Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 29
Found at i:1966002 original size:52 final size:52
Alignment explanation
Indices: 1965876--1966004 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
1965866 TAGTTTACTT
** *
1965876 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* * *
1965928 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
*
1965981 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1966005 TTGCGGTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 40 0.65
53 5 0.08
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:1966022 original size:19 final size:19
Alignment explanation
Indices: 1966000--1966172 Score: 141
Period size: 19 Copynumber: 9.6 Consensus size: 19
1965990 GAAACCAAAA
* *
1966000 TCGCATTGCGGTTTTCATT
1 TCGCGTTGCGATTTTCATT
1966019 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1966033 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1966052 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
1966068 T--CATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1966085 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1966104 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1966123 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1966142 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1966162 TCGTGTTGCGA
1 TCGCGTTGCGA
1966173 AAGTAAACTA
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
14 18 0.14
16 8 0.06
17 8 0.06
19 79 0.63
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1966048 original size:33 final size:33
Alignment explanation
Indices: 1966003--1966097 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
1965993 ACCAAAATCG
*
1966003 CATTGCGGTTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
* * *
1966036 CGTTGCGATTTTCATTTCGCATTGCGATTCTGT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
1966069 CATTGCGATTTTCATTTCGCGTTGCGATT
1 CATTGCGATTTTCATTTCGCGTTGCGATT
1966098 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:1966130 original size:38 final size:38
Alignment explanation
Indices: 1966000--1966172 Score: 150
Period size: 33 Copynumber: 4.8 Consensus size: 38
1965990 GAAACCAAAA
* *
1966000 TCGCATTGCGGTTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1966035 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* * **
1966068 T--CATTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
1966104 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1966142 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
1966173 AAGTAAACTA
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 50 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 43 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:1968243 original size:20 final size:19
Alignment explanation
Indices: 1968226--1968305 Score: 98
Period size: 20 Copynumber: 4.4 Consensus size: 19
1968216 AAAAATGACT
1968226 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1968246 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1968265 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1968279 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
1968299 ATCGCAA
1 ATCGCAA
1968306 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
19 17 0.33
20 20 0.38
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1968300 original size:34 final size:34
Alignment explanation
Indices: 1968245--1968324 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
1968235 CGGAAATGAA
1968245 AATCGCAATGCG-AAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAAATGAAAATCGCAACGAGAG
1968278 AATCGCAATGCGAAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAAATGAAAATCGCAACGAGAG
1968312 AATCGCAATGCGA
1 AATCGCAATGCGA
1968325 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 12 0.26
34 34 0.74
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (34 bp):
AATCGCAATGCGAAAATGAAAATCGCAACGAGAG
Found at i:1968378 original size:53 final size:52
Alignment explanation
Indices: 1968320--1968537 Score: 302
Period size: 53 Copynumber: 4.1 Consensus size: 52
1968310 AGAATCGCAA
1968320 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
1968373 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCCTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
1968426 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
1968484 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1968531 TGCGATT
1 TGCGATT
1968538 GTAATTTCCG
Statistics
Matches: 154, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 9 0.06
53 109 0.71
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.08
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1968401 original size:72 final size:71
Alignment explanation
Indices: 1968314--1968523 Score: 255
Period size: 72 Copynumber: 2.9 Consensus size: 71
1968304 AACGAGAGAA
* * *
1968314 TCGCAATGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCA-TTGCGATTCTCTCGTTGCG
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCG-ATTTGC-ATT-TCGCATTGCG
1968377 ATTTTCATT
63 ATTTTCATT
* * * *
1968386 TCGCATTGCGATTTTCATTTCCGCCTTGCGATTCTCTC-GTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTTCCGATTTGCATTTCGCATTGCGA
1968450 TTTTCATT
64 TTTTCATT
** *
1968458 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-TTCCGATTTGCATTTCGCATTGCGAT
1968523 T
65 T
1968524 CTCTCGTTGC
Statistics
Matches: 122, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
70 2 0.02
71 1 0.01
72 94 0.77
73 15 0.12
74 8 0.07
75 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCGATTTGCATTTCGCATTGCGATT
TTCATT
Found at i:1970837 original size:12 final size:12
Alignment explanation
Indices: 1970820--1970844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1970810 TCTTCGGGGA
1970820 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1970832 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1970844 C
1 C
1970845 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1971053 original size:24 final size:24
Alignment explanation
Indices: 1971019--1971072 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1971009 CTGAAACATC
*
1971019 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
1971043 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1971067 ATCAAA
1 ATCAAA
1971073 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1971783 original size:20 final size:20
Alignment explanation
Indices: 1971758--1971986 Score: 219
Period size: 20 Copynumber: 11.4 Consensus size: 20
1971748 AAATTTCAGT
* *
1971758 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
1971778 GTTGTGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1971798 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1971818 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
1971838 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1971858 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
1971878 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1971898 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
1971918 GTTGCGGTTTACGGATACGT-
1 GTTGCGATTTACGGATTC-TC
* *
1971938 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
1971958 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
1971978 GTTGCGATT
1 GTTGCGATT
1971987 CTGGAAAATC
Statistics
Matches: 182, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:1971959 original size:60 final size:60
Alignment explanation
Indices: 1971756--1971967 Score: 241
Period size: 60 Copynumber: 3.5 Consensus size: 60
1971746 CAAAATTTCA
* * * * * * *
1971756 GTGTTGTGATTTACAGATTCTCGTTGTGATTTACGGATTA-TCGTTGCGATTTACAGATTC
1 GTGTTGCGATTTACGGATTCGCGTTGCGATTTACGGA-TACACGTTGCGATTTACGGATAC
** *
1971816 -TCGTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
1 GT-GTTGCGATTTACGGATTCGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATAC
** * *
1971876 GCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACACGTTGCGGTTTACGGATAC
1 GTGTTGCGATTTACGGATTCGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATAC
*
1971936 GTGTTGCGATTTATGTG-TTCGCGTTGCGATTT
1 GTGTTGCGATTTACG-GATTCGCGTTGCGATTT
1971968 TCATATTCGC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
59 3 0.02
60 126 0.97
61 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (60 bp):
GTGTTGCGATTTACGGATTCGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATAC
Found at i:1972257 original size:33 final size:33
Alignment explanation
Indices: 1972220--1972533 Score: 218
Period size: 33 Copynumber: 9.4 Consensus size: 33
1972210 CCCTAAACTC
*
1972220 TAAACTATACATTATATAATTTATTAGTATATA
1 TAAACTATATATTATATAATTTATTAGTATATA
* *
1972253 TAAACTATATAAACTATATACACTATATGATA-TATATA
1 TAAACTATAT--ATTATATA-A-TTTAT--TAGTATATA
* **
1972291 TAAACTATACAATATATATAAACTATATAGTATATA
1 TAAACTATA-TAT-TATATAATTTAT-TAGTATATA
** *
1972327 TAAACTATATAGTATATATAAACTATATATTATATA
1 TAAACTATATA-T-TATATAATTTAT-TAGTATATA
** * **
1972363 GTTCATTA-ATA-TATATAAACTATATAGTATATA
1 -TAAACTATATATTATATAATTTAT-TAGTATATA
* *
1972396 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAATTTATTAGTATATA
* *
1972429 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAATTTATTAGTATATA
* * *
1972462 T-AAC-CTATA-TA-GT-A--TA-TGGTATATA
1 TAAACTATATATTATATAATTTATTAGTATATA
* *
1972487 CAAACTATATATTATATAATTCATTAGTATATA
1 TAAACTATATATTATATAATTTATTAGTATATA
1972520 TAAACTATATATTA
1 TAAACTATATATTA
1972534 ATTTATTAAT
Statistics
Matches: 229, Mismatches: 31, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
25 8 0.03
26 4 0.02
27 4 0.02
28 2 0.01
29 2 0.01
30 3 0.01
31 4 0.02
32 8 0.03
33 97 0.42
34 8 0.03
35 11 0.05
36 45 0.20
37 10 0.04
38 21 0.09
39 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (33 bp):
TAAACTATATATTATATAATTTATTAGTATATA
Found at i:1972261 original size:9 final size:9
Alignment explanation
Indices: 1972249--1972355 Score: 96
Period size: 9 Copynumber: 11.7 Consensus size: 9
1972239 TTTATTAGTA
1972249 TATATAAAC
1 TATATAAAC
1972258 TATATAAAC
1 TATATAAAC
*
1972267 TATATACAC
1 TATATAAAC
1972276 TATATGATATA-
1 TATAT-A-A-AC
1972287 TATATAAAC
1 TATATAAAC
*
1972296 TATACAATA-
1 TATATAA-AC
1972305 TATATAAAC
1 TATATAAAC
*
1972314 TATATAGTA-
1 TATATA-AAC
1972323 TATATAAAC
1 TATATAAAC
*
1972332 TATATAGTA-
1 TATATA-AAC
1972341 TATATAAAC
1 TATATAAAC
1972350 TATATA
1 TATATA
1972356 TTATATAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.05
9 65 0.81
10 5 0.06
11 5 0.06
12 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.37
Consensus pattern (9 bp):
TATATAAAC
Found at i:1972381 original size:51 final size:51
Alignment explanation
Indices: 1972321--1972446 Score: 234
Period size: 51 Copynumber: 2.5 Consensus size: 51
1972311 AACTATATAG
1972321 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAA
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAA
*
1972372 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAA
*
1972423 TATATATAAACTATATATTATATA
1 TATATATAAACTATATAGTATATA
1972447 GTTCATTAGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAA
Found at i:1972411 original size:18 final size:18
Alignment explanation
Indices: 1972244--1972478 Score: 208
Period size: 18 Copynumber: 13.4 Consensus size: 18
1972234 TATAATTTAT
1972244 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
1972262 TA-AACTATATACACTATA
1 TAGTA-TATATAAACTATA
*
1972280 TGATATATATATAAACTATA
1 T-A-GTATATATAAACTATA
* *
1972300 CAATATATATAAACTATA
1 TAGTATATATAAACTATA
1972318 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
1972336 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
1972354 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
1972369 TAATATATATAAACTATA
1 TAGTATATATAAACTATA
1972387 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
1972405 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
1972420 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
1972438 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
1972453 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
1972471 TAGTATAT
1 TAGTATAT
1972479 GGTATATACA
Statistics
Matches: 178, Mismatches: 20, Indels: 38
0.75 0.08 0.16
Matches are distributed among these distances:
15 12 0.07
16 24 0.13
17 25 0.14
18 102 0.57
19 2 0.01
20 12 0.07
21 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:1972430 original size:2 final size:2
Alignment explanation
Indices: 1972247--1972413 Score: 67
Period size: 2 Copynumber: 79.0 Consensus size: 2
1972237 AATTTATTAG
* * *
1972247 TA TA TA TA AA CTA TA TA AA CTA TA TA CA CTA TA TGA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA T-A TA TA TA TA
* * * *
1972291 TA AA CTA TA CA -A TA TA TA TA AA CTA TA TA GTA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
*
1972334 TA TA GTA TA TA TA AA CTA TA TA T- TA TA TA GT- TCA T- TA -A TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA T-A TA TA TA TA
* *
1972374 TA TA TA AA CTA TA TA GTA TA TA TA AA CTA TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
1972414 GTTCATTAGT
Statistics
Matches: 125, Mismatches: 19, Indels: 42
0.67 0.10 0.23
Matches are distributed among these distances:
1 6 0.05
2 100 0.80
3 19 0.15
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (2 bp):
TA
Found at i:1972475 original size:51 final size:50
Alignment explanation
Indices: 1972220--1972530 Score: 191
Period size: 51 Copynumber: 5.9 Consensus size: 50
1972210 CCCTAAACTC
* ** *
1972220 TAAACTATACATTATATAATTTATTAGTATATATAAACTATATA-AACTATA
1 TAAACTATATATTATAT-ATACATTAGTATATATAAACTATATAGTA-TATA
* * *
1972271 TACACTATATGATATATATATAAACTATACAATATATATAAACTATATAGTATATA
1 TAAACTATAT-AT-TATATAT--AC-AT-TAGTATATATAAACTATATAGTATATA
* * * * * *
1972327 TAAACTATATAGTATATATAAACTA-TATATTATATAGT-TCATTAATATATA
1 TAAACTATATATTATATATACATTAGTATA-TATAAACTAT-A-TAGTATATA
* * * * *
1972378 TAAACTATATAGTATATATAAACTA-TATATTATATAGT-TCATTAGTATATA
1 TAAACTATATATTATATATACATTAGTATA-TATAAACTAT-A-TAGTATATA
* *
1972429 TAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGTATA
1 TAAACTATATATTATATA-TACATTAGTATATATAAACTATATAG--TA---TATA
*
1972485 TACAAACTATATATTATATAATTCATTAGTATATATAAACTATATA
1 T--AAACTATATATTATAT-ATACATTAGTATATATAAACTATATA
1972531 TTAATTTATT
Statistics
Matches: 215, Mismatches: 24, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
49 5 0.02
50 8 0.04
51 87 0.40
52 15 0.07
53 12 0.06
54 7 0.03
55 3 0.01
56 36 0.17
57 1 0.00
58 40 0.19
59 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (50 bp):
TAAACTATATATTATATATACATTAGTATATATAAACTATATAGTATATA
Found at i:1972494 original size:25 final size:25
Alignment explanation
Indices: 1972455--1972503 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1972445 TAGTTCATTA
* *
1972455 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
1972480 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
1972504 AATTCATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:1972528 original size:26 final size:27
Alignment explanation
Indices: 1972499--1972562 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
1972489 AACTATATAT
*
1972499 TATATAATTCA-TTAGTATATATAAAC-
1 TATATAATTAATTTAGTA-ATATAAACA
*
1972525 TATAT-ATTAATTTATTAATATAAACA
1 TATATAATTAATTTAGTAATATAAACA
1972551 TATAT-ATTAATT
1 TATATAATTAATT
1972563 GAAAGAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 12 0.35
26 22 0.65
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (27 bp):
TATATAATTAATTTAGTAATATAAACA
Found at i:1972554 original size:91 final size:91
Alignment explanation
Indices: 1972383--1972554 Score: 249
Period size: 91 Copynumber: 1.9 Consensus size: 91
1972373 ATATATAAAC
* *
1972383 TATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATATTATATAG
1 TATATAGTATATACAAACTATATATTATATAATTCATTAGTATATATAAACTATATATTATATAG
* * *
1972448 TTCATTAGTATATATAACCTATATAG
66 TTAATTAGAACATATAACCTATATAG
* *
1972474 TATATGGTATATACAAACTATATATTATATAATTCATTAGTATATATAAACTATATATTAATTTA
1 TATATAGTATATACAAACTATATATTATATAATTCATTAGTATATATAAACTATATATT-ATATA
1972539 -TTAATATA-AACATATA
65 GTTAAT-TAGAACATATA
1972555 TATTAATTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
91 66 0.92
92 6 0.08
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (91 bp):
TATATAGTATATACAAACTATATATTATATAATTCATTAGTATATATAAACTATATATTATATAG
TTAATTAGAACATATAACCTATATAG
Found at i:1972574 original size:26 final size:26
Alignment explanation
Indices: 1972517--1972579 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
1972507 TCATTAGTAT
* **
1972517 ATATAAAC-TATATATTAATTTATTA
1 ATATAAACATATATATTAATTAAAGA
1972542 ATATAAACATATATATTAATTGAAAGA
1 ATATAAACATATATATTAATT-AAAGA
*
1972569 AT-TAAAAATAT
1 ATATAAACATAT
1972580 GTAAGGATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 8 0.25
26 20 0.62
27 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
ATATAAACATATATATTAATTAAAGA
Found at i:1974242 original size:31 final size:31
Alignment explanation
Indices: 1974204--1974267 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1974194 GTTCGAAAAG
* *
1974204 ATTGTCATTATTTCCCAGTTTGGTATGAGCA
1 ATTGTCATTATGTCCCAGTTTGATATGAGCA
**
1974235 ATTGTCATTATGTCCTTGTTTGATATGAGCA
1 ATTGTCATTATGTCCCAGTTTGATATGAGCA
1974266 AT
1 AT
1974268 AAACAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (31 bp):
ATTGTCATTATGTCCCAGTTTGATATGAGCA
Found at i:1975652 original size:22 final size:22
Alignment explanation
Indices: 1975624--1975668 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1975614 CTATTTTATA
* **
1975624 TTGTTTGTTTCTGTTTGATATT
1 TTGTTTGCTTCTACTTGATATT
1975646 TTGTTTGCTTCTACTTGATATT
1 TTGTTTGCTTCTACTTGATATT
1975668 T
1 T
1975669 GTAAGGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.09, G:0.16, T:0.64
Consensus pattern (22 bp):
TTGTTTGCTTCTACTTGATATT
Found at i:1976633 original size:16 final size:17
Alignment explanation
Indices: 1976612--1976651 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1976602 GATCATTTTA
1976612 ACATGTCAGA-TCAATT
1 ACATGTCAGAGTCAATT
*
1976628 ACATGT-TGAGTCAATT
1 ACATGTCAGAGTCAATT
1976644 ACATGTCA
1 ACATGTCA
1976652 AGTTCATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (17 bp):
ACATGTCAGAGTCAATT
Found at i:1980344 original size:20 final size:21
Alignment explanation
Indices: 1980319--1980370 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1980309 TTTTCCCAAT
*
1980319 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1980339 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1980360 TCGCAATGCGA
1 TCGCAATGCGA
1980371 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1980384 original size:20 final size:20
Alignment explanation
Indices: 1980359--1980453 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
1980349 AATTGGGAAA
*
1980359 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1980379 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
1980400 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1980420 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
1980440 TTCGCAACGAGATA
1 ATCGCAACGCGATA
1980454 ATACAGAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.70
21 15 0.24
22 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1980626 original size:12 final size:12
Alignment explanation
Indices: 1980607--1980640 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1980597 CTCTCTGGCG
1980607 ACATCCGTTCCT
1 ACATCCGTTCCT
*
1980619 ATATCCGTTCCT
1 ACATCCGTTCCT
1980631 ACATCC-TTCC
1 ACATCCGTTCC
1980641 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:1981222 original size:24 final size:24
Alignment explanation
Indices: 1981195--1981248 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1981185 GTATTCGAAA
*
1981195 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1981219 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1981243 TTTGAT
1 TTTGAT
1981249 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1981440 original size:12 final size:12
Alignment explanation
Indices: 1981423--1981447 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1981413 ATATAATCCT
1981423 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1981435 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1981447 G
1 G
1981448 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1983759 original size:19 final size:19
Alignment explanation
Indices: 1983737--1983867 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
1983727 GGAAATTACT
1983737 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1983756 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1983770 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1983789 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
1983803 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1983822 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1983836 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1983855 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1983868 TTTAATTTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 28 0.33
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 40 0.47
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1983779 original size:33 final size:33
Alignment explanation
Indices: 1983737--1983863 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
1983727 GGAAATTACT
1983737 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1983770 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1983802 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1983836 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1983864 CGAATTTAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1983844 original size:66 final size:66
Alignment explanation
Indices: 1983738--1983870 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
1983728 GAAATTACTA
1983738 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1983803 T
66 T
*
1983804 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1983869 T
66 T
1983870 T
1 T
1983871 AATTTCGCGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:1983895 original size:14 final size:14
Alignment explanation
Indices: 1983878--1983934 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1983868 TTTAATTTCG
1983878 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1983892 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1983911 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1983925 CGTTGCGATT
1 CGTTGCGATT
1983935 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1983914 original size:33 final size:33
Alignment explanation
Indices: 1983863--1983952 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
1983853 AAATCGCAAC
* *
1983863 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1983896 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
1983929 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
1983953 AGTACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:1983916 original size:19 final size:19
Alignment explanation
Indices: 1983892--1983952 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1983882 GCGATTCTCT
1983892 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1983911 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
1983925 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1983944 CATTGCGAT
1 CGTTGCGAT
1983953 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1984078 original size:14 final size:14
Alignment explanation
Indices: 1984059--1984095 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1984049 CATCAATTAA
1984059 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1984073 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1984087 ACAAATCAA
1 ACAAATCAA
1984096 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1986496 original size:20 final size:19
Alignment explanation
Indices: 1986465--1986586 Score: 75
Period size: 20 Copynumber: 6.8 Consensus size: 19
1986455 TCTTTTGGTT
1986465 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1986484 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1986505 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1986524 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
1986538 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
1986557 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1986571 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1986587 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
14 19 0.24
16 4 0.05
17 4 0.05
19 20 0.26
20 29 0.37
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1986547 original size:33 final size:33
Alignment explanation
Indices: 1986490--1986586 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
1986480 ACGAGATAAT
1986490 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
1986524 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
1986557 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
1986587 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1987171 original size:20 final size:20
Alignment explanation
Indices: 1987149--1987276 Score: 141
Period size: 20 Copynumber: 6.3 Consensus size: 20
1987139 GTAAATCGAG
* * *
1987149 TTGCGAAAGTCAGAATCGCG
1 TTGCGATAGTCAGTATCGCA
* ***
1987169 TTGCGAAAGTCAGTATCTTG
1 TTGCGATAGTCAGTATCGCA
* *
1987189 TTGCGATTTTGT-ATTATCGCA
1 TTGCGA--TAGTCAGTATCGCA
*
1987210 TTGCGATAGTAAGTATCGCA
1 TTGCGATAGTCAGTATCGCA
1987230 TTGCGATAGTCAGTATCGCA
1 TTGCGATAGTCAGTATCGCA
1987250 TTGCGATAGTCAGTATCGCA
1 TTGCGATAGTCAGTATCGCA
1987270 TTGCGAT
1 TTGCGAT
1987277 TTTCCCAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 77 0.83
21 11 0.12
22 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGTATCGCA
Found at i:1987295 original size:81 final size:81
Alignment explanation
Indices: 1987149--1987297 Score: 183
Period size: 81 Copynumber: 1.8 Consensus size: 81
1987139 GTAAATCGAG
* *** ** *
1987149 TTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTTGTTGCGATTTTGTATTATCGCATTGC
1 TTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGC
1987214 GATAGTAAGTATCGCA
66 GATAGTAAGTATCGCA
* * * *
1987230 TTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTG
1 TTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTG
1987294 CGAT
65 CGAT
1987298 TTACTTATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 54 0.96
82 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (81 bp):
TTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGC
GATAGTAAGTATCGCA
Found at i:1987387 original size:21 final size:21
Alignment explanation
Indices: 1987347--1987387 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1987337 ACTGTAGACC
**
1987347 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1987368 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1987388 GCGAATTTGC
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:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1989778 original size:31 final size:29
Alignment explanation
Indices: 1989725--1989786 Score: 70
Period size: 31 Copynumber: 2.1 Consensus size: 29
1989715 AATGTGATTT
** *
1989725 AAAATAAATAATAGTTGGGTGACCAAAATA
1 AAAATAAATAATAAATGAGTGA-CAAAATA
*
1989755 AAAACTAAATAATAAATGAGTGACTAAATA
1 AAAA-TAAATAATAAATGAGTGACAAAATA
1989785 AA
1 AA
1989787 TAATTTACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (29 bp):
AAAATAAATAATAAATGAGTGACAAAATA
Found at i:1993542 original size:35 final size:34
Alignment explanation
Indices: 1993472--1993542 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 34
1993462 AAATTAAGAT
* * **
1993472 ATTATTAGAAATTAAAAATTGTTAAAATTTTAAA
1 ATTATTACAAATTAAAAATTGTGAAAATTCAAAA
* *
1993506 ATTATTACAAATATATACATTGTGAAAATTCAAAA
1 ATTATTACAAAT-TAAAAATTGTGAAAATTCAAAA
1993541 AT
1 AT
1993543 AAATAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (34 bp):
ATTATTACAAATTAAAAATTGTGAAAATTCAAAA
Found at i:1993960 original size:8 final size:9
Alignment explanation
Indices: 1993913--1993962 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
1993903 TTTTTAAACA
1993913 TTTT-TAAT
1 TTTTATAAT
1993921 TTTTATAAT
1 TTTTATAAT
** *
1993930 TTCCAATACT
1 TT-TTATAAT
1993940 TTTTATAAT
1 TTTTATAAT
1993949 TTTTATAAT
1 TTTTATAAT
1993958 TTTTA
1 TTTTA
1993963 AATATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 4 0.12
9 24 0.71
10 6 0.18
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:1993961 original size:19 final size:18
Alignment explanation
Indices: 1993913--1993962 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
1993903 TTTTTAAACA
1993913 TTTT-TAATTTTTATAAT
1 TTTTATAATTTTTATAAT
** *
1993930 TTCCAATACTTTTTATAAT
1 TT-TTATAATTTTTATAAT
1993949 TTTTATAATTTTTA
1 TTTTATAATTTTTA
1993963 AATATATATA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 2 0.08
18 9 0.36
19 14 0.56
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTATAAT
Found at i:1995865 original size:37 final size:37
Alignment explanation
Indices: 1995811--1995887 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
1995801 AATTAATTGT
1995811 AAATATTTTAAAAATAATGATATTAAAAATTTGATTA
1 AAATATTTTAAAAATAATGATATTAAAAATTTGATTA
*
1995848 AAAT-TTTTAAAAAATAATGATATTAAATATTTGATTA
1 AAATATTTT-AAAAATAATGATATTAAAAATTTGATTA
1995885 AAA
1 AAA
1995888 ATGTATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (37 bp):
AAATATTTTAAAAATAATGATATTAAAAATTTGATTA
Found at i:1996041 original size:2 final size:2
Alignment explanation
Indices: 1996034--1996067 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1996024 ATAACTTAAC
1996034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1996068 AAGTATATCT
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):
TA
Found at i:1996589 original size:15 final size:17
Alignment explanation
Indices: 1996554--1996593 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
1996544 ATAGCCTCTG
1996554 AATCATTCAAACTATTA
1 AATCATTCAAACTATTA
*
1996571 AATCATTC-AA-TATTT
1 AATCATTCAAACTATTA
1996586 AATCATTC
1 AATCATTC
1996594 TGAAATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 8 0.36
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (17 bp):
AATCATTCAAACTATTA
Found at i:2002017 original size:34 final size:34
Alignment explanation
Indices: 2001970--2002054 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
2001960 AGCCGACCCG
* *
2001970 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
2002004 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
2002038 AAAATATTATATATATA
1 AAAATATTATATATATA
2002055 TATAATCGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:2003012 original size:24 final size:24
Alignment explanation
Indices: 2002985--2003034 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2002975 TGCTAAAATG
2002985 ATGATAATCATGATTCACTAACCT
1 ATGATAATCATGATTCACTAACCT
2003009 ATGATAATCATGATTCACTAACCT
1 ATGATAATCATGATTCACTAACCT
2003033 AT
1 AT
2003035 CTTGCAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (24 bp):
ATGATAATCATGATTCACTAACCT
Found at i:2010951 original size:5 final size:5
Alignment explanation
Indices: 2010941--2010972 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2010931 CAAAATTGTG
*
2010941 AGTAT AGTAT AGTAT AATAT AGTAT AGTAT AG
1 AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AG
2010973 AAATTGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
AGTAT
Found at i:2012918 original size:20 final size:20
Alignment explanation
Indices: 2012893--2012931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2012883 ATCCTATTCC
2012893 CTGGTAATATTACATTCCGA
1 CTGGTAATATTACATTCCGA
* *
2012913 CTGGTAATCTTCCATTCCG
1 CTGGTAATATTACATTCCG
2012932 TGAACCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
CTGGTAATATTACATTCCGA
Found at i:2014466 original size:21 final size:22
Alignment explanation
Indices: 2014442--2014484 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2014432 GAGGAATAAA
*
2014442 AGAAAAGGCA-AAAAAAATATT
1 AGAAAAGGAATAAAAAAATATT
*
2014463 AGAAAATGAATAAAAAAATATT
1 AGAAAAGGAATAAAAAAATATT
2014485 TTTGATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (22 bp):
AGAAAAGGAATAAAAAAATATT
Found at i:2017432 original size:20 final size:20
Alignment explanation
Indices: 2017407--2017460 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2017397 AATTGGGAAA
2017407 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
*
2017427 ATCGCAATGTGATACTTACT
1 ATCGCAATGCGATACTTACT
2017447 ATCGCAATGCGATA
1 ATCGCAATGCGATA
2017461 ATAACAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (20 bp):
ATCGCAATGCGATACTTACT
Found at i:2017474 original size:62 final size:61
Alignment explanation
Indices: 2017404--2017542 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 61
2017394 GCAAATTGGG
* * * * *
2017404 AAAATCGCAATGCGATACTTACTATCGCAATGTGATACTTACTATCGCAATGCGATAATAAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
* * * * * *
2017466 AAAATCGCAACGAGATACTGACTTTTGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
2017527 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
2017543 TTTCTAAGCG
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
61 15 0.24
62 48 0.76
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2017497 original size:20 final size:20
Alignment explanation
Indices: 2017470--2017522 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2017460 AATAACAAAA
*
2017470 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
2017490 TTGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
2017510 TCGCAACGCGATA
1 TCGCAACGCGATA
2017523 ATACATAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:2017738 original size:22 final size:22
Alignment explanation
Indices: 2017710--2017753 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2017700 CACTCTCTCA
2017710 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2017732 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2017754 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2018056 original size:20 final size:20
Alignment explanation
Indices: 2017997--2018060 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
2017987 GCGATTTTAG
* *
2017997 TTTCGCGTTGTGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
2018017 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
2018037 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
2018057 TTTC
1 TTTC
2018061 AGAAGCTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:2019376 original size:18 final size:18
Alignment explanation
Indices: 2019355--2019399 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2019345 TCCACTTCGG
*
2019355 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2019373 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2019391 GAGCCATCA
1 GAGCCATCA
2019400 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2019936 original size:19 final size:20
Alignment explanation
Indices: 2019882--2019927 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2019872 TAGTTTACTT
* *
2019882 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2019902 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
2019922 TCGCAA
1 TCGCAA
2019928 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2019956 original size:14 final size:14
Alignment explanation
Indices: 2019937--2019994 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2019927 ATGTGAAATG
2019937 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
2019951 AAAATCGCAATGTGAA
1 AAAATCGCAA--CGAC
2019967 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2019983 AAAATCGCAACG
1 AAAATCGCAACG
2019995 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2019979 original size:32 final size:33
Alignment explanation
Indices: 2019921--2020011 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2019911 GGAAATGGCT
2019921 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
2019954 ATCGCAATGTGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
* *
2019986 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGTGAAATGAAAATCGCAA
2020012 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGTGAAATGAAAATCGCAACGACAAA
Found at i:2020047 original size:14 final size:14
Alignment explanation
Indices: 2020028--2020118 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
2020018 TTGTGTTTCG
2020028 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2020042 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2020058 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
2020074 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
2020091 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
2020107 CGTTGCAATTTT
1 CGTTGCGATTTT
2020119 CATTTCGCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 26 0.41
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2020092 original size:33 final size:33
Alignment explanation
Indices: 2020023--2020130 Score: 191
Period size: 33 Copynumber: 3.3 Consensus size: 33
2020013 GCGATTTGTG
*
2020023 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2020055 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
2020088 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2020121 TTTCGCATTG
1 TTTCGCATTG
2020131 TGATAGCCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 26 0.36
33 47 0.64
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2020161 original size:20 final size:19
Alignment explanation
Indices: 2020118--2020174 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
2020108 GTTGCAATTT
* *
2020118 TCATTTCGCATTGTGATAG
1 TCATTTCGCGTTGCGATAG
*
2020137 CCATTTCCGCGTTGCGATAG
1 TCATTT-CGCGTTGCGATAG
2020157 TCATTTTCGCGTTGCGAT
1 TCA-TTTCGCGTTGCGAT
2020175 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Found at i:2021691 original size:14 final size:14
Alignment explanation
Indices: 2021672--2021707 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2021662 ATTGTTTAAT
2021672 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2021686 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2021700 TGATTTGT
1 TGATTTGT
2021708 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2021900 original size:19 final size:19
Alignment explanation
Indices: 2021847--2021892 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2021837 GCAACGAGAG
2021847 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2021866 AATCGCAATGCTAAATGAA
1 AATCGCAATGCGAAATGAA
2021885 AATCGCAA
1 AATCGCAA
2021893 CGAGAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2021954 original size:20 final size:20
Alignment explanation
Indices: 2021929--2021986 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
2021919 TCGCATTGCG
*
2021929 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2021949 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2021969 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2021987 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:2022415 original size:20 final size:20
Alignment explanation
Indices: 2022322--2022414 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
2022312 GATTCTGTAT
*
2022322 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
2022342 AATCGCGTTCCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2022362 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2022382 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
2022402 TATCGCGTTGCGA
1 TATCGCGTTGCGA
2022415 TTTTACCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2022556 original size:20 final size:20
Alignment explanation
Indices: 2022533--2022578 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2022523 TAACGCGAAT
* *
2022533 TTGCGATAATGGAGATCGCG
1 TTGCGATAATAGAGATCGCA
*
2022553 TTGCGA-ATTAGAGATCGCA
1 TTGCGATAATAGAGATCGCA
2022572 TTGCGAT
1 TTGCGAT
2022579 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:2026802 original size:20 final size:20
Alignment explanation
Indices: 2026775--2026852 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2026765 CTATCGTAAA
*
2026775 TTCGCGTTGCGATTTTTCA-
1 TTCGCGTTGCGATTTTACAG
2026794 TTGCGCGTTGCGATTTTACAG
1 TT-CGCGTTGCGATTTTACAG
* *
2026815 TTCGCGTTGTGATAGTCTACAG
1 TTCGCGTTGCGAT--TTTACAG
2026837 TT-GTCGTTGCGATTTT
1 TTCG-CGTTGCGATTTT
2026853 CTAAATTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.04
20 28 0.57
21 3 0.06
22 16 0.33
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTACAG
Found at i:2026864 original size:19 final size:19
Alignment explanation
Indices: 2026840--2026887 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
2026830 TCTACAGTTG
*
2026840 TCGTTGCGATTTTCTAAAT
1 TCGTTGCGATTTTCCAAAT
*
2026859 TCGTTGCTATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
2026878 TCGTTGCGAT
1 TCGTTGCGAT
2026888 AGTCTACAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:2030884 original size:33 final size:33
Alignment explanation
Indices: 2030846--2030910 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2030836 ATCAGGTATC
*
2030846 GGTACCCGATTATCGAGTACCCGTAAAATCCGG
1 GGTACCCGATTACCGAGTACCCGTAAAATCCGG
* *
2030879 GGTACCCGATTACCGGGTACCCGTAACATCCG
1 GGTACCCGATTACCGAGTACCCGTAAAATCCG
2030911 AGTCGGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (33 bp):
GGTACCCGATTACCGAGTACCCGTAAAATCCGG
Found at i:2031075 original size:18 final size:19
Alignment explanation
Indices: 2031040--2031076 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2031030 CACGGAATGT
2031040 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2031060 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2031077 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2032229 original size:23 final size:26
Alignment explanation
Indices: 2032203--2032262 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 26
2032193 AATCACTGAT
2032203 GGAATTCAATTTCAT-C-AAAT-GAG
1 GGAATTCAATTTCATCCAAAATGGAG
*** *
2032226 GGAAAGGAATTTCATCCAAAATGGAT
1 GGAATTCAATTTCATCCAAAATGGAG
2032252 GGAATTCAATT
1 GGAATTCAATT
2032263 CTCTTGTTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 12 0.44
24 1 0.04
25 4 0.15
26 10 0.37
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (26 bp):
GGAATTCAATTTCATCCAAAATGGAG
Found at i:2034297 original size:20 final size:20
Alignment explanation
Indices: 2034272--2034364 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
2034262 TTTGTTAGTT
2034272 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
*
2034292 ATTAGATAGAATCAGTTTT-
1 ATTAGATAGGATCAGTTTTA
* * *
2034311 -TTA-TTCGG-TTAG--TT-
1 ATTAGATAGGATCAGTTTTA
2034325 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
2034345 ATTAGATAGAATCAATTTTA
1 ATTAGATAGGATCAGTTTTA
2034365 TTATGTTGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.04
15 3 0.05
16 6 0.11
17 5 0.09
18 3 0.05
19 2 0.04
20 36 0.63
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (20 bp):
ATTAGATAGGATCAGTTTTA
Found at i:2034322 original size:53 final size:53
Alignment explanation
Indices: 2034256--2034368 Score: 190
Period size: 53 Copynumber: 2.1 Consensus size: 53
2034246 TAACTAGATA
** *
2034256 TTTTATTTTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTT
1 TTTTATTCGGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAATT
2034309 TTTTATTCGGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAATT
1 TTTTATTCGGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAATT
2034362 TTATTAT
1 TT-TTAT
2034369 GTTGCTAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 52 0.93
54 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (53 bp):
TTTTATTCGGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAATT
Found at i:2038409 original size:22 final size:21
Alignment explanation
Indices: 2038381--2038454 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 21
2038371 TGATTGCTCT
2038381 GTCCCGAATGACCACTGTATAC
1 GTCCCGAATGACCACTG-ATAC
*
2038403 GTCCCGAAAGACCACTGGATAC
1 GTCCCGAATGACCACT-GATAC
*
2038425 GTCCCGAATGACCACTAGATAT
1 GTCCCGAATGACCACT-GATAC
2038447 GTCCCGAA
1 GTCCCGAA
2038455 GGACTAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 46 0.98
23 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (21 bp):
GTCCCGAATGACCACTGATAC
Found at i:2041019 original size:67 final size:67
Alignment explanation
Indices: 2040911--2041047 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
2040901 TGTTCTACAA
*
2040911 ACACAATAATGGTAAAATTGCTATTTTAATTGTGTATGTAGATGACATTGTTATGATAGGAGATG
1 ACACAATAATGGTAAAATTGCTATTTTAATTGTGTATGTAGATGACATTGTTATGACAGGAGATG
2040976 AC
66 AC
2040978 ACACAATAATGGTAAAATTGCTATTTTAATTGTGTATGTAGATGACATTGTTATGACAGGAGATG
1 ACACAATAATGGTAAAATTGCTATTTTAATTGTGTATGTAGATGACATTGTTATGACAGGAGATG
2041043 AC
66 AC
2041045 ACA
1 ACA
2041048 ATAGAGTTGG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (67 bp):
ACACAATAATGGTAAAATTGCTATTTTAATTGTGTATGTAGATGACATTGTTATGACAGGAGATG
AC
Found at i:2047284 original size:22 final size:22
Alignment explanation
Indices: 2047234--2047310 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
2047224 AGTGAATATT
2047234 TGTCCCGAAGGACCA-T---TA
1 TGTCCCGAAGGACCACTGGATA
* *
2047252 CGTCCCTAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
2047274 TGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
2047296 TGTCCCGAAGGACCA
1 TGTCCCGAAGGACCA
2047311 ATGTAACCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.25
19 1 0.02
22 37 0.73
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGGATA
Found at i:2068907 original size:6 final size:6
Alignment explanation
Indices: 2068896--2068920 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2068886 CCCTTTAAAC
2068896 GTTTGA GTTTGA GTTTGA GTTTGA G
1 GTTTGA GTTTGA GTTTGA GTTTGA G
2068921 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTTGA
Found at i:2077809 original size:3 final size:3
Alignment explanation
Indices: 2077801--2077844 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2077791 TTTTATAGTT
*
2077801 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2077845 TTCTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2077888 original size:22 final size:22
Alignment explanation
Indices: 2077804--2077888 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 22
2077794 TATAGTTTTA
*
2077804 TTATTA-TTATTATTATTATT-A
1 TTATTATTTATTATTATT-TTCT
2077825 TTATTATTGTTATTATTATTTTCT
1 TTATTA-T-TTATTATTATTTTCT
*
2077849 TTATTTTTTATTCA-TATTTATC-
1 TTATTATTTATT-ATTATTT-TCT
*
2077871 TTGTTATTTATTATTATT
1 TTATTATTTATTATTATT
2077889 ATTATCACTA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
21 7 0.13
22 24 0.45
23 6 0.11
24 16 0.30
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTATTTATTATTATTTTCT
Found at i:2081319 original size:20 final size:20
Alignment explanation
Indices: 2081277--2081319 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
2081267 AAATCATACG
* *
2081277 AAAAAAATAGTTTAAAAAGA
1 AAAAAAATAGTTAAAAAAAA
*
2081297 AAAAAAATA-TTAAAATAAA
1 AAAAAAATAGTTAAAAAAAA
2081316 AAAA
1 AAAA
2081320 CCAATGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAAAATAGTTAAAAAAAA
Found at i:2082350 original size:58 final size:58
Alignment explanation
Indices: 2082280--2082414 Score: 234
Period size: 58 Copynumber: 2.3 Consensus size: 58
2082270 AATTGGATAT
* * *
2082280 CCTTCGTCGTGAAGTTGAAATCCAATTTAAAGATGACTGTTGCTGATGAGCACGATTC
1 CCTTCGTCGTGAAGTTGAAACCCAATCTAAAGATGACTGTTACTGATGAGCACGATTC
*
2082338 CCTTCGTCGTGAAGTTGAAACCCAATCTAAATATGACTGTTACTGATGAGCACGATTC
1 CCTTCGTCGTGAAGTTGAAACCCAATCTAAAGATGACTGTTACTGATGAGCACGATTC
2082396 CCTTCGTCGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
2082415 TCCGTGGATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (58 bp):
CCTTCGTCGTGAAGTTGAAACCCAATCTAAAGATGACTGTTACTGATGAGCACGATTC
Found at i:2083181 original size:37 final size:37
Alignment explanation
Indices: 2083130--2083681 Score: 339
Period size: 37 Copynumber: 15.9 Consensus size: 37
2083120 TCAAAGCTTA
* *
2083130 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
2083167 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
2083203 CATTTCAAGGGAAA-TGCTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* *
2083231 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
2083269 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * ** * **
2083306 AGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
2083342 TATTTCAAGGAAAACATAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATTT
2083371 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
2083407 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
2083444 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** ** *
2083480 CATTTCAAGGGAAA-TGT-T-------TTC-AATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
2083507 AATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
1 --TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
2083545 TGTTTTAAGGGAAACTATCTCAAGAGAGACGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
2083581 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* *
2083609 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
2083647 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
2083682 CTTTAAAAAC
Statistics
Matches: 391, Mismatches: 73, Indels: 102
0.69 0.13 0.18
Matches are distributed among these distances:
26 2 0.01
27 3 0.01
28 7 0.02
29 56 0.14
30 10 0.03
31 2 0.01
32 4 0.01
33 4 0.01
34 3 0.01
35 8 0.02
36 123 0.31
37 158 0.40
38 9 0.02
39 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:2083222 original size:102 final size:102
Alignment explanation
Indices: 2083107--2083302 Score: 347
Period size: 102 Copynumber: 1.9 Consensus size: 102
2083097 TTTGTGTTTT
2083107 AAGGGAAACGCTTTCAAAGCTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTT
1 AAGGGAAACGCTTTCAAAGCTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTT
*
2083172 CAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTC
66 CAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTC
* * *
2083209 AAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTT
1 AAGGGAAACGCTTTCAAAGCTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTT
*
2083274 CAAGGGAAAATGTCTCAAGAGAGACAAAA
66 CAAGGGAAAATATCTCAAGAGAGACAAAA
2083303 CTTAGTTCCA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (102 bp):
AAGGGAAACGCTTTCAAAGCTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTT
CAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTC
Found at i:2083246 original size:65 final size:65
Alignment explanation
Indices: 2083159--2083558 Score: 312
Period size: 65 Copynumber: 5.9 Consensus size: 65
2083149 TCAAGGGAGA
* * *
2083159 CAAA-ATTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGCTT
1 CAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAATG-TT
2083222 T
65 T
* * *
2083223 CAATG-TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAATGT
1 CAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTATTTCAAGGG-AAATGT
*
2083287 CT
64 TT
* * * * ** *
2083289 CAAGAGAGACAAAACTTA-GTTCCAAAAGAAACTGTCTCAAGGGAGATGAAATTTATTTCAAGGA
1 C-A-A-AG-----ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGG
**
2083353 AAACATATT
58 AAATGT-TT
* * *
2083362 CAAAGATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 CAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAA-TGTT
2083426 T
65 T
* *
2083427 CAAGAGAGAAAAAAATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGG
1 C-A-A-AG-----ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGG
2083491 AAATGTTTT
58 AAATG-TTT
* * * *
2083500 C-AA-TTTTAATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
1 CAAAGATTT-ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
2083559 CTATCTCAAG
Statistics
Matches: 268, Mismatches: 41, Indels: 53
0.74 0.11 0.15
Matches are distributed among these distances:
63 2 0.01
64 6 0.02
65 123 0.46
66 16 0.06
67 7 0.03
68 3 0.01
69 2 0.01
70 3 0.01
71 1 0.00
72 7 0.03
73 66 0.25
74 29 0.11
75 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (65 bp):
CAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTT
Found at i:2083443 original size:102 final size:102
Alignment explanation
Indices: 2083261--2083457 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
2083251 TCAAGGGAGA
2083261 CAAAATTTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCT
1 CAAAATTTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCT
* **
2083326 CAAGGGAGATGAAATTTATTTCAAG-GAAAACATATT
66 CAAGAGAGAAAAAATTTATTTCAAGAGAAAACATATT
* * * **
2083362 CAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTC
1 CAAA-ATTTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTC
*
2083426 TCAAGAGAGAAAAAAATTTGTTTCAAGAGAAA
65 TCAAGAGAG-AAAAAATTTATTTCAAGAGAAA
2083458 CTGTCTCAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 29 0.35
102 51 0.61
103 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (102 bp):
CAAAATTTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCT
CAAGAGAGAAAAAATTTATTTCAAGAGAAAACATATT
Found at i:2083479 original size:138 final size:136
Alignment explanation
Indices: 2083130--2083574 Score: 579
Period size: 138 Copynumber: 3.2 Consensus size: 136
2083120 TCAAAGCTTA
* * * * *
2083130 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
* *
2083195 ACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
66 ACAAAATTCATTTCAA-GGAAA-ACTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
2083260 ACAAAATTT
129 ACAAAA-TT
* * * * * *
2083269 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
** * * *
2083334 ATGAAATTTATTTCAAGGAAAACATATTCAAAGATTT-TGTTTCAAGGGAAACTGTCTCAAGAGA
66 ACAAAATTCATTTCAAGGAAAAC-T-TTCAAAG-TTTATGTTTCAAGAGAAACTGTCTCAAGGGA
2083398 GACAAAATT
128 GACAAAATT
*
2083407 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
** *
2083472 ACAAAATTCATTTCAAGGGAAATGTTTTC-AATTTTAATGTTTCAAGAGAAACTGTCTCAAGGGA
66 ACAAAATTCATTTCAA-GGAAA-ACTTTCAAAGTTT-ATGTTTCAAGAGAAACTGTCTCAAGGGA
2083536 GACAAAATT
128 GACAAAATT
* *
2083545 TGTTTTAAGGGAAACTATCTCAAGAGAGAC
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC
2083575 GAAATTCATT
Statistics
Matches: 264, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
136 3 0.01
137 3 0.01
138 143 0.54
139 112 0.42
140 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (136 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
ACAAAATTCATTTCAAGGAAAACTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
AAAATT
Found at i:2083583 original size:101 final size:101
Alignment explanation
Indices: 2083407--2083681 Score: 435
Period size: 101 Copynumber: 2.7 Consensus size: 101
2083397 AGACAAAATT
* * * * *
2083407 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAG-ACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAG
2083472 ACAAAATTCATTTCAAGGGAAATGTTTTCAAT-TTTAA
65 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTT-A
*
2083509 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
2083574 CGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
2083610 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
2083675 ATAAAAT
65 ACAAAAT
2083682 CTTTAAAAAC
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
101 98 0.61
102 62 0.39
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:2083818 original size:72 final size:75
Alignment explanation
Indices: 2083694--2083837 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 75
2083684 TTAAAAACAG
*
2083694 TCTTGAGTGAAATGAAATGCCTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAA-TCTTGTTT
1 TCTTGAGTGAAATGAAAT-CCTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAAGT-ATGTTT
2083758 TAAGAAAACAAA
64 TAAGAAAACAAA
* *
2083770 TCTTGAGTGAAAT-AAAT-CTTCTTTCGAGT-AAAA-TAGTCTCAAGTGAGACAAAGTATGTTTT
1 TCTTGAGTGAAATGAAATCCTTATTTCGAGTGAAAACT-GTCTCAAGCGAGACAAAGTATGTTTT
2083831 AAGAAAA
65 AAGAAAA
2083838 ACCATCTCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
71 1 0.02
72 33 0.52
73 12 0.19
75 4 0.06
76 13 0.21
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (75 bp):
TCTTGAGTGAAATGAAATCCTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAAGTATGTTTTA
AGAAAACAAA
Found at i:2083851 original size:72 final size:73
Alignment explanation
Indices: 2083699--2083859 Score: 177
Period size: 72 Copynumber: 2.2 Consensus size: 73
2083689 AACAGTCTTG
*
2083699 AGTGAAATGAAATGCCTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAA
1 AGTGAAAT-AAAT--CTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAATCATGTTTTAAGAA
**
2083764 AACAAATCTTG
63 AACAAATCTCA
* *
2083775 AGTGAAATAAATCTTCTTTCGAGT-AAAA-TAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGAAA
1 AGTGAAATAAATCTTATTTCGAGTGAAAACT-GTCTCAAGCGAGACAAA-TCATGTTTTAAGAAA
*
2083837 A-ACCATCTCA
64 ACA-AATCTCA
*
2083847 AGTGAGATAAATC
1 AGTGAAATAAATC
2083860 ATCTGCATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
71 2 0.03
72 49 0.65
73 12 0.16
75 4 0.05
76 8 0.11
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (73 bp):
AGTGAAATAAATCTTATTTCGAGTGAAAACTGTCTCAAGCGAGACAAATCATGTTTTAAGAAAAC
AAATCTCA
Found at i:2085157 original size:95 final size:95
Alignment explanation
Indices: 2084994--2085173 Score: 281
Period size: 95 Copynumber: 1.9 Consensus size: 95
2084984 ATGTAAATAC
* * * *
2084994 CTTTATCAGGTTAGCTGAATCTTATCCATAAATCTAGGGAGTTTAACCAATTGCCTTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCTTAGAGGGAC
2085059 AACTCAAGCTTTATTGTATAGTATAATCAT
66 AACTCAAGCTTTATTGTATAGTATAATCAT
* *
2085089 CTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGTGTTTAACCAATTG-CTATAGAGGGA
1 CTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCT-TAGAGGGA
*
2085153 CAACTTAAGCTTTATTGTATA
65 CAACTCAAGCTTTATTGTATA
2085174 TAAATAATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 2 0.03
95 75 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (95 bp):
CTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCTTAGAGGGAC
AACTCAAGCTTTATTGTATAGTATAATCAT
Found at i:2087033 original size:21 final size:21
Alignment explanation
Indices: 2086991--2087033 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2086981 TTTCTGGGTT
* * *
2086991 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2087012 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2087033 A
1 A
2087034 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2087094 original size:66 final size:67
Alignment explanation
Indices: 2086991--2087148 Score: 205
Period size: 67 Copynumber: 2.4 Consensus size: 67
2086981 TTTCTGGGTT
* * *
2086991 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
2087054 CTAG
64 CTAG
* * *
2087058 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
2087123 TG
66 AG
*
2087125 AGGGGAATCGATA-CCCCAGGGGGG
1 AGGGGAATCGGTACCCCCAGGGGGG
2087149 GGAACTGATT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 33 0.41
67 46 0.57
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.18
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:2087874 original size:22 final size:22
Alignment explanation
Indices: 2087799--2087866 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
2087789 TCCTTATGGA
2087799 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2087821 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2087843 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2087865 CA
1 CA
2087867 TTTATACGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:2093948 original size:21 final size:21
Alignment explanation
Indices: 2093906--2093948 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2093896 TTTCTGGGTT
* * *
2093906 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2093927 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2093948 A
1 A
2093949 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2094014 original size:67 final size:68
Alignment explanation
Indices: 2093906--2094079 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 68
2093896 TTTCTGGGTT
* *
2093906 AGGGGAATCGGTA-CCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAAT
1 AGGGGAATCGGTACCCCA--CAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAAT
2093968 GCTAG
64 GCTAG
* * * *
2093973 AGGGGAATCGGTACCCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGC
1 AGGGGAATCGGTACCCCACAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGC
*
2094038 TTG
66 TAG
* ** *
2094041 AGGGGAATCGATACCCCAGGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCACAGGGGGGAACCGATACCCCC
2094080 ATGAGAAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
66 2 0.02
67 35 0.38
68 55 0.60
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (68 bp):
AGGGGAATCGGTACCCCACAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGC
TAG
Found at i:2094480 original size:30 final size:30
Alignment explanation
Indices: 2094446--2094504 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2094436 GTTATATGAG
* *
2094446 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
2094476 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
2094505 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:2094790 original size:22 final size:22
Alignment explanation
Indices: 2094715--2094782 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
2094705 TCCTTATGGA
2094715 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2094737 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2094759 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2094781 CA
1 CA
2094783 TTTATACGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:2098342 original size:3 final size:3
Alignment explanation
Indices: 2098334--2098367 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
2098324 AAAATAGAAA
*
2098334 AAT AAT AAT AAA AAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2098368 AAGAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2098347 original size:20 final size:20
Alignment explanation
Indices: 2098313--2098375 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
2098303 ACATAAGATA
2098313 AAAAATAA-AAT-AAAATAG
1 AAAAATAATAATAAAAATAG
*
2098331 AAAAATAATAATAAAAATAT
1 AAAAATAATAATAAAAATAG
*
2098351 AATAATAATAATAATAAA-AG
1 AAAAATAATAATAA-AAATAG
2098371 AAAAA
1 AAAAA
2098376 GAAAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.21
19 3 0.08
20 24 0.63
21 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAATAATAATAAAAATAG
Found at i:2098349 original size:6 final size:6
Alignment explanation
Indices: 2098313--2098401 Score: 53
Period size: 6 Copynumber: 15.0 Consensus size: 6
2098303 ACATAAGATA
* * * *
2098313 AAAAAT -AAAAT AAAATAG AAAAAT AATAAT AAAAAT -ATAAT AATAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
2098360 AATAAT AAAAGA- AAAAGA- AAAAAT ATTAAAT -AAAAT AAAAAT
1 AAAAAT AAAA-AT AAAA-AT AAAAAT A-AAAAT AAAAAT AAAAAT
2098402 CATACGAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
5 14 0.21
6 44 0.65
7 10 0.15
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:2098352 original size:14 final size:14
Alignment explanation
Indices: 2098322--2098363 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2098312 AAAAAATAAA
2098322 ATAA-AATAGAAAA-
1 ATAATAATA-AAAAT
2098335 ATAATAATAAAAAT
1 ATAATAATAAAAAT
*
2098349 ATAATAATAATAAT
1 ATAATAATAAAAAT
2098363 A
1 A
2098364 ATAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
ATAATAATAAAAAT
Found at i:2098452 original size:24 final size:24
Alignment explanation
Indices: 2098407--2098455 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
2098397 AAAATCATAC
*
2098407 GAAAAAAATAGTTTAAAAAGAAAAA
1 GAAAAAAATAG-TGAAAAAGAAAAA
2098432 GAAAAAAATA-TGAAAATAGAAAAA
1 GAAAAAAATAGTGAAAA-AGAAAAA
2098456 CCAATGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 7 0.32
25 10 0.45
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (24 bp):
GAAAAAAATAGTGAAAAAGAAAAA
Found at i:2100456 original size:2 final size:2
Alignment explanation
Indices: 2100451--2100480 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2100441 ACACACACAC
*
2100451 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2100481 TTGAGATAGC
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2101668 original size:22 final size:22
Alignment explanation
Indices: 2101595--2101667 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
2101585 CTACGGCGAC
2101595 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
2101617 ATCTGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
2101639 ATCCGTCTCCATCTCTGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
2101661 ATCCGTC
1 ATCCGTC
2101668 TATCTCCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.21, C:0.41, G:0.15, T:0.23
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2102098 original size:20 final size:19
Alignment explanation
Indices: 2102059--2102112 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2102049 AAATCATAAC
2102059 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
2102078 GCGATTTTCATTTTTGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
2102098 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
2102113 AGAAACTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.29
20 16 0.57
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2104278 original size:21 final size:21
Alignment explanation
Indices: 2104248--2104346 Score: 128
Period size: 21 Copynumber: 4.7 Consensus size: 21
2104238 GATTCACCTG
* *
2104248 TCATCATTCAAGAGGCACCTC
1 TCATCGTTCAAGAGGCCCCTC
*
2104269 -CTATCGTTCAAGAGGTCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
2104290 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
2104311 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
2104332 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
2104347 TCTCTCCCTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:2104300 original size:42 final size:42
Alignment explanation
Indices: 2104248--2104366 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
2104238 GATTCACCTG
* * * *
2104248 TCATCATTCAAGAGGCACCTCCTATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCACCTCCCACCGTTCAAGAGGCCCCTC
* *
2104290 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCACCTCCCACCGTTCAAGAGGCCCCTC
* *
2104332 TCATCGTTCAAGAGGTC-TCTCCCTCCGTTCAAGAG
1 TCATCGTTCAAGAGG-CACCTCCCACCGTTCAAGAG
2104367 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 67 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCACCTCCCACCGTTCAAGAGGCCCCTC
Found at i:2104360 original size:21 final size:20
Alignment explanation
Indices: 2104249--2104366 Score: 119
Period size: 21 Copynumber: 5.7 Consensus size: 20
2104239 ATTCACCTGT
* *
2104249 CATCATTCAAGAGGCACCTC
1 CATCGTTCAAGAGGCCCCTC
*
2104269 CTATCGTTCAAGAGGTCCCTC
1 C-ATCGTTCAAGAGGCCCCTC
2104290 TCATCGTTCAAGAGGCCCCTCC
1 -CATCGTTCAAGAGGCCCCT-C
* *
2104312 CACCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGCCCCT-C
* *
2104333 CATCGTTCAAGAGGTCTCTC
1 CATCGTTCAAGAGGCCCCTC
*
2104353 CCTCCGTTCAAGAG
1 CAT-CGTTCAAGAG
2104367 CCCGATTCAC
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
20 3 0.04
21 77 0.94
22 2 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
CATCGTTCAAGAGGCCCCTC
Found at i:2105791 original size:37 final size:37
Alignment explanation
Indices: 2105743--2105864 Score: 131
Period size: 37 Copynumber: 3.6 Consensus size: 37
2105733 TAAAAGTTGA
2105743 TTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
1 TTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
*
2105780 TTTGTTTAATTGATTTGT-AA-AAG---------TTG
1 TTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
2105806 ATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
1 -TTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
* *
2105844 CTTGTTTAATTGATTTGTAAA
1 TTTGTTTAATTGATGTGTAAA
2105865 AGTTGATTTG
Statistics
Matches: 69, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
26 3 0.04
27 17 0.25
28 2 0.03
29 3 0.04
35 3 0.04
36 2 0.03
37 36 0.52
38 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (37 bp):
TTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTG
Found at i:2105825 original size:64 final size:64
Alignment explanation
Indices: 2105719--2105876 Score: 298
Period size: 64 Copynumber: 2.5 Consensus size: 64
2105709 TTAATTGAAT
*
2105719 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGTTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
2105784 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
2105848 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
2105877 GTTTTAAATT
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
64 88 0.96
65 4 0.04
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
Found at i:2105959 original size:20 final size:20
Alignment explanation
Indices: 2105942--2106015 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
2105932 CTTTCGCAAC
*
2105942 GCGAAAGTCAAATTCGCATT
1 GCGATAGTCAAATTCGCATT
* *
2105962 GCGATAGTCAAATTTGCGTT
1 GCGATAGTCAAATTCGCATT
2105982 GCGATAGTCAAATTCGCATT
1 GCGATAGTCAAATTCGCATT
*
2106002 ACGATAGTCAAATT
1 GCGATAGTCAAATT
2106016 TGCAACGTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCATT
Found at i:2106007 original size:40 final size:40
Alignment explanation
Indices: 2105942--2106046 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
2105932 CTTTCGCAAC
*
2105942 GCGAAAGTCAAATTCGCATTGCGATAGTCAAATTTGCGTT
1 GCGAAAGTCAAATTCGCATTACGATAGTCAAATTTGCGTT
* ***
2105982 GCGATAGTCAAATTCGCATTACGATAGTCAAATTTGCAAC
1 GCGAAAGTCAAATTCGCATTACGATAGTCAAATTTGCGTT
*
2106022 GTGAAAGTCAAATTCG-AGTTACGAT
1 GCGAAAGTCAAATTCGCA-TTACGAT
2106047 TTTCGGTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 56 0.98
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
GCGAAAGTCAAATTCGCATTACGATAGTCAAATTTGCGTT
Found at i:2106347 original size:6 final size:6
Alignment explanation
Indices: 2106339--2106368 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2106329 AAACCGGTTG
*
2106339 TGATTG TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT
2106369 CCTTTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (6 bp):
TGATTT
Found at i:2110679 original size:18 final size:18
Alignment explanation
Indices: 2110656--2110690 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2110646 ACTGAATATT
2110656 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2110674 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2110691 GATAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2115932 original size:24 final size:20
Alignment explanation
Indices: 2115875--2115937 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
2115865 TTCCCCATGA
*
2115875 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
2115895 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
2115918 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
2115938 TATGCATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Done.