Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 15 of 31
Found at i:7613956 original size:15 final size:15
Alignment explanation
Indices: 7613927--7613996 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
7613917 AGCCGGCGGG
**
7613927 AAAGAAGAAGGAAGA
1 AAAGAAGAAAAAAGA
7613942 AAAGAAGAAAAAAGA
1 AAAGAAGAAAAAAGA
* *
7613957 AGAAGAGGAAAGAAGGAA
1 A-AAGAAGAAA-AAAG-A
*
7613975 GAAAGAAAGAGAAAAGA
1 -AAAG-AAGAAAAAAGA
7613992 AAAGA
1 AAAGA
7613997 GAGGGACGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
15 15 0.35
16 12 0.28
17 4 0.09
18 7 0.16
19 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAAAAAGA
Found at i:7613975 original size:35 final size:34
Alignment explanation
Indices: 7613931--7613997 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 34
7613921 GGCGGGAAAG
7613931 AAGAAGGAAGAAA-AGAAGAAAAAAGAAGAAGAGGA
1 AAGAAGGAAGAAAGA-AAGAAAAAAGAA-AAGAGGA
*
7613966 AAGAAGGAAGAAAGAAAGAGAAAAGAAAAGAG
1 AAGAAGGAAGAAAGAAAGAAAAAAGAAAAGAG
7613998 AGGGACGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 5 0.17
35 24 0.80
36 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (34 bp):
AAGAAGGAAGAAAGAAAGAAAAAAGAAAAGAGGA
Found at i:7613987 original size:27 final size:27
Alignment explanation
Indices: 7613945--7613996 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7613935 AGGAAGAAAA
* *
7613945 GAAGAAAAAAGAAGAAGAGGAAAGAAG
1 GAAGAAAAAAGAAGAAAAGAAAAGAAG
7613972 GAAGAAAGAAAG-AGAAAAGAAAAGA
1 GAAGAAA-AAAGAAGAAAAGAAAAGA
7613997 GAGGGACGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (27 bp):
GAAGAAAAAAGAAGAAAAGAAAAGAAG
Found at i:7614042 original size:4 final size:4
Alignment explanation
Indices: 7614033--7614103 Score: 65
Period size: 4 Copynumber: 17.5 Consensus size: 4
7614023 GGAGAGGAAG
* * *
7614033 AAGA AAG- AA-A AAGA AAGA AAAA AAGA GAGA AGGA AAGGA AAGA AAGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA-GA AAGA AA-GA
*
7614081 GAAGA AAGA AAGA AAAA AAGA AA
1 -AAGA AAGA AAGA AAGA AAGA AA
7614104 AAGTAGAGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
3 4 0.07
4 40 0.74
5 8 0.15
6 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:7614550 original size:17 final size:18
Alignment explanation
Indices: 7614528--7614564 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7614518 TTAAGACCAA
7614528 AAAAAAAAGA-AAAAAAG
1 AAAAAAAAGAGAAAAAAG
*
7614545 AAAAAAAAGAGAAAACAG
1 AAAAAAAAGAGAAAAAAG
7614563 AA
1 AA
7614565 TCTAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAGAAAAAAG
Found at i:7616426 original size:15 final size:15
Alignment explanation
Indices: 7616375--7616408 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7616365 GGTGCAGGTT
7616375 GTGGGGGCGGAGGCG
1 GTGGGGGCGGAGGCG
* *
7616390 GTGGCGGAGGAGGCG
1 GTGGGGGCGGAGGCG
7616405 GTGG
1 GTGG
7616409 AGGTTGTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.71, T:0.09
Consensus pattern (15 bp):
GTGGGGGCGGAGGCG
Found at i:7616442 original size:24 final size:24
Alignment explanation
Indices: 7616383--7616443 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
7616373 TTGTGGGGGC
* * *
7616383 GGAGGCGGTGGCGGAGGAGGCGGT
1 GGAGGCAGTGGGGGCGGAGGCGGT
**
7616407 GGAGGTTGTGGGGGCGGAGGCGGT
1 GGAGGCAGTGGGGGCGGAGGCGGT
*
7616431 GGGGGCAGTGGGG
1 GGAGGCAGTGGGG
7616444 ATCGCAGTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.10, C:0.10, G:0.69, T:0.11
Consensus pattern (24 bp):
GGAGGCAGTGGGGGCGGAGGCGGT
Found at i:7625329 original size:15 final size:16
Alignment explanation
Indices: 7625311--7625341 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7625301 TTTTTGAAAA
7625311 TAATT-TTTTTAATTT
1 TAATTATTTTTAATTT
7625326 TAATTATTTTTAATTT
1 TAATTATTTTTAATTT
7625342 AGAGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TAATTATTTTTAATTT
Found at i:7638443 original size:3 final size:3
Alignment explanation
Indices: 7638435--7638463 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7638425 TGTAAATTCC
7638435 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7638464 GCATTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7638922 original size:2 final size:2
Alignment explanation
Indices: 7638915--7638944 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7638905 CTATAGAAAC
*
7638915 AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7638945 GGATCATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7644368 original size:35 final size:35
Alignment explanation
Indices: 7644329--7644395 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
7644319 ATACGTAATA
*
7644329 GACAACTTTAGTATAGTTAGGATACCAAATACACT
1 GACAACTTTACTATAGTTAGGATACCAAATACACT
* *
7644364 GACAATTTTACTATAGTTAGGTTACCAAATAC
1 GACAACTTTACTATAGTTAGGATACCAAATAC
7644396 GTAATTGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (35 bp):
GACAACTTTACTATAGTTAGGATACCAAATACACT
Found at i:7647225 original size:23 final size:26
Alignment explanation
Indices: 7647199--7647267 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 26
7647189 CTGAAGTGGT
7647199 GAAGTTCGTGATCAAG-CAA-T-AAC
1 GAAGTTCGTGATCAAGACAAGTAAAC
* *
7647222 GAAGTTCATTATCAAGATCAAGTAGCAAC
1 GAAGTTCGTGATCAAGA-CAAGTA--AAC
7647251 GAAGTTCGTGATCAAGA
1 GAAGTTCGTGATCAAGA
7647268 TATTAAGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 14 0.39
25 3 0.08
26 1 0.03
29 18 0.50
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (26 bp):
GAAGTTCGTGATCAAGACAAGTAAAC
Found at i:7647241 original size:29 final size:29
Alignment explanation
Indices: 7647208--7647268 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
7647198 TGAAGTTCGT
* *
7647208 GATCAAGCAATAACGAAGTTCATTATCAA
1 GATCAAGCAACAACGAAGTTCATGATCAA
* * *
7647237 GATCAAGTAGCAACGAAGTTCGTGATCAA
1 GATCAAGCAACAACGAAGTTCATGATCAA
7647266 GAT
1 GAT
7647269 ATTAAGTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (29 bp):
GATCAAGCAACAACGAAGTTCATGATCAA
Found at i:7647306 original size:57 final size:57
Alignment explanation
Indices: 7647229--7647336 Score: 198
Period size: 57 Copynumber: 1.9 Consensus size: 57
7647219 AACGAAGTTC
* *
7647229 ATTATCAAGATCAAGTAGCAACGAAGTTCGTGATCAAGATATTAAGTGTTTTTCGTT
1 ATTACCAAGATCAAGTAGCAACGAAGTTCGTGATCAAGATATCAAGTGTTTTTCGTT
7647286 ATTACCAAGATCAAGTAGCAACGAAGTTCGTGATCAAGATATCAAGTGTTT
1 ATTACCAAGATCAAGTAGCAACGAAGTTCGTGATCAAGATATCAAGTGTTT
7647337 ATGATTAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (57 bp):
ATTACCAAGATCAAGTAGCAACGAAGTTCGTGATCAAGATATCAAGTGTTTTTCGTT
Found at i:7647863 original size:21 final size:21
Alignment explanation
Indices: 7647839--7647900 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
7647829 GCTGTCATAT
7647839 CTTTATATTGATGTAACTATC
1 CTTTATATTGATGTAACTATC
*
7647860 C-TT-TATTCA--T--CTAT-
1 CTTTATATTGATGTAACTATC
7647874 CTTTATATTGATGTAACTATC
1 CTTTATATTGATGTAACTATC
7647895 CTTTAT
1 CTTTAT
7647901 TCATCAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 5 0.16
17 1 0.03
18 1 0.03
19 5 0.16
20 6 0.19
21 7 0.22
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (21 bp):
CTTTATATTGATGTAACTATC
Found at i:7647882 original size:35 final size:35
Alignment explanation
Indices: 7647836--7647905 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
7647826 AATGCTGTCA
7647836 TATCTTTATATTGATGTAACTATCCTTTATTCATC
1 TATCTTTATATTGATGTAACTATCCTTTATTCATC
7647871 TATCTTTATATTGATGTAACTATCCTTTATTCATC
1 TATCTTTATATTGATGTAACTATCCTTTATTCATC
7647906 AATGTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
TATCTTTATATTGATGTAACTATCCTTTATTCATC
Found at i:7648968 original size:21 final size:21
Alignment explanation
Indices: 7648929--7648969 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7648919 AGCCAAAGAA
* *
7648929 AAAAACAATACAAAGAAAATG
1 AAAAACAAAACAAAAAAAATG
*
7648950 AAAAACAAAATAAAAAAAAT
1 AAAAACAAAACAAAAAAAAT
7648970 TGTATCTGAA
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:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAAACAAAACAAAAAAAATG
Found at i:7650045 original size:19 final size:18
Alignment explanation
Indices: 7650017--7650057 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
7650007 GCTTTTTTTT
7650017 ATTATTATTTT-TTAATGA
1 ATTATTATTTTGTTAA-GA
7650035 ATTATTTATTTTGTTAAGA
1 ATTA-TTATTTTGTTAAGA
7650054 ATTA
1 ATTA
7650058 CCACATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
ATTATTATTTTGTTAAGA
Found at i:7653335 original size:12 final size:12
Alignment explanation
Indices: 7653318--7653345 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7653308 TATTTATCTC
7653318 AAAAAAGAAAGA
1 AAAAAAGAAAGA
7653330 AAAAAAGAAAGA
1 AAAAAAGAAAGA
7653342 AAAA
1 AAAA
7653346 GAACAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:7659206 original size:18 final size:19
Alignment explanation
Indices: 7659176--7659236 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 19
7659166 GTACCTCATC
*
7659176 AAATAAAAAAATTATTATA
1 AAATAATAAAATTATTATA
*
7659195 AAA-AATAAAATT-TTAAA
1 AAATAATAAAATTATTATA
7659212 AAATAATAAAAGTATATTATA
1 AAATAATAAAA-T-TATTATA
7659233 AAAT
1 AAAT
7659237 TTTTTTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 7 0.20
18 15 0.43
19 4 0.11
20 1 0.03
21 8 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATAATAAAATTATTATA
Found at i:7674292 original size:57 final size:56
Alignment explanation
Indices: 7674198--7674304 Score: 151
Period size: 57 Copynumber: 1.9 Consensus size: 56
7674188 GTTTCCATAC
* *
7674198 AGTCATTGTCCAGAGCAGCAGATCACTATAACAAAGTGTATCTTAATGCCTAAGCG
1 AGTCATTGTCCAAAGCAGCAGATCACTACAACAAAGTGTATCTTAATGCCTAAGCG
*** *
7674254 AGTCATTTGTCCAAAGCAGCAGATCACTACAGGGAAGTGTATTTTAATGCC
1 AGTCA-TTGTCCAAAGCAGCAGATCACTACAACAAAGTGTATCTTAATGCC
7674305 CCTTTGCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 5 0.11
57 39 0.89
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (56 bp):
AGTCATTGTCCAAAGCAGCAGATCACTACAACAAAGTGTATCTTAATGCCTAAGCG
Found at i:7683319 original size:2 final size:2
Alignment explanation
Indices: 7683312--7683340 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7683302 TTGCTTTCTT
7683312 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7683341 GAATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7683497 original size:14 final size:16
Alignment explanation
Indices: 7683467--7683498 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
7683457 AATTTGTAAA
7683467 ATTTATAAAATAATAT
1 ATTTATAAAATAATAT
7683483 ATTT-TAAAA-AATAT
1 ATTTATAAAATAATAT
7683497 AT
1 AT
7683499 ATAGATCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTATAAAATAATAT
Found at i:7683499 original size:16 final size:17
Alignment explanation
Indices: 7683468--7683500 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7683458 ATTTGTAAAA
*
7683468 TTTATAAAATAATATAT
1 TTTAAAAAATAATATAT
7683485 TTTAAAAAAT-ATATAT
1 TTTAAAAAATAATATAT
7683501 AGATCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAAAAAATAATATAT
Found at i:7683850 original size:18 final size:18
Alignment explanation
Indices: 7683827--7683874 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7683817 CTCATGAATA
*
7683827 ATAATTATTTATAATTT-T
1 ATAATTATTAAT-ATTTAT
*
7683845 ATAATTAATAATATTTAT
1 ATAATTATTAATATTTAT
7683863 ATAATTA-TAATA
1 ATAATTATTAATA
7683875 CATAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAATTATTAATATTTAT
Found at i:7683857 original size:28 final size:26
Alignment explanation
Indices: 7683823--7683894 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 26
7683813 ATTCCTCATG
7683823 AATAATAATTATTTATAATTTTATAATT
1 AATAAT-ATTATTTATAATTTTATAA-T
*
7683851 AATAATATT-TATATAA--TTATAAT
1 AATAATATTATTTATAATTTTATAAT
7683874 ACATAATATATATTTATAATT
1 A-ATAATAT-TATTTATAATT
7683895 CAAAATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 2 0.05
24 13 0.35
25 1 0.03
26 12 0.32
27 3 0.08
28 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
AATAATATTATTTATAATTTTATAAT
Found at i:7683872 original size:17 final size:17
Alignment explanation
Indices: 7683840--7683874 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7683830 ATTATTTATA
7683840 ATTTTATAATTAATAAT
1 ATTTTATAATTAATAAT
7683857 ATTTATATAATT-ATAAT
1 ATTT-TATAATTAATAAT
7683874 A
1 A
7683875 CATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATAATTAATAAT
Found at i:7683883 original size:20 final size:20
Alignment explanation
Indices: 7683860--7683912 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
7683850 TAATAATATT
*
7683860 TATATAATTATAATACATAA
1 TATATAATTATAATACAAAA
* *
7683880 TATATATTTATAATTCAAAA
1 TATATAATTATAATACAAAA
7683900 TAT-TAATTTATAA
1 TATATAA-TTATAA
7683913 AAATTGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATAATTATAATACAAAA
Found at i:7702610 original size:14 final size:12
Alignment explanation
Indices: 7702593--7702638 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
7702583 GTGAACACGG
*
7702593 AAAAAAAAATCA
1 AAAAAAAAAACA
7702605 CAAAAAAAAAACA
1 -AAAAAAAAAACA
7702618 AAAAACAAAAACA
1 AAAAA-AAAAACA
7702631 AAACAAAA
1 AAA-AAAA
7702639 GAAGCAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 5 0.17
13 23 0.77
14 2 0.07
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:7715736 original size:2 final size:2
Alignment explanation
Indices: 7715729--7715762 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7715719 TGATGTGTAC
7715729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7715763 GAGCTTGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7728701 original size:15 final size:16
Alignment explanation
Indices: 7728681--7728717 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7728671 TTGTTCTTCG
7728681 AAATTAAAAT-TTATA
1 AAATTAAAATATTATA
*
7728696 AAATT-ATATATTATA
1 AAATTAAAATATTATA
7728711 AAATTAA
1 AAATTAA
7728718 TTCTTATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 15 0.79
16 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAAAATATTATA
Found at i:7729891 original size:13 final size:14
Alignment explanation
Indices: 7729849--7729895 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
7729839 AATTTTATCA
7729849 TATTTTTAATATTTAT
1 TATTTTT-ATATTT-T
* *
7729865 AAATTTTATATTTT
1 TATTTTTATATTTT
7729879 TATTTTTAT-TTTT
1 TATTTTTATATTTT
7729892 TATT
1 TATT
7729896 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 8 0.30
14 8 0.30
15 6 0.22
16 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTTATATTTT
Found at i:7732244 original size:6 final size:6
Alignment explanation
Indices: 7732233--7732262 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7732223 TTCTTTAAGG
7732233 ACCGCT ACCGCT ACCGCT ACCGCT ACCGCT
1 ACCGCT ACCGCT ACCGCT ACCGCT ACCGCT
7732263 GTACTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
ACCGCT
Found at i:7736080 original size:23 final size:23
Alignment explanation
Indices: 7736054--7736100 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7736044 TCGAGAAAAG
7736054 AACCTAACAGTGACTGTGTTCTT
1 AACCTAACAGTGACTGTGTTCTT
7736077 AACCTAACAGTGACTGTGTTCTT
1 AACCTAACAGTGACTGTGTTCTT
7736100 A
1 A
7736101 CATTCACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (23 bp):
AACCTAACAGTGACTGTGTTCTT
Found at i:7739679 original size:10 final size:10
Alignment explanation
Indices: 7739664--7739716 Score: 51
Period size: 9 Copynumber: 5.7 Consensus size: 10
7739654 AAAATAAAAA
7739664 TATAAAATTT
1 TATAAAATTT
*
7739674 TAT-AAATAT
1 TATAAAATTT
*
7739683 TA-AAAATAT
1 TATAAAATTT
7739692 TATAAAA-TT
1 TATAAAATTT
7739701 T-TAAAATTT
1 TATAAAATTT
*
7739710 TTTAAAA
1 TATAAAA
7739717 AACGAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 5 0.14
9 20 0.54
10 12 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TATAAAATTT
Found at i:7739688 original size:18 final size:18
Alignment explanation
Indices: 7739667--7739716 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7739657 ATAAAAATAT
7739667 AAAATTTTAT-AAATATTA
1 AAAATTTTATAAAAT-TTA
* *
7739685 AAAATATTATAAAATTTT
1 AAAATTTTATAAAATTTA
*
7739703 AAAATTTTTTAAAA
1 AAAATTTTATAAAA
7739717 AACGAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTTATAAAATTTA
Found at i:7740849 original size:42 final size:42
Alignment explanation
Indices: 7740782--7740904 Score: 192
Period size: 42 Copynumber: 2.9 Consensus size: 42
7740772 TGATAGAATG
*
7740782 ACAAATAAGATTTTGATTAAATCAATTATTAGTCATAAGAGA
1 ACAAATAAGATTTTGATTAAGTCAATTATTAGTCATAAGAGA
* *
7740824 ACAAATAAGATTTTGACTAAGTCAATTATTAGTCATAAGAGG
1 ACAAATAAGATTTTGATTAAGTCAATTATTAGTCATAAGAGA
** *
7740866 ACAAATGGGATTTGGATTAAGTCAATTATTAGTCATAAG
1 ACAAATAAGATTTTGATTAAGTCAATTATTAGTCATAAG
7740905 GGGCTATTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (42 bp):
ACAAATAAGATTTTGATTAAGTCAATTATTAGTCATAAGAGA
Found at i:7740977 original size:29 final size:29
Alignment explanation
Indices: 7740925--7740985 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
7740915 ACTCAAAATA
* *
7740925 AATGTAATAAAAGTATAAAGACTTGA-TTG
1 AATGCAATAAAAATATAAAGACTT-ACTTG
7740954 AATGCAATAAAAATATAATA-ACTTACTTG
1 AATGCAATAAAAATATAA-AGACTTACTTG
7740983 AAT
1 AAT
7740986 TTTTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 26 0.93
30 1 0.04
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (29 bp):
AATGCAATAAAAATATAAAGACTTACTTG
Found at i:7741266 original size:121 final size:120
Alignment explanation
Indices: 7741096--7741335 Score: 295
Period size: 121 Copynumber: 2.0 Consensus size: 120
7741086 GACATGGCAT
* **
7741096 AAAAAAATTGACATAGAAAAAAAAATTTCAAAAAAAGAATTTCTTTCAAAA-AATAATTTCAAG-
1 AAAAAAATCGACATAGAAAAAAAAATTTCAAAAAAAGAATTTCCCTCAAAACAA-AATTTCAAGC
* * * * **
7741159 CTAGAGACATCAATATATTAGTGCCATGTCATCATTATATCAACATAGTCTAACATG
65 CTA-ACACATCAACATATTAATACCACATCATCATTATATCAACATAGTCTAACATG
* * *
7741216 AAAAAAATCGACATAGGAAAAAAATTTTCAAAAAAAAGAATTTCCCTCAAAACAAAATTTCGAGC
1 AAAAAAATCGACATAGAAAAAAAAATTTC-AAAAAAAGAATTTCCCTCAAAACAAAATTTCAAGC
* * * *
7741281 CTAACACATCAACATGTTAATATCACATCATTATTATGTCAACATAGTCTAACAT
65 CTAACACATCAACATATTAATACCACATCATCATTATATCAACATAGTCTAACAT
7741336 ATTAGCATCT
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
120 26 0.26
121 70 0.69
122 5 0.05
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (120 bp):
AAAAAAATCGACATAGAAAAAAAAATTTCAAAAAAAGAATTTCCCTCAAAACAAAATTTCAAGCC
TAACACATCAACATATTAATACCACATCATCATTATATCAACATAGTCTAACATG
Found at i:7745802 original size:25 final size:25
Alignment explanation
Indices: 7745766--7745834 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
7745756 GGATAAAACT
* * *
7745766 AAAATATGTTATAAAATAAATCTGAA
1 AAAATAT-TTATAAAAGAAATATAAA
7745792 AAAATATTTATAAAAGAAATATAAA
1 AAAATATTTATAAAAGAAATATAAA
*
7745817 AAAATATTTA-AAGAGAAA
1 AAAATATTTATAAAAGAAA
7745835 AAAAAGTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.18
25 25 0.64
26 7 0.18
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (25 bp):
AAAATATTTATAAAAGAAATATAAA
Found at i:7745839 original size:20 final size:21
Alignment explanation
Indices: 7745812--7745859 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
7745802 TAAAAGAAAT
7745812 ATAAAAAAATATTTAAAGAGA
1 ATAAAAAAATATTTAAAGAGA
* **
7745833 A-AAAAAAGTATTTTGAGAGA
1 ATAAAAAAATATTTAAAGAGA
7745853 ATAAAAA
1 ATAAAAA
7745860 GATTTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (21 bp):
ATAAAAAAATATTTAAAGAGA
Found at i:7745860 original size:20 final size:19
Alignment explanation
Indices: 7745814--7745865 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
7745804 AAAGAAATAT
* **
7745814 AAAAAAATATTTAAAGAGA
1 AAAAAAAGATTTTGAGAGA
7745833 AAAAAAAGTATTTTGAGAGA
1 AAAAAAAG-ATTTTGAGAGA
*
7745853 ATAAAAAGATTTT
1 AAAAAAAGATTTT
7745866 ATTCATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (19 bp):
AAAAAAAGATTTTGAGAGA
Found at i:7751005 original size:19 final size:21
Alignment explanation
Indices: 7750981--7751024 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
7750971 GAAATATAAG
7750981 AGAAAGTATTTTGAG-GAA-A
1 AGAAAGTATTTTGAGCGAATA
7751000 AGAAAGTATTTTGAGCGAATA
1 AGAAAGTATTTTGAGCGAATA
7751021 AGAA
1 AGAA
7751025 GATCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 3 0.13
21 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.25, T:0.25
Consensus pattern (21 bp):
AGAAAGTATTTTGAGCGAATA
Found at i:7751707 original size:21 final size:21
Alignment explanation
Indices: 7751654--7751699 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
7751644 AAGATCGGTT
7751654 CCAAAAAAAATGGGAGAAAGA
1 CCAAAAAAAATGGGAGAAAGA
7751675 CCAAAAAAAATGGGAGAAAGA
1 CCAAAAAAAATGGGAGAAAGA
7751696 CCAA
1 CCAA
7751700 TAGAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.61, C:0.13, G:0.22, T:0.04
Consensus pattern (21 bp):
CCAAAAAAAATGGGAGAAAGA
Found at i:7752801 original size:144 final size:144
Alignment explanation
Indices: 7752540--7753929 Score: 1410
Period size: 144 Copynumber: 9.7 Consensus size: 144
7752530 CACGGCTCCT
* * * *
7752540 TTCCTCAAGAAATTGGGTTCTTAAGATCTATTTCTGAGCTT-GATATGTCTTACAACAATTTTAC
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGAT-TGTCTTACAACAATTTCAC
** ** * * *
7752604 AGGACCAATCCCAGTTTCAGTAGGAAATTTGGTAAACTTAACCGTTCTTTACCTTCACACTAATA
65 AGGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAATA
**
7752669 GACTTTCTGGTTTTA
130 GACTTTCTGGTTCCA
* * * * * *
7752684 TTCCTCTAGAAATTGGATTATTAAGATCTCTTTCTGTTCTTAAATTGTCTTACAACAATTTCACG
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
* * * * * * * * *
7752749 GGTCCAATCCTAGCTTCAATGGGAAATTTGACAAACTTATCCGTTCTGTACCTTAACAAC-AATA
66 GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCAC-ACTAATA
*
7752813 -AGTTGTCTGGTTCCA
130 GACTT-TCTGGTTCCA
7752828 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
* * * *
7752893 GGTTCAATTCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATAG
66 GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAATAG
* *
7752958 ACTTTCTAGTTTCA
131 ACTTTCTGGTTCCA
7752972 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
* * * * *
7753037 GGTTCAATCCCAGCTTCAAT-GGAAAATTTGATAAACTTATCCATTCTTTATCTTAACAAC-AAC
66 GGTTCAATCCCAACTTCAATAGG-AAATTTGATAAACTTAACCGTTCTTTATCTTCAC-ACTAAT
*
7753100 A-AGTTGTCTGGTTCCA
129 AGACTT-TCTGGTTCCA
* ** * * * *
7753116 TTCCTCAAGAAATTGGATTACTAAGATTTCTTTCTGACCTT-GAATTGTGTGACAACAATTTCAC
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAG-ATTGTCTTACAACAATTTCAC
* * * * * * *
7753180 GGGTTCTATCCCAACTTCAATAGGAAACTTGGTAAACTTAACCATTCTTTATCTTCACAGTAACA
65 AGGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAATA
*
7753245 GACTTTCTAGTTCCA
130 GACTTTCTGGTTCCA
7753260 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
* * * * *
7753325 GGTTCAATTCCAACTTCAATAGGAAATTTGATAAATTTATCTGTTCTTTACCTT-AGCAAC-AAT
66 GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCA-C-ACTAAT
* *
7753388 AAACTCTCTGG-TCTCA
129 AGACTTTCTGGTTC-CA
* * * * *
7753404 TTCCGCATGAAATTGGGTTGCTAAGATCTCTTTCAGACCTTCA-ATTGTCTTACAACAATTTCA-
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTT-AGATTGTCTTACAACAATTTCAC
* ** * * * *
7753467 AGGGTTCTATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTTTCTTCACGCTAAT
65 A-GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAAT
* *
7753532 AGACTTTCTAGTTCCC
129 AGACTTTCTGGTTCCA
* * *
7753548 TTCCTCAAGAAATTGAGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAATAATTTCATA
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
* * * * * *
7753613 GGTCCAATCCCAACTTCAATAAGAAATTTGATAAATTTATCCGTTCTTTATCTTAACAAC-AACA
66 GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCAC-ACTAATA
*
7753677 -AATTCTCTGG-TCTCA
130 GACTT-TCTGGTTC-CA
** * * * * * * *
7753692 TTCCAGATGAAATTGGATTGTTAAGATCTCTTTCAGACCTTCA-ATTGTCTCACAATAATTTCAT
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTT-AGATTGTCTTACAACAATTTCAC
* * ** * *** * * * *
7753756 GGGTTCTATCCCAACTTCAATAGGAAGCTTGGTAAACTTAACTACTCTTTACCTTAACAATAACA
65 AGGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAATA
* *
7753821 AACTCTCTGGTTCCA
130 GACTTTCTGGTTCCA
* * * * * * * *
7753836 TTCCCCAAGAAATTAGGTTGCTAAGATTTCTTTCTAACCTT-GATTTGTCTCACAACAATTTCAT
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGA-TTGTCTTACAACAATTTCAC
* * * *
7753900 AGGTCCACTCCCAACGTCAATAGGTAATTT
65 AGGTTCAATCCCAACTTCAATAGGAAATTT
7753930 AAGTAAGTTG
Statistics
Matches: 1034, Mismatches: 180, Indels: 64
0.81 0.14 0.05
Matches are distributed among these distances:
143 24 0.02
144 984 0.95
145 26 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (144 bp):
TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
GGTTCAATCCCAACTTCAATAGGAAATTTGATAAACTTAACCGTTCTTTATCTTCACACTAATAG
ACTTTCTGGTTCCA
Found at i:7753056 original size:288 final size:288
Alignment explanation
Indices: 7752540--7753929 Score: 1695
Period size: 288 Copynumber: 4.8 Consensus size: 288
7752530 CACGGCTCCT
* * * *
7752540 TTCCTCAAGAAATTGGGTTCTTAAGATCTATTTCTGAGCTT-GATATGTCTTACAACAATTTTAC
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTTAGAT-TGTCTTACAACAATTTCAC
** * ** * * * *
7752604 AGGACCAATCCCAGTTTCAGTAGGAAATTTGGTAAACTTAACCGTTCTTTACCTTCACACTAATA
65 AGGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATA
* ** * * * * *
7752669 GACTTTCTGGTTTTATTCCTCTAGAAATTGGATTATTAAGATCTCTTTCTGTTCTTAAATTGTCT
130 GACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCT
* * * * * *
7752734 TACAACAATTTCACGGGTCCAATCCTAGCTTCAATGGGAAATTTGACAAACTTATCCGTTCTGTA
195 TACAACAATTTCACAGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTTA
* * *
7752799 CCTTAACAACAATAAGTTGTCTGGT-TCCA
260 CCTTAACAACAACAAATTCTCTGGTCT-CA
*
7752828 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTTAGATTGTCTTACAACAATTTCACA
* *
7752893 GGTTCAATTCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATAG
66 GGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATAG
*
7752958 ACTTTCTAGTTTCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTT
131 ACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTT
* * *
7753023 ACAACAATTTCACAGGTTCAATCCCAGCTTCAAT-GGAAAATTTGATAAACTTATCCATTCTTTA
196 ACAACAATTTCACAGGTCCAATCCCAACTTCAATAGG-AAATTTGATAAACTTATCCGTTCTTTA
* * *
7753087 TCTTAACAACAACAAGTTGTCTGGT-TCCA
260 CCTTAACAACAACAAATTCTCTGGTCT-CA
* ** * * *
7753116 TTCCTCAAGAAATTGGATTACTAAGATTTCTTTCTGACCTT-GAATTGTGTGACAACAATTTCAC
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTTAG-ATTGTCTTACAACAATTTCAC
* * * *
7753180 GGGTTCTATCCCAACTTCAATAGGAAACTTGGTAAACTTAACCATTCTTTATCTTCACAGTAACA
65 AGGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATA
7753245 GACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCT
130 GACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCT
* * * *
7753310 TACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGATAAATTTATCTGTTCTTTA
195 TACAACAATTTCACAGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTTA
* * *
7753375 CCTTAGCAACAATAAACTCTCTGGTCTCA
260 CCTTAACAACAACAAATTCTCTGGTCTCA
* * * *
7753404 TTCCGCATGAAATTGGGTTGCTAAGATCTCTTTCAGACCTTCA-ATTGTCTTACAACAATTTCA-
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTT-AGATTGTCTTACAACAATTTCAC
** *
7753467 AGGGTTCTATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTTTCTTCAC-GCTAA
65 A-GGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAG-TAA
* *
7753531 TAGACTTTCTAGTTCCCTTCCTCAAGAAATTGAGTTGTTAAGATCTCTTTCTGATCTTAGATTGT
128 TAGACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGT
* * * *
7753596 CTTACAATAATTTCATAGGTCCAATCCCAACTTCAATAAGAAATTTGATAAATTTATCCGTTCTT
193 CTTACAACAATTTCACAGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTT
*
7753661 TATCTTAACAACAACAAATTCTCTGGTCTCA
258 TACCTTAACAACAACAAATTCTCTGGTCTCA
** * * * * * *
7753692 TTCCAGATGAAATTGGATTGTTAAGATCTCTTTCAGACCTTCA-ATTGTCTCACAATAATTTCAT
1 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTT-AGATTGTCTTACAACAATTTCAC
* ** * * * * *
7753756 GGGTTCTATCCCAACTTCAATAGGAAGCTTGGTAAACTTAA-CTACTCTTTACCTTAACAATAAC
65 AGGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCT-TTCTTTATCTTCACAGTAAT
* * * * * * * * *
7753820 AAACTCTCTGGTTCCATTCCCCAAGAAATTAGGTTGCTAAGATTTCTTTCTAACCTT-GATTTGT
129 AGACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGA-TTGT
* * * * *
7753884 CTCACAACAATTTCATAGGTCCACTCCCAACGTCAATAGGTAATTT
193 CTTACAACAATTTCACAGGTCCAATCCCAACTTCAATAGGAAATTT
7753930 AAGTAAGTTG
Statistics
Matches: 975, Mismatches: 114, Indels: 26
0.87 0.10 0.02
Matches are distributed among these distances:
287 8 0.01
288 961 0.99
289 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (288 bp):
TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGACCTTAGATTGTCTTACAACAATTTCACA
GGTTCTATCCCAACTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTATCTTCACAGTAATAG
ACTTTCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTT
ACAACAATTTCACAGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTTAC
CTTAACAACAACAAATTCTCTGGTCTCA
Found at i:7753343 original size:432 final size:428
Alignment explanation
Indices: 7752540--7753912 Score: 1612
Period size: 432 Copynumber: 3.2 Consensus size: 428
7752530 CACGGCTCCT
* * *
7752540 TTCCTCAAGAAATTGGGTT-CTTAAGATCTATTTCTGAGCTTGATATGTCTTACAACAATTTTAC
1 TTCCTCAAGAAATTGGGTTGC-TAAGATCTCTTTCTGACCTTGAT-TGTCTTACAACAATTTCAC
* * * *
7752604 AGGACCAATCCCAGTTTCAGTAGGAAATTTGGTAAACTTAACCGTTCTTTACCTTCACACTAATA
64 AGGTCCAATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCATTCTTTATCTTCACACTAATA
** * *
7752669 GACTTTCTGGTTTTATTCCTCTAGAAATTGGATTATTAAGATCTCTTTCTGTTCTTAAATTGTCT
129 GACTTTCTGGTTCCATTCCTCAAGAAATTGGATTATTAAGATCTCTTTCTGATCTT-AATTGTCT
* * * * *
7752734 TACAACAATTTCACGGGTCCAATCCTAGCTTCAATGGGAAATTTGACAAACTTATCCGTTCTGTA
193 TACAACAATTTCACGGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTTA
* * * *
7752799 CCTTAACAACAATAAGTTGTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTG
258 TCTTAACAACAACAAATTCTCT-GTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTG
7752864 ATCTTAGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGGTAAAC
322 ATCTTAGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGGTAAAC
* * * * *
7752929 TTAACCT-TTCTTTATCTTCACAGTAATAGACTTTCTAGTTTCA
387 TTAA-CTATTCTTTACCTT-ACAATAATAAACTCTCTGGTTTCA
* *
7752972 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACA
1 TTCCTCAAGAAATTGGGTTGCTAAGATCTCTTTCTGACCTT-GATTGTCTTACAACAATTTCACA
* * * * * *
7753037 GGTTCAATCCCAGCTTCAAT-GGAAAATTTGATAAACTTATCCATTCTTTATCTTAACAAC-AAC
65 GGTCCAATCCCAGTTTCAATAGG-AAATTTGGTAAACTTAACCATTCTTTATCTTCAC-ACTAAT
* * * *
7753100 A-AGTTGTCTGGTTCCATTCCTCAAGAAATTGGATTACTAAGATTTCTTTCTGACCTTGAATTGT
128 AGACTT-TCTGGTTCCATTCCTCAAGAAATTGGATTATTAAGATCTCTTTCTGATCTT-AATTGT
* * * * * * * *
7753164 GTGACAACAATTTCACGGGTTCTATCCCAACTTCAATAGGAAACTTGGTAAACTTAACCATTCTT
191 CTTACAACAATTTCACGGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTT
* ** *
7753229 TATCTTCACAGTAACAGACTT-TCTAGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTT
256 TATCTTAACAACAACA-AATTCTCT-GTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTT
*
7753293 CTGATCTTAGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGATA
319 CTGATCTTAGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGGTA
* * * * *
7753358 AATTTATCTGTTCTTTACCTTAGCAACAATAAACTCTCTGGTCTCA
384 AACTTAACTATTCTTTACCTTA-CAATAATAAACTCTCTGGTTTCA
* * * *
7753404 TTCCGCATGAAATTGGGTTGCTAAGATCTCTTTCAGACCTTCAATTGTCTTACAACAATTTCA-A
1 TTCCTCAAGAAATTGGGTTGCTAAGATCTCTTTCTGACCTT-GATTGTCTTACAACAATTTCACA
* * * * *
7753468 GGGTTCTATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCTTTCTTTTTCTTCACGCTAATA
65 -GGTCCAATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCATTCTTTATCTTCACACTAATA
* * *
7753533 GACTTTCTAGTTCCCTTCCTCAAGAAATT-GAGTTGTTAAGATCTCTTTCTGATCTTAGATTGTC
129 GACTTTCTGGTTCCATTCCTCAAGAAATTGGA-TTATTAAGATCTCTTTCTGATCTTA-ATTGTC
* ** * *
7753597 TTACAATAATTTCATAGGTCCAATCCCAACTTCAATAAGAAATTTGATAAATTTATCCGTTCTTT
192 TTACAACAATTTCACGGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTT
* ** * * *
7753662 ATCTTAACAACAACAAATTCTCTGGTCTCATTCCAGATGAAATTGGATTGTTAAGATCTCTTTCA
257 ATCTTAACAACAACAAATTCTCTGTTC-CATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCT
* * * ** * * **
7753727 GACCTTCA-ATTGTCTCACAATAATTTCATGGGTTCTATCCCAACTTCAATAGGAAGCTTGGTAA
321 GATCTT-AGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGGTAA
* * *
7753791 ACTTAACTACTCTTTACCTTAACAATAACAAACTCTCTGGTTCCA
385 ACTTAACTATTCTTTACCTT-ACAATAATAAACTCTCTGGTTTCA
* * * * * *
7753836 TTCCCCAAGAAATTAGGTTGCTAAGATTTCTTTCTAACCTTGATTTGTCTCACAACAATTTCATA
1 TTCCTCAAGAAATTGGGTTGCTAAGATCTCTTTCTGACCTTGA-TTGTCTTACAACAATTTCACA
*
7753901 GGTCCACTCCCA
65 GGTCCAATCCCA
7753913 ACGTCAATAG
Statistics
Matches: 793, Mismatches: 128, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
431 20 0.03
432 757 0.95
433 16 0.02
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (428 bp):
TTCCTCAAGAAATTGGGTTGCTAAGATCTCTTTCTGACCTTGATTGTCTTACAACAATTTCACAG
GTCCAATCCCAGTTTCAATAGGAAATTTGGTAAACTTAACCATTCTTTATCTTCACACTAATAGA
CTTTCTGGTTCCATTCCTCAAGAAATTGGATTATTAAGATCTCTTTCTGATCTTAATTGTCTTAC
AACAATTTCACGGGTCCAATCCCAACTTCAATAGGAAATTTGATAAACTTATCCGTTCTTTATCT
TAACAACAACAAATTCTCTGTTCCATTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCT
TAGATTGTCTTACAACAATTTCACAGGTTCAATTCCAACTTCAATAGGAAATTTGGTAAACTTAA
CTATTCTTTACCTTACAATAATAAACTCTCTGGTTTCA
Found at i:7757420 original size:16 final size:17
Alignment explanation
Indices: 7757395--7757427 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7757385 GTTTTTCTAA
7757395 TTATTATTTA-TTTACT
1 TTATTATTTACTTTACT
*
7757411 TTATTCTTTACTTTACT
1 TTATTATTTACTTTACT
7757428 AGCAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTACTTTACT
Found at i:7757987 original size:2 final size:2
Alignment explanation
Indices: 7757980--7758006 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7757970 TATTGATCTT
7757980 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7758007 CATGAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7759050 original size:28 final size:29
Alignment explanation
Indices: 7759004--7759062 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
7758994 CCTAGATGTT
7759004 TTATTATTTTTGTAACTATA-TTTATCTA
1 TTATTATTTTTGTAACTATAGTTTATCTA
* *
7759032 TTATTATTATTT-TACCTATAGTTTTTCTA
1 TTATTATT-TTTGTAACTATAGTTTATCTA
7759061 TT
1 TT
7759063 TTTCTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATTATTTTTGTAACTATAGTTTATCTA
Found at i:7759641 original size:13 final size:13
Alignment explanation
Indices: 7759611--7759644 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7759601 GATTTATTTA
*
7759611 TTTTAATTATTAT
1 TTTTTATTATTAT
7759624 TTTTTATTATTAT
1 TTTTTATTATTAT
7759637 TTTTTATT
1 TTTTTATT
7759645 TGGGTACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATTATTAT
Found at i:7761871 original size:4 final size:4
Alignment explanation
Indices: 7761856--7761901 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
7761846 AGATAAAATT
7761856 TTTA TTTAA TTTA TTTA TATTA -TTA TTTA --TA TTTA TTTA TTTA TTT
1 TTTA TTT-A TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
7761902 CAATTCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 25 0.68
5 7 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:7761883 original size:12 final size:14
Alignment explanation
Indices: 7761853--7761899 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
7761843 AAAAGATAAA
*
7761853 ATTTTTATTTAATTT
1 ATTTATATTT-ATTT
7761868 ATTTATA-TTA-TT
1 ATTTATATTTATTT
7761880 ATTTATATTTATTT
1 ATTTATATTTATTT
7761894 ATTTAT
1 ATTTAT
7761900 TTCAATTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.31
13 4 0.14
14 10 0.34
15 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTATATTTATTT
Found at i:7761888 original size:18 final size:18
Alignment explanation
Indices: 7761856--7761901 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7761846 AGATAAAATT
*
7761856 TTTATTTAATT-TATTTA
1 TTTATTTATTTATATTTA
7761873 TATTA-TTATTTATATTTA
1 T-TTATTTATTTATATTTA
7761891 TTTATTTATTT
1 TTTATTTATTT
7761902 CAATTCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTATTTATATTTA
Found at i:7762045 original size:21 final size:21
Alignment explanation
Indices: 7762019--7762065 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7762009 TGTCATAGTT
**
7762019 TTTTATTTTTTGTTATCTTAA
1 TTTTATTTTTAATTATCTTAA
*
7762040 TTTTATTTTTAATTATTTTAA
1 TTTTATTTTTAATTATCTTAA
7762061 TTTTA
1 TTTTA
7762066 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTAATTATCTTAA
Found at i:7762565 original size:30 final size:29
Alignment explanation
Indices: 7762501--7762561 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
7762491 TTAAAGCACT
7762501 ATTATAAGTTTTTTTCTTTTTGTTTTTTA
1 ATTATAAGTTTTTTTCTTTTTGTTTTTTA
7762530 ATTATAAGTTTTTTTCTTTTTGTTTTTTA
1 ATTATAAGTTTTTTTCTTTTTGTTTTTTA
7762559 ATT
1 ATT
7762562 TATATGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (29 bp):
ATTATAAGTTTTTTTCTTTTTGTTTTTTA
Found at i:7762805 original size:27 final size:27
Alignment explanation
Indices: 7762784--7762846 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
7762774 CAAAGAGTAG
7762784 GGTTCGAATCTCTTACCTAAAGCGCAA
1 GGTTCGAATCTCTTACCTAAAGCGCAA
7762811 GGTTCGAATCTCTTACCTAAAGCGCAA
1 GGTTCGAATCTCTTACCTAAAGCGCAA
7762838 GGTTCGAAT
1 GGTTCGAAT
7762847 TTCCTAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTTCGAATCTCTTACCTAAAGCGCAA
Found at i:7762897 original size:17 final size:16
Alignment explanation
Indices: 7762864--7762901 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
7762854 AATTTTGTAT
*
7762864 AATAGTTAAATATATA
1 AATAATTAAATATATA
7762880 AATAATTAAATAATATA
1 AATAATTAAAT-ATATA
7762897 AATAA
1 AATAA
7762902 AAAGAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AATAATTAAATATATA
Found at i:7764818 original size:17 final size:17
Alignment explanation
Indices: 7764796--7764832 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
7764786 GAAAAGTACC
*
7764796 AAAAAAAATGA-AAAAG
1 AAAAAAAAAGATAAAAG
7764812 AAAAAAAAAGATAAAAG
1 AAAAAAAAAGATAAAAG
7764829 AAAA
1 AAAA
7764833 CGAAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAGATAAAAG
Found at i:7767819 original size:94 final size:94
Alignment explanation
Indices: 7767642--7767824 Score: 212
Period size: 94 Copynumber: 1.9 Consensus size: 94
7767632 TTAGGAACAA
* *
7767642 TTTACTTCAATAAAAACTTCAATGTTAATAAAGAAATAAATAGATAAAAAATAGTTAACATTTAA
1 TTTACTTCAATAAAAACTTCAATGTTAACAAAGAAATAAATAGATAAAAAATAGTCAACATTTAA
* * *
7767707 TTTTATAATAATATATTAATTAAGAAACT
66 TTTAATAAAAAAATATTAATTAAGAAACT
* * * * *
7767736 TTTACTTTAATAAGAAA-TTCAATTGTTAGCAAGGAAAT-AA-A-ATAAAAATTAGTCAGCACTT
1 TTTACTTCAATAA-AAACTTCAA-TGTTAACAAAGAAATAAATAGATAAAAAATAGTCAACA-TT
7767797 TAATTTAATAAAAAAATAATTAATTAAG
63 TAATTTAATAAAAAAAT-ATTAATTAAG
7767825 GATGACTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
92 14 0.19
93 17 0.23
94 29 0.39
95 15 0.20
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (94 bp):
TTTACTTCAATAAAAACTTCAATGTTAACAAAGAAATAAATAGATAAAAAATAGTCAACATTTAA
TTTAATAAAAAAATATTAATTAAGAAACT
Found at i:7773418 original size:144 final size:142
Alignment explanation
Indices: 7772632--7773999 Score: 1574
Period size: 144 Copynumber: 9.7 Consensus size: 142
7772622 AGTATTCCTT
* * * * *
7772632 CATAGGAAATTT-AAAAACTT-ATCTTTC-TTACCTTTATAGCAACAAACTCTCTGGTTCCATTC
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
* * * *
7772694 CTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTTAGATTGTCTTACAACAATTTCACAGGT
66 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTT-GATTGTCTGACAACAATTTCA-AGGT
* * *
7772759 TCAATTCCA-ACTC
129 TCTATCCCAGATTC
* * * ** * *
7772772 CAATAGGAAATTTGATAAATTTATCTGTTCTTTACC-TTAGCAAAAATAAACTCTCTGG-TCTCA
1 C-ATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTA-CAACAACAAACTCTCTGGTTC-CA
* * * * * * * * *
7772835 TTCCGCATGAAATTGGATTGTT-AAATCACTTTCTGATCTT-AGTTATCTTACAATAATTTCACA
63 TTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGA-TTGTCTGACAACAATTTCA-A
* *
7772898 GG-TCCAT-CCA-CTTC
126 GGTTCTATCCCAGATTC
* ** * * * * *
7772912 AATAGGAAATTTG-GTAACTTATCCATTCTTTATCTTAACAATAATAAACTCTCTGG-TCCATTC
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
*
7772975 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCAAGGGT
66 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTT-GATTGTCTGACAACAATTTCAA-GGT
7773040 TCTATCCCA-ATTC
129 TCTATCCCAGATTC
7773053 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAA-ACAACTCTCTGGTTCCATT
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACA-AACTCTCTGGTTCCATT
*
7773117 CCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAG-CCTT-ATTGTCT---AACAATTTCAAGTTT
65 CCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTGTCTGACAACAATTTCAAGGTT
7773177 C-ATCCCAG-TT-
130 CTATCCCAGATTC
* *
7773187 CATAGGAAATTTGACAAACTT-ACCATTCTTT-TCTTTACAACAACAAAAATCTCTTGGTTCCAT
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAAC-AAACTCTC-TGGTTCCAT
7773250 TCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTTGTCTGACAACAATTTCAAGG
64 TCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGA-TTGTCTGACAACAATTTCAA-G
*
7773315 GTTCTATCCCAGTTTC
127 GTTCTATCCCAGATTC
7773331 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
* * * *
7773396 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCTA-AGCTTGCATTGTCTAACAATAGTTTCACAGG
66 CTCAAGAAATTGGGTTGTTAAAATCTCTTTC-AGACCTTG-ATTGTCTGACAACAATTTCA-AGG
* *
7773460 TTCAATCCCAGCTTC
128 TTCTATCCCAGATTC
* * **
7773475 AATAGGAAATTTGACAAACTTATCCATTCTTTTTCTTTACAACAACAAACTCTCTGGTTCCATTC
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
* *
7773540 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAGCAATTTCAAGGGT
66 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTT-GATTGTCTGACAACAATTTCAA-GGT
*
7773605 TCTATCCCAGTTTC
129 TCTATCCCAGATTC
*
7773619 CATAGGAAATTTGACAAACTTAACCATTCTTTACTTTTACAACAACAAACTCTCTGGTTCCATTC
1 CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
* *
7773684 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTAGATTATCTTACAACAATTTCACAGGT
66 CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTT-GATTGTCTGACAACAATTTCA-AGGT
* * *
7773749 TCAATTCCA-ACTC
129 TCTATCCCAGATTC
* * * ** * *
7773762 CAATAGGAAATTTGATAAATTTATCTGTTCTTTACC-TTAGCAAAAATAAACTCTCTGG-TCTCA
1 C-ATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTA-CAACAACAAACTCTCTGGTTC-CA
* *
7773825 TTCCGCATG-AATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTTGTCTGACAACAATTTCAAG
63 TTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGA-TTGTCTGACAACAATTTCAA-
* *
7773889 GGTTCTATCCCAGTTTT
126 GGTTCTATCCCAGATTC
* * *
7773906 CATAGGAAAATTTGACAAACTTAACCATTCTTCACCTTTTCAACAACAAACTCTTTGGTTCCATT
1 CATAGG-AAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATT
*
7773971 CC-CGAAGAAATTGGGTTGTTAAGATCTCT
65 CCTC-AAGAAATTGGGTTGTTAAAATCTCT
7774000 ACAAACACTT
Statistics
Matches: 1063, Mismatches: 114, Indels: 97
0.83 0.09 0.08
Matches are distributed among these distances:
132 11 0.01
133 16 0.02
134 66 0.06
135 12 0.01
136 5 0.00
137 38 0.04
138 50 0.05
139 32 0.03
140 29 0.03
141 39 0.04
142 76 0.07
143 140 0.13
144 492 0.46
145 45 0.04
146 12 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (142 bp):
CATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAAACTCTCTGGTTCCATTC
CTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTGTCTGACAACAATTTCAAGGTTC
TATCCCAGATTC
Found at i:7773608 original size:288 final size:284
Alignment explanation
Indices: 7772629--7773999 Score: 1736
Period size: 288 Copynumber: 4.8 Consensus size: 284
7772619 GGAAGTATTC
* * ** * *
7772629 CTTC-ATAGGAAATTT-AAAAACTTAT-CTTTCTTACCTTTATAGCAACAAACTCTCTGGTTCCA
1 CTTCAATAGGAAATTTGACAAACTTATCCATTCTTTTCTTTACAACAACAAACTCTCTGGTTCCA
* * * *
7772691 TTCCTCAAGAAATTGGGTTGTTAAGATCTCTTTCTGATCTT-AGATTGTCTTACAACAATTTCAC
66 TTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCA-ATTGTCTGACAACAATTTCA-
* * ** * * * ** *
7772755 A-GGTTCAATTCCA-ACTCCAATAGGAAATTTGATAAATTTATCTGTTCTTTACC-TTAGCAAAA
129 AGGGTTCTATCCCAGTTTCC-ATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTA-CAACA
* * * * * * *
7772817 ATAAACTCTCTGG-TCTCATTCCGCATGAAATTGGATTGTT-AAATCACTTTCTGATCTTAGTTA
192 ACAAACTCTCTGGTTC-CATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTC-AAGCTTA-TTA
* *
7772880 TCTTACAATAATTTCACAGG-TCCAT-CCA-
254 TCTAACAATAATTTCACAGGTTCAATCCCAG
** * * *
7772908 CTTCAATAGGAAATTTG-GTAACTTATCCATTCTTTATCTTAACAATAATAAACTCTCTGG-TCC
1 CTTCAATAGGAAATTTGACAAACTTATCCATTCTTT-TCTTTACAACAACAAACTCTCTGGTTCC
7772971 ATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCAA
65 ATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCAA
*
7773036 GGGTTCTATCCCA-ATTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAA-A
130 GGGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACA
*
7773099 CAACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTC-AGCCTTATTGTCTA
195 -AACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAAG-CTTATTATCTA
*
7773163 AC---AATTTCA-AGTTTC-ATCCCAG
258 ACAATAATTTCACAGGTTCAATCCCAG
*
7773185 -TTC-ATAGGAAATTTGACAAACTTA-CCATTCTTTTCTTTACAACAACAAAAATCTCTTGGTTC
1 CTTCAATAGGAAATTTGACAAACTTATCCATTCTTTTCTTTACAACAAC-AAACTCTC-TGGTTC
* *
7773247 CATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTTGTCTGACAACAATTTCA
64 CATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCA
7773312 AGGGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAAC
129 AGGGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAAC
*
7773377 AAACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCTAAGCTTGCATTGTC
194 AAACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTC-AAGCTT--ATTATC
*
7773442 TAACAATAGTTTCACAGGTTCAATCCCAG
256 TAACAATAATTTCACAGGTTCAATCCCAG
7773471 CTTCAATAGGAAATTTGACAAACTTATCCATTCTTTTTCTTTACAACAACAAACTCTCTGGTTCC
1 CTTCAATAGGAAATTTGACAAACTTATCCATTC-TTTTCTTTACAACAACAAACTCTCTGGTTCC
*
7773536 ATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAGCAATTTCAA
65 ATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCAA
*
7773601 GGGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACTTTTACAACAACA
130 GGGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACA
*
7773666 AACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTAGATTATCT
195 AACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCA-AGCTT--ATTATCT
* * * *
7773731 TACAACAATTTCACAGGTTCAATTCCAA
257 AACAATAATTTCACAGGTTCAATCCCAG
* * * ** * * * *
7773759 CTCCAATAGGAAATTTGATAAATTTATCTGTTCTTTACCTTAGCAAAAATAAACTCTCTGG-TCT
1 CTTCAATAGGAAATTTGACAAACTTATCCATTCTTTTCTTTA-CAACAACAAACTCTCTGGTTC-
* * * *
7773823 CATTCCGCATG-AATTGGGTTGTTAAAATCTCTTTCAGACCTTGATTTGTCTGACAACAATTTCA
64 CATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCA
* * *
7773887 AGGGTTCTATCCCAGTTTTCATAGGAAAATTTGACAAACTTAACCATTCTTCACCTTTTCAACAA
129 AGGGTTCTATCCCAGTTTCCATAGG-AAATTTGACAAACTTAACCATTCTTTACCTTTACAACAA
* *
7773952 CAAACTCTTTGGTTCCATTCC-CGAAGAAATTGGGTTGTTAAGATCTCT
193 CAAACTCTCTGGTTCCATTCCTC-AAGAAATTGGGTTGTTAAAATCTCT
7774000 ACAAACACTT
Statistics
Matches: 978, Mismatches: 76, Indels: 67
0.87 0.07 0.06
Matches are distributed among these distances:
274 10 0.01
275 32 0.03
276 24 0.02
277 79 0.08
278 97 0.10
279 17 0.02
280 90 0.09
281 106 0.11
282 19 0.02
284 6 0.01
285 5 0.01
286 7 0.01
287 88 0.09
288 369 0.38
289 13 0.01
290 16 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (284 bp):
CTTCAATAGGAAATTTGACAAACTTATCCATTCTTTTCTTTACAACAACAAACTCTCTGGTTCCA
TTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAGACCTTCAATTGTCTGACAACAATTTCAAG
GGTTCTATCCCAGTTTCCATAGGAAATTTGACAAACTTAACCATTCTTTACCTTTACAACAACAA
ACTCTCTGGTTCCATTCCTCAAGAAATTGGGTTGTTAAAATCTCTTTCAAGCTTATTATCTAACA
ATAATTTCACAGGTTCAATCCCAG
Found at i:7776434 original size:12 final size:12
Alignment explanation
Indices: 7776417--7776449 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
7776407 GCTTTTCTGC
7776417 AAATGAAACGAG
1 AAATGAAACGAG
7776429 AAATGAAACGAG
1 AAATGAAACGAG
7776441 AAATGAAAC
1 AAATGAAAC
7776450 TTGTAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.21, T:0.09
Consensus pattern (12 bp):
AAATGAAACGAG
Found at i:7780346 original size:20 final size:21
Alignment explanation
Indices: 7780306--7780350 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7780296 ATGAACATTA
*
7780306 TATTT-TTTTTCCTTTTCAAC
1 TATTTATTTTTCATTTTCAAC
7780326 TATTTATTTTTCATTTT-AAC
1 TATTTATTTTTCATTTTCAAC
7780346 T-TTTA
1 TATTTA
7780351 CTAATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.39
21 10 0.43
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTATTTTTCATTTTCAAC
Found at i:7783713 original size:48 final size:48
Alignment explanation
Indices: 7783661--7783761 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
7783651 GAAATAACTT
** *
7783661 TTATTAAGATAATTGTACAAAAT-ATTTAATTAAAGTTATAATACAATA
1 TTATTAA-ATAATTAAACAAAATGATTTAATTAAAATTATAATACAATA
* * * *
7783709 TTATTAACTAATTAAACTATATGATTTAATTAAAATTATATTACAATA
1 TTATTAAATAATTAAACAAAATGATTTAATTAAAATTATAATACAATA
*
7783757 GTATT
1 TTATT
7783762 TTTTAGTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 10 0.23
48 34 0.77
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (48 bp):
TTATTAAATAATTAAACAAAATGATTTAATTAAAATTATAATACAATA
Found at i:7796678 original size:30 final size:28
Alignment explanation
Indices: 7796627--7796682 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
7796617 TCTCAAATGT
*
7796627 CAAAAATAAAAGTCTAACTATTAATTAA
1 CAAAAATAAAAGTCGAACTATTAATTAA
*
7796655 CAAAAATATTAAAGTCGATCTATTAATT
1 CAAAAATA--AAAGTCGAACTATTAATT
7796683 GAAGACAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
30 16 0.67
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (28 bp):
CAAAAATAAAAGTCGAACTATTAATTAA
Found at i:7813460 original size:20 final size:21
Alignment explanation
Indices: 7813435--7813476 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
7813425 AGAACGATAT
7813435 ACTACTGTTTTTTGTGATTGA
1 ACTACTGTTTTTTGTGATTGA
7813456 CTACTACTGTTTTTTGTGATT
1 --ACTACTGTTTTTTGTGATT
7813477 CATGGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.55
Consensus pattern (21 bp):
ACTACTGTTTTTTGTGATTGA
Found at i:7822280 original size:20 final size:20
Alignment explanation
Indices: 7822255--7822302 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
7822245 ATATTCAAAT
7822255 TGCCACATTAGCCTAGTCCA
1 TGCCACATTAGCCTAGTCCA
7822275 TGCCACATTAGCCTAGTCCA
1 TGCCACATTAGCCTAGTCCA
7822295 TGCCACAT
1 TGCCACAT
7822303 CAGCTTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (20 bp):
TGCCACATTAGCCTAGTCCA
Found at i:7822342 original size:21 final size:21
Alignment explanation
Indices: 7822294--7822343 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7822284 AGCCTAGTCC
7822294 ATGCCACATCAGCTTTGGTCA
1 ATGCCACATCAGCTTTGGTCA
* *
7822315 ATACCACATCATC-TTGGTCAA
1 ATGCCACATCAGCTTTGGTC-A
7822336 ATGCCACA
1 ATGCCACA
7822344 CCAACAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (21 bp):
ATGCCACATCAGCTTTGGTCA
Found at i:7827628 original size:17 final size:18
Alignment explanation
Indices: 7827606--7827642 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7827596 ATTAATATTT
7827606 AATTTTAAATTTT-TAAA
1 AATTTTAAATTTTATAAA
*
7827623 AATTTTACATTTTATAAA
1 AATTTTAAATTTTATAAA
7827641 AA
1 AA
7827643 AGTAACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTAAATTTTATAAA
Found at i:7833599 original size:5 final size:5
Alignment explanation
Indices: 7833589--7833613 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7833579 AAAATGAGAA
7833589 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
7833614 CCATTTCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7835617 original size:2 final size:2
Alignment explanation
Indices: 7835610--7835636 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7835600 TGTGATTTTA
7835610 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7835637 ACACAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7844236 original size:19 final size:19
Alignment explanation
Indices: 7844177--7844237 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
7844167 TTAAGTACAG
7844177 CAACAATATTGAAAACAAT
1 CAACAATATTGAAAACAAT
* * *
7844196 CAAC--T-TTAAAAAAAAAA
1 CAACAATATT-GAAAACAAT
*
7844213 AAACAATATTGAAAACAAT
1 CAACAATATTGAAAACAAT
7844232 CAACAA
1 CAACAA
7844238 GACTTGAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
19 16 0.53
20 2 0.07
ACGTcount: A:0.64, C:0.15, G:0.03, T:0.18
Consensus pattern (19 bp):
CAACAATATTGAAAACAAT
Found at i:7848506 original size:2 final size:2
Alignment explanation
Indices: 7848501--7848531 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7848491 CCTTAGCACA
7848501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7848532 GTGTCATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7852438 original size:21 final size:20
Alignment explanation
Indices: 7852387--7852445 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
7852377 TAATTAAAAA
* * *
7852387 AATAATTATAACA-AAACAA
1 AATAATAATAACATAAATAT
7852406 AATAATAATAACATCAAATAT
1 AATAATAATAACAT-AAATAT
7852427 AATAA-AATTAACATAAATA
1 AATAATAA-TAACATAAATA
7852446 ATATACATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.35
20 7 0.21
21 15 0.44
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.25
Consensus pattern (20 bp):
AATAATAATAACATAAATAT
Found at i:7854715 original size:18 final size:20
Alignment explanation
Indices: 7854673--7854716 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7854663 TCATTAGTTG
7854673 TTGTTCTTGTCTTCTCCTACC
1 TTGTTCTTGTCTTCTCC-ACC
*
7854694 TTGTTCTT-TCTTGTCC-CC
1 TTGTTCTTGTCTTCTCCACC
7854712 TTGTT
1 TTGTT
7854717 TTCCACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.02, C:0.30, G:0.11, T:0.57
Consensus pattern (20 bp):
TTGTTCTTGTCTTCTCCACC
Found at i:7856454 original size:19 final size:20
Alignment explanation
Indices: 7856430--7856469 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7856420 TTAATTGTGT
7856430 AACCAAACCAAACTAT-TAA
1 AACCAAACCAAACTATCTAA
*
7856449 AACCAAGCCAAACTATCTAA
1 AACCAAACCAAACTATCTAA
7856469 A
1 A
7856470 TTATTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.55, C:0.28, G:0.03, T:0.15
Consensus pattern (20 bp):
AACCAAACCAAACTATCTAA
Found at i:7857945 original size:9 final size:9
Alignment explanation
Indices: 7857898--7857953 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
7857888 TTCATAAATT
7857898 TATAA-TAA
1 TATAATTAA
*
7857906 TATAATTAT
1 TATAATTAA
7857915 TAT-ATTAA
1 TATAATTAA
7857923 -A-AA-TATA
1 TATAATTA-A
*
7857930 TAAAATTAA
1 TATAATTAA
7857939 TATAATTAA
1 TATAATTAA
7857948 TATAAT
1 TATAAT
7857954 ATCTACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 10 0.26
9 22 0.56
10 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TATAATTAA
Found at i:7867539 original size:22 final size:22
Alignment explanation
Indices: 7867511--7867559 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
7867501 GATTTAGAGA
7867511 AAGCACTACCAGGGGGCAGCAC
1 AAGCACTACCAGGGGGCAGCAC
7867533 AAGCACTACCAGGGGGCAGCAC
1 AAGCACTACCAGGGGGCAGCAC
*
7867555 CAGCA
1 AAGCA
7867560 ACCATTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.33, G:0.31, T:0.04
Consensus pattern (22 bp):
AAGCACTACCAGGGGGCAGCAC
Found at i:7873162 original size:2 final size:2
Alignment explanation
Indices: 7873155--7873183 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7873145 TTTAATACTT
7873155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7873184 GCTATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7884480 original size:2 final size:2
Alignment explanation
Indices: 7884473--7884499 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7884463 ACTAGCCTTC
7884473 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7884500 GAGCCACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7885179 original size:21 final size:21
Alignment explanation
Indices: 7885155--7885224 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
7885145 TCATATGTTT
7885155 TATTTTTATTTTAATATTATA
1 TATTTTTATTTTAATATTATA
7885176 TATTTTTATTTTAATA-TA-A
1 TATTTTTATTTTAATATTATA
*
7885195 T-TTTTTATATTATATATT-T-
1 TATTTTTATTTTA-ATATTATA
7885214 TA-TTTTATTTT
1 TATTTTTATTTT
7885225 TTTCTTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
18 10 0.23
19 14 0.33
20 3 0.07
21 16 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTTTATTTTAATATTATA
Found at i:7885216 original size:14 final size:15
Alignment explanation
Indices: 7885161--7885214 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
7885151 GTTTTATTTT
*
7885161 TATTTTAATATTATA
1 TATTTTTATATTATA
*
7885176 TATTTTTATTTTAATA
1 TATTTTTATATT-ATA
7885192 TAATTTTTTATATTATA
1 T-A-TTTTTATATTATA
7885209 TATTTT
1 TATTTT
7885215 ATTTTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.42
16 5 0.15
17 5 0.15
18 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATATTATA
Found at i:7885223 original size:26 final size:25
Alignment explanation
Indices: 7885153--7885226 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
7885143 TGTCATATGT
* *
7885153 TTTAT-TTTTATTTTAATATTATATA
1 TTTATATTTTATTTT-ATTTTTTATA
* * *
7885178 TTTTTATTTTAATATAATTTTTTATA
1 TTTATATTTT-ATTTTATTTTTTATA
7885204 TTATATATTTTATTTTATTTTTT
1 TT-TATATTTTATTTTATTTTTT
7885227 TCTTTTAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 4 0.11
26 24 0.63
27 10 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTATATTTTATTTTATTTTTTATA
Found at i:7885423 original size:16 final size:16
Alignment explanation
Indices: 7885402--7885483 Score: 60
Period size: 16 Copynumber: 4.8 Consensus size: 16
7885392 ATTTAATTTG
7885402 ATTATATTAATTTTAT
1 ATTATATTAATTTTAT
*
7885418 ATTATAATT-ATATTAT
1 ATTAT-ATTAATTTTAT
*
7885434 ATT-TATTAATTATAACGT
1 ATTATATTAATT-TTA--T
7885452 GATTATATTATAATTTTAT
1 -ATTATA-T-TAATTTTAT
*
7885471 ATTATAATAATTT
1 ATTATATTAATTT
7885484 ATTATAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 22 0.42
17 3 0.06
18 7 0.13
19 4 0.08
20 2 0.04
21 3 0.06
22 5 0.10
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTATATTAATTTTAT
Found at i:7885438 original size:22 final size:24
Alignment explanation
Indices: 7885394--7885448 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
7885384 AAAGTGTAAT
*
7885394 TTAATT-TGATTATATTAATTTTA
1 TTAATTATAATTATATTAATTTTA
7885417 -T-ATTATAATTATATT-ATATTTA
1 TTAATTATAATTATATTAAT-TTTA
7885439 TTAATTATAA
1 TTAATTATAA
7885449 CGTGATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 1 0.04
24 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAATTATAATTATATTAATTTTA
Found at i:7885445 original size:18 final size:16
Alignment explanation
Indices: 7885402--7885511 Score: 51
Period size: 14 Copynumber: 7.2 Consensus size: 16
7885392 ATTTAATTTG
*
7885402 ATTATATTA-ATTTTA
1 ATTATATTATATTATA
7885417 TATTATAATTATATTAT-
1 -ATTAT-ATTATATTATA
7885434 ATT-TATTA-ATTATA
1 ATTATATTATATTATA
* *
7885448 ACGT-GATTATATTATA
1 A-TTATATTATATTATA
7885464 ATTTTATATTATA--ATA
1 A--TTATATTATATTATA
**
7885480 ATT-TATTATAAAATA
1 ATTATATTATATTATA
*
7885495 A--ATATTATAATATA
1 ATTATATTATATTATA
7885509 ATT
1 ATT
7885512 TAATTATACA
Statistics
Matches: 75, Mismatches: 7, Indels: 24
0.71 0.07 0.23
Matches are distributed among these distances:
13 12 0.16
14 19 0.25
15 10 0.13
16 19 0.25
17 5 0.07
18 10 0.13
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATATTATATTATA
Found at i:7885472 original size:13 final size:13
Alignment explanation
Indices: 7885409--7885478 Score: 65
Period size: 13 Copynumber: 5.3 Consensus size: 13
7885399 TTGATTATAT
7885409 TAATTTTATATTA
1 TAATTTTATATTA
7885422 TAA--TTATATTA
1 TAATTTTATATTA
*
7885433 TATTTATTA-ATTA
1 TAATT-TTATATTA
*
7885446 TAACGTGATTATATTA
1 TAA--T-TTTATATTA
7885462 TAATTTTATATTA
1 TAATTTTATATTA
7885475 TAAT
1 TAAT
7885479 AATTTATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
11 10 0.22
13 21 0.46
14 4 0.09
15 4 0.09
16 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (13 bp):
TAATTTTATATTA
Found at i:7885486 original size:13 final size:13
Alignment explanation
Indices: 7885395--7885490 Score: 52
Period size: 13 Copynumber: 7.0 Consensus size: 13
7885385 AAGTGTAATT
*
7885395 TAATTTGATTATAT
1 TAATTT-ATTATAA
*
7885409 TAATTT-TATATTA
1 TAATTTAT-TATAA
*
7885422 TAATTATATTATAT
1 TAATT-TATTATAA
* *
7885436 TTATTAATTATAA
1 TAATTTATTATAA
*
7885449 CGTGATTATATTATAA
1 --TAATT-TATTATAA
*
7885465 T-TTTATATTATAA
1 TAATT-TATTATAA
7885478 TAATTTATTATAA
1 TAATTTATTATAA
7885491 AATAAATATT
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
12 1 0.02
13 34 0.53
14 17 0.27
15 5 0.08
16 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (13 bp):
TAATTTATTATAA
Found at i:7899635 original size:29 final size:29
Alignment explanation
Indices: 7899572--7899627 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
7899562 TTATATTTTT
* * *
7899572 AATAATAATTATCTTATTAATTTTTTAAA
1 AATAATAATTATCGTATAAAATTTTTAAA
7899601 AATAATAATTAT-GTATAAAATTTTTAA
1 AATAATAATTATCGTATAAAATTTTTAA
7899628 GAATTAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
AATAATAATTATCGTATAAAATTTTTAAA
Found at i:7911195 original size:31 final size:31
Alignment explanation
Indices: 7911160--7911236 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
7911150 AGTATATGAG
*
7911160 TTAAATTGAACAAAATTGTAA-GGCACATAAA
1 TTAAATTGAACAAAATT-TAATAGCACATAAA
* * *
7911191 TTAAATTTAACAAAATTTAATAGTATATAAA
1 TTAAATTGAACAAAATTTAATAGCACATAAA
*
7911222 TTAAATTGAATAAAA
1 TTAAATTGAACAAAA
7911237 ATATATCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (31 bp):
TTAAATTGAACAAAATTTAATAGCACATAAA
Found at i:7912103 original size:35 final size:35
Alignment explanation
Indices: 7912062--7912142 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
7912052 TAAGCTTTTT
* * *
7912062 CAATGGCTTTTCACATGCTCAGCCACAACCTTCAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTTCAA
* *
7912097 CAATGGCTTTTCAAAGGCTCAACCACAATCTTTAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTTCAA
* *
7912132 TAATGGTTTTT
1 CAATGGCTTTT
7912143 TTTAGGATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (35 bp):
CAATGGCTTTTCAAAGGCTCAACCACAACCTTCAA
Found at i:7912602 original size:22 final size:22
Alignment explanation
Indices: 7912574--7912630 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
7912564 ATAGAATGCT
7912574 CTTAATCGACTAATCGATATTA
1 CTTAATCGACTAATCGATATTA
7912596 CTTAATCGACTAATCGATATTA
1 CTTAATCGACTAATCGATATTA
7912618 CTTAATCGACTAA
1 CTTAATCGACTAA
7912631 GTCGTTTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (22 bp):
CTTAATCGACTAATCGATATTA
Found at i:7924461 original size:13 final size:13
Alignment explanation
Indices: 7924443--7924468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7924433 ACTTTTTTCA
7924443 GAAATACAAGTGT
1 GAAATACAAGTGT
7924456 GAAATACAAGTGT
1 GAAATACAAGTGT
7924469 TTCTCCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
GAAATACAAGTGT
Found at i:7925088 original size:27 final size:23
Alignment explanation
Indices: 7925036--7925085 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7925026 TCCTTTTATC
*
7925036 GCTTTCAATATGTCTTTTTACTT
1 GCTTCCAATATGTCTTTTTACTT
7925059 GCTTCCAATATGTCTTTTTACTT
1 GCTTCCAATATGTCTTTTTACTT
7925082 GCTT
1 GCTT
7925086 GCTATGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.54
Consensus pattern (23 bp):
GCTTCCAATATGTCTTTTTACTT
Found at i:7927849 original size:38 final size:38
Alignment explanation
Indices: 7927807--7927882 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
7927797 ATATGCCAAG
7927807 ATTAATTACTTGAATTAATTTTTGTATAACAATAATGT
1 ATTAATTACTTGAATTAATTTTTGTATAACAATAATGT
7927845 ATTAATTACTTGAATTAATTTTTGTATAACAATAATGT
1 ATTAATTACTTGAATTAATTTTTGTATAACAATAATGT
7927883 TTTTTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (38 bp):
ATTAATTACTTGAATTAATTTTTGTATAACAATAATGT
Found at i:7931404 original size:2 final size:2
Alignment explanation
Indices: 7931397--7931422 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7931387 TTGTGCTACA
7931397 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7931423 TTGGCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7943265 original size:2 final size:2
Alignment explanation
Indices: 7943258--7943282 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7943248 CAGCAGTATT
7943258 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7943283 CAAATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7943310 original size:4 final size:4
Alignment explanation
Indices: 7943301--7943330 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7943291 ATACATATAA
*
7943301 ATGT ATGT ATGT ATGT ATGT ATGC ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
7943331 ATGTATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:7952341 original size:20 final size:22
Alignment explanation
Indices: 7952313--7952352 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7952303 TTTGTCCTGC
*
7952313 ATAACCTAT-ATTTTTCTCTAT
1 ATAACCTATCACTTTTCTCTAT
7952334 ATAA-CTATCACTTTTCTCT
1 ATAACCTATCACTTTTCTCT
7952353 CAATTCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAACCTATCACTTTTCTCTAT
Found at i:7968420 original size:17 final size:16
Alignment explanation
Indices: 7968398--7968429 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7968388 AGGAAAACAG
7968398 TGAAAAGCAGACAAAGT
1 TGAAAAGCAG-CAAAGT
7968415 TGAAAAGCAGCAAAG
1 TGAAAAGCAGCAAAG
7968430 CATTGAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.25, T:0.09
Consensus pattern (16 bp):
TGAAAAGCAGCAAAGT
Found at i:7989826 original size:25 final size:23
Alignment explanation
Indices: 7989780--7989826 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7989770 TTTATATAAT
**
7989780 ATAAACTTTTTTTTGTGGAAGAA
1 ATAAACTTTTTTTTGTAAAAGAA
7989803 ATAAACTTTTTTAATTGTAAAAGA
1 ATAAACTTTTTT--TTGTAAAAGA
7989827 TAATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
ATAAACTTTTTTTTGTAAAAGAA
Found at i:7994251 original size:19 final size:19
Alignment explanation
Indices: 7994227--7994265 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7994217 ATCTAATCAA
7994227 GATGATCAGTTTAGTGAGT
1 GATGATCAGTTTAGTGAGT
7994246 GATGATCAGTTTAGTGAGT
1 GATGATCAGTTTAGTGAGT
7994265 G
1 G
7994266 TCTAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (19 bp):
GATGATCAGTTTAGTGAGT
Found at i:7995754 original size:2 final size:2
Alignment explanation
Indices: 7995747--7995803 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
7995737 CAAGCAAGTG
* * *
7995747 CT CT CT CT CT CC CT CT CC CT CT CC CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7995789 CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT C
7995804 ACACACACAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:8002020 original size:17 final size:15
Alignment explanation
Indices: 8001988--8002029 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
8001978 ATTTATTTTT
*
8001988 ATATATTGTTAAAAA
1 ATATATTTTTAAAAA
8002003 ATATATTTTTAAATAAA
1 ATATATTTTT-AA-AAA
8002020 ATATATTTTT
1 ATATATTTTT
8002030 TATATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATATTTTTAAAAA
Found at i:8003910 original size:136 final size:139
Alignment explanation
Indices: 8003770--8004039 Score: 332
Period size: 136 Copynumber: 2.0 Consensus size: 139
8003760 AATTAAATTG
* * ** *
8003770 GTTAATTGGCTATTTTCATTAACCAATTAAG-TAGTTAATTGGTTAATTAAGTTAATTTAAAGTA
1 GTTAATTAGCTATCTTCATTAACCAATT-AGTTAGAAAATTAGTTAATTAAGTTAATTTAAAGTA
* *
8003834 GAAATTAAAATAGTTAATCAATTAAATGAGATTTACATTTTT-A-T-TTTATAATTTAATTAATT
65 GAAATTAAAATAGTTAATCAACTAAATGAGATTTACATTTTTGATTATTTATAATTAAATTAATT
8003896 AATTTAAATA
130 AATTTAAATA
* * * *
8003906 GTTAATTAGTTATCTTGATTAACTAATTAGTTAGAAAATTAGTTAATTAAGTTAATTTAAGGTAG
1 GTTAATTAGCTATCTTCATTAACCAATTAGTTAGAAAATTAGTTAATTAAGTTAATTTAAAGTAG
* * * * * **
8003971 TAATTCAATTAGTTAATTAACTAAATGATATTTGTATTTTTGATTAGTTTATAATTAAATTAATT
66 AAATTAAAATAGTTAATCAACTAAATGAGATTTACATTTTTGATTA-TTTATAATTAAATTAATT
8004036 AATT
130 AATT
8004040 AGTAATTAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
135 2 0.02
136 86 0.77
137 1 0.01
138 1 0.01
140 21 0.19
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (139 bp):
GTTAATTAGCTATCTTCATTAACCAATTAGTTAGAAAATTAGTTAATTAAGTTAATTTAAAGTAG
AAATTAAAATAGTTAATCAACTAAATGAGATTTACATTTTTGATTATTTATAATTAAATTAATTA
ATTTAAATA
Found at i:8004052 original size:71 final size:75
Alignment explanation
Indices: 8003949--8004106 Score: 180
Period size: 75 Copynumber: 2.1 Consensus size: 75
8003939 GAAAATTAGT
* * * *
8003949 TAATTAAGTTAATTTAAGGTAGTAATTCAATTAG-TTAATTAACTAAATGATATTTGTATT-TTT
1 TAATTAAATTAATTTAAGGTAGTAATTAAATTAGTTTAATTAACTAAATGAGATTTGCATTATTT
*
8004012 GATTAGTTTA
66 GATTAATTTA
* * *
8004022 TAATTAAATTAA-TTAA-TTAGTAATTAAATTAGTTATTTAATTAATTAACTGAGATTTGCATTA
1 TAATTAAATTAATTTAAGGTAGTAATTAAATTAG---TTTAATTAACTAAATGAGATTTGCATTA
*
8004085 TTTTATTAATTTA
63 TTTGATTAATTTA
8004098 TAATTAAAT
1 TAATTAAAT
8004107 CAGTTATAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
71 14 0.20
72 4 0.06
73 11 0.15
75 22 0.31
76 20 0.28
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (75 bp):
TAATTAAATTAATTTAAGGTAGTAATTAAATTAGTTTAATTAACTAAATGAGATTTGCATTATTT
GATTAATTTA
Found at i:8005658 original size:2 final size:2
Alignment explanation
Indices: 8005653--8005688 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8005643 GTGTGTGTGA
8005653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8005689 GCTTTATGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8006568 original size:23 final size:22
Alignment explanation
Indices: 8006512--8006575 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
8006502 TAGGCATTGT
*
8006512 GTAACT-GCTTTTTAGGCATTAC
1 GTAACTAG-TTTTTAAGCATTAC
*
8006534 GTAACTAGTTTTTAAGTATTAC
1 GTAACTAGTTTTTAAGCATTAC
* *
8006556 GTTACTAATTTTTAAGCATT
1 GTAACTAGTTTTTAAGCATT
8006576 GTGTGACTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (22 bp):
GTAACTAGTTTTTAAGCATTAC
Found at i:8006627 original size:45 final size:45
Alignment explanation
Indices: 8006549--8006644 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
8006539 TAGTTTTTAA
* * **
8006549 GTATTACGTTACTAATTTTTAAGCATTGTGTGACTGATTGATAAG
1 GTATTACGTAACTAATTTTTAAACATTACGTGACTGATTGATAAG
* * *
8006594 GTATTTCGTAACTAATTTTTAAATATTACGTGACTGGTTGAT-AG
1 GTATTACGTAACTAATTTTTAAACATTACGTGACTGATTGATAAG
*
8006638 GCATTAC
1 GTATTAC
8006645 ATGACTTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 7 0.17
45 35 0.83
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (45 bp):
GTATTACGTAACTAATTTTTAAACATTACGTGACTGATTGATAAG
Found at i:8006642 original size:67 final size:66
Alignment explanation
Indices: 8006502--8006642 Score: 147
Period size: 67 Copynumber: 2.1 Consensus size: 66
8006492 TTTGAAGGTT
* * * * * * *
8006502 TAGGCATTGTGTAACTGCTTTTTAGGCATTACGTAACTAGTTTTTAAGTATTACGTTACTAATTT
1 TAGGCATTGTGTAACTGATTATAAGGCATTACGTAACTAATTTTTAAATATTACGTGACTAATTG
*
8006567 T
66 A
* * * * **
8006568 TAAGCATTGTGTGACTGATTGATAAGGTATTTCGTAACTAATTTTTAAATATTACGTGACTGGTT
1 TAGGCATTGTGTAACTGATT-ATAAGGCATTACGTAACTAATTTTTAAATATTACGTGACTAATT
8006633 GA
65 GA
8006635 TAGGCATT
1 TAGGCATT
8006643 ACATGACTTA
Statistics
Matches: 59, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
66 17 0.29
67 42 0.71
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (66 bp):
TAGGCATTGTGTAACTGATTATAAGGCATTACGTAACTAATTTTTAAATATTACGTGACTAATTG
A
Found at i:8014030 original size:2 final size:2
Alignment explanation
Indices: 8014023--8014053 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8014013 GACCCATCTT
8014023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8014054 GAATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8015473 original size:44 final size:44
Alignment explanation
Indices: 8015380--8015512 Score: 110
Period size: 44 Copynumber: 3.0 Consensus size: 44
8015370 CAGCAGATTG
* * ** ** *
8015380 CACCCGCACCTTC-TCTATTCTGTTTTGCAACAGATCTCACCGTCG
1 CACCC-CACCTTCTTC-ATTCTGGTTTGCAGCAGATAGCACCACCA
* * *
8015425 CACCCACACCTT-TTCCGTTCT-GTTTGCCGCAGATAGTACCACCA
1 CACCC-CACCTTCTT-CATTCTGGTTTGCAGCAGATAGCACCACCA
*
8015469 CACCCCACCTTCTTCATTCTGGTTTGCAGCAGATCGCACCACCA
1 CACCCCACCTTCTTCATTCTGGTTTGCAGCAGATAGCACCACCA
8015513 TACTCGCATA
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
43 11 0.16
44 41 0.59
45 16 0.23
46 1 0.01
ACGTcount: A:0.20, C:0.39, G:0.14, T:0.28
Consensus pattern (44 bp):
CACCCCACCTTCTTCATTCTGGTTTGCAGCAGATAGCACCACCA
Found at i:8015546 original size:146 final size:140
Alignment explanation
Indices: 8015379--8015648 Score: 375
Period size: 146 Copynumber: 1.9 Consensus size: 140
8015369 CCAGCAGATT
*
8015379 GCACCCGCACCTTCTCTATTCTGTTTTGCAACAGATCTCACCGTCGCACCCA-CACCTT-TTCCG
1 GCACCCGCACCTTCTCCATTCTGTTTTGCAACAGATCTCA-CGTCGCA-CCAGCACCTTCTT-CG
* *
8015442 TTCTG-TTTGCCGCAGATAGTACCACCACACCCCACCTTCTTCATTCTGGTTTGCAGCAGATCGC
63 TTCTGATTTGCCGCAGAT--CA-CA-C-CA-CCCACCTTCTCCATTCTGGTTTGCAGCAGATCGC
8015506 ACCACCATACTCGCATATC
122 ACCACCATACTCGCATATC
*
8015525 GCACCCGCACCTTCTCCATTCTGTTTTGCAGCAGATCTCACGTCGCACCAGCACCTTCTTCGTTC
1 GCACCCGCACCTTCTCCATTCTGTTTTGCAACAGATCTCACGTCGCACCAGCACCTTCTTCGTTC
* * *
8015590 TGATTTGTCGCAGATCACACCACCCACCTTCTCCATTCTGTTTTGCCGCAGATCGCACC
66 TGATTTGCCGCAGATCACACCACCCACCTTCTCCATTCTGGTTTGCAGCAGATCGCACC
8015649 GTCGTACCCC
Statistics
Matches: 114, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
140 34 0.30
141 2 0.02
142 1 0.01
143 2 0.02
144 4 0.04
145 20 0.18
146 51 0.45
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.29
Consensus pattern (140 bp):
GCACCCGCACCTTCTCCATTCTGTTTTGCAACAGATCTCACGTCGCACCAGCACCTTCTTCGTTC
TGATTTGCCGCAGATCACACCACCCACCTTCTCCATTCTGGTTTGCAGCAGATCGCACCACCATA
CTCGCATATC
Found at i:8015620 original size:38 final size:38
Alignment explanation
Indices: 8015576--8015648 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
8015566 GTCGCACCAG
* * *
8015576 CACCTTCTTCGTTCTGATTTGTCGCAGATCACACCACC
1 CACCTTCTCCATTCTGATTTGCCGCAGATCACACCACC
* *
8015614 CACCTTCTCCATTCTGTTTTGCCGCAGATCGCACC
1 CACCTTCTCCATTCTGATTTGCCGCAGATCACACC
8015649 GTCGTACCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.16, C:0.38, G:0.14, T:0.32
Consensus pattern (38 bp):
CACCTTCTCCATTCTGATTTGCCGCAGATCACACCACC
Found at i:8017336 original size:28 final size:28
Alignment explanation
Indices: 8017302--8017355 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8017292 ATTTGAAATT
8017302 TTATTTATATTTGA-TGTAATGTATTTAC
1 TTATTTAT-TTTGAGTGTAATGTATTTAC
* *
8017330 TTATTTATTTTTAGTGTAATTTATTT
1 TTATTTATTTTGAGTGTAATGTATTT
8017356 GTTTGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (28 bp):
TTATTTATTTTGAGTGTAATGTATTTAC
Found at i:8025107 original size:1 final size:1
Alignment explanation
Indices: 8025103--8025136 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
8025093 AAAAAGAGGA
*
8025103 GGGGGGGGGGGGGGGGGAGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
8025137 TGTGACAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:8025123 original size:18 final size:18
Alignment explanation
Indices: 8025100--8025136 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8025090 AAAAAAAAGA
8025100 GGAGGGGGGGGGGGGGGG
1 GGAGGGGGGGGGGGGGGG
8025118 GGAGGGGGGGGGGGGGGG
1 GGAGGGGGGGGGGGGGGG
8025136 G
1 G
8025137 TGTGACAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.00, G:0.95, T:0.00
Consensus pattern (18 bp):
GGAGGGGGGGGGGGGGGG
Found at i:8025126 original size:17 final size:17
Alignment explanation
Indices: 8025104--8025136 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8025094 AAAAGAGGAG
8025104 GGGGGGGGGGGGGGGGA
1 GGGGGGGGGGGGGGGGA
8025121 GGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGG
8025137 TGTGACAGTG
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:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (17 bp):
GGGGGGGGGGGGGGGGA
Found at i:8030431 original size:13 final size:13
Alignment explanation
Indices: 8030401--8030443 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8030391 TAAACTTAAG
*
8030401 TTAAAATTATTTG
1 TTAAAATTATTTT
*
8030414 ATAAAATTATTTT
1 TTAAAATTATTTT
8030427 TTAAAAGTT-TTTT
1 TTAAAA-TTATTTT
8030440 TTAA
1 TTAA
8030444 TATATAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 24 0.92
14 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (13 bp):
TTAAAATTATTTT
Done.