19591511 CGG
1 CGG
19591514 TGTTTTTTCA
Statistics
Matches: 146, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.02
85 63 0.43
86 78 0.53
87 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (86 bp):
CGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGTAGTAAAAGCGCC
GCTAAAGGTCATGATCTTTAG
Found at i:19591488 original size:128 final size:129
Alignment explanation
Indices: 19591259--19591512 Score: 370
Period size: 128 Copynumber: 2.0 Consensus size: 129
19591249 TATAACGGCA
* * * *
19591259 TTTGTAATAGAAGCGCCGCTAAAGGTCATAGTTTTTAGCGGTGTTTGTGTTAAAAGCGCTGCTAA
1 TTTGTAATAGAAGCGCCGCTAAAGGCCATAGTCTTTAGCGGCGTTTGTGTTAAAAGCGCCGCTAA
*
19591324 AGGTCATGATCTTTAGCGGCATTTTTGATAAAAGCGCCGCTAAAGACCACGATCTTTAGCGACG
66 AGGTCATGATCTTTAGCGGCATTTTAGATAAAAGCGCCGCTAAAGACCACGATCTTTAGCGACG
* *
19591388 TTTGTAGTAGAAGCGCCGCTAAAGGCCGT-GATCTTTAGCGGCGTTTGTG-TAAAAGCGCCGCTA
1 TTTGTAATAGAAGCGCCGCTAAAGGCCATAG-TCTTTAGCGGCGTTTGTGTTAAAAGCGCCGCTA
* * * *
19591451 AAGGTCATGA-CTTTTAGCGGCGTTTTAGGTAAAAGCGCCGCTAAAGTCCATGATCTTTAGCG
65 AAGGTCATGATC-TTTAGCGGCATTTTAGATAAAAGCGCCGCTAAAGACCACGATCTTTAGCG
19591513 GTGTTTTTTC
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
127 1 0.01
128 69 0.62
129 42 0.38
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (129 bp):
TTTGTAATAGAAGCGCCGCTAAAGGCCATAGTCTTTAGCGGCGTTTGTGTTAAAAGCGCCGCTAA
AGGTCATGATCTTTAGCGGCATTTTAGATAAAAGCGCCGCTAAAGACCACGATCTTTAGCGACG
Found at i:19592329 original size:101 final size:101
Alignment explanation
Indices: 19592208--19592409 Score: 264
Period size: 101 Copynumber: 2.0 Consensus size: 101
19592198 ATAAAATGAT
* * * * * * *
19592208 GTTCAAATAAGTGGAGCAAAATATTCACTGTTGTAACAA-CCCTTACCTGATGCAAACAATAATT
1 GTTCAAATAAGGGGAACAAAATATGCACTATTGTAA-AACCCCTCACCCGATGCAAACAATAATC
* *
19592272 AATAATTCAATTAGGATCTCCTTACC-CTTACATTTGA
65 AAGAATTCAATTAGGATCTCCGTACCGC-TACATTTGA
* * *
19592309 GTTCAAATAAGGGGAACAAAATATGCACTATTGTAAAACCCCTCACCCGATGGAAAGAATAATCG
1 GTTCAAATAAGGGGAACAAAATATGCACTATTGTAAAACCCCTCACCCGATGCAAACAATAATCA
19592374 AGAATTCAATTAGGATCTCCGTACCGCTACATTTGA
66 AGAATTCAATTAGGATCTCCGTACCGCTACATTTGA
19592410 TAAGTTAATT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 2 0.02
101 84 0.97
102 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (101 bp):
GTTCAAATAAGGGGAACAAAATATGCACTATTGTAAAACCCCTCACCCGATGCAAACAATAATCA
AGAATTCAATTAGGATCTCCGTACCGCTACATTTGA
Found at i:19595826 original size:60 final size:60
Alignment explanation
Indices: 19595754--19595872 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
19595744 AATCAAGTTT
* *
19595754 TAAAATCAATTCCTCTGTGTTTTGAAATGTGTAAAAAGTCAGAATAGAGATTTGGTATTA
1 TAAAATCAATTCCTCTGTGTTTTGAAATGTGTAAAAAATCAGAATAGAGATTTGATATTA
19595814 TAAAATCAATTCCTCTGTGTTTTGAAATGTGTAAAAAATCAGAATAGAGATTTGATATT
1 TAAAATCAATTCCTCTGTGTTTTGAAATGTGTAAAAAATCAGAATAGAGATTTGATATT
19595873 GATACCTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (60 bp):
TAAAATCAATTCCTCTGTGTTTTGAAATGTGTAAAAAATCAGAATAGAGATTTGATATTA
Found at i:19596091 original size:37 final size:37
Alignment explanation
Indices: 19596041--19596114 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
19596031 TATCCTAATG
19596041 TTAGTATCGATACCTACGGACCTAGTTTAAGAATTTT
1 TTAGTATCGATACCTACGGACCTAGTTTAAGAATTTT
19596078 TTAGTATCGATACCTACGGACCTAGTTTAAGAATTTT
1 TTAGTATCGATACCTACGGACCTAGTTTAAGAATTTT
19596115 GCTAAGTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (37 bp):
TTAGTATCGATACCTACGGACCTAGTTTAAGAATTTT
Found at i:19596462 original size:72 final size:72
Alignment explanation
Indices: 19596326--19596469 Score: 182
Period size: 72 Copynumber: 2.0 Consensus size: 72
19596316 GTCCAGGTTG
* * * * * *
19596326 GGTATGGGGTGTTACAGTATCGATATTTCTTTCATTCTGTATCGATACTGAATGGAAAATAAAAC
1 GGTATAGGGTGTTACAGTATCGATATTTCTTTCATTCTGTATCGAAAATAAATCGAAAACAAAAC
*
19596391 ACCATTC
66 AACATTC
* * *
19596398 GGTATAGGGTGTTACAGTATCGATATTTCTTTCATT-TGGTATGGAAAATAAATCGATACCAAAA
1 GGTATAGGGTGTTACAGTATCGATATTTCTTTCATTCT-GTATCGAAAATAAATCGAAAACAAAA
19596462 CAACATTC
65 CAACATTC
19596470 TGTTTCTCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
71 1 0.02
72 60 0.98
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (72 bp):
GGTATAGGGTGTTACAGTATCGATATTTCTTTCATTCTGTATCGAAAATAAATCGAAAACAAAAC
AACATTC
Found at i:19602661 original size:18 final size:18
Alignment explanation
Indices: 19602638--19602699 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
19602628 TGGGTATTAC
19602638 AATGATATTGAAATGGAA
1 AATGATATTGAAATGGAA
* *
19602656 AATGATATTGAAATAGCA
1 AATGATATTGAAATGGAA
19602674 AATGATATTGAAA-GGACA
1 AATGATATTGAAATGGA-A
19602692 AATGATAT
1 AATGATAT
19602700 AGAATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 1 0.03
18 38 0.97
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.27
Consensus pattern (18 bp):
AATGATATTGAAATGGAA
Found at i:19605486 original size:15 final size:15
Alignment explanation
Indices: 19605466--19605495 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19605456 AGTTTAGGAG
19605466 GAAAGATGAAAAAAT
1 GAAAGATGAAAAAAT
19605481 GAAAGATGAAAAAAT
1 GAAAGATGAAAAAAT
19605496 TTTCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAAGATGAAAAAAT
Found at i:19615994 original size:24 final size:24
Alignment explanation
Indices: 19615962--19616011 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19615952 AAATTACATC
19615962 TCTTTTAACATTTTCACAACTTAG
1 TCTTTTAACATTTTCACAACTTAG
19615986 TCTTTTAACATTTTCACAACTTAG
1 TCTTTTAACATTTTCACAACTTAG
19616010 TC
1 TC
19616012 CTTAAGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (24 bp):
TCTTTTAACATTTTCACAACTTAG
Found at i:19620559 original size:44 final size:44
Alignment explanation
Indices: 19620493--19620578 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
19620483 TAGGTCAAAT
*
19620493 AATATTAAAATAACTTACACTAATAAGAGTTTAAGTGAGAAACA
1 AATATTAAAATAACTTACACTAAAAAGAGTTTAAGTGAGAAACA
* *
19620537 AATATTAAAATAACTTATACTAAAAAGAGTTTAAGTGGGAAA
1 AATATTAAAATAACTTACACTAAAAAGAGTTTAAGTGAGAAA
19620579 GTTAAACCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (44 bp):
AATATTAAAATAACTTACACTAAAAAGAGTTTAAGTGAGAAACA
Found at i:19620829 original size:13 final size:13
Alignment explanation
Indices: 19620811--19620839 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19620801 TTGATTTCCA
19620811 CTAACACAGTGCC
1 CTAACACAGTGCC
19620824 CTAACACAGTGCC
1 CTAACACAGTGCC
19620837 CTA
1 CTA
19620840 CGCTGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.14, T:0.17
Consensus pattern (13 bp):
CTAACACAGTGCC
Found at i:19622968 original size:9 final size:9
Alignment explanation
Indices: 19622954--19622990 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
19622944 TATAGTTTGA
19622954 TATTCGAAT
1 TATTCGAAT
19622963 TATTCGAAT
1 TATTCGAAT
19622972 TATTC-AAGT
1 TATTCGAA-T
19622981 TATTCGAAT
1 TATTCGAAT
19622990 T
1 T
19622991 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19623060 original size:9 final size:9
Alignment explanation
Indices: 19623043--19623073 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19623033 TCGAGTTGAT
19623043 TCGAATAAC
1 TCGAATAAC
*
19623052 TCGATTAAC
1 TCGAATAAC
19623061 TCGAATAAC
1 TCGAATAAC
19623070 TCGA
1 TCGA
19623074 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19631952 original size:30 final size:30
Alignment explanation
Indices: 19631875--19631955 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
19631865 CCCATCCTCT
* *
19631875 TGAACACA-ATATCGAGTCTTTCCAAGCTCC
1 TGAACA-AGATATCGAGTCTTCCCAAGATCC
* ** * *
19631905 TTAATGAGAGATTGAGTCTTCCCAAGATCC
1 TGAACAAGATATCGAGTCTTCCCAAGATCC
19631935 TGAACAAGATATCGAGTCTTC
1 TGAACAAGATATCGAGTCTTC
19631956 TCATGTTCCT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (30 bp):
TGAACAAGATATCGAGTCTTCCCAAGATCC
Found at i:19641925 original size:20 final size:20
Alignment explanation
Indices: 19641894--19641945 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19641884 GAAAATCATT
*
19641894 TTAAAATGATTTTAACTAGA
1 TTAAAATCATTTTAACTAGA
* * * *
19641914 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTAGA
19641934 TTAAAATCATTT
1 TTAAAATCATTT
19641946 GCACTTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATCATTTTAACTAGA
Found at i:19649934 original size:20 final size:20
Alignment explanation
Indices: 19649903--19649964 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
19649893 GAAAATCATT
*
19649903 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* * *
19649923 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTGA
**
19649943 TTAAAATCATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
19649963 TT
1 TT
19649965 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:19657908 original size:27 final size:27
Alignment explanation
Indices: 19657878--19658009 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
19657868 TTTCATCTCC
** *
19657878 TAAGGGTATAACAGTTATTTTACCCTA
1 TAAGGGTATTTCAGTCATTTTACCCTA
19657905 TAAGGGTATTTC-GATCATTTTACCCTA
1 TAAGGGTATTTCAG-TCATTTTACCCTA
** *
19657932 TGGGGGTATTTCGGTCATTTTACCCTA
1 TAAGGGTATTTCAGTCATTTTACCCTA
* * *
19657959 TGAGGGTATTTTAGTCATTTTATCCTA
1 TAAGGGTATTTCAGTCATTTTACCCTA
* *
19657986 TAGGGGTATTTCGGTCATTTTACC
1 TAAGGGTATTTCAGTCATTTTACC
19658010 TATTTTGGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
TAAGGGTATTTCAGTCATTTTACCCTA
Found at i:19662230 original size:19 final size:19
Alignment explanation
Indices: 19662208--19662256 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
19662198 TACAACATAA
19662208 TCCACATTTTATTTTCCAT
1 TCCACATTTTATTTTCCAT
19662227 TCCAC-TTTTCA-TTTCCAT
1 TCCACATTTT-ATTTTCCAT
* *
19662245 TTCACATATTAT
1 TCCACATTTTAT
19662257 GTCATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (19 bp):
TCCACATTTTATTTTCCAT
Found at i:19667571 original size:307 final size:296
Alignment explanation
Indices: 19667001--19667579 Score: 858
Period size: 307 Copynumber: 1.9 Consensus size: 296
19666991 CTGAGTACCC
* *
19667001 CATCATTTACTAATATCTTAATCCTTTTAATGGACATGTGTCCTAATCTCATATGCCATAAAATA
1 CATCATTTACTAATATCTTAATCCTTTCAATGGACATATGTCCTAATCTCATATGCCATAAAATA
*
19667066 AAGGAATCTTCATTTATAACACAACGTTTAGTACCAGTTTGAACGTGCATAACATTATGAGTGGT
66 AAGGAATCTTCATTTATAACACAACGTTTAGTACCAGTTTGAACGTGCATAACATTATGAGTGAT
*
19667131 ATTATTTTTCAAATTAAGAGAATAAAGACCATCAGAACCAACAAGTTCAAATTTATAAAATAAAC
131 ATTATTTTTCAAATTAAGAGAATAAAGACCATCAGAACCAACAAGTTCAAATTTACAAAATAAAC
* * * *
19667196 TGAAACTAGTGTTTGAGAAACTAAATCAATACCGAAATGGTGCAAGTCTTGAAATAGAAACTAAA
196 TCAAACCAGTGTTTGAAAAACTAAAACAATACCGAAATGGTGCAAGTCTTGAAATAGAAACTAAA
*
19667261 TTTCTAGAAAAACTAAGAATATAAAAAAAATATTTT
261 TTTCTAAAAAAACTAAGAATATAAAAAAAATATTTT
* * * *
19667297 CATCATTTACTAATCTCTTAATCCTTTCAATGGAGATATTTCCTAATCTCCA-ATGCCATGAAAT
1 CATCATTTACTAATATCTTAATCCTTTCAATGGACATATGTCCTAATCT-CATATGCCATAAAAT
* * *
19667361 AGAGGAATCTTCATTTATAACACAATGTTTAGTA-TAGTTTGAACGTGCATAACATTATGAGTGA
65 AAAGGAATCTTCATTTATAACACAACGTTTAGTACCAGTTTGAACGTGCATAACATTATGAGTGA
*
19667425 TATTATTTTTCAAATTAAGAGAATAAAGACCATCAGAAAAAACACCATTTCCAACAAGTTCAGAT
130 TATTATTTTTCAAATTAAGAGAATAAAGACCATCAG-------A--A---CCAACAAGTTCAAAT
19667490 TTACAAAATAAACTCAAACCAGTGTTTGAAAAACTAAAACAATATCC-AAATGGTGCAAGTCTTG
183 TTACAAAATAAACTCAAACCAGTGTTTGAAAAACTAAAACAATA-CCGAAATGGTGCAAGTCTTG
19667554 AAATAGAAACTAAATTTCTAAAAAAA
247 AAATAGAAACTAAATTTCTAAAAAAA
19667580 GGGAATATAA
Statistics
Matches: 252, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
295 64 0.25
296 87 0.35
297 2 0.01
302 1 0.00
304 1 0.00
307 95 0.38
308 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (296 bp):
CATCATTTACTAATATCTTAATCCTTTCAATGGACATATGTCCTAATCTCATATGCCATAAAATA
AAGGAATCTTCATTTATAACACAACGTTTAGTACCAGTTTGAACGTGCATAACATTATGAGTGAT
ATTATTTTTCAAATTAAGAGAATAAAGACCATCAGAACCAACAAGTTCAAATTTACAAAATAAAC
TCAAACCAGTGTTTGAAAAACTAAAACAATACCGAAATGGTGCAAGTCTTGAAATAGAAACTAAA
TTTCTAAAAAAACTAAGAATATAAAAAAAATATTTT
Found at i:19670056 original size:17 final size:17
Alignment explanation
Indices: 19670034--19670066 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19670024 ATATGTTTTA
19670034 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
19670051 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
19670067 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:19671439 original size:17 final size:17
Alignment explanation
Indices: 19671417--19671449 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19671407 TTTTAGTATG
19671417 TATTT-ATAATTATTTAT
1 TATTTAATAA-TATTTAT
19671434 TATTTAATAATATTTA
1 TATTTAATAATATTTA
19671450 AACAAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTAATAATATTTAT
Found at i:19671828 original size:14 final size:14
Alignment explanation
Indices: 19671794--19671829 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19671784 ACAGGCTTTT
*
19671794 TTTTCTCTATTTAA
1 TTTTCTTTATTTAA
19671808 TTTTCTTTATTTAA
1 TTTTCTTTATTTAA
19671822 TTTTCTTT
1 TTTTCTTT
19671830 TGCAATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTATTTAA
Found at i:19675251 original size:62 final size:62
Alignment explanation
Indices: 19675154--19675283 Score: 251
Period size: 62 Copynumber: 2.1 Consensus size: 62
19675144 GTGTGGAAGA
19675154 CTAGGACATGGGGAGAATTTGTGTCCCTTACGCCTTTCCCTAGGGGTGCAAGATGAGTATGG
1 CTAGGACATGGGGAGAATTTGTGTCCCTTACGCCTTTCCCTAGGGGTGCAAGATGAGTATGG
19675216 CTAGGACATGGGGAGAATTTGTGTCCCTTACGCCTTTCCCTAGGGGTGCAAGATGAGTATGG
1 CTAGGACATGGGGAGAATTTGTGTCCCTTACGCCTTTCCCTAGGGGTGCAAGATGAGTATGG
*
19675278 TTAGGA
1 CTAGGA
19675284 TATTTCTCTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (62 bp):
CTAGGACATGGGGAGAATTTGTGTCCCTTACGCCTTTCCCTAGGGGTGCAAGATGAGTATGG
Found at i:19680602 original size:30 final size:30
Alignment explanation
Indices: 19680568--19680630 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
19680558 ACTTATTTTA
*
19680568 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
*
19680598 TTGTTAATTTTGTTATCATTTTAGAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
19680628 TTG
1 TTG
19680631 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATCATTTTAAAGACAT
Found at i:19680783 original size:12 final size:11
Alignment explanation
Indices: 19680755--19680788 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
19680745 ATATATATAT
19680755 TAAAATT-ATA
1 TAAAATTAATA
19680765 TAAAATTAATA
1 TAAAATTAATA
19680776 TAAAAATTAATA
1 T-AAAATTAATA
19680788 T
1 T
19680789 GGGCGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:19689759 original size:19 final size:19
Alignment explanation
Indices: 19689735--19689772 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19689725 ATATTAGATG
19689735 ATATATAACAATTAGTTAT
1 ATATATAACAATTAGTTAT
19689754 ATATATAACAATTAGTTAT
1 ATATATAACAATTAGTTAT
19689773 TCTTATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATATATAACAATTAGTTAT
Found at i:19692762 original size:28 final size:28
Alignment explanation
Indices: 19692729--19692785 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19692719 TGTAGACCAA
19692729 GTGTTTGTTAAAATGATGACAAAGATTC
1 GTGTTTGTTAAAATGATGACAAAGATTC
19692757 GTGTTTGTTAAAATGATGACAAAGATTC
1 GTGTTTGTTAAAATGATGACAAAGATTC
19692785 G
1 G
19692786 ATTTTCCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (28 bp):
GTGTTTGTTAAAATGATGACAAAGATTC
Found at i:19696084 original size:18 final size:18
Alignment explanation
Indices: 19696061--19696103 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19696051 CGTGAATATC
19696061 ATATTTTAAAA-AAGGGAA
1 ATATTTTAAAATAA-GGAA
* *
19696079 ATATTTCAAAATAAGGCA
1 ATATTTTAAAATAAGGAA
19696097 ATATTTT
1 ATATTTT
19696104 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (18 bp):
ATATTTTAAAATAAGGAA
Found at i:19696417 original size:108 final size:108
Alignment explanation
Indices: 19696077--19696477 Score: 653
Period size: 109 Copynumber: 3.7 Consensus size: 108
19696067 TAAAAAAGGG
*
19696077 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAATTTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
19696142 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
66 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
* * *
19696185 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTG
1 AAATTTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
19696250 GGTTTCGATTTCTCGTTCGACCAAATAACTTAATATCCTTTTCAA
65 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT-AA
* *
19696295 AAA-TTTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAATGTG-CCTAAGGTACTGG
1 AAATTTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
*
19696358 GTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
66 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
* * *
19696401 AAATTTTTCAAAAATAAGGAAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTG
1 AAATTTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
19696466 GGTTTCGATTTC
65 GGTTTCGATTTC
19696478 ACGGTTAACC
Statistics
Matches: 269, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
106 5 0.02
107 56 0.21
108 83 0.31
109 120 0.45
110 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (108 bp):
AAATTTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAA
Found at i:19696457 original size:216 final size:218
Alignment explanation
Indices: 19696077--19696477 Score: 707
Period size: 216 Copynumber: 1.8 Consensus size: 218
19696067 TAAAAAAGGG
*
19696077 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* *
19696142 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGAAA
* * *
19696207 TGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
131 TATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
19696272 AAATAACTTAATATCCTTTTCAA
196 AAATAACTTAATATCCTTTTCAA
*
19696295 AAAT-TTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAATGTG-CCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
*
19696358 GTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAATTTTTCAAAAATAAGGAAA
66 GTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGAAA
*
19696423 TATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
131 TATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTC
19696478 ACGGTTAACC
Statistics
Matches: 174, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
216 126 0.72
217 44 0.25
218 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (218 bp):
AAATATTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTCTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGAAA
TATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
AAATAACTTAATATCCTTTTCAA
Found at i:19700121 original size:6 final size:6
Alignment explanation
Indices: 19700110--19700134 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19700100 TAACAATTAA
19700110 CTGCTC CTGCTC CTGCTC CTGCTC C
1 CTGCTC CTGCTC CTGCTC CTGCTC C
19700135 GTGAGGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGCTC
Found at i:19700983 original size:12 final size:12
Alignment explanation
Indices: 19700966--19700991 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19700956 CATGATCCAT
19700966 CTGTTGTTGTTG
1 CTGTTGTTGTTG
19700978 CTGTTGTTGTTG
1 CTGTTGTTGTTG
19700990 CT
1 CT
19700992 TCATGGGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.31, T:0.58
Consensus pattern (12 bp):
CTGTTGTTGTTG
Found at i:19701063 original size:39 final size:39
Alignment explanation
Indices: 19700985--19701063 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
19700975 TTGCTGTTGT
* * *
19700985 TGTTGCTTCATGGGGTCATCATGCCCCAACTGGTGATCC
1 TGTTGCTGCATGGGGTCATCATGCCCCAACTGATCATCC
* * *
19701024 TGTTGCTGCATTGGGTTATCATGCCCTAACTGATCATCC
1 TGTTGCTGCATGGGGTCATCATGCCCCAACTGATCATCC
19701063 T
1 T
19701064 CTATATTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (39 bp):
TGTTGCTGCATGGGGTCATCATGCCCCAACTGATCATCC
Found at i:19701178 original size:402 final size:401
Alignment explanation
Indices: 19700139--19701307 Score: 1776
Period size: 399 Copynumber: 2.9 Consensus size: 401
19700129 TGCTCCGTGA
* * * *
19700139 GGTCATCATGCCCCAACAGATCATCATGATCCATC------TATTGCTATTGTTGTTGCCTT-GT
1 GGTCATCATGCCCCAACGGATCATCATGATCCATCTGTTGTTGTTGCTGTTGTTGTTG-CTTCAT
* * * * * *
19700197 AGGGTCATCATGCCCCAATTAATGATCTTGCTGCTGCATAGGGTTATCATGCCCTAACTGATCAT
65 GGGGTCATCATGCCCCAACTGATGATCATGTTGCTGCATTGGGTTATCATGCCCTAACTGATCAT
* *
19700262 CCTC-TATCCAAGAGCTGATCTAAGTTCACTACAAAAATTTAAATAACTTAAATCTAATAAGTAA
130 CCTCATATCCTAGAGCTGATCTAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAGTAA
* * * * *
19700326 TATTAGATAATGAATTCGATTTGGAAAATAGCTAACGAACATTATCAAAATGAGAAAGCAAGTTG
195 TATTAGATAGTGAATTTGGTTTGGAAAATATCTAACGAACATTATCAAAATGAGAGAGCAAGTTG
* * *
19700391 TATTAAGAGTCCCCATGTCTCTCATTTAAACACAATCCCCTTGTTAAGGTTATGTAAAGAAGAAA
260 TAATAAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAA
* *
19700456 AATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTGTTATTTCTTCCATCAACTGCT
325 AATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTGCTATCTCTTCCATCAACTGCT
19700521 CCTTCTTCATGG
390 CCTTCTTCATGG
* *
19700533 GGTCATCATGCCCCAACGAATCATCATGATCCATCTGTTGTTG-T--TGTTGTCGTTGCTTCATG
1 GGTCATCATGCCCCAACGGATCATCATGATCCATCTGTTGTTGTTGCTGTTGTTGTTGCTTCATG
* *
19700595 GGGTCATCATGCTCCAACTGATGATCATGTTGCTGCATTGGGTTATCATGCCCCAACTGATCATC
66 GGGTCATCATGCCCCAACTGATGATCATGTTGCTGCATTGGGTTATCATGCCCTAACTGATCATC
* * *
19700660 CTCCATATCCTATAACTGATATAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAGTAA
131 CT-CATATCCTAGAGCTGATCTAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAGTAA
* *
19700725 TATTAGATAGTAAATTTGGTTTAGAAAATATCTAACGAACATTATCAAAATGAGAGAGCAAGTTG
195 TATTAGATAGTGAATTTGGTTTGGAAAATATCTAACGAACATTATCAAAATGAGAGAGCAAGTTG
*
19700790 TAATAAGAGTCCCCATGTCTCTTATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAA
260 TAATAAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAA
* *
19700855 AATCAACTTACCTATTTCTCCATCATGCTCTTGTGTTGGAGCTGCTATCTCTTCCATCAGCTGCT
325 AATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTGCTATCTCTTCCATCAACTGCT
19700920 -CTTGCTTCATGG
390 CCTT-CTTCATGG
*
19700932 GGTCATCATGCCCCAACGGATCTTCATGATCCATCTGTTGTTGTTGCTGTTGTTGTTGCTTCATG
1 GGTCATCATGCCCCAACGGATCATCATGATCCATCTGTTGTTGTTGCTGTTGTTGTTGCTTCATG
* *
19700997 GGGTCATCATGCCCCAACTGGTGATCCTGTTGCTGCATTGGGTTATCATGCCCTAACTGATCATC
66 GGGTCATCATGCCCCAACTGATGATCATGTTGCTGCATTGGGTTATCATGCCCTAACTGATCATC
** * *
19701062 CTCTATATTTTAGAGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAACAAGTAA
131 CTC-ATATCCTAGAGCTGATCTAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAGTAA
* * *
19701127 TATTAGATAGTGAATTTGGTTTGGAAAATATCTATCAAACATTATCAAAATGAAAGAGCAAGTTG
195 TATTAGATAGTGAATTTGGTTTGGAAAATATCTAACGAACATTATCAAAATGAGAGAGCAAGTTG
* *
19701192 TAATGAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTAAGT-AA-AA-AAA
260 TAATAAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAA
19701254 AATCAACTTACCTATTTCCCCATCATGCTCTTGTG-TGGAGCTGCTATCTCTTCC
325 AATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTGCTATCTCTTCC
19701308 TCTTGATTTT
Statistics
Matches: 704, Mismatches: 57, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
394 33 0.05
396 3 0.00
397 70 0.10
398 23 0.03
399 322 0.46
400 4 0.01
401 3 0.00
402 246 0.35
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (401 bp):
GGTCATCATGCCCCAACGGATCATCATGATCCATCTGTTGTTGTTGCTGTTGTTGTTGCTTCATG
GGGTCATCATGCCCCAACTGATGATCATGTTGCTGCATTGGGTTATCATGCCCTAACTGATCATC
CTCATATCCTAGAGCTGATCTAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAGTAAT
ATTAGATAGTGAATTTGGTTTGGAAAATATCTAACGAACATTATCAAAATGAGAGAGCAAGTTGT
AATAAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAAA
ATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTGCTATCTCTTCCATCAACTGCTC
CTTCTTCATGG
Found at i:19703965 original size:2 final size:2
Alignment explanation
Indices: 19703958--19703993 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19703948 AATCATTTTG
*
19703958 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19703994 CTTAAACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19713130 original size:13 final size:13
Alignment explanation
Indices: 19713112--19713175 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
19713102 ACACTCAAAT
*
19713112 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
19713125 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
19713138 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
19713151 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
19713164 TTCTCAAAAGCA
1 TTCTCAAAAGCA
19713176 ATAAAGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:19713941 original size:15 final size:17
Alignment explanation
Indices: 19713909--19713950 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
19713899 TATTTATATT
*
19713909 TTCTAAAAAATTATAAA
1 TTCTAAAAAATTAAAAA
19713926 TT-TAAAAAA-TAAAAA
1 TTCTAAAAAATTAAAAA
19713941 TTCTAAAAAA
1 TTCTAAAAAA
19713951 GTTCTAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 14 0.61
17 2 0.09
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TTCTAAAAAATTAAAAA
Found at i:19722703 original size:30 final size:30
Alignment explanation
Indices: 19722667--19722729 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
19722657 GGTATATGTC
*
19722667 GACTGATGGGGCAGATAAGATTGAGTTTAT
1 GACTGATGGGGCAGATAAGATTGAGCTTAT
* *
19722697 GACTGATGGGGCAGATAGGATTGGGCTTAT
1 GACTGATGGGGCAGATAAGATTGAGCTTAT
19722727 GAC
1 GAC
19722730 CGATATTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (30 bp):
GACTGATGGGGCAGATAAGATTGAGCTTAT
Found at i:19731431 original size:16 final size:16
Alignment explanation
Indices: 19731410--19731464 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
19731400 AAGCTCTCTC
19731410 TCTTTTTCACTTATTT
1 TCTTTTTCACTTATTT
*
19731426 TC-TTTTCAAGCTCT-CTT
1 TCTTTTTC-A-CT-TATTT
*
19731443 TCTTTTTCACTCATTT
1 TCTTTTTCACTTATTT
19731459 TCTTTT
1 TCTTTT
19731465 CAAGCTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.16
16 13 0.42
17 7 0.23
18 6 0.19
ACGTcount: A:0.11, C:0.24, G:0.02, T:0.64
Consensus pattern (16 bp):
TCTTTTTCACTTATTT
Found at i:19731432 original size:33 final size:33
Alignment explanation
Indices: 19731390--19731487 Score: 160
Period size: 33 Copynumber: 2.9 Consensus size: 33
19731380 TCTTCACACG
* *
19731390 TTTCTTTTTCAAGCTCTCTCTCTTTTTCACTTAT
1 TTTC-TTTTCAAGCTCTCTTTCTTTTTCACTCAT
19731424 TTTCTTTTCAAGCTCTCTTTCTTTTTCACTCAT
1 TTTCTTTTCAAGCTCTCTTTCTTTTTCACTCAT
*
19731457 TTTCTTTTCAAGCTCTCTTTCTTTTGCACTC
1 TTTCTTTTCAAGCTCTCTTTCTTTTTCACTC
19731488 GTTTCATTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 57 0.93
34 4 0.07
ACGTcount: A:0.11, C:0.28, G:0.04, T:0.57
Consensus pattern (33 bp):
TTTCTTTTCAAGCTCTCTTTCTTTTTCACTCAT
Found at i:19731446 original size:17 final size:18
Alignment explanation
Indices: 19731390--19731481 Score: 92
Period size: 18 Copynumber: 5.4 Consensus size: 18
19731380 TCTTCACACG
19731390 TTTCTTTTTCAAGCTCTC
1 TTTCTTTTTCAAGCTCTC
* *
19731408 TCTCTTTTTC-A-CT-TA
1 TTTCTTTTTCAAGCTCTC
19731423 TTT-TCTTTTCAAGCTCTC
1 TTTCT-TTTTCAAGCTCTC
19731441 TTTCTTTTTC-A-CTCAT-
1 TTTCTTTTTCAAGCTC-TC
19731457 TTTC-TTTTCAAGCTCTC
1 TTTCTTTTTCAAGCTCTC
19731474 TTTCTTTT
1 TTTCTTTT
19731482 GCACTCGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 1 0.02
15 13 0.22
16 12 0.20
17 12 0.20
18 21 0.35
19 1 0.02
ACGTcount: A:0.11, C:0.26, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAAGCTCTC
Found at i:19731583 original size:6 final size:6
Alignment explanation
Indices: 19731530--19731589 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
19731520 GCTTTCCTCT
* * *
19731530 TTTTCT TTTTCC TTTTCA TTTTCA TTTTC- TTTTC- TTTTAA TTTT--
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
*
19731574 TTTTCA TTTTTA TTTT
1 TTTTCA TTTTCA TTTT
19731590 TCTCCTCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.09
5 9 0.19
6 34 0.72
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCA
Found at i:19731590 original size:16 final size:16
Alignment explanation
Indices: 19731542--19731590 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
19731532 TTCTTTTTCC
*
19731542 TTTTCATTTTCATTTT
1 TTTTCATTTTAATTTT
19731558 CTTTTC-TTTTAATTTT
1 -TTTTCATTTTAATTTT
*
19731574 TTTTCATTTTTATTTT
1 TTTTCATTTTAATTTT
19731590 T
1 T
19731591 CTCCTCTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 19 0.66
17 5 0.17
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCATTTTAATTTT
Found at i:19732193 original size:17 final size:17
Alignment explanation
Indices: 19732171--19732204 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19732161 AGCAAAGTAT
19732171 TAAAATA-AATAAATAAA
1 TAAAATAGAA-AAATAAA
19732188 TAAAATAGAAAAATAAA
1 TAAAATAGAAAAATAAA
19732205 CCTCACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAATAGAAAAATAAA
Found at i:19739070 original size:16 final size:17
Alignment explanation
Indices: 19739051--19739088 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
19739041 ATTCATTTAA
19739051 TCAATTAAATAATTTT-
1 TCAATTAAATAATTTTC
19739067 TCAATTAAATAATTTTC
1 TCAATTAAATAATTTTC
19739084 TCAAT
1 TCAAT
19739089 CTAATTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
TCAATTAAATAATTTTC
Found at i:19746387 original size:115 final size:114
Alignment explanation
Indices: 19746221--19746436 Score: 274
Period size: 115 Copynumber: 1.9 Consensus size: 114
19746211 TTTCGACTTG
* * * * *
19746221 TTTGGAATAGGTATCGGCCATGAGTCTGATTTCAATGGGCTTTGAACTAAGTTAAAATGGATGAA
1 TTTGGAACAAGTATCGACCATGAGTCTAATTTCAATGGGCTTTCAACTAAGTTAAAATGGATGAA
* * * * *
19746286 GAGTTGCTTT-GAGCATCTCCTAGAGAATCCTACACTACATCTTCTAACA
66 GAGTT-CTTTCAAACATCTCCCAAAGAATCCAACACTACATCTTCTAACA
* * *
19746335 TTTGGAACAAGTATCGACCATATAGTCTAATTTCAATGGG-TTTCAGATTAAGTTAAAATGGTTG
1 TTTGGAACAAGTATCGACCAT-GAGTCTAATTTCAATGGGCTTTCA-ACTAAGTTAAAATGGATG
19746399 AAGAGTTCTTTCAAACATCTCCCAAAGAATCCAACACT
64 AAGAGTTCTTTCAAACATCTCCCAAAGAATCCAACACT
19746437 CAAACACATA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
114 26 0.30
115 60 0.70
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (114 bp):
TTTGGAACAAGTATCGACCATGAGTCTAATTTCAATGGGCTTTCAACTAAGTTAAAATGGATGAA
GAGTTCTTTCAAACATCTCCCAAAGAATCCAACACTACATCTTCTAACA
Found at i:19752138 original size:19 final size:19
Alignment explanation
Indices: 19752100--19752148 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
19752090 ATTACTAAAC
*
19752100 CAGCCCAAACATTAAACCCT
1 CAGCCCAAA-TTTAAACCCT
*
19752120 CAGCCCAAATTTTAACCCT
1 CAGCCCAAATTTAAACCCT
*
19752139 AAGCCCAAAT
1 CAGCCCAAAT
19752149 GGCCCACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.37, G:0.06, T:0.18
Consensus pattern (19 bp):
CAGCCCAAATTTAAACCCT
Found at i:19752793 original size:108 final size:107
Alignment explanation
Indices: 19752604--19752956 Score: 568
Period size: 108 Copynumber: 3.3 Consensus size: 107
19752594 ATATCCTTTT
19752604 AAATAGCTAAAAATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAG
1 AAATAGCT-AAAATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAG
*
19752669 AAAGCGTGCCCTAACGTGCTGGGTTTCGGTTTTTCGTTCGACC
65 AAAGCGTGCCCTAACGTGCTGGGTTTCGATTTTTCGTTCGACC
*
19752712 AAATAGCTAAAAATATCCTTTTAAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAG
1 AAATAGCT-AAAATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAG
19752777 AAAGCGTGCCCTAACGTGCTGGGTTTCGATTTTTTCGTTCGACC
65 AAAGCGTGCCCTAACGTGCTGGGTTTCGA-TTTTTCGTTCGACC
* * * *
19752821 AAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGA
1 AAATAGCTAAAATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGA
* *
19752886 AAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT-GAACC
66 AAGCGTGCCCTAACGTGCTGGGTTTCGATTTTTCGTTCG-ACC
*
19752928 AAATAGC-CAAATATCCTTTT-AAATTTCAA
1 AAATAGCTAAAATATCCTTTTAAAATTTCAA
19752957 TCCATGTCAT
Statistics
Matches: 232, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
105 9 0.04
106 12 0.05
107 18 0.08
108 171 0.74
109 22 0.09
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (107 bp):
AAATAGCTAAAATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGA
AAGCGTGCCCTAACGTGCTGGGTTTCGATTTTTCGTTCGACC
Found at i:19753523 original size:28 final size:28
Alignment explanation
Indices: 19753469--19753532 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
19753459 CCAAATATAA
19753469 AAAAAAAAATTGAGAAATAAGAAAAAAT
1 AAAAAAAAATTGAGAAATAAGAAAAAAT
* *
19753497 ACAAAAAAAATCTGATAAAT-A-ATAAAAT
1 A-AAAAAAAAT-TGAGAAATAAGAAAAAAT
19753525 AAAAAAAA
1 AAAAAAAA
19753533 GTAATATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.22
28 8 0.25
29 10 0.31
30 7 0.22
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (28 bp):
AAAAAAAAATTGAGAAATAAGAAAAAAT
Found at i:19761219 original size:18 final size:19
Alignment explanation
Indices: 19761156--19761222 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
19761146 TCTCTTTCAA
*
19761156 CAAAA-ATTTA-AAAAAAT
1 CAAAATATTTATAAAAATT
*
19761173 CAAAATAATTT-TTAAAATT
1 CAAAAT-ATTTATAAAAATT
19761192 CAAAATATTTATAAAAATT
1 CAAAATATTTATAAAAATT
*
19761211 CCAAA-ATTTATA
1 CAAAATATTTATA
19761223 TTTTTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.12
18 11 0.26
19 26 0.62
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
CAAAATATTTATAAAAATT
Found at i:19764254 original size:17 final size:18
Alignment explanation
Indices: 19764232--19764266 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19764222 AAGCAGTTCA
19764232 TTTCTTCTT-CTTTTTTT
1 TTTCTTCTTGCTTTTTTT
*
19764249 TTTCTTTTTGCTTTTTTT
1 TTTCTTCTTGCTTTTTTT
19764267 GAAAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTCTTCTTGCTTTTTTT
Found at i:19765095 original size:27 final size:25
Alignment explanation
Indices: 19765043--19765095 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
19765033 AAACTCTTCT
*
19765043 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
*
19765068 AAAAGAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAACTC-AAGAGAAATTATTA
19765095 A
1 A
19765096 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:19765315 original size:8 final size:8
Alignment explanation
Indices: 19765288--19765325 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
19765278 ATTTAATAAT
19765288 TAATAAAA
1 TAATAAAA
*
19765296 -AATTAGAA
1 TAA-TAAAA
19765304 TAATAAAA
1 TAATAAAA
19765312 TAATAAAA
1 TAATAAAA
19765320 TAATAA
1 TAATAA
19765326 GAGCTGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 2 0.08
8 22 0.85
9 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:19767029 original size:51 final size:51
Alignment explanation
Indices: 19766971--19767109 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 51
19766961 AATGAAAGTG
*
19766971 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTT
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTA
* * * * *
19767022 TTGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTA
* * *
19767073 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTATG
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
19767110 TGAACCGAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 77 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTA
Found at i:19767174 original size:45 final size:45
Alignment explanation
Indices: 19767113--19767205 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
19767103 TACTATGTGA
* * *
19767113 ACCGAACATCATTGATTAGTAAGATGGTTTCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
* * * *
19767158 ACCGGACATTATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
19767203 ACC
1 ACC
19767206 AAGTATCTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
Found at i:19781717 original size:20 final size:20
Alignment explanation
Indices: 19781689--19781743 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
19781679 GATACCAGAA
*
19781689 AAAACTTATCGATAC-TGCTTC
1 AAAA-TTATCGATACTTG-ATC
19781710 AAAATTATCGATACTTGATC
1 AAAATTATCGATACTTGATC
*
19781730 AAAAGTATCGATAC
1 AAAATTATCGATAC
19781744 ACATCGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (20 bp):
AAAATTATCGATACTTGATC
Done.