Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 314 of 335
Found at i:92709571 original size:7 final size:7
Alignment explanation
Indices: 92709559--92709584 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
92709549 AAATAGTATT
92709559 TAATATA
1 TAATATA
92709566 TAATATA
1 TAATATA
92709573 TAATATA
1 TAATATA
92709580 TAATA
1 TAATA
92709585 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:92710005 original size:33 final size:34
Alignment explanation
Indices: 92709940--92710008 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
92709930 AATGAAAATT
92709940 TATATGTAAAAATAATATGTATAAATAAATATATAA
1 TATATGTAAAAATAATA--TATAAATAAATATATAA
*
92709976 TATATGTAAAAAT-ATA-ATAATATATATATATAA
1 TATATGTAAAAATAATATATAA-ATAAATATATAA
92710009 ATAATAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 4 0.13
33 11 0.35
35 3 0.10
36 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (34 bp):
TATATGTAAAAATAATATATAAATAAATATATAA
Found at i:92710134 original size:19 final size:19
Alignment explanation
Indices: 92710098--92710147 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
92710088 GAAATAAAAT
*
92710098 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
*
92710115 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
92710134 TAAAATAAATATAG
1 TAAAATAAATATAG
92710148 GACTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:92713034 original size:24 final size:23
Alignment explanation
Indices: 92713006--92713055 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
92712996 TTTTTAAAAT
*
92713006 ATTTAGTAGTATAATATATTTAAC
1 ATTTAGTAGCATAATATATTT-AC
*
92713030 ATTTATTAGCATAATATATTTAC
1 ATTTAGTAGCATAATATATTTAC
92713053 ATT
1 ATT
92713056 AATTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (23 bp):
ATTTAGTAGCATAATATATTTAC
Found at i:92713060 original size:23 final size:24
Alignment explanation
Indices: 92713016--92713061 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
92713006 ATTTAGTAGT
*
92713016 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTAATTAGC
92713040 ATAATATATTT-ACATTAATTAG
1 ATAATATATTTAACATTAATTAG
92713062 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAATATATTTAACATTAATTAGC
Found at i:92716314 original size:25 final size:26
Alignment explanation
Indices: 92716220--92716328 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
92716210 TGATACAAAT
92716220 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92716246 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92716272 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92716298 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92716323 TGATAA
1 TGATAA
92716329 GAATTCATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92721975 original size:27 final size:26
Alignment explanation
Indices: 92721917--92722026 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
92721907 TGATACAAAT
*
92721917 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
92721942 TGATAATGGGTTAGGTAAATATTTCCA
1 TGATAATGGGTTAGGTAAATGTTT-CA
92721969 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92721995 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92722021 TGATAA
1 TGATAA
92722027 GAATTCATGT
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
25 7 0.09
26 48 0.60
27 25 0.31
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:92721990 original size:53 final size:51
Alignment explanation
Indices: 92721917--92722026 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 51
92721907 TGATACAAAT
92721917 TGATAATGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCCA
1 TGATAATGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTT-CA
* *
92721969 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
92722021 TGATAA
1 TGATAA
92722027 GAATTCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
52 15 0.27
53 40 0.73
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
Found at i:92733345 original size:205 final size:205
Alignment explanation
Indices: 92732994--92733782 Score: 1343
Period size: 205 Copynumber: 3.9 Consensus size: 205
92732984 GTAATAGGCC
*
92732994 ACACATAGCAGATCTCGCCTTCAGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCGCCTTCAGATGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
* * *
92733057 TTGT-TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTATGACGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCA
92733121 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
92733186 GATGGAGAGCAG
194 GATGGAGAGCAG
* *
92733198 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
*
92733263 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
92733328 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
92733393 TGGAGAGCAG
196 TGGAGAGCAG
92733403 ACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
*
92733468 GTGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
92733533 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
92733598 TGGAGAGCAG
196 TGGAGAGCAG
* * *
92733608 ACACATAGCAGATCTCGCCTTCAGACGATTTCACCGAAGCAGATCCAAGATAGTTTGGCATCCTT
1 ACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
* * * * * *
92733673 GTGTTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
* * * *
92733737 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
92733783 AAATAGATCT
Statistics
Matches: 557, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
204 137 0.25
205 420 0.75
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (205 bp):
ACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:92733904 original size:44 final size:43
Alignment explanation
Indices: 92733836--92733921 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
92733826 GATTTCAGCA
*
92733836 TGGCATCCCTGTGTTTATAAGGAACA-AGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAGA-TCGAAGA-AGCAGATT
**
92733880 TGGCATCCCTGTGTTTATGGGGAACAGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAGATCGAAGAAGCAGAT
92733922 CAAGAACTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 7 0.18
44 30 0.79
45 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAGATCGAAGAAGCAGATT
Found at i:92734374 original size:23 final size:25
Alignment explanation
Indices: 92734347--92734398 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
92734337 TATTTTGGAG
92734347 AGAAGA-A-ATTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTTGAGATTCA
*
92734370 AGAAGAGATTTTTTTTTTGAGATTCA
1 AGAAGAGA-TATTTTTTTGAGATTCA
92734396 AGA
1 AGA
92734399 GGGGATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 1 0.04
26 18 0.72
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (25 bp):
AGAAGAGATATTTTTTTGAGATTCA
Found at i:92734391 original size:26 final size:26
Alignment explanation
Indices: 92734355--92734414 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
92734345 AGAGAAGAAA
92734355 TTTTTTTGAGATTCAAGAAGAGATTT
1 TTTTTTTGAGATTCAAGAAGAGATTT
* *
92734381 TTTTTTTGAGATTCAAGAGGGGATTT
1 TTTTTTTGAGATTCAAGAAGAGATTT
92734407 TTCTTTTT
1 TT-TTTTT
92734415 TTTTTGGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (26 bp):
TTTTTTTGAGATTCAAGAAGAGATTT
Found at i:92734407 original size:23 final size:23
Alignment explanation
Indices: 92734347--92734408 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 23
92734337 TATTTTGGAG
*
92734347 AGAAGAAATTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTGAGATTCA
92734370 AGAAGAGATTTTTTTTTTGAGATTCA
1 AGAAGAGA---TTTTTTTGAGATTCA
* *
92734396 AGAGGGGATTTTT
1 AGAAGAGATTTTT
92734409 CTTTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 12 0.36
26 21 0.64
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (23 bp):
AGAAGAGATTTTTTTGAGATTCA
Found at i:92734896 original size:3 final size:3
Alignment explanation
Indices: 92734888--92734925 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92734878 TGCATTTTAA
92734888 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
92734926 GTGTATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:92735162 original size:16 final size:15
Alignment explanation
Indices: 92735131--92735173 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
92735121 CCTTCATTCC
*
92735131 ATTATTATTATTACT
1 ATTATTATTTTTACT
92735146 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
92735162 ATCATTATTTTT
1 ATTATTATTTTT
92735174 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:92735298 original size:16 final size:16
Alignment explanation
Indices: 92735277--92735308 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92735267 CTATTGTTAC
92735277 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
92735293 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
92735309 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:92735350 original size:11 final size:13
Alignment explanation
Indices: 92735320--92735351 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
92735310 TTATTATAAT
92735320 TTATTATTGTTAC
1 TTATTATTGTTAC
92735333 TTATTATT-TTAC
1 TTATTATTGTTAC
92735345 -TATTATT
1 TTATTATT
92735352 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:92735556 original size:22 final size:22
Alignment explanation
Indices: 92735526--92735586 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
92735516 TTATTATATC
*
92735526 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
92735548 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
92735570 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
92735587 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:92735560 original size:3 final size:3
Alignment explanation
Indices: 92735308--92735541 Score: 105
Period size: 3 Copynumber: 79.3 Consensus size: 3
92735298 TTCTCATCAC
* * *
92735308 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
92735354 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* *
92735399 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAT TACT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * ** *
92735444 TAT TAC TAT TAT T-T AAT ATAT TAT T-T T-T TAC TAT TAT CGT CA-
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
92735486 TAT TGT TAT TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
92735529 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
92735542 GTTGTATTTT
Statistics
Matches: 172, Mismatches: 40, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
2 20 0.12
3 135 0.78
4 17 0.10
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:92736815 original size:40 final size:40
Alignment explanation
Indices: 92736766--92736970 Score: 152
Period size: 40 Copynumber: 4.8 Consensus size: 40
92736756 GCCACTAAAA
*
92736766 CTTTT-GCGGCGCTTTCT-AAAACGCCGCTATAGGTCAGGG
1 CTTTTAGCGGCGCTTTCTGAAAACGCCGCTAAAGGTCA-GG
*
92736805 CTTTTAGCGGCGTTTAGCGGCGTTTGTGAAAAACGCCGCTAAAGGTCAGG
1 CTTTTA---GCG----GC-GC-TTTCTG-AAAACGCCGCTAAAGGTCAGG
* *
92736855 CTTTTAGCGGTG-TTTGTGGAAAAACGCCGCTAAA-GTCAGG
1 CTTTTAGCGGCGCTTTCT-G-AAAACGCCGCTAAAGGTCAGG
*
92736895 CTTTTAGCGGCG-TTTGTTGGAAAAGCGCCGCTAAAGGTCAAGG
1 CTTTTAGCGGCGCTTT-CT-GAAAA-CGCCGCTAAAGGTC-AGG
92736938 CTTTTAGCGGCGCTTTTCT-ACAAACGCCGCTAA
1 CTTTTAGCGGCGC-TTTCTGA-AAACGCCGCTAA
92736971 TTTTGGCAGA
Statistics
Matches: 140, Mismatches: 6, Indels: 37
0.77 0.03 0.20
Matches are distributed among these distances:
39 5 0.04
40 29 0.21
41 29 0.21
42 14 0.10
43 22 0.16
44 1 0.01
45 3 0.02
47 5 0.04
48 2 0.01
49 4 0.03
50 8 0.06
51 18 0.13
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CTTTTAGCGGCGCTTTCTGAAAACGCCGCTAAAGGTCAGG
Found at i:92736887 original size:41 final size:41
Alignment explanation
Indices: 92736817--92736949 Score: 216
Period size: 40 Copynumber: 3.2 Consensus size: 41
92736807 TTTAGCGGCG
92736817 TTTAGCGGCGTTTGT-GAAAAACGCCGCTAAAGGTCAGGCT
1 TTTAGCGGCGTTTGTGGAAAAACGCCGCTAAAGGTCAGGCT
*
92736857 TTTAGCGGTGTTTGTGGAAAAACGCCGCTAAA-GTCAGGCT
1 TTTAGCGGCGTTTGTGGAAAAACGCCGCTAAAGGTCAGGCT
*
92736897 TTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCT
1 TTTAGCGGCGTTTG-TGGAAAAACGCCGCTAAAGGTC-AGGCT
92736940 TTTAGCGGCG
1 TTTAGCGGCG
92736950 CTTTTCTACA
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
40 35 0.41
41 33 0.38
42 3 0.03
43 15 0.17
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTGGAAAAACGCCGCTAAAGGTCAGGCT
Found at i:92736965 original size:83 final size:80
Alignment explanation
Indices: 92736817--92736970 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 80
92736807 TTTAGCGGCG
* *
92736817 TTTAGCGGCGTTTGTGAAAAACGCCGCTAAAGGTCAGGCTTTTAGCGGTGTTTGTGGAAAAACGC
1 TTTAGCGGCGTTTGTGAAAAACGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTCGAAAAACGC
92736882 CGCTAAAGTCAGGCT
66 CGCTAAAGTCAGGCT
* * *
92736897 TTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TCTACAA
1 TTTAGCGGCGTTTG-T-GAAAAACGCCGCTAAAGGTC-AGGCTTTTAGCGGCG-TTTGTCGAAAA
92736961 ACGCCGCTAA
62 ACGCCGCTAA
92736971 TTTTGGCAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
80 14 0.22
81 1 0.02
82 19 0.29
83 28 0.43
84 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TTTAGCGGCGTTTGTGAAAAACGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTCGAAAAACGC
CGCTAAAGTCAGGCT
Found at i:92737058 original size:31 final size:31
Alignment explanation
Indices: 92737023--92737103 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
92737013 CTTCCTGCAT
* *
92737023 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
92737054 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
92737085 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
92737104 TTAATTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:92742974 original size:9 final size:9
Alignment explanation
Indices: 92742962--92743060 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
92742952 ATGTATTAGT
92742962 TAAGTTATG
1 TAAGTTATG
92742971 TAAGTTGTTATG
1 TAA---GTTATG
*
92742983 TACGTTATG
1 TAAGTTATG
* *
92742992 TGAGATATG
1 TAAGTTATG
*
92743001 TAAATTATG
1 TAAGTTATG
92743010 TAAGTTATG
1 TAAGTTATG
*
92743019 TGAGTTATG
1 TAAGTTATG
92743028 TAAGTTGTTATG
1 TAA---GTTATG
*
92743040 TAAATTATG
1 TAAGTTATG
92743049 TAAGTTATG
1 TAAGTTATG
92743058 TAA
1 TAA
92743061 TTTCTTTAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 55 0.76
12 17 0.24
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:92743514 original size:241 final size:242
Alignment explanation
Indices: 92743085--92743706 Score: 1165
Period size: 241 Copynumber: 2.6 Consensus size: 242
92743075 GATCAATATC
* *
92743085 AGTAATTTTGAATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
92743150 ATCTTACGGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
92743215 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTATAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
92743280 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
92743327 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGA-GATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
92743391 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
92743456 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
92743521 GGTAATAAATATTTAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
92743568 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
92743633 ATCTTACAGCTCGATATAAGGTAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
92743698 ATTTAAAAT
131 TTTTAAAAT
92743707 CTGATGGAGT
Statistics
Matches: 371, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
241 237 0.64
242 134 0.36
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (242 bp):
AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
Found at i:92746838 original size:13 final size:13
Alignment explanation
Indices: 92746820--92746853 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
92746810 TTAGGGTTAG
92746820 GGGGAAAATTTTA
1 GGGGAAAATTTTA
*
92746833 GGGGAAAGTTTTA
1 GGGGAAAATTTTA
92746846 GGGGAAAA
1 GGGGAAAA
92746854 ACACTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (13 bp):
GGGGAAAATTTTA
Found at i:92747465 original size:26 final size:27
Alignment explanation
Indices: 92747436--92747510 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
92747426 AAGAATTAGA
*
92747436 TAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAATCTTGAAAATTATTC
*
92747462 TAAAATTTGAAATCTTGAAATTTATTC
1 TAAAATTTGAAATCTTGAAAATTATTC
*
92747489 T-AAATTTGAAATCTTTAAAATT
1 TAAAATTTGAAATCTTGAAAATT
92747511 TTAAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
TAAAATTTGAAATCTTGAAAATTATTC
Found at i:92747966 original size:29 final size:27
Alignment explanation
Indices: 92747900--92747989 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 27
92747890 TAATTAAATC
*
92747900 CCTT-AACCCCTAACCCATATCCCTTTAA
1 CCTTAAACCCATAACCCATA-CCC-TTAA
92747928 CCATTAAACCCATAACCCATGACCCTTAA
1 CC-TTAAACCCATAACCCAT-ACCCTTAA
*
92747957 TCCTTAAACCCATAATCCATAACCCTTAA
1 -CCTTAAACCCATAACCCAT-ACCCTTAA
92747986 CCTT
1 CCTT
92747990 TACCCACTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.11
29 30 0.55
30 18 0.33
31 1 0.02
ACGTcount: A:0.33, C:0.39, G:0.01, T:0.27
Consensus pattern (27 bp):
CCTTAAACCCATAACCCATACCCTTAA
Found at i:92748399 original size:28 final size:29
Alignment explanation
Indices: 92748359--92748413 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
92748349 AATAAATTGT
*
92748359 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
92748388 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
92748414 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:92748614 original size:114 final size:116
Alignment explanation
Indices: 92748418--92748642 Score: 285
Period size: 114 Copynumber: 2.0 Consensus size: 116
92748408 CATAAAATAC
* *
92748418 TTTTTGCGGCATTTTTATAAGAAATGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
1 TTTTTGCGGCATTTTTAGAAGAAACGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
** ***
92748483 GCCGCTAATGTCACTAAGGTTTAAAACGAAACGACAGCGTCTTGCTATTTT
66 GCCGCTAATGAAACTAAGGGCCAAAACGAAACGACAGCGTCTTGCTATTTT
* * * * *
92748534 TTTTTGCGGCGTTTTTCGAA-AAACGCCGCTAATACTCA-ACCTTTAGTGGCGTTTTT-TGAAAA
1 TTTTTGCGGCATTTTTAGAAGAAACGCCGCTAATACT-AGACCTATAGCGGCGTTTTTATAAAAA
* * *
92748596 CGCCGCTAATGAAACTAAGGGCCGAAAGGAAACGACTGCGTCTTGCT
65 CGCCGCTAATGAAACTAAGGGCCAAAACGAAACGACAGCGTCTTGCT
92748643 GAAATTATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
114 44 0.47
115 31 0.33
116 18 0.19
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (116 bp):
TTTTTGCGGCATTTTTAGAAGAAACGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
GCCGCTAATGAAACTAAGGGCCAAAACGAAACGACAGCGTCTTGCTATTTT
Found at i:92748657 original size:114 final size:115
Alignment explanation
Indices: 92748443--92748722 Score: 266
Period size: 114 Copynumber: 2.4 Consensus size: 115
92748433 TATAAGAAAT
** ***
92748443 GCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAACGCCGCTAATGTCACTAAGGTTTAAA
1 GCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAACGCCGCTAATGAAACTAAGGGCCAAA
** * *
92748508 ACGAAACGACAGCGTCTTGCTATTTTTTTTTGCGGCGTTTTTCGAAAAAC
66 ACGAAACGACAGCGTCTTGCTATAATTATTAGCGGCGTTTTTCGAAAAAC
* * * *
92748558 GCCGCTAATACTCA-ACCTTTAGTGGCGTTTTT-TGAAAACGCCGCTAATGAAACTAAGGGCCGA
1 GCCGCTAATACT-AGACCTATAGCGGCGTTTTTATAAAAACGCCGCTAATGAAACTAAGGGCCAA
* * * *
92748621 AAGGAAACGACTGCGTCTTGCTGA-AATTATTAGCGGCGTTTCT-AAACAAAC
65 AACGAAACGACAGCGTCTTGCT-ATAATTATTAGCGGCGTTTTTCGAA-AAAC
* * * * *
92748672 GCCACT-ATAGATAGGACAT-TTGCGGCGTTTTTTATAAAAGCGCCGCTAATG
1 GCCGCTAATA-CTA-GACCTATAGCGGCG-TTTTTATAAAAACGCCGCTAATG
92748723 CTCGATCTAT
Statistics
Matches: 133, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
113 6 0.05
114 74 0.56
115 37 0.28
116 16 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (115 bp):
GCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAACGCCGCTAATGAAACTAAGGGCCAAA
ACGAAACGACAGCGTCTTGCTATAATTATTAGCGGCGTTTTTCGAAAAAC
Found at i:92748749 original size:40 final size:40
Alignment explanation
Indices: 92748701--92748823 Score: 119
Period size: 40 Copynumber: 3.1 Consensus size: 40
92748691 TTGCGGCGTT
*
92748701 TTTTATAAAAGCGCCGCTAATG-CTCGATCTATAGCGGCGC
1 TTTTATAAAAACGCCGCTAATGTCT-GATCTATAGCGGCGC
* *
92748741 TTTTATAAAAACGCCGCTAATGTCTTATCTATAGTGGCG-
1 TTTTATAAAAACGCCGCTAATGTCTGATCTATAGCGGCGC
* * * * *
92748780 TTTGT-TAAGAAACACCGCTTATG-CTGAACTATATCGGCGT
1 TTT-TATAA-AAACGCCGCTAATGTCTGATCTATAGCGGCGC
92748820 TTTT
1 TTTT
92748824 TGTTTAAACA
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
39 19 0.27
40 49 0.70
41 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTTATAAAAACGCCGCTAATGTCTGATCTATAGCGGCGC
Found at i:92750435 original size:30 final size:30
Alignment explanation
Indices: 92750401--92750461 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
92750391 TAATCCTTAG
92750401 AATCATTTATTCTTTGGAATTTACCTTCAT
1 AATCATTTATTCTTTGGAATTTACCTTCAT
92750431 AATCATTTATTCTTTGGAATTTACCTTCAT
1 AATCATTTATTCTTTGGAATTTACCTTCAT
92750461 A
1 A
92750462 CCTATAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (30 bp):
AATCATTTATTCTTTGGAATTTACCTTCAT
Found at i:92752045 original size:20 final size:21
Alignment explanation
Indices: 92752004--92752047 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
92751994 ATACAGAGAG
*
92752004 AAAACAAAAAAAAGTGAGGAA
1 AAAACAAAAAAAAATGAGGAA
92752025 AAAAGCAAAAAAAAAT-A-GAA
1 AAAA-CAAAAAAAAATGAGGAA
92752045 AAA
1 AAA
92752048 GTGAACAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAACAAAAAAAAATGAGGAA
Found at i:92752897 original size:15 final size:15
Alignment explanation
Indices: 92752877--92752909 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
92752867 CCTCTTACAC
92752877 TTTTAAAT-TTATTTA
1 TTTTAAATATTA-TTA
92752892 TTTTAAATATTATTA
1 TTTTAAATATTATTA
92752907 TTT
1 TTT
92752910 ATTTACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATATTATTA
Found at i:92752909 original size:23 final size:22
Alignment explanation
Indices: 92752883--92752966 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 22
92752873 ACACTTTTAA
*
92752883 ATTTATTTATTTTAAATATTATT
1 ATTTATTTATATT-AATATTATT
*
92752906 ATTTATTTACT-GT-ATATTATT
1 ATTTATTTA-TATTAATATTATT
92752927 ATTTTATATTATATTAATATTCATT
1 A-TTTAT-TTATATTAATATT-ATT
92752952 A-TTATTTTATATTAA
1 ATTTA-TTTATATTAA
92752967 AAATTATATG
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 26 0.50
24 7 0.13
25 4 0.08
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTTATTTATATTAATATTATT
Found at i:92752939 original size:18 final size:21
Alignment explanation
Indices: 92752898--92752947 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
92752888 TTTATTTTAA
*
92752898 ATATTATTATTTATTTACTGT
1 ATATTATTATTTATATACTGT
92752919 ATATTATTATTT-TATA-T-T
1 ATATTATTATTTATATACTGT
*
92752937 ATATTAATATT
1 ATATTATTATT
92752948 CATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
20 3 0.11
21 12 0.44
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATTATTATTTATATACTGT
Found at i:92753046 original size:5 final size:5
Alignment explanation
Indices: 92753023--92753085 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
92753013 CCATTAATTT
* *
92753023 TATTA TATAA TA-TA TTATTA TATTA TTTTA TATGGTA TA-TA TATTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TAT--TA TATTA TATTA
*
92753069 T-TTA TATTT TATTA TAT
1 TATTA TATTA TATTA TAT
92753086 ATAAATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
4 9 0.20
5 31 0.67
6 2 0.04
7 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:92753084 original size:21 final size:22
Alignment explanation
Indices: 92753035--92753087 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
92753025 TTATATAATA
92753035 TATTATTATATTATTTTATATGG
1 TATTA-TATATTATTTTATATGG
**
92753058 TA-TATATATTA-TTTATATTT
1 TATTATATATTATTTTATATGG
92753078 TATTATATAT
1 TATTATATAT
92753088 AAATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 2 0.07
23 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTATATATTATTTTATATGG
Found at i:92754227 original size:17 final size:17
Alignment explanation
Indices: 92754201--92754244 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
92754191 GTCCAAGAAG
* *
92754201 AAAAAC-AAAAAAGTAT
1 AAAAACAAAAAAAATAA
92754217 AAAAACAAAAAAAATAA
1 AAAAACAAAAAAAATAA
*
92754234 AAAAATAAAAA
1 AAAAACAAAAA
92754245 CAACAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (17 bp):
AAAAACAAAAAAAATAA
Found at i:92754227 original size:23 final size:23
Alignment explanation
Indices: 92754201--92754256 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
92754191 GTCCAAGAAG
**
92754201 AAAAACAAAAAAGTATAAAAACA
1 AAAAACAAAAAAAAATAAAAACA
92754224 AAAAA-AATAAAAAAATAAAAACA
1 AAAAACAA-AAAAAAATAAAAACA
92754247 ACAAAACAAA
1 A-AAAACAAA
92754257 GGTCATAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 19 0.68
24 5 0.18
25 2 0.07
ACGTcount: A:0.82, C:0.09, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAAACAAAAAAAAATAAAAACA
Found at i:92754252 original size:16 final size:16
Alignment explanation
Indices: 92754195--92754236 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
92754185 AAGGCAGTCC
*
92754195 AAGAAGAAAAACAAAA
1 AAGAATAAAAACAAAA
*
92754211 AAGTATAAAAACAAAA
1 AAGAATAAAAACAAAA
92754227 AA-AATAAAAA
1 AAGAATAAAAA
92754237 AATAAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (16 bp):
AAGAATAAAAACAAAA
Found at i:92754792 original size:20 final size:20
Alignment explanation
Indices: 92754763--92754802 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
92754753 CTTGAGACCT
92754763 TAAAAAATAATAAAT-AAAAA
1 TAAAAAATAA-AAATCAAAAA
*
92754783 TAAAATATAAAAATCAAAAA
1 TAAAAAATAAAAATCAAAAA
92754803 AAGAGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAAATAAAAATCAAAAA
Found at i:92758924 original size:15 final size:16
Alignment explanation
Indices: 92758898--92758934 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
92758888 TCGACATCTT
92758898 TTTGCA-TTCATA-CA
1 TTTGCATTTCATAGCA
92758912 TTTGCATTTCATAGCA
1 TTTGCATTTCATAGCA
92758928 TTT-CATT
1 TTTGCATT
92758935 GCATCATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 10 0.48
16 5 0.24
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (16 bp):
TTTGCATTTCATAGCA
Found at i:92767274 original size:94 final size:93
Alignment explanation
Indices: 92767105--92767289 Score: 255
Period size: 94 Copynumber: 2.0 Consensus size: 93
92767095 GAACAAATCG
* ** ** *
92767105 AAGAAATTGATTTGGCATCTCCATATTCGATGGAAAGCAGATCAGAGACATAGTAGATCTGACCT
1 AAGAAATAGATTTGGCATCTCCATATTCGACAGAAAGCAGATCAGAGACATAACAGATCTAACCT
*
92767170 TCGGATGTTTTCACATCGAAGCAGATTT
66 TCAGATGTTTTCACATCGAAGCAGATTT
* *
92767198 AAGATAATAGATTTGGCATCTCCATATTCGACAGAGAGCATATCCA-AGACATAACAGATCTAAC
1 AAGA-AATAGATTTGGCATCTCCATATTCGACAGAAAGCAGAT-CAGAGACATAACAGATCTAAC
*
92767262 CTTCAGATGTTTTCACATCGAAGTAGAT
64 CTTCAGATGTTTTCACATCGAAGCAGAT
92767290 CCAAGATGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
93 4 0.05
94 74 0.93
95 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (93 bp):
AAGAAATAGATTTGGCATCTCCATATTCGACAGAAAGCAGATCAGAGACATAACAGATCTAACCT
TCAGATGTTTTCACATCGAAGCAGATTT
Found at i:92767682 original size:220 final size:220
Alignment explanation
Indices: 92767208--92767685 Score: 724
Period size: 220 Copynumber: 2.2 Consensus size: 220
92767198 AAGATAATAG
* * * *
92767208 ATTTGGCATCTCCATATTCGACAGAGAGCATATCCAAGACATAACAGATCTAACCTTCAGATGTT
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAAACATAACAGATCTAACCTTCAGATGTT
* * *
92767273 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTAGAAGGAGCAGATCGAAGACA
66 TTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACA
* *
92767338 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATT
131 TAGCAGATTTGGCTTCCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTGGCATCTCTGTATT
*
92767403 GTCAGAGAACAAATCCAAGAAACAG
196 GTCAGAGAACAAATCCAAGAAACAA
* *
92767428 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAAACATAGCAGATCTAACCTTCGGATGTT
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAAACATAACAGATCTAACCTTCAGATGTT
** *
92767493 TTTGCATCAAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATCGAAGACA
66 TTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACA
* *
92767558 TAGCAGATTTGGCTTCCACGTGTTTGCGCTAAAG-TGAATCTAAGATGATTTGGCATCTCTGTAT
131 TAGCAGATTTGGCTTCCACGTGTTTACGCTAAAGCAG-ATCTAAGATGATTTGGCATCTCTGTAT
* * *
92767622 TGTCAGGGAACAAATCGAAGAAGCAA
195 TGTCAGAGAACAAATCCAAGAAACAA
* ** *
92767648 ATTTGGCGTCTCTGTGTTCGACGGAGAGCAGATCGAAA
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAA
92767686 TATCAGCATG
Statistics
Matches: 233, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
219 1 0.00
220 232 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (220 bp):
ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAAACATAACAGATCTAACCTTCAGATGTT
TTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACA
TAGCAGATTTGGCTTCCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTGGCATCTCTGTATT
GTCAGAGAACAAATCCAAGAAACAA
Found at i:92769515 original size:15 final size:15
Alignment explanation
Indices: 92769495--92769527 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
92769485 CCTCTTACAC
92769495 TTTTAAAT-TTATTTA
1 TTTTAAATATTA-TTA
92769510 TTTTAAATATTATTA
1 TTTTAAATATTATTA
92769525 TTT
1 TTT
92769528 ATTTACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATATTATTA
Found at i:92769527 original size:23 final size:23
Alignment explanation
Indices: 92769501--92769576 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
92769491 ACACTTTTAA
92769501 ATTTATTTATTTTAAATATTATT
1 ATTTATTTATTTTAAATATTATT
* *
92769524 ATTTATTTACTGT--ATATTATT
1 ATTTATTTATTTTAAATATTATT
*
92769545 ATATTATATTATATTAATACTCATTATT
1 AT-TTAT-TTATTTTAA-A-T-ATTATT
92769573 ATTT
1 ATTT
92769577 TATATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
21 10 0.24
22 4 0.10
23 15 0.37
26 1 0.02
27 3 0.07
28 8 0.20
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (23 bp):
ATTTATTTATTTTAAATATTATT
Found at i:92769654 original size:15 final size:15
Alignment explanation
Indices: 92769645--92769751 Score: 63
Period size: 15 Copynumber: 7.7 Consensus size: 15
92769635 TTATTTTATT
92769645 TTATTATATTATATA
1 TTATTATATTATATA
92769660 TTATTATATTAT-T-
1 TTATTATATTATATA
**
92769673 TTA-TATGGTATATA
1 TTATTATATTATATA
*
92769687 -TATTAT-TTATATT
1 TTATTATATTATATA
* *
92769700 TTATAATA-TATAAA
1 TTATTATATTATATA
*
92769714 TTTATTA-ATTAAATA
1 -TTATTATATTATATA
*
92769729 TT-TT-TA-AATATA
1 TTATTATATTATATA
92769741 TGTATTATATT
1 T-TATTATATT
92769752 CTAGAAAATA
Statistics
Matches: 67, Mismatches: 13, Indels: 23
0.65 0.13 0.22
Matches are distributed among these distances:
12 11 0.16
13 15 0.22
14 18 0.27
15 23 0.34
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTATTATATTATATA
Found at i:92769663 original size:20 final size:20
Alignment explanation
Indices: 92769640--92769708 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
92769630 TCCATTTATT
*
92769640 TTATTTTATTATATTATATA
1 TTATTATATTATATTATATA
* *
92769660 TTATTATATTATTTTATATG
1 TTATTATATTATATTATATA
* *
92769680 GTATATATATTAT-TTATATT
1 TTAT-TATATTATATTATATA
*
92769700 TTATAATAT
1 TTATTATAT
92769709 ATAAATTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 4 0.10
20 29 0.71
21 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATTATATTATATTATATA
Found at i:92769663 original size:25 final size:26
Alignment explanation
Indices: 92769635--92769719 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
92769625 GAAAATCCAT
92769635 TTATTTTATTTTATTATATTATATATTA
1 TTATTTTATTTTATTATA-TATATA-TA
* *
92769663 TTATATTATTTTA-TATGGTATATATA
1 TTATTTTATTTTATTAT-ATATATATA
* *
92769689 TTATTTATATTTTATAATATATAAAT-
1 TTATTT-TATTTTATTATATATATATA
92769715 TTATT
1 TTATT
92769720 AATTAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 12 0.25
27 22 0.46
28 14 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTTTATTTTATTATATATATATA
Found at i:92769862 original size:3 final size:3
Alignment explanation
Indices: 92769856--92769888 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
92769846 GTTTTCTTGG
*
92769856 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
92769889 GAAAGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:92771653 original size:25 final size:25
Alignment explanation
Indices: 92771625--92771672 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92771615 TTATACCATG
* * *
92771625 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
92771650 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
92771673 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:92771741 original size:20 final size:20
Alignment explanation
Indices: 92771716--92771774 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
92771706 TAAATATGGT
92771716 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
92771736 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
92771756 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
92771775 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:92771756 original size:11 final size:11
Alignment explanation
Indices: 92771720--92771774 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
92771710 TATGGTATGT
92771720 ATGATATGCAC
1 ATGATATGCAC
* *
92771731 ATGAAATG--T
1 ATGATATGCAC
92771740 ATGATATGCAC
1 ATGATATGCAC
*
92771751 ATGATATG--T
1 ATGATATGCAC
92771760 ATGATATGCAC
1 ATGATATGCAC
92771771 ATGA
1 ATGA
92771775 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:92771852 original size:24 final size:24
Alignment explanation
Indices: 92771825--92771943 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
92771815 GAGGAAGTGA
*
92771825 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
92771849 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
92771872 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
92771896 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
92771920 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
92771944 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:92771894 original size:47 final size:48
Alignment explanation
Indices: 92771825--92771943 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
92771815 GAGGAAGTGA
92771825 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
92771872 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
92771920 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
92771944 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:92772170 original size:31 final size:31
Alignment explanation
Indices: 92772135--92772198 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92772125 CGTTTACAGT
92772135 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
92772166 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92772197 AA
1 AA
92772199 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:92773849 original size:16 final size:16
Alignment explanation
Indices: 92773809--92773871 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
92773799 AGGCAGCCCG
*
92773809 AGAAGAAAAACAAAAA
1 AGAATAAAAACAAAAA
* *
92773825 AGTACAAAAACAAAAA
1 AGAATAAAAACAAAAA
*
92773841 A-AA-ATAAA-AAAAA
1 AGAATAAAAACAAAAA
92773854 AGAATAAAAACAACAAA
1 AGAATAAAAACAA-AAA
92773871 A
1 A
92773872 CAAAGGTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 5 0.13
16 17 0.45
17 4 0.11
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.05
Consensus pattern (16 bp):
AGAATAAAAACAAAAA
Found at i:92774410 original size:20 final size:20
Alignment explanation
Indices: 92774382--92774420 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
92774372 TGAGACCTTA
92774382 AAAAAATAATAAAT-AAAAAT
1 AAAAAATAA-AAATCAAAAAT
*
92774402 AAAATATAAAAATCAAAAA
1 AAAAAATAAAAATCAAAAA
92774421 AGAGGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAAATAAAAATCAAAAAT
Found at i:92779085 original size:21 final size:21
Alignment explanation
Indices: 92779059--92779127 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
92779049 TGCCAAACAT
92779059 TATAAAGAAATAGAAAAGAAG
1 TATAAAGAAATAGAAAAGAAG
* *
92779080 TATAAA-ACATA-AATCAA-ACAT
1 TATAAAGAAATAGAA--AAGA-AG
*
92779101 TATAAAGGAATAGAAAAGAAG
1 TATAAAGAAATAGAAAAGAAG
92779122 TATAAA
1 TATAAA
92779128 ACATAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 24 0.65
22 4 0.11
23 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (21 bp):
TATAAAGAAATAGAAAAGAAG
Found at i:92779113 original size:42 final size:42
Alignment explanation
Indices: 92779052--92779135 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
92779042 TTGGCATTGC
92779052 CAAACATTATAAAGAAATAGAAAAGAAGTATAAAACATAAAT
1 CAAACATTATAAAGAAATAGAAAAGAAGTATAAAACATAAAT
*
92779094 CAAACATTATAAAGGAATAGAAAAGAAGTATAAAACATAAAT
1 CAAACATTATAAAGAAATAGAAAAGAAGTATAAAACATAAAT
92779136 AAAAAGAGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.63, C:0.07, G:0.11, T:0.19
Consensus pattern (42 bp):
CAAACATTATAAAGAAATAGAAAAGAAGTATAAAACATAAAT
Found at i:92779963 original size:22 final size:21
Alignment explanation
Indices: 92779900--92779963 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
92779890 TAAAATTTAA
92779900 AAAATTAAAAACTAAAAATAAT
1 AAAATTAAAAACTAAAAAT-AT
* *
92779922 AAAATTAAAGTA-TAAGAATAT
1 AAAATTAAA-AACTAAAAATAT
* *
92779943 GAAACTTAAAAACTAATAATA
1 -AAAATTAAAAACTAAAAATA
92779964 GAATTTAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.88
23 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAATTAAAAACTAAAAATAT
Found at i:92780438 original size:17 final size:17
Alignment explanation
Indices: 92780416--92780449 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
92780406 ATTTTGAGTC
92780416 TTTTTTTCATTTTTTTGT
1 TTTTTTTC-TTTTTTTGT
92780434 TTTTTTTCTTTTTTTG
1 TTTTTTTCTTTTTTTG
92780450 GTATTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTGT
Found at i:92780456 original size:18 final size:18
Alignment explanation
Indices: 92780417--92780456 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
92780407 TTTTGAGTCT
*
92780417 TTTTTTCATTTTTTTGTT
1 TTTTTTCATTTTTTTGTA
92780435 TTTTTTC-TTTTTTTGGTA
1 TTTTTTCATTTTTTT-GTA
92780453 TTTT
1 TTTT
92780457 ATGTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.82
Consensus pattern (18 bp):
TTTTTTCATTTTTTTGTA
Found at i:92781614 original size:9 final size:9
Alignment explanation
Indices: 92781600--92781638 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
92781590 GGTAGAATTG
92781600 AATTTGAAT
1 AATTTGAAT
92781609 AATTTGAAT
1 AATTTGAAT
*
92781618 AATTCGAAT
1 AATTTGAAT
* *
92781627 AACTTAAAT
1 AATTTGAAT
92781636 AAT
1 AAT
92781639 AGATTGGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (9 bp):
AATTTGAAT
Found at i:92799140 original size:33 final size:34
Alignment explanation
Indices: 92799084--92799153 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
92799074 GATACCAAGC
*
92799084 TTGGCTGGATTCTCATTTGTGATTCCTCATAAAA
1 TTGGCTGGATTCTCATTTCTGATTCCTCATAAAA
* *
92799118 TTGG-TGGATTCTGATTTCTGATTTCTCATAAAA
1 TTGGCTGGATTCTCATTTCTGATTCCTCATAAAA
92799151 TTG
1 TTG
92799154 AACTTCAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (34 bp):
TTGGCTGGATTCTCATTTCTGATTCCTCATAAAA
Found at i:92805565 original size:12 final size:12
Alignment explanation
Indices: 92805548--92805573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92805538 TTTCGTTTTT
92805548 TTATATTTTATA
1 TTATATTTTATA
92805560 TTATATTTTATA
1 TTATATTTTATA
92805572 TT
1 TT
92805574 TTTTTATTAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:92818860 original size:45 final size:44
Alignment explanation
Indices: 92818785--92819283 Score: 170
Period size: 45 Copynumber: 11.4 Consensus size: 44
92818775 CACTATCCTA
* * * **
92818785 TCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAGATCTTG
* **
92818829 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGACGGCGAATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATGTAG-ATCTTG
* * ** * * *
92818874 TCTCCCTGAAGTTGCAGT-GAAACAGATTTAAG--CCACCATCCTA
1 TCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAGATGTA-GATCTTG
* * * ** * * *
92818917 TCTCCCT-AAGTTGTAGTGGAGTAGGCTGAATATTATAGATCTGG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAGATCTTG
* *
92818961 TCTCCCTGAAGTT--AG-A-AGCAGATCGAAGACG-ACGAATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATGTA-G-ATCTTG
* * * * * ** * * *
92819002 TTTTCCTGAAGTTGCAGTAAAACAGATTTAAG--CCACCATCCTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATGTA-GATCTTG
* * **
92819045 TCTCCCT-AAGTTGTAGTAGAGTAGGCTGAAGACTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAGATCTTG
* ** *
92819089 TCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGT-GAATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAG-ATCTTG
* * * * ** * * *
92819134 TCTTCCTAAAGTTACAGT-GAAGCAGATTTAAG--CCACCATCCTA
1 TCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAGATGTA-GATCTTG
* * *
92819177 TCTCCCT-AAGTTGTAGTAGAGTAGGTTGAAGATTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAGATCTTG
* * * * * * *
92819221 TCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA-TGTAGATCTTG
*
92819266 TTTCCCTGAAGTTGCAGT
1 TCTCCCTGAAGTTGCAGT
92819284 GGAATAGGTT
Statistics
Matches: 323, Mismatches: 103, Indels: 57
0.67 0.21 0.12
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 24 0.07
42 49 0.15
43 36 0.11
44 47 0.15
45 165 0.51
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATGTAGATCTTG
Found at i:92818922 original size:132 final size:132
Alignment explanation
Indices: 92818685--92819284 Score: 852
Period size: 132 Copynumber: 4.6 Consensus size: 132
92818675 ATCGGTGAAT
* * * * *
92818685 TTGTAAATTTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGACGGTGAATATTGTCTTCCTG
1 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG
* * * *
92818750 AAGTTGTATTGAAGA-AGATTTAAGCCACTATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGA
66 AAGTTGCAGTGAA-ACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGA
92818814 AGA
130 AGA
* * * *
92818817 TTGTAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGACGGCGAATCTTGTCTCCCTG
1 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG
*
92818882 AAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAA
66 AAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAA
*
92818947 TA
131 GA
* * * * *
92818949 TTATAGATCTGGTCTCCCTGAAGTT--A--GAAGCAGATCGAAGACGACGAATCTTGTTTTCCTG
1 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG
*
92819010 AAGTTGCAGTAAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAA
66 AAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAA
92819075 GA
131 GA
* * * * *
92819077 CTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTTGTCTTCCTA
1 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG
* * *
92819142 AAGTTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGTTGAA
66 AAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAA
92819207 GA
131 GA
* * *
92819209 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAGCAAATCTTAT-TTCCCT
1 TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTT-CCT
92819273 GAAGTTGCAGTG
65 GAAGTTGCAGTG
92819285 GAATAGGTTA
Statistics
Matches: 416, Mismatches: 46, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
128 115 0.28
130 2 0.00
131 3 0.01
132 296 0.71
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
TTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTG
AAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAA
GA
Found at i:92819180 original size:260 final size:262
Alignment explanation
Indices: 92818696--92819284 Score: 837
Period size: 260 Copynumber: 2.2 Consensus size: 262
92818686 TGTAAATTTT
** * * * *
92818696 GTCTCCCTGAAGTTACAGTGGAA-CAGATCGAAGACGGTGAATATTGTCTTCCTGAAGTTGTATT
1 GTCTCCCTGAAGTTA-A--GGAAGCAGATCGAAGACGACGAATCTTGTTTTCCTGAAGTTGCAGT
* * * *
92818760 GAAGAAGATTTAAGCCACTATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGAT
63 GAAAAAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGACTGTAGAT
** * *
92818825 CTTGTCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGACGGCGAATCTTGTCTCCCTGAAGTTGCA
128 CTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGACGGCGAATCTTGTCTCCCTAAAGTTACA
* *
92818890 GTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAATATTATAG
193 GTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGATTATAG
92818955 ATCTG
258 ATCTG
92818960 GTCTCCCTGAAGTT-A-GAAGCAGATCGAAGACGACGAATCTTGTTTTCCTGAAGTTGCAGT-AA
1 GTCTCCCTGAAGTTAAGGAAGCAGATCGAAGACGACGAATCTTGTTTTCCTGAAGTTGCAGTGAA
92819022 AACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGACTGTAGATCT
66 AA-AGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGACTGTAGATCT
* * *
92819087 TGTCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGT
130 TGTCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGACGGCGAATCTTGTCTCCCTAAAGTTACAGT
* * *
92819152 GAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGTTGAAGATTGTAGAT
195 GAAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGATTATAGAT
*
92819217 CTT
260 CTG
* * * *
92819220 GTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGAC-AGCAAATCTTATTTCCCTGAAGTTGCAGT
1 GTCTCCCTGAAGTTA-AG-GAAGCAGATCGAAGACGA-CGAATCTTGTTTTCCTGAAGTTGCAGT
92819284 G
63 G
92819285 GAATAGGTTA
Statistics
Matches: 290, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
259 6 0.02
260 228 0.79
262 2 0.01
263 1 0.00
264 53 0.18
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (262 bp):
GTCTCCCTGAAGTTAAGGAAGCAGATCGAAGACGACGAATCTTGTTTTCCTGAAGTTGCAGTGAA
AAAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGACTGTAGATCTT
GTCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGACGGCGAATCTTGTCTCCCTAAAGTTACAGTG
AAACAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTAGAGTAGGCTGAAGATTATAGATC
TG
Found at i:92819284 original size:45 final size:45
Alignment explanation
Indices: 92818823--92819563 Score: 162
Period size: 45 Copynumber: 16.6 Consensus size: 45
92818813 AAGATTGTAG
* * * * *
92818823 ATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGACGGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * ** * *
92818868 ATCTTGTCTCCCTGAAGTTGCAGTGAAACAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * * * * * *
92818911 ATCCTATCTCCCT-AAGTTGTAGTGGAGTAG-GCTGAATATTA-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGA-CAGCAA
** * *
92818955 ATCTGGTCTCCCTGAAGTT--A--GAAGCAGATCGAAGAC-GACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAG-CAA
* * * ** * ** * *
92818996 ATCTTGTTTTCCTGAAGTTGCAGTAAAACAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * * * * * *
92819039 ATCCTATCTCCCT-AAGTTGTAGTAGAGTAG-GCTGAAGACTGTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACAGCAA
* * * **
92819083 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * * * ** * *
92819128 ATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * * * * ** * *
92819171 ATCCTATCTCCCT-AAGTTGTAGTAGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* *
92819215 ATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* ** * ** *
92819260 ATCTTATTTCCCTGAAGTTGCAGTGGAATAGGTTAAAACTACGAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCGAA-GAC-AG---CAA
* * * * * * * *
92819311 GTCCTATAC-CTCTGAAGTCGCAGTGG-GTCGGATCAAATCTATCACGGCGA
1 ATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATCGAA--GA-CA--GCAA
* * * **
92819361 ATCTTATCTCCTTGAAGTTGCAGTAGAGCAGAT-GAAAGCCA-TTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCG-AAGACAGCAA
* * * * * * * *
92819405 ACCTTATCTCCCTAAATTTACAATGGAGCAGGTTGAAGATA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* * * * * *
92819449 GTCTTATCTCCCTGAAGATACATTGGAGCAGA-CTGAATATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACAGCAA
* * * **
92819494 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATCCA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
* *
92819538 ATCTTATCCCCCTGAAATTGCAGTGG
1 ATCTTATCTCCCTGAAGTTGCAGTGG
92819564 GACAGGTTGA
Statistics
Matches: 488, Mismatches: 169, Indels: 79
0.66 0.23 0.11
Matches are distributed among these distances:
41 25 0.05
42 50 0.10
43 33 0.07
44 121 0.25
45 186 0.38
46 5 0.01
47 4 0.01
48 2 0.00
49 1 0.00
50 31 0.06
51 28 0.06
52 1 0.00
53 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCAA
Found at i:92819455 original size:44 final size:45
Alignment explanation
Indices: 92819407--92819503 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 45
92819397 AGCCATTAAC
** ** *
92819407 CTTATCTCCCTAAATTTACAATGGAGCAGGTTGAAGATA-CAAGT
1 CTTATCTCCCTAAAGATACAATGGAGCAGACTGAAGATAGCAAAT
* * *
92819451 CTTATCTCCCTGAAGATACATTGGAGCAGACTGAATATAGCAAAT
1 CTTATCTCCCTAAAGATACAATGGAGCAGACTGAAGATAGCAAAT
92819496 CTTATCTC
1 CTTATCTC
92819504 TCTGAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTAAAGATACAATGGAGCAGACTGAAGATAGCAAAT
Found at i:92821175 original size:43 final size:37
Alignment explanation
Indices: 92821040--92821191 Score: 178
Period size: 37 Copynumber: 3.9 Consensus size: 37
92821030 TTTCACGAAA
* * * *
92821040 TTCACAATCAACGCCAATGTCCCAGATGTGGTCTTTC
1 TTCACTATCAATGCCAACGTCCCAGACGTGGTCTTTC
* *
92821077 TTCACTATCAATGCCAACATCCCAGATGTGGTCTTTC
1 TTCACTATCAATGCCAACGTCCCAGACGTGGTCTTTC
92821114 TTCACTATCAATGCCAACGTCCCAGACGTGGTCTTTCAC
1 TTCACTATCAATGCCAACGTCCCAGACGTGGTCTTT--C
* *
92821153 ATAATTCACTATCGATGCCAACGTTCCAGACGTGGTCTT
1 ----TTCACTATCAATGCCAACGTCCCAGACGTGGTCTT
92821192 ATACAATAAC
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
37 67 0.66
39 1 0.01
43 33 0.33
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (37 bp):
TTCACTATCAATGCCAACGTCCCAGACGTGGTCTTTC
Found at i:92824776 original size:28 final size:30
Alignment explanation
Indices: 92824716--92824776 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 30
92824706 TTTTGACTTA
92824716 AATT-CCTAAATTTTTCCTCAAATTGATAT
1 AATTCCCTAAATTTTTCCTCAAATTGATAT
*
92824745 -ATTCCCT-AATTTTT-C-CAAGTTGATAT
1 AATTCCCTAAATTTTTCCTCAAATTGATAT
92824771 GAATTC
1 -AATTC
92824777 TAAATTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 10 0.36
27 1 0.04
28 14 0.50
29 3 0.11
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (30 bp):
AATTCCCTAAATTTTTCCTCAAATTGATAT
Found at i:92825187 original size:18 final size:17
Alignment explanation
Indices: 92825159--92825201 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
92825149 AATATTAAGA
92825159 AATTTATCTATTTTATT
1 AATTTATCTATTTTATT
*
92825176 AATTTAATCTATTTTTTT
1 AATTT-ATCTATTTTATT
*
92825194 AAATTATC
1 AATTTATC
92825202 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATCTATTTTATT
Found at i:92827235 original size:21 final size:20
Alignment explanation
Indices: 92827209--92827254 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
92827199 GATAAATATT
92827209 AAGAAAAA-AATAAACATATGA
1 AAGAAAAATAA-AAACAT-TGA
*
92827230 AAGAAAAATGAAAACATTGA
1 AAGAAAAATAAAAACATTGA
92827250 AAGAA
1 AAGAA
92827255 GGTTTTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (20 bp):
AAGAAAAATAAAAACATTGA
Found at i:92827236 original size:19 final size:19
Alignment explanation
Indices: 92827214--92827254 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
92827204 ATATTAAGAA
92827214 AAAAAT-AAACATATGAAAG
1 AAAAATAAAACAT-TGAAAG
92827233 AAAAATGAAAACATTGAAAG
1 AAAAAT-AAAACATTGAAAG
92827253 AA
1 AA
92827255 GGTTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (19 bp):
AAAAATAAAACATTGAAAG
Found at i:92827599 original size:17 final size:16
Alignment explanation
Indices: 92827573--92827604 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
92827563 TTTGTATAAA
92827573 TTTAAAAAATTAAAAT
1 TTTAAAAAATTAAAAT
92827589 TTTATAAAAATTAAAA
1 TTTA-AAAAATTAAAA
92827605 AATAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTAAAAAATTAAAAT
Found at i:92828328 original size:45 final size:45
Alignment explanation
Indices: 92828242--92828330 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 45
92828232 ACAATGGTCA
* * *
92828242 TTTACTACAATAACTTACCATCTCGATTGCCTGTTTATGATGACTT
1 TTTACTACAATAACTTA-CATCTCGATCGCCCGATTATGATGACTT
92828288 TTTACTACAATAACTATA-ATCTCGATCGCCCCGATT-TGATGAC
1 TTTACTACAATAACT-TACATCTCGATCG-CCCGATTATGATGAC
92828331 GTACTGTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 16 0.42
46 20 0.53
47 2 0.05
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (45 bp):
TTTACTACAATAACTTACATCTCGATCGCCCGATTATGATGACTT
Found at i:92828426 original size:34 final size:34
Alignment explanation
Indices: 92828353--92828432 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
92828343 CGATTTATTC
* *
92828353 GGTTTTTATGACGTTCTATCATTTGGACTTCTCA
1 GGTTTTGATGACGTTCTATCATTTGGACTTATCA
*
92828387 GGTTTTGATGATGTTCTATCATTTCGG-CTTATCCA
1 GGTTTTGATGACGTTCTATCATTT-GGACTTAT-CA
92828422 -GTTTTGATGAC
1 GGTTTTGATGAC
92828433 ATTGCCGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 36 0.90
35 4 0.10
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.46
Consensus pattern (34 bp):
GGTTTTGATGACGTTCTATCATTTGGACTTATCA
Found at i:92828695 original size:19 final size:19
Alignment explanation
Indices: 92828646--92828696 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
92828636 GTATTCACAT
* *
92828646 CAATTTCACATA-TACAAT
1 CAATTTCACATATTAAAAA
* *
92828664 TAATTTAATCATATTAAAAA
1 CAATTTCA-CATATTAAAAA
92828684 CAATTTCACATAT
1 CAATTTCACATAT
92828697 ACAGTATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
CAATTTCACATATTAAAAA
Found at i:92828967 original size:36 final size:36
Alignment explanation
Indices: 92828916--92828984 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
92828906 CAATTCATAA
* * * *
92828916 GGTTTGCCTAACATGGTTTGCATATGACACATATAG
1 GGTTTGCATAACATGGCTCGCATAGGACACATATAG
*
92828952 GGTTTGCATATCATGGCTCGCATAGGACACATA
1 GGTTTGCATAACATGGCTCGCATAGGACACATA
92828985 CAAGGTTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (36 bp):
GGTTTGCATAACATGGCTCGCATAGGACACATATAG
Found at i:92829054 original size:15 final size:15
Alignment explanation
Indices: 92829034--92829063 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92829024 TAATCCTAGG
92829034 GTTCGCATGTAATAA
1 GTTCGCATGTAATAA
*
92829049 GTTCGCATGTCATAA
1 GTTCGCATGTAATAA
92829064 CCTAGGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (15 bp):
GTTCGCATGTAATAA
Found at i:92829078 original size:36 final size:37
Alignment explanation
Indices: 92829012--92829084 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
92829002 AATTCATAGG
92829012 GTTCGCATAACATAATCCTAGGGTTCGCATGTAATAA
1 GTTCGCATAACATAATCCTAGGGTTCGCATGTAATAA
** *
92829049 GTTCGCATGTCATAA-CCTAGGGTTTGCATGTAATAA
1 GTTCGCATAACATAATCCTAGGGTTCGCATGTAATAA
92829085 ACTATAGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 20 0.61
37 13 0.39
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (37 bp):
GTTCGCATAACATAATCCTAGGGTTCGCATGTAATAA
Found at i:92831301 original size:15 final size:15
Alignment explanation
Indices: 92831281--92831312 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
92831271 TATGCATGCA
92831281 AAATATAAAAGACAT
1 AAATATAAAAGACAT
92831296 AAATATAAAAGACAT
1 AAATATAAAAGACAT
92831311 AA
1 AA
92831313 TAATGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:92831453 original size:29 final size:29
Alignment explanation
Indices: 92831408--92831475 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
92831398 ATTTCCCAAT
* *
92831408 AGTTCACACATAAGGGTTTACACACCTAG
1 AGTTCACACAGAAGGGTTCACACACCTAG
* * *
92831437 GGTTCACACAGAGGGGTTCGCACACCTAG
1 AGTTCACACAGAAGGGTTCACACACCTAG
*
92831466 AGTTCGCACA
1 AGTTCACACA
92831476 TATAATTTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (29 bp):
AGTTCACACAGAAGGGTTCACACACCTAG
Found at i:92832805 original size:31 final size:31
Alignment explanation
Indices: 92832762--92832828 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
92832752 ATTGCCACTT
*
92832762 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
* * *
92832793 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
92832824 GTAGC
1 GTAGC
92832829 TGATGATCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAA
Found at i:92832851 original size:46 final size:45
Alignment explanation
Indices: 92832786--92832873 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
92832776 CACTATTCAC
* * *
92832786 TGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAAGTAGCTGA
1 TGATCAGGTAGCAGAAGCTACCACTTTTCACT-ATCAAGTAGCTGA
* *
92832832 TGATCAGGTAGTAGAAGCTACCACTTTTCACTATCAGGTAGC
1 TGATCAGGTAGCAGAAGCTACCACTTTTCACTATCAAGTAGC
92832874 CGAAGCTACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 9 0.24
46 28 0.76
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (45 bp):
TGATCAGGTAGCAGAAGCTACCACTTTTCACTATCAAGTAGCTGA
Found at i:92832968 original size:50 final size:51
Alignment explanation
Indices: 92832869--92832995 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 51
92832859 TCACTATCAG
* * * * *
92832869 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCATTGATCAGATAAGT
92832920 GTAGCCGAAGCTATCACTTATCACTT-TCACTTATCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCATTGATCAGATAAGT
*
92832970 GTAGCCGAAACTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
92832996 ATTGCCATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCATTGATCAGATAAGT
Found at i:92839759 original size:3 final size:3
Alignment explanation
Indices: 92839751--92839797 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
92839741 AAGACATAGG
92839751 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
92839798 GTTAGTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92841210 original size:20 final size:20
Alignment explanation
Indices: 92841169--92841210 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
92841159 GTTTCTGTTC
*
92841169 TGCTTCGTTTCTGTCTTATT
1 TGCTTCGTTTCTGTCTCATT
* *
92841189 TGCTTCGTTTTTGTCTCGTT
1 TGCTTCGTTTCTGTCTCATT
92841209 TG
1 TG
92841211 TAGGCGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.19, G:0.19, T:0.60
Consensus pattern (20 bp):
TGCTTCGTTTCTGTCTCATT
Found at i:92841291 original size:15 final size:15
Alignment explanation
Indices: 92841271--92841302 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92841261 TTGCAGACAG
92841271 GCCTCGGGACGAGGT
1 GCCTCGGGACGAGGT
*
92841286 GCCTCGGGGCGAGGT
1 GCCTCGGGACGAGGT
92841301 GC
1 GC
92841303 GGGCAACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.28, G:0.50, T:0.12
Consensus pattern (15 bp):
GCCTCGGGACGAGGT
Found at i:92854384 original size:351 final size:338
Alignment explanation
Indices: 92853753--92854410 Score: 901
Period size: 351 Copynumber: 1.9 Consensus size: 338
92853743 TACTTATATT
*
92853753 ACTGTTACAAACTCTTAGGCTTAATTCTATGATTTTATTTTATTTTTTCTTTATTTAGACTTGTG
1 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTTTCTTTATTTAGACTTGTG
92853818 AATATAATATTAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAAACT
66 AATATAATATTAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAAACT
* * *
92853883 CTTGTAACTTGTACAATGTTCACATGAGTAAATCTATGAGGTTTTCTTTCAAATTCTACTTTCGT
131 CTTGTAACTTGTACAATGTTCACATGAGTAAATCTATAAGGTTTTCTCTCAAATTCTACTTTCAT
* *
92853948 TACATGGAATCAGAGCTAAGGGATCGATTTTAGAGTATGAGGCTCATCGAATTAATCGCAGAATA
196 TACATGGAATCAGAGCTAAGGGATCAATTTTAGAGTATGAGGCTCATCGAATTAATCGCAAAATA
* ** *
92854013 GTGAGTTTTTTAGGGTATTTTCGTTAACTACCAATGGTTGTCCTTTTTATCTCACCACCAGCCTA
261 GTGAGTTCTAGAGGGTATTTTCGTTAACTACCAAGGGTTG-CCTTTTTATCTCACCACCAGCCTA
92854078 GGGAGGTGCGCAAG
325 GGGAGGTGCGCAAG
92854092 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTCTT-TTCGTATTTAGACTT
1 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTT-TTCTT--TATTTAGAC--
* * * **
92854156 GTTGTGAATATAATATTAGATATATCATGTTCGGGTTTATATTAACT-TTTACTTCTTT-CTCTA
61 -TTGTGAATATAATATTAGATAAATCATGTTAGAGTTTATATTAA-TGCCTACTTCTTTAC-CTA
* * *
92854219 GTTAAACTCTTGTAACTTGTATATATGTAAATATTCCCATGTGTAAATCTATAAGGTTTTCTCTC
123 GTTAAACTCTTGTAACTTGTACA-ATG------TTCACATGAGTAAATCTATAAGGTTTTCTCTC
* * * ** *
92854284 AAATTCTACTTTCATTACATGGTA-CTGGAGCTAAGGGATCAATTTTAGAGTCTGAGTTTCATTG
181 AAATTCTACTTTCATTACATGGAATC-AGAGCTAAGGGATCAATTTTAGAGTATGAGGCTCATCG
* *
92854348 AATTTATCGCAAAATAGTGAGTTCTAGAGGGTATTTTCGTTGACTACCAAGGGTTGCCTTTTT
245 AATTAATCGCAAAATAGTGAGTTCTAGAGGGTATTTTCGTTAACTACCAAGGGTTGCCTTTTT
92854411 TAAACTCATC
Statistics
Matches: 277, Mismatches: 26, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
339 47 0.17
340 2 0.01
341 9 0.03
343 1 0.00
344 75 0.27
345 4 0.01
350 8 0.03
351 131 0.47
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (338 bp):
ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTTTCTTTATTTAGACTTGTG
AATATAATATTAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAAACT
CTTGTAACTTGTACAATGTTCACATGAGTAAATCTATAAGGTTTTCTCTCAAATTCTACTTTCAT
TACATGGAATCAGAGCTAAGGGATCAATTTTAGAGTATGAGGCTCATCGAATTAATCGCAAAATA
GTGAGTTCTAGAGGGTATTTTCGTTAACTACCAAGGGTTGCCTTTTTATCTCACCACCAGCCTAG
GGAGGTGCGCAAG
Found at i:92856122 original size:46 final size:44
Alignment explanation
Indices: 92856063--92856177 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
92856053 ACAGGACAGA
* *
92856063 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
92856109 ACAGGATTGAGCCATATAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
92856153 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
92856178 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:92856173 original size:44 final size:45
Alignment explanation
Indices: 92856063--92856196 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
92856053 ACAGGACAGA
* * *
92856063 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
92856109 ACAGGATTGAGCCATATAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
92856153 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
92856197 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:92864566 original size:19 final size:19
Alignment explanation
Indices: 92864542--92864578 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
92864532 GAAGATTCCT
92864542 CTTTTTAGTGAGCATAGTC
1 CTTTTTAGTGAGCATAGTC
92864561 CTTTTTAGTGAGCATAGT
1 CTTTTTAGTGAGCATAGT
92864579 TCTACAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (19 bp):
CTTTTTAGTGAGCATAGTC
Found at i:92865845 original size:3 final size:3
Alignment explanation
Indices: 92865837--92865867 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
92865827 TTTGTCCCGG
*
92865837 TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
92865868 TATAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:92877398 original size:19 final size:20
Alignment explanation
Indices: 92877374--92877411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92877364 TAATTAGATT
92877374 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
92877393 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
92877412 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:92881430 original size:21 final size:19
Alignment explanation
Indices: 92881411--92881485 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 19
92881401 TTTAGTATTA
92881411 TTTTTATTTATTTTAATATT
1 TTTTTATTTATTTTAA-ATT
*
92881431 TATTTTATGTT-TTTAAATATAT
1 T-TTTTAT-TTATTTTAA-AT-T
92881453 TTGATTTATTATATTTTTAAATT
1 TT--TTTATT-TA-TTTTAAATT
92881476 TTTTTATTTA
1 TTTTTATTTA
92881486 ATGAAATAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
20 3 0.07
21 21 0.47
22 5 0.11
23 9 0.20
24 2 0.04
25 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATTTATTTTAAATT
Found at i:92881832 original size:11 final size:10
Alignment explanation
Indices: 92881812--92881901 Score: 68
Period size: 10 Copynumber: 9.2 Consensus size: 10
92881802 TTCAAACGGT
92881812 ATTTTTAATA
1 ATTTTTAATA
92881822 ATTTTTAA-A
1 ATTTTTAATA
92881831 TATTTTT--T-
1 -ATTTTTAATA
92881839 A-TTTTAATA
1 ATTTTTAATA
*
92881848 ATTTTTTATA
1 ATTTTTAATA
*
92881858 TTTTTTAAATA
1 ATTTTT-AATA
92881869 A-TTTT-ATA
1 ATTTTTAATA
92881877 ATTTTTATAATA
1 A-TTTT-TAATA
92881889 ACTTTTTAATA
1 A-TTTTTAATA
92881900 AT
1 AT
92881902 CATTTAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 22
0.70 0.05 0.24
Matches are distributed among these distances:
6 4 0.06
7 1 0.02
8 5 0.08
9 2 0.03
10 34 0.53
11 10 0.16
12 8 0.12
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:92881836 original size:20 final size:19
Alignment explanation
Indices: 92881811--92881888 Score: 81
Period size: 19 Copynumber: 4.1 Consensus size: 19
92881801 CTTCAAACGG
92881811 TATTTTTAATAATTTTTAAA
1 TATTTTT-ATAATTTTTAAA
*
92881831 TATTTTT-T-ATTTTAATAA
1 TATTTTTATAATTTTTA-AA
*
92881849 T-TTTTTATATTTTTTAAA
1 TATTTTTATAATTTTTAAA
*
92881867 TAATTTTATAATTTTTATAA
1 TATTTTTATAATTTTTA-AA
92881887 TA
1 TA
92881889 ACTTTTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.23
18 8 0.17
19 18 0.38
20 11 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTATAATTTTTAAA
Found at i:92881848 original size:26 final size:25
Alignment explanation
Indices: 92881814--92881864 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
92881804 CAAACGGTAT
92881814 TTTTAATAATTTTTAAATATTTTTTA
1 TTTTAATAATTTTT-AATATTTTTTA
*
92881840 TTTTAATAATTTTTTATATTTTTTA
1 TTTTAATAATTTTTAATATTTTTTA
92881865 AATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAATAATTTTTAATATTTTTTA
Found at i:92881900 original size:14 final size:12
Alignment explanation
Indices: 92881813--92881901 Score: 54
Period size: 11 Copynumber: 8.0 Consensus size: 12
92881803 TCAAACGGTA
92881813 TTTT-TAATAAT
1 TTTTATAATAAT
*
92881824 TTTTA-AATATT
1 TTTTATAATAAT
92881835 TTTTATTTTAATAAT
1 TTTTA---TAATAAT
*
92881850 TTTT-T-ATATT
1 TTTTATAATAAT
92881860 TTTTA-AATAA-
1 TTTTATAATAAT
92881870 -TTT-T-ATAAT
1 TTTTATAATAAT
*
92881879 TTTTATAATAAC
1 TTTTATAATAAT
92881891 TTTT-TAATAAT
1 TTTTATAATAAT
92881902 CATTTAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 24
0.67 0.07 0.27
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 11 0.18
11 25 0.42
12 8 0.13
15 9 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATAATAAT
Found at i:92882044 original size:18 final size:18
Alignment explanation
Indices: 92882023--92882058 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
92882013 GAAAAGTATT
92882023 TATTTTTAAGAT-TTTTTA
1 TATTTTTAA-ATATTTTTA
92882041 TATTTTTAAATATTTTTA
1 TATTTTTAAATATTTTTA
92882059 CTGACATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTTTTAAATATTTTTA
Found at i:92883926 original size:23 final size:23
Alignment explanation
Indices: 92883900--92883969 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
92883890 AAATCTATGT
92883900 AATATAGTATTGAAAATATATAC
1 AATATAGTATTGAAAATATATAC
*
92883923 AATAT-GATATTGAAAGGATAGATATAT
1 AATATAG-TATTGAAA--AT--ATATAC
92883950 AATATAGTA-TGAAAAGTATA
1 AATATAGTATTGAAAA-TATA
92883970 GGTACATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
22 1 0.03
23 16 0.41
24 1 0.03
25 3 0.08
26 5 0.13
27 12 0.31
28 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.33
Consensus pattern (23 bp):
AATATAGTATTGAAAATATATAC
Found at i:92884492 original size:19 final size:20
Alignment explanation
Indices: 92884468--92884505 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92884458 TAAGTAGCTA
92884468 ATAACAT-TAAAACATATAC
1 ATAACATATAAAACATATAC
*
92884487 ATAACATATAAAATATATA
1 ATAACATATAAAACATATA
92884506 ATATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAACATATAAAACATATAC
Found at i:92884573 original size:2 final size:2
Alignment explanation
Indices: 92884566--92884604 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
92884556 ATACATATGC
92884566 AT AT AT AT 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 AT AT AT AT A
92884605 ATAATGGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92884685 original size:22 final size:23
Alignment explanation
Indices: 92884659--92884731 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 23
92884649 GTACAAAGGG
92884659 TATATA-ACTAATAATAT-TAAAA
1 TATATACA-TAATAATATATAAAA
*
92884681 TATATACATAATAGTATATAAAA
1 TATATACATAATAATATATAAAA
* *
92884704 -A-AAACATAATACTA-A-AAATA
1 TATATACATAATAATATATAAA-A
92884724 TATATACA
1 TATATACA
92884732 CATAATACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.07
20 2 0.05
21 12 0.29
22 19 0.45
23 6 0.14
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (23 bp):
TATATACATAATAATATATAAAA
Found at i:92884858 original size:3 final size:3
Alignment explanation
Indices: 92884852--92884904 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
92884842 AAGCATTTAC
92884852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92884900 TAA TA
1 TAA TA
92884905 TTGGAATGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92885564 original size:2 final size:2
Alignment explanation
Indices: 92885527--92885551 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92885517 TTTACTGTAT
92885527 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
92885552 TTGTTGAATA
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:92890670 original size:3 final size:3
Alignment explanation
Indices: 92890662--92890709 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
92890652 ATGCATTTGC
92890662 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
92890710 AATTGTCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:92898647 original size:6 final size:6
Alignment explanation
Indices: 92898633--92898715 Score: 85
Period size: 6 Copynumber: 13.8 Consensus size: 6
92898623 CAGATTTGGG
* * * * * * *
92898633 GATGAT GATGGT GATGAT GATGGA GATGGA GATGGG GATGAT GATGGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
* *
92898681 GATGAT GATGGT GATGAT GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
92898716 GCCTAAGTCC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (6 bp):
GATGGT
Found at i:92898648 original size:12 final size:12
Alignment explanation
Indices: 92898633--92898715 Score: 114
Period size: 12 Copynumber: 6.9 Consensus size: 12
92898623 CAGATTTGGG
92898633 GATGATGATGGT
1 GATGATGATGGT
*
92898645 GATGATGATGGA
1 GATGATGATGGT
*
92898657 GATGGA-GATGGG
1 GAT-GATGATGGT
*
92898669 GATGATGATGGG
1 GATGATGATGGT
92898681 GATGATGATGGT
1 GATGATGATGGT
92898693 GATGATGATGGT
1 GATGATGATGGT
*
92898705 GATGGTGATGG
1 GATGATGATGG
92898716 GCCTAAGTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
11 2 0.03
12 61 0.94
13 2 0.03
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (12 bp):
GATGATGATGGT
Found at i:92903574 original size:30 final size:28
Alignment explanation
Indices: 92903538--92903607 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
92903528 CAATTAGATC
92903538 TTAAATTTTAA-AATCTAAAAATAAAAAAAA
1 TTAAATTTTAAGAA--TAAAAAT-AAAAAAA
* *
92903568 TTAAATTCTTAAGAATAAATATAAAATAA
1 TTAAATT-TTAAGAATAAAAATAAAAAAA
92903597 TTAAATTTTAA
1 TTAAATTTTAA
92903608 TTTTGGGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 4 0.11
29 13 0.36
30 13 0.36
31 4 0.11
32 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
TTAAATTTTAAGAATAAAAATAAAAAAA
Found at i:92920813 original size:20 final size:20
Alignment explanation
Indices: 92920773--92920812 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
92920763 TGTCACTAAA
*
92920773 TAATCAAATTAAATTTATTT
1 TAATCAAATTAAATTAATTT
92920793 TAATCAAA-TAAATTAATTT
1 TAATCAAATTAAATTAATTT
92920812 T
1 T
92920813 TTGACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATCAAATTAAATTAATTT
Found at i:92925760 original size:26 final size:26
Alignment explanation
Indices: 92925731--92925838 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
92925721 TGGTACAAAT
92925731 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92925757 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92925783 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92925809 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92925835 TGAT
1 TGAT
92925839 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92932846 original size:26 final size:26
Alignment explanation
Indices: 92932817--92932923 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
92932807 TGGTACAAAT
92932817 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92932843 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92932869 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92932894 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92932920 TGAT
1 TGAT
92932924 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92932889 original size:51 final size:52
Alignment explanation
Indices: 92932817--92932923 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
92932807 TGGTACAAAT
92932817 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
92932869 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
92932920 TGAT
1 TGAT
92932924 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:92940415 original size:21 final size:20
Alignment explanation
Indices: 92940391--92940444 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
92940381 TTAATGATAA
92940391 TAATATATAGATAAAAATG-CG
1 TAATA-ATA-ATAAAAATGACG
*
92940412 TAATAAT-ATAAAAATGACT
1 TAATAATAATAAAAATGACG
92940431 TAATAATATATAAA
1 TAATAATA-ATAAA
92940445 TAATTACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 9 0.31
19 8 0.28
20 2 0.07
21 10 0.34
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATAATAATAAAAATGACG
Done.