Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_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: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2444311 original size:33 final size:34
Alignment explanation
Indices: 2444242--2444311 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
2444232 AGTTTTTTAG
* * *
2444242 TTTTTTTTTATTTATTACTATTATATATATCTTT
1 TTTTTTTTTATCTATTACTATTATATACATCGTT
*
2444276 TTTTTTTTTATCT-TTATTATTAT-TACCATCGTT
1 TTTTTTTTTATCTATTACTATTATATA-CATCGTT
2444309 TTT
1 TTT
2444312 ATTCTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 2 0.06
33 17 0.55
34 12 0.39
ACGTcount: A:0.20, C:0.09, G:0.01, T:0.70
Consensus pattern (34 bp):
TTTTTTTTTATCTATTACTATTATATACATCGTT
Found at i:2445606 original size:33 final size:32
Alignment explanation
Indices: 2445569--2445667 Score: 121
Period size: 33 Copynumber: 3.1 Consensus size: 32
2445559 GTTTGGCAAG
*
2445569 TTGGAAATTTTATCTTGGTTGGTGGCCAACTTA
1 TTGGAAA-TTAATCTTGGTTGGTGGCCAACTTA
* *
2445602 TTGGAAAATTCATCTTGGTTGGTGTCCAACTTA
1 TTGG-AAATTAATCTTGGTTGGTGGCCAACTTA
*
2445635 TTGGAAA--AATCTTTGGTAGGTGGCCAACTTA
1 TTGGAAATTAATC-TTGGTTGGTGGCCAACTTA
2445666 TT
1 TT
2445668 TTTTATCTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.05
31 19 0.32
32 3 0.05
33 31 0.53
34 3 0.05
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.39
Consensus pattern (32 bp):
TTGGAAATTAATCTTGGTTGGTGGCCAACTTA
Found at i:2445662 original size:31 final size:33
Alignment explanation
Indices: 2445580--2445667 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
2445570 TGGAAATTTT
*
2445580 ATCTTGGTTGGTGGCCAACTTATTGGAAAATTC
1 ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
*
2445613 ATCTTGGTTGGTGTCCAACTTATTGGAAAAATC
1 ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
*
2445646 -T-TTGGTAGGTGGCCAACTTATT
1 ATCTTGGTTGGTGGCCAACTTATT
2445668 TTTTATCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 19 0.37
32 1 0.02
33 31 0.61
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (33 bp):
ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
Found at i:2450306 original size:33 final size:32
Alignment explanation
Indices: 2450269--2450367 Score: 119
Period size: 33 Copynumber: 3.1 Consensus size: 32
2450259 GTTTGGCAAC
*
2450269 TTGGAAATTTTATCTTGGTTGGTGGCCAATTTA
1 TTGGAAA-TTTATCTTGGTTGGTGGCCAACTTA
* *
2450302 TTGGAAAATTCATCTTGTTTGGTGGCCAACTTA
1 TTGG-AAATTTATCTTGGTTGGTGGCCAACTTA
** *
2450335 TTGGAAAAATAT-TTGGTAGGTGGCCAACTTA
1 TTGGAAATTTATCTTGGTTGGTGGCCAACTTA
2450366 TT
1 TT
2450368 TTTCATCTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
31 19 0.33
32 5 0.09
33 30 0.53
34 3 0.05
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.40
Consensus pattern (32 bp):
TTGGAAATTTATCTTGGTTGGTGGCCAACTTA
Found at i:2450360 original size:31 final size:33
Alignment explanation
Indices: 2450280--2450367 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
2450270 TGGAAATTTT
* *
2450280 ATCTTGGTTGGTGGCCAATTTATTGGAAAATTC
1 ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
*
2450313 ATCTTGTTTGGTGGCCAACTTATTGGAAAAAT-
1 ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
*
2450345 AT-TTGGTAGGTGGCCAACTTATT
1 ATCTTGGTTGGTGGCCAACTTATT
2450368 TTTCATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
31 19 0.38
32 2 0.04
33 29 0.58
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (33 bp):
ATCTTGGTTGGTGGCCAACTTATTGGAAAAATC
Found at i:2453967 original size:16 final size:16
Alignment explanation
Indices: 2453922--2453969 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
2453912 TTATATAAAT
2453922 TTAATTAAATTATTATAA
1 TTAA-TAAATT-TTATAA
*
2453940 TAATAATTAATTTTATAA
1 T--TAATAAATTTTATAA
2453958 TTAATAAATTTT
1 TTAATAAATTTT
2453970 TATAGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.38
18 8 0.31
19 5 0.19
20 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATAAATTTTATAA
Found at i:2454995 original size:61 final size:61
Alignment explanation
Indices: 2454900--2455019 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 61
2454890 CATAGCTGCC
*
2454900 GGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACATATATTATT
1 GGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTATT
2454961 GGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTA
1 GGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTA
2455020 ACAAGTGTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (61 bp):
GGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTATT
Found at i:2455244 original size:224 final size:223
Alignment explanation
Indices: 2454959--2455393 Score: 705
Period size: 224 Copynumber: 1.9 Consensus size: 223
2454949 ACATATATTA
2454959 TTGGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTAACAA
1 TTGGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTAACAA
* * * *
2455024 GTGTCATCGTGTACTGTCAAATAATTATTTTTATTTCAAAAAAATAATTAAATAACGTAGTAGAG
66 GTGCCATCGTGTACTGTCAAATAATTATTTTTATAT--AAAAAATAATTAAATAACATAATAGAG
* * * *
2455089 AATAATGGTGGATTTGCAT-GGACTTTGAAGTTTCTTATGTAGGAGGCTTTTGATT-TCGATGTT
129 AAGAATGGTCGATCTG-ATAGGAATTTGAAGTTTCTTATGTAGGAGGCTTTTGATTCT-GATGTT
*
2455152 GAC-AAAATGTTGAGTAAATAAGGGGTTTTGT
192 AACAAAAATGTTGAGTAAATAAGGGGTTTTGT
* *
2455183 TTGGTGATATATTGTTGAGGGTGAAGCCTGCTTCTTATACTTCAGAACTCTACATATATTAACAA
1 TTGGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTAACAA
2455248 GTGCCATCGTGTACTGTCAAATAATTATTTTTATATAAAAAATAATTAAATAACATAATAGAGAA
66 GTGCCATCGTGTACTGTCAAATAATTATTTTTATATAAAAAATAATTAAATAACATAATAGAGAA
*
2455313 GAATGGTCGATCTGTTAGGAATTTGAAGTTTCTTATGTAGGAGGCTTTTGATTCTGATGTTAACA
131 GAATGGTCGATCTGATAGGAATTTGAAGTTTCTTATGTAGGAGGCTTTTGATTCTGATGTTAACA
2455378 AAAATGTTGAGTAAAT
196 AAAATGTTGAGTAAAT
2455394 GGAGGGTTTT
Statistics
Matches: 196, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
221 1 0.01
222 81 0.41
223 17 0.09
224 97 0.49
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (223 bp):
TTGGTGATATATTGTTGAGGGTGAAGCCTGATTCTTATACTTCAGAACTCTACAGATATTAACAA
GTGCCATCGTGTACTGTCAAATAATTATTTTTATATAAAAAATAATTAAATAACATAATAGAGAA
GAATGGTCGATCTGATAGGAATTTGAAGTTTCTTATGTAGGAGGCTTTTGATTCTGATGTTAACA
AAAATGTTGAGTAAATAAGGGGTTTTGT
Found at i:2456431 original size:18 final size:18
Alignment explanation
Indices: 2456408--2456474 Score: 134
Period size: 18 Copynumber: 3.7 Consensus size: 18
2456398 CTTTGTGGTC
2456408 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
2456426 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
2456444 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
2456462 GAAGCGTGAGATT
1 GAAGCGTGAGATT
2456475 TGTTGTATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:2460418 original size:9 final size:8
Alignment explanation
Indices: 2459917--2461216 Score: 579
Period size: 8 Copynumber: 174.8 Consensus size: 8
2459907 ATTATTTAAC
2459917 TTTAATGA
1 TTTAATGA
2459925 TTTAAT-A
1 TTTAATGA
* *
2459932 -ATAATTAA
1 TTTAA-TGA
2459940 TTTAATGA
1 TTTAATGA
2459948 TTTAAT--
1 TTTAATGA
2459954 TTTAATGA
1 TTTAATGA
2459962 TTTAAT-A
1 TTTAATGA
* *
2459969 -ATAATTA
1 TTTAATGA
2459976 CTTTAATGA
1 -TTTAATGA
*
2459985 TTTAA--C
1 TTTAATGA
2459991 TTTAATGA
1 TTTAATGA
2459999 TTTAAT-A
1 TTTAATGA
* *
2460006 -ATAATTA
1 TTTAATGA
2460013 CTTTAATGA
1 -TTTAATGA
2460022 TTTAAT--
1 TTTAATGA
2460028 TTTAATGA
1 TTTAATGA
2460036 TTTAAT-A
1 TTTAATGA
* *
2460043 -ATAATTA
1 TTTAATGA
*
2460050 CTTTAATAA
1 -TTTAATGA
2460059 TTTAAT--
1 TTTAATGA
2460065 TTTAATGA
1 TTTAATGA
2460073 TTTAATGA
1 TTTAATGA
*
2460081 TTTAA--C
1 TTTAATGA
2460087 TTTAATGA
1 TTTAATGA
2460095 TTTAAT-A
1 TTTAATGA
* *
2460102 -ATAATTA
1 TTTAATGA
2460109 CTTTAATGA
1 -TTTAATGA
2460118 TTTAATGA
1 TTTAATGA
2460126 TTTAAT-A
1 TTTAATGA
* *
2460133 -ATAATTA
1 TTTAATGA
2460140 CTTTAATGA
1 -TTTAATGA
*
2460149 TTTAA--C
1 TTTAATGA
2460155 TTTAATGA
1 TTTAATGA
2460163 TTTAAT-A
1 TTTAATGA
* *
2460170 -ATAATTA
1 TTTAATGA
2460177 CTTTAATGA
1 -TTTAATGA
*
2460186 TTTAA--C
1 TTTAATGA
2460192 TTTAATGA
1 TTTAATGA
2460200 TTTAAT-A
1 TTTAATGA
* *
2460207 -ATAATTA
1 TTTAATGA
2460214 CTTTAATGA
1 -TTTAATGA
2460223 TTTAATGA
1 TTTAATGA
2460231 TTTAAT-A
1 TTTAATGA
* *
2460238 -ATAATTA
1 TTTAATGA
2460245 CTTTAATGA
1 -TTTAATGA
*
2460254 TTTAA--C
1 TTTAATGA
2460260 TTTAATGA
1 TTTAATGA
2460268 TTTAAT-A
1 TTTAATGA
* *
2460275 -ATAATTA
1 TTTAATGA
2460282 CTTTAATGA
1 -TTTAATGA
2460291 TTTAAT--
1 TTTAATGA
2460297 TTTAATGA
1 TTTAATGA
2460305 TTTAAT-A
1 TTTAATGA
* *
2460312 -ATAATTA
1 TTTAATGA
2460319 CTTTAATGA
1 -TTTAATGA
*
2460328 TTTAA--C
1 TTTAATGA
2460334 TTTAATGA
1 TTTAATGA
2460342 TTTAAT-A
1 TTTAATGA
* *
2460349 -ATAATTA
1 TTTAATGA
2460356 CTTTAATGA
1 -TTTAATGA
2460365 TTTAAT--
1 TTTAATGA
2460371 TTTAATGA
1 TTTAATGA
2460379 TTTAAT-A
1 TTTAATGA
* *
2460386 -ATAATTA
1 TTTAATGA
*
2460393 CTTTAATAA
1 -TTTAATGA
2460402 TTTAAT--
1 TTTAATGA
2460408 TTTAATGA
1 TTTAATGA
2460416 TTTAATGA
1 TTTAATGA
* *
2460424 ATTAA--C
1 TTTAATGA
2460430 TTTAATGA
1 TTTAATGA
2460438 TTTAAT-A
1 TTTAATGA
* *
2460445 -ATAATTA
1 TTTAATGA
2460452 CTTTAATGA
1 -TTTAATGA
2460461 TTTAATGA
1 TTTAATGA
2460469 TTTAAT-A
1 TTTAATGA
* *
2460476 -ATAATTA
1 TTTAATGA
2460483 CTTTAATGA
1 -TTTAATGA
*
2460492 TTTAA--C
1 TTTAATGA
2460498 TTTAATGA
1 TTTAATGA
2460506 TTTAAT-A
1 TTTAATGA
* *
2460513 -ATAATTA
1 TTTAATGA
*
2460520 TTTAA--C
1 TTTAATGA
*
2460526 TTTAATAA
1 TTTAATGA
2460534 TTTAAT-A
1 TTTAATGA
* *
2460541 -ATAATTA
1 TTTAATGA
2460548 CTTTAATGA
1 -TTTAATGA
*
2460557 TTTAA--C
1 TTTAATGA
*
2460563 TTTAATTA
1 TTTAATGA
2460571 TTTAAT-A
1 TTTAATGA
* *
2460578 -ATAATTA
1 TTTAATGA
2460585 CTTTAATGA
1 -TTTAATGA
2460594 TTTAAT--
1 TTTAATGA
2460600 TTTAATGA
1 TTTAATGA
2460608 TTTAAT-A
1 TTTAATGA
* *
2460615 -ATAATTA
1 TTTAATGA
2460622 CTTTAATGA
1 -TTTAATGA
*
2460631 TTTAA--C
1 TTTAATGA
2460637 TTTAATGA
1 TTTAATGA
2460645 TTTAAT-A
1 TTTAATGA
* *
2460652 -ATAATTA
1 TTTAATGA
2460659 CTTTAATGA
1 -TTTAATGA
2460668 TTTAAT--
1 TTTAATGA
2460674 TTTAATGA
1 TTTAATGA
2460682 TTTAAT-A
1 TTTAATGA
* *
2460689 -ATAATTA
1 TTTAATGA
2460696 CTTTAATGA
1 -TTTAATGA
2460705 TTTAAT--
1 TTTAATGA
2460711 TTTAATGA
1 TTTAATGA
2460719 TTTAATGA
1 TTTAATGA
*
2460727 TTTAA--C
1 TTTAATGA
*
2460733 TTTAATAA
1 TTTAATGA
2460741 TTTAAT-A
1 TTTAATGA
* *
2460748 -ATAATTA
1 TTTAATGA
2460755 CTTTAATGA
1 -TTTAATGA
2460764 TTTAATGA
1 TTTAATGA
2460772 TTTAAT-A
1 TTTAATGA
* *
2460779 -ATAATTA
1 TTTAATGA
*
2460786 CTTTAACGA
1 -TTTAATGA
*
2460795 TTTAA--C
1 TTTAATGA
2460801 TTTAATGA
1 TTTAATGA
2460809 TTTAAT-A
1 TTTAATGA
* *
2460816 -ATAATTA
1 TTTAATGA
*
2460823 TTTAA--C
1 TTTAATGA
2460829 TTTAATGA
1 TTTAATGA
2460837 TTTAAT-A
1 TTTAATGA
* *
2460844 -ATAATTA
1 TTTAATGA
2460851 CTTTAATGA
1 -TTTAATGA
*
2460860 TTTAA--C
1 TTTAATGA
2460866 TTTAATGA
1 TTTAATGA
2460874 TTTAAT-A
1 TTTAATGA
* *
2460881 -ATAATTA
1 TTTAATGA
2460888 CTTTAATGA
1 -TTTAATGA
2460897 TTTAAT--
1 TTTAATGA
2460903 TTTAATGA
1 TTTAATGA
2460911 TTTAAT-A
1 TTTAATGA
* *
2460918 -ATAATTA
1 TTTAATGA
*
2460925 CTTTAATTA
1 -TTTAATGA
2460934 TTTAAT--
1 TTTAATGA
2460940 TTTAATGA
1 TTTAATGA
2460948 TTTAATGA
1 TTTAATGA
2460956 TTTAA--A
1 TTTAATGA
2460962 TTTAATGA
1 TTTAATGA
2460970 TTTAAT-A
1 TTTAATGA
* *
2460977 -ATAATTA
1 TTTAATGA
*
2460984 CTTTAATAA
1 -TTTAATGA
2460993 TTTAATGA
1 TTTAATGA
*
2461001 TTTAATTA
1 TTTAATGA
2461009 TTTAAT-A
1 TTTAATGA
* *
2461016 -ATAATTA
1 TTTAATGA
2461023 CTTTAATGA
1 -TTTAATGA
2461032 TTTAATGA
1 TTTAATGA
2461040 TTTAATGA
1 TTTAATGA
2461048 TTTAAT-A
1 TTTAATGA
* *
2461055 -ATAATTA
1 TTTAATGA
2461062 CTTTAATGA
1 -TTTAATGA
*
2461071 TTTAA--C
1 TTTAATGA
*
2461077 TTTAATGC
1 TTTAATGA
2461085 TTTAAT-A
1 TTTAATGA
* *
2461092 -ATAATTA
1 TTTAATGA
2461099 CTTTAATGA
1 -TTTAATGA
2461108 TTTAATGA
1 TTTAATGA
2461116 TTTAATGA
1 TTTAATGA
2461124 TTTAATGA
1 TTTAATGA
2461132 TTTAAT-A
1 TTTAATGA
* *
2461139 -ATAATTA
1 TTTAATGA
2461146 CTTTAATGA
1 -TTTAATGA
2461155 TTTAAT--
1 TTTAATGA
*
2461161 TTTAATAA
1 TTTAATGA
2461169 TTTAAT-A
1 TTTAATGA
* *
2461176 -ATAATTA
1 TTTAATGA
*
2461183 CTTAAT--
1 TTTAATGA
2461189 TTTAATGA
1 TTTAATGA
2461197 TTTAAT--
1 TTTAATGA
2461203 TTTAATGA
1 TTTAATGA
2461211 TTTAAT
1 TTTAAT
2461217 AATAATTACT
Statistics
Matches: 1001, Mismatches: 133, Indels: 316
0.69 0.09 0.22
Matches are distributed among these distances:
6 299 0.30
7 65 0.06
8 489 0.49
9 148 0.15
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (8 bp):
TTTAATGA
Found at i:2460603 original size:303 final size:304
Alignment explanation
Indices: 2459905--2461227 Score: 1931
Period size: 303 Copynumber: 4.4 Consensus size: 304
2459895 TATTTAAATT
* *
2459905 TAATTATTTAACTTTAATGATTTAATAATAATTAATTTAATGATTTAATTTTAATGATTTAATAA
1 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
* *
2459970 TAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATG
66 TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATG
* *
2460035 ATTTAATAATAATTACTTTAATAATTTAATTTTAATGATTTAATGAT--TTAACTTTAATGATTT
131 ATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATT-ACTTTAATGATTT
*
2460098 AATAATAATTACTTTAATG-----A-TTTAATGATTTAATAATAATTACTTTAATGATTTAACTT
195 AATAATAATGACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATG-----A-TT
2460157 TAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
254 TAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
*
2460208 TAATTACTTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAA
1 TAATTA-TTTAA--CTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAA
2460273 TAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTA
63 TAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTA
*
2460338 ATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATAAT
128 ATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGAT
** *
2460403 TTAATTTTAATGA-TTTAATGAATTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAAT
193 TTAATAATAATGACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAAT
2460467 GATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
258 GATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
* *
2460514 TAATTATTTAACTTTAATAATTTAATAATAATTACTTTAATGATTTAACTTTAATTATTTAATAA
1 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
2460579 TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATG
66 TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATG
2460644 ATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTA
131 ATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTA
** *
2460709 ATTTTAATGA-TTTAATGATTTAACTTTAATAATTTAATAATAATTACTTTAATGATTTAATGAT
196 ATAATAATGACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT
*
2460773 TTAATAATAATTACTTTAACGATTTAACTTTAATGATTTAATAA
261 TTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
2460817 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
1 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
* *
2460882 TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATTATTTAATTTTAATG
66 TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATG
* * ** * * *
2460947 ATTTAATGAT--TTAAATTTAATGATTTAATAATAATTACTTTAATAATTTAATGA-TTTAATTA
131 ATTTAATAATAATT-ACTTTAATGATTTAATTTTAATGA-TTTAATAA--TAATTACTTTAATGA
* *
2461009 TTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTT
192 TTTAATAATAATGACTTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATGATTT
* ** * * *
2461074 AA--CTTTAATGCT--TTA--ATAAT-AATT-ACTTTAATGATTTAATGA
255 AATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
* * * *
2461116 T--TTA-ATGA-TTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATAATTTAATAA
1 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
2461177 TAATTACTTAATTTTAATGATTTAATTTTAATGATTTAATAATAATTACTT
66 TAATTAC-----TTTAATGATTTAATTTTAATGATTTAATAATAATTACTT
2461228 GACTTTAATG
Statistics
Matches: 952, Mismatches: 45, Indels: 49
0.91 0.04 0.05
Matches are distributed among these distances:
295 58 0.06
296 2 0.00
297 3 0.00
299 18 0.02
300 42 0.04
301 5 0.01
302 20 0.02
303 437 0.46
304 23 0.02
305 30 0.03
306 225 0.24
307 56 0.06
308 2 0.00
311 1 0.00
312 30 0.03
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (304 bp):
TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
TAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATG
ATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTA
ATAATAATGACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGAT
TTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
Found at i:2461174 original size:37 final size:37
Alignment explanation
Indices: 2459903--2461227 Score: 838
Period size: 37 Copynumber: 36.1 Consensus size: 37
2459893 ATTATTTAAA
* * * *
2459903 TTTAATTATTTAACTTTAATGATTTAATAATAATTAA
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2459940 TTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* *
2459977 TTTAATGATTTAACTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2460014 TTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* * *
2460051 TTTAATAATTTAATTTTAATGATTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATT-AC
* * *
2460087 TTTAATGATTTAA---TAATAA-TTACT-TTAATGA-
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
** * *
2460118 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * *
2460155 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
* * *
2460192 TTTAATGATTTAA---TAATAA-TTACT-TTAATGA-
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
** * *
2460223 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * * *
2460260 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAT
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * *
2460297 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * * *
2460334 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAT
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * *
2460371 TTTAATGATTTAATAATAATTACTTTAATAATTTAATTTTAATGA
1 TTTAATGATTTAATTTTAA-TAATTTAATAA--TAA--TT-A--C
* * *
2460416 TTTAATGAATTAACTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2460453 TTTAATG-----A-TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* *
2460484 TTTAATGATTTAACTTTAATGATTTAATAAT-A--A-
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2460517 --T--T-ATTTAACTTTAATAATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* *
2460549 TTTAATGATTTAACTTTAATTATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2460586 TTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* *
2460623 TTTAATGATTTAACTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2460660 TTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
* *
2460697 TTTAATGATTTAATTTTAATGATTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATT-AC
* * * *
2460733 TTTAATAATTTAA---TAATAA-TTACT-TTAATGA-
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
** * **
2460764 TTTAATGATTTAATAATAATTACTTTAACGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
*
2460801 TTTAATGATTTAA---TAATAA-TT-AT--T--TAAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
** * *
2460829 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAC
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * * *
2460866 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAAT
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
** * * *
2460903 TTTAATGATTTAATAATAATTACTTTAAT--TATTTAAT
1 TTTAATGATTTAATTTTAA-TAATTTAATAATAATT-AC
2460940 TTTAATGATTTAATGATTTAAATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTT-AA--T-A--ATTTAATAATAATTAC
* *
2460985 TTTAATAATTTAATGATTTAATTATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTTAATAATTTAATAATAATTAC
*
2461024 TTTAATGATTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTTAATAATTTAATAATAATTAC
* **
2461063 TTTAATGATTTAACTTTAATGCTTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
2461100 TTTAATGATTTAATGATTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAAT--TTT-A--A--T-A--ATTTAATAATAATTAC
2461147 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
*
2461184 TTAATTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 -----TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
2461226 TT
1 TT
2461228 GACTTTAATG
Statistics
Matches: 1123, Mismatches: 75, Indels: 180
0.81 0.05 0.13
Matches are distributed among these distances:
28 38 0.03
29 4 0.00
31 77 0.07
32 20 0.02
33 19 0.02
34 19 0.02
35 14 0.01
36 47 0.04
37 668 0.59
39 73 0.07
40 6 0.01
41 2 0.00
42 43 0.04
43 4 0.00
44 19 0.02
45 37 0.03
46 4 0.00
47 29 0.03
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (37 bp):
TTTAATGATTTAATTTTAATAATTTAATAATAATTAC
Found at i:2461248 original size:14 final size:13
Alignment explanation
Indices: 2459891--2461258 Score: 640
Period size: 14 Copynumber: 106.9 Consensus size: 13
2459881 TATTTAATAA
*
2459891 TAATTATTTAAATT
1 TAATGATTT-AATT
*
2459905 TAATTATTTAACTT
1 TAATGATTTAA-TT
2459919 TAATGATTTAA--
1 TAATGATTTAATT
*
2459930 TAAT-AATTAATT
1 TAATGATTTAATT
2459942 TAATGATTTAATTT
1 TAATGATTTAA-TT
2459956 TAATGATTTAA--
1 TAATGATTTAATT
* *
2459967 TAAT-AATTACTT
1 TAATGATTTAATT
2459979 TAATGATTTAACTT
1 TAATGATTTAA-TT
2459993 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460004 TAAT-AATTACTT
1 TAATGATTTAATT
2460016 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460030 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460041 TAAT-AATTACTT
1 TAATGATTTAATT
*
2460053 TAATAATTTAATTT
1 TAATGATTTAA-TT
2460067 TAATG-----ATT
1 TAATGATTTAATT
2460075 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2460089 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2460103 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2460120 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460131 TAAT-AATTACTT
1 TAATGATTTAATT
2460143 TAATGATTTAACTT
1 TAATGATTTAA-TT
2460157 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460168 TAAT-AATTACTT
1 TAATGATTTAATT
2460180 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2460194 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2460208 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2460225 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460236 TAAT-AATTACTT
1 TAATGATTTAATT
2460248 TAATGATTTAACTT
1 TAATGATTTAA-TT
2460262 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460273 TAAT-AATTACTT
1 TAATGATTTAATT
2460285 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460299 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460310 TAAT-AATTACTT
1 TAATGATTTAATT
2460322 TAATGATTTAACTT
1 TAATGATTTAA-TT
2460336 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460347 TAAT-AATTACTT
1 TAATGATTTAATT
2460359 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460373 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460384 TAAT-AATTACTT
1 TAATGATTTAATT
*
2460396 TAATAATTTAATTT
1 TAATGATTTAA-TT
2460410 TAATG-----ATT
1 TAATGATTTAATT
*
2460418 TAATGAATTAACTT
1 TAATGATTTAA-TT
*
2460432 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2460446 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2460463 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460474 TAAT-AATTACTT
1 TAATGATTTAATT
2460486 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2460500 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2460514 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
2460528 TAATAATTTAA--
1 TAATGATTTAATT
* *
2460539 TAAT-AATTACTT
1 TAATGATTTAATT
2460551 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
2460565 TAATTATTTAA--
1 TAATGATTTAATT
* *
2460576 TAAT-AATTACTT
1 TAATGATTTAATT
2460588 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460602 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460613 TAAT-AATTACTT
1 TAATGATTTAATT
2460625 TAATGATTTAACTT
1 TAATGATTTAA-TT
2460639 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460650 TAAT-AATTACTT
1 TAATGATTTAATT
2460662 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460676 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460687 TAAT-AATTACTT
1 TAATGATTTAATT
2460699 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460713 TAATG-----ATT
1 TAATGATTTAATT
2460721 TAATGATTTAACTT
1 TAATGATTTAA-TT
* *
2460735 TAATAATTTAATAA
1 TAATGATTTAAT-T
*
2460749 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2460766 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460777 TAAT-AATTACTT
1 TAATGATTTAATT
*
2460789 TAACGATTTAACTT
1 TAATGATTTAA-TT
*
2460803 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
2460817 TAATTATTTAACTT
1 TAATGATTTAA-TT
2460831 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460842 TAAT-AATTACTT
1 TAATGATTTAATT
2460854 TAATGATTTAACTT
1 TAATGATTTAA-TT
2460868 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460879 TAAT-AATTACTT
1 TAATGATTTAATT
2460891 TAATGATTTAATTT
1 TAATGATTTAA-TT
2460905 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460916 TAAT-AATTACTT
1 TAATGATTTAATT
*
2460928 TAATTATTTAATTT
1 TAATGATTTAA-TT
2460942 TAATG-----ATT
1 TAATGATTTAATT
2460950 TAATGATTTAAATT
1 TAATGATTT-AATT
2460964 TAATGATTTAA--
1 TAATGATTTAATT
* *
2460975 TAAT-AATTACTT
1 TAATGATTTAATT
*
2460987 TAATAATTTAATGATT
1 TAATGATTT-A--ATT
*
2461003 TAATTATTTAA--
1 TAATGATTTAATT
* *
2461014 TAAT-AATTACTT
1 TAATGATTTAATT
2461026 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
2461042 TAATGATTTAA--
1 TAATGATTTAATT
* *
2461053 TAAT-AATTACTT
1 TAATGATTTAATT
2461065 TAATGATTTAACTT
1 TAATGATTTAA-TT
* *
2461079 TAATGCTTTAATAA
1 TAATGATTTAAT-T
*
2461093 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
2461110 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
2461126 TAATGATTTAA--
1 TAATGATTTAATT
* *
2461137 TAAT-AATTACTT
1 TAATGATTTAATT
2461149 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
2461163 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
2461177 TAATTACTTAATTT
1 TAATGATTTAA-TT
2461191 TAATGATTTAATTT
1 TAATGATTTAA-TT
*
2461205 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
2461219 TAATTACTTGACTT
1 TAATGA-TTTAATT
2461233 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
2461247 TACTGATATAAT
1 TAATGATTTAAT
2461259 AATAGTAAAT
Statistics
Matches: 1036, Mismatches: 155, Indels: 327
0.68 0.10 0.22
Matches are distributed among these distances:
8 28 0.03
9 4 0.00
10 101 0.10
11 100 0.10
12 99 0.10
13 127 0.12
14 456 0.44
15 29 0.03
16 57 0.06
17 25 0.02
18 10 0.01
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:2461731 original size:6 final size:6
Alignment explanation
Indices: 2461716--2461746 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2461706 GGTGAGAAGA
*
2461716 ACTCCT ACTCCC ACTCCC ACTCCC ACTCCC A
1 ACTCCC ACTCCC ACTCCC ACTCCC ACTCCC A
2461747 GTCCTTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.61, G:0.00, T:0.19
Consensus pattern (6 bp):
ACTCCC
Found at i:2463814 original size:172 final size:174
Alignment explanation
Indices: 2463487--2463819 Score: 537
Period size: 174 Copynumber: 1.9 Consensus size: 174
2463477 CATCAAATAT
* * *
2463487 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCATTTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
* *
2463552 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTTAATACTAAATTCAAGCATAGTATACCAA
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATATCTAATACTAAATTCAAGCATAGTATAACAA
*
2463617 CTTTTTATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTGC
131 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTGC
* *
2463661 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* *
2463725 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATA-CTAATACTAAATTCCAGCATAGTATAACA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATATCTAATACTAAATTCAAGCATAGTATAACA
*
2463788 ACTTTTAATAATTTACTCTTATTCCTTAAATT
130 ACTTTTAATAATTTACTCTAATTCCTTAAATT
2463820 TTACAAAACG
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 56 0.38
173 32 0.22
174 59 0.40
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.41
Consensus pattern (174 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATATCTAATACTAAATTCAAGCATAGTATAACAA
CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTGC
Found at i:2464469 original size:34 final size:34
Alignment explanation
Indices: 2464421--2464508 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 34
2464411 CATGCACAGC
**
2464421 ACTGAAGACGCCGAGATTTCCTACGAAGAATCAA
1 ACTGAAGACGCCGAGAGATCCTACGAAGAATCAA
* * *
2464455 ACTGAAGACTCCGAGAGATCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGATCCTACGAAGAATCAA
2464489 ACTGAAGACGCCGAGAGATC
1 ACTGAAGACGCCGAGAGATC
2464509 AATCATACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.16
Consensus pattern (34 bp):
ACTGAAGACGCCGAGAGATCCTACGAAGAATCAA
Found at i:2469273 original size:18 final size:18
Alignment explanation
Indices: 2469252--2469296 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
2469242 GTCAACGACC
2469252 ACAACATCATCA-AGTGCT
1 ACAACATCATCATAG-GCT
2469270 ACAACATCATCATAGGCT
1 ACAACATCATCATAGGCT
2469288 ACAACATCA
1 ACAACATCA
2469297 AAACTAGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.20
Consensus pattern (18 bp):
ACAACATCATCATAGGCT
Found at i:2471222 original size:15 final size:15
Alignment explanation
Indices: 2471198--2471302 Score: 76
Period size: 14 Copynumber: 7.1 Consensus size: 15
2471188 AGATTCAATT
2471198 AAAATCATAATTTAA
1 AAAATCATAATTTAA
*
2471213 AAAATGATAA-TTAA
1 AAAATCATAATTTAA
* *
2471227 AATATCTTAATTT-A
1 AAAATCATAATTTAA
* *
2471241 AAAATTATAATTTAC
1 AAAATCATAATTTAA
*
2471256 AAAATCGTAATTTTAA
1 AAAATCATAA-TTTAA
*
2471272 AAGATTC-TAA-TTAA
1 AA-AATCATAATTTAA
*
2471286 AAATATCA-AAATTAA
1 AAA-ATCATAATTTAA
2471301 AA
1 AA
2471303 TTTAAATATC
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
13 1 0.01
14 32 0.46
15 25 0.36
16 9 0.13
17 3 0.04
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAATCATAATTTAA
Found at i:2471242 original size:29 final size:29
Alignment explanation
Indices: 2471205--2471292 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
2471195 ATTAAAATCA
* *
2471205 TAATTTAAAAAATGATAATTAAAATATCT
1 TAATTTAAAAAATTATAATTAAAATATCG
2471234 TAATTT-AAAAATTATAATTTACAAA-ATCG
1 TAATTTAAAAAATTATAA-TTA-AAATATCG
* *
2471263 TAATTTTAAAAGATTCTAATTAAAAATATC
1 TAA-TTTAAAAAATTATAATT-AAAATATC
2471293 AAAATTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 10 0.20
29 15 0.31
30 11 0.22
31 13 0.27
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (29 bp):
TAATTTAAAAAATTATAATTAAAATATCG
Found at i:2474495 original size:21 final size:20
Alignment explanation
Indices: 2474471--2474510 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2474461 GAAAGCAAAG
*
2474471 TAAATGATTTGTAAGAAAAAA
1 TAAATAATTT-TAAGAAAAAA
*
2474492 TAAATAATTTTGAGAAAAA
1 TAAATAATTTTAAGAAAAA
2474511 TATAGACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (20 bp):
TAAATAATTTTAAGAAAAAA
Found at i:2476293 original size:20 final size:20
Alignment explanation
Indices: 2476268--2476311 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2476258 TCTTCTGATC
2476268 TGACCTTCAGTAAGGAGAAA
1 TGACCTTCAGTAAGGAGAAA
* *
2476288 TGACCTTCGGTAAGGAGAAC
1 TGACCTTCAGTAAGGAGAAA
2476308 TGAC
1 TGAC
2476312 TTGTCTGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (20 bp):
TGACCTTCAGTAAGGAGAAA
Found at i:2476466 original size:20 final size:20
Alignment explanation
Indices: 2476441--2476485 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2476431 TTCTTCTGAT
2476441 CTGACCTTCAGTAAGGAGAA
1 CTGACCTTCAGTAAGGAGAA
*
2476461 CTGACCTTCGGTAAGGAGAA
1 CTGACCTTCAGTAAGGAGAA
2476481 CTGAC
1 CTGAC
2476486 TTGTCTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (20 bp):
CTGACCTTCAGTAAGGAGAA
Found at i:2477182 original size:32 final size:32
Alignment explanation
Indices: 2477061--2477185 Score: 109
Period size: 31 Copynumber: 4.0 Consensus size: 32
2477051 AAACTCGGTA
* * *
2477061 ACTGTCCATAGGTTCCT-AAGAACCTAGGTAA-
1 ACTGTCCATATGTT-CTGTAGAACATAGGTAAT
2477092 ACTGTCCATATGTTCCT-TAGAACATAGGT-AT
1 ACTGTCCATATGTT-CTGTAGAACATAGGTAAT
* *
2477123 ACTGTACATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTCT-GTAGA-ACATAGGTAAT
* *
2477155 TCTGTCCATATGTTCTGTAGAATATAGGTAA
1 ACTGTCCATATGTTCTGTAGAACATAGGTAA
2477186 ACCCTCGACT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 45 0.58
32 22 0.28
33 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (32 bp):
ACTGTCCATATGTTCTGTAGAACATAGGTAAT
Found at i:2478081 original size:63 final size:64
Alignment explanation
Indices: 2478014--2478174 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 64
2478004 TCTTTAACAT
* * * * *
2478014 GTGCATCGATGCACTACCTATGCATCGATACACCAAT-CACCTTCGATGTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACATGTGCATCGATACACCAATGCA-ATTCGATGTTTCATTTTTAAAGGA
* * ** * *
2478077 GTGCATCGATGAACTACTTGTGCATCGATACACTGATGGAATTCGATGTTTTATTTTTAAAGGA
1 GTGCATCGATGCACTACATGTGCATCGATACACCAATGCAATTCGATGTTTCATTTTTAAAGGA
**
2478141 GTGCATCGATGCACTTTATGTGCATCGATACACC
1 GTGCATCGATGCACTACATGTGCATCGATACACC
2478175 TTGAACAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
63 43 0.53
64 38 0.47
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACATGTGCATCGATACACCAATGCAATTCGATGTTTCATTTTTAAAGGA
Found at i:2489711 original size:2 final size:2
Alignment explanation
Indices: 2489699--2489740 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2489689 TAGAATGTTG
*
2489699 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2489741 GATTGTGTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2490505 original size:18 final size:17
Alignment explanation
Indices: 2490482--2490516 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2490472 GTTCTTAAGG
*
2490482 AGTGGTCCTTCGAGACAT
1 AGTGGTCATTCG-GACAT
2490500 AGTGGTCATTCGGACAT
1 AGTGGTCATTCGGACAT
2490517 TTCTACGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (17 bp):
AGTGGTCATTCGGACAT
Found at i:2497233 original size:15 final size:15
Alignment explanation
Indices: 2497210--2497239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2497200 CTGGGAGGGT
*
2497210 GGTATCGATACCATA
1 GGTACCGATACCATA
2497225 GGTACCGATACCATA
1 GGTACCGATACCATA
2497240 AGAAAGGTGT
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:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
GGTACCGATACCATA
Found at i:2497326 original size:24 final size:24
Alignment explanation
Indices: 2497299--2497359 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
2497289 ACACATATAT
*
2497299 GTATTGATACCCTCAACTAGGGTA
1 GTATCGATACCCTCAACTAGGGTA
*
2497323 GTATCAATACCCTCAACTAGGGTA
1 GTATCGATACCCTCAACTAGGGTA
2497347 GTATCGATACCCT
1 GTATCGATACCCT
2497360 ATAGTGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (24 bp):
GTATCGATACCCTCAACTAGGGTA
Found at i:2498157 original size:21 final size:21
Alignment explanation
Indices: 2498133--2498172 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2498123 TTCTACGTGG
2498133 TCCTTC-GAGACATATATGTAA
1 TCCTTCGGA-ACATATATGTAA
*
2498154 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
2498173 GGTACTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:2521135 original size:135 final size:127
Alignment explanation
Indices: 2520830--2521135 Score: 339
Period size: 127 Copynumber: 2.3 Consensus size: 127
2520820 TCAACATCAG
* *** * * *
2520830 CTGACCAGATCTCCTCATCACGTAGGAGCAACGTCAACATTAGATAACCAGCCGTCCTCATTACG
1 CTGACCAGATATCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACG
*
2520895 TAGGAACTATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGTAGCAGTGTCATCCC
66 TAGGAACGATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGTAGCAGTGTCATCCC
* * * *
2520957 CTGACTAGATATCCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGCTGTCCTCATCGCG
1 CTGACCAGATATCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACG
*
2521022 TAGGAACCGA-GTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCACGCATGAGTC-GTG
66 TAGGAA-CGATGTTATCA--C-T-ATAAA-ATGGCCAAGAACTCTTCATCACG--T-AG-CAGTG
2521085 TCAT-CC
121 TCATCCC
* * * *
2521091 TTCGACCAGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGA
1 CT-GACCAGATATCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
2521136 CGACCCGAAC
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
127 67 0.45
128 2 0.01
129 1 0.01
130 1 0.01
131 4 0.03
132 23 0.15
134 4 0.03
135 46 0.31
136 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (127 bp):
CTGACCAGATATCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACG
TAGGAACGATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGTAGCAGTGTCATCCC
Found at i:2521153 original size:43 final size:40
Alignment explanation
Indices: 2521058--2521161 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
2521048 AAGATGGCCA
* ** *
2521058 AGAACTCTTCATCACGCATGAGTCGTGTCATCCTTCGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
** *
2521098 AGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGACGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTT---CGACC
*
2521141 CGAACTCTTCATCACGTATGA
1 AGAACTCTTCATCACGTATGA
2521162 GCAGTGTCGT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 28 0.56
43 22 0.44
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
Found at i:2521349 original size:13 final size:13
Alignment explanation
Indices: 2521340--2521377 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2521330 TTTTTATTTT
2521340 TTATTATT-ATTAA
1 TTATTATTAATT-A
*
2521353 TTATTATTAACTA
1 TTATTATTAATTA
2521366 TTATTATTAATT
1 TTATTATTAATT
2521378 TTACATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 20 0.91
14 2 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATTAATTA
Found at i:2521358 original size:10 final size:10
Alignment explanation
Indices: 2521342--2521371 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2521332 TTTATTTTTT
2521342 ATTATTATTA
1 ATTATTATTA
2521352 ATTATTATTA
1 ATTATTATTA
*
2521362 ACTATTATTA
1 ATTATTATTA
2521372 TTAATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATTATTA
Found at i:2526337 original size:21 final size:21
Alignment explanation
Indices: 2526313--2526352 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2526303 TTTATTTTAT
2526313 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2526334 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2526353 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2526400 original size:33 final size:33
Alignment explanation
Indices: 2526347--2526445 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
2526337 TTTGTTTCAA
2526347 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2526379 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * * *
2526412 TTATCAAACTTGGAAATATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2526445 T
1 T
2526446 ATGTTGAGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 11 0.18
33 51 0.82
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2526474 original size:13 final size:13
Alignment explanation
Indices: 2526431--2526485 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2526421 TTGGAAATAT
2526431 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2526444 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2526458 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
2526471 TTAAGTATTTGAA
1 TTAAGTATTTCAA
2526484 TT
1 TT
2526486 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2526718 original size:21 final size:21
Alignment explanation
Indices: 2526694--2526733 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2526684 AATCGATACC
*
2526694 CTCTCATAGGGAATCGGTTTT
1 CTCTCATAGAGAATCGGTTTT
2526715 CTCTCATAGAGAATCGGTT
1 CTCTCATAGAGAATCGGTT
2526734 CCCTAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (21 bp):
CTCTCATAGAGAATCGGTTTT
Found at i:2526956 original size:17 final size:17
Alignment explanation
Indices: 2526906--2526956 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
2526896 CTGGAATATT
*
2526906 AAAATCGGTTTTTTT--
1 AAAACCGGTTTTTTTAA
* **
2526921 ATAACCGGTTTTTAAAA
1 AAAACCGGTTTTTTTAA
2526938 AAAACCGGTTTTTTTAA
1 AAAACCGGTTTTTTTAA
2526955 AA
1 AA
2526957 CCGAAACCGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.41
17 16 0.59
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAACCGGTTTTTTTAA
Found at i:2526958 original size:15 final size:15
Alignment explanation
Indices: 2526904--2526959 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
2526894 ATCTGGAATA
*
2526904 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
2526919 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
**
2526934 AAAAAAAACCGGTTTTT
1 --TTAAAACCGGTTTTT
2526951 TTAAAACCG
1 TTAAAACCG
2526960 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 20 0.62
17 12 0.38
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:2527076 original size:15 final size:17
Alignment explanation
Indices: 2527050--2527081 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2527040 TTCTATGGGA
2527050 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
2527066 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
2527082 CAGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:2532617 original size:3 final size:3
Alignment explanation
Indices: 2532611--2532668 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
2532601 TTATTAAAAA
*
2532611 TAT TAT TA- TAT TAT TAT TAT CAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2532657 TAT TAAT TAT TA
1 TAT T-AT TAT TA
2532669 CATTTACATT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2532652 original size:37 final size:38
Alignment explanation
Indices: 2532596--2532673 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
2532586 GTTTTCTTCT
2532596 TTTTATTATTAAAAATATTATTA-TATT-ATTATTATCA
1 TTTTATTATTAAAAATATTATTATTATTAATTATTA-CA
** *
2532633 TTTTATTATTATTATTATTATTATTATTAATTATTACA
1 TTTTATTATTAAAAATATTATTATTATTAATTATTACA
2532671 TTT
1 TTT
2532674 ACATTTTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 20 0.56
38 9 0.25
39 7 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (38 bp):
TTTTATTATTAAAAATATTATTATTATTAATTATTACA
Found at i:2537863 original size:24 final size:23
Alignment explanation
Indices: 2537815--2537864 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2537805 TGTCGTTTTG
*
2537815 TTCAATACATATTTTAAAATCAA
1 TTCAATACATATTTAAAAATCAA
* *
2537838 TTCAATACATCTGTTAAAAATGAA
1 TTCAATACATAT-TTAAAAATCAA
2537862 TTC
1 TTC
2537865 GGTTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (23 bp):
TTCAATACATATTTAAAAATCAA
Found at i:2538506 original size:25 final size:24
Alignment explanation
Indices: 2538478--2538524 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
2538468 TTATAAAATT
2538478 TTAAATATTTTATTTTTAAAAACAC
1 TTAAA-ATTTTATTTTTAAAAACAC
*
2538503 TTAAACTTTTATTTTTAAAAAC
1 TTAAAATTTTATTTTTAAAAAC
2538525 CACAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAAATTTTATTTTTAAAAACAC
Found at i:2539413 original size:272 final size:269
Alignment explanation
Indices: 2538904--2539423 Score: 618
Period size: 272 Copynumber: 1.9 Consensus size: 269
2538894 ATTAGAAATT
* *
2538904 TTAAAGAGATTCTGACTATGTATGAAAACTCTTCGGAACAAAAGATTAATTTTGAAAAGTCCATG
1 TTAAAGAGATTATGACTATGTATGAAAACTCTTCGGAACAAAAGATTAATTTTGAAAAGTCAATG
* * *
2538969 ATTTACTTCAAGCCTAACACAAATAGGGAACACAGAAGAGAAATTCTTGACATTATTGTAGTGCA
66 ATTTACTTCAAGCCTAACACAAATAAGGAACACAAAAGAGAAATTCTTGACATTATTGGAGTGCA
* * * **
2539034 TAAATAAGAACCGGGATCCTATCTTGGTTTGCCTCTTGCAGTTGGTAAAAATAAGACTGGAGTCT
131 TAAAGAAGAACCGGGATCCTATCTTGGTTTGCCTCTTGCAGTTGATAAAAACAAGACCAGAGTCT
* * *
2539099 TCAATTTTGTTCAGGATAAGGCAAACTCGAGTATACAAGGGTGGACAAAGAATTCCCCAAATGAA
196 TCAATTTTGATCAGGATAAGGCAAACTCGAGGATAAAAGGGT-GACAAAGAATTCCCCAAATGAA
2539164 GGTAGACGCC
260 GGTAGACGCC
* * * * * **
2539174 TTAAAGAGATTATGGCTCTGTATGAGAACTCTTCGGGACCAAAGATTAATTTTGGCAAGTCAAT-
1 TTAAAGAGATTATGACTATGTATGAAAACTCTTCGGAACAAAAGATTAATTTTGAAAAGTCAATG
* ** * *
2539238 ATTTACTTTATTCAC-AACACCAATAAGGAACACAAAAGAGAAA-TCTTTGGCATTATTGGAGTG
66 ATTTACTTCAAGC-CTAACACAAATAAGGAACACAAAAGAGAAATTC-TTGACATTATTGGAGTG
* * * * *
2539301 CATGAACAAGAAGAATCGGGATCCTATCTTGGTTTGTCGT-TTGCGGTTTATAGAAACAAGACCA
129 CAT--A-AAGAAGAACCGGGATCCTATCTTGGTTTG-CCTCTTGCAGTTGATAAAAACAAGACCA
** * * *
2539365 GAGTCTTTGATTTT-ATCAAGGATAAGGTAAACTTGAGGATAAAAGGGTGATAAAGAATT
190 GAGTCTTCAATTTTGATC-AGGATAAGGCAAACTCGAGGATAAAAGGGTGACAAAGAATT
2539424 TGCTTTCTTT
Statistics
Matches: 208, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
268 2 0.01
269 53 0.25
270 56 0.27
271 13 0.06
272 82 0.39
273 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (269 bp):
TTAAAGAGATTATGACTATGTATGAAAACTCTTCGGAACAAAAGATTAATTTTGAAAAGTCAATG
ATTTACTTCAAGCCTAACACAAATAAGGAACACAAAAGAGAAATTCTTGACATTATTGGAGTGCA
TAAAGAAGAACCGGGATCCTATCTTGGTTTGCCTCTTGCAGTTGATAAAAACAAGACCAGAGTCT
TCAATTTTGATCAGGATAAGGCAAACTCGAGGATAAAAGGGTGACAAAGAATTCCCCAAATGAAG
GTAGACGCC
Found at i:2542931 original size:21 final size:21
Alignment explanation
Indices: 2542902--2542965 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2542892 TACGGTTGGC
*
2542902 CATC-AGATTTGCTGTTAGCA
1 CATCAAGATTTGCTGATAGCA
2542922 CATCAAGATTTGCTGATAGCA
1 CATCAAGATTTGCTGATAGCA
*
2542943 CGTCAAGATTTGCTGATAG-A
1 CATCAAGATTTGCTGATAGCA
2542963 CAT
1 CAT
2542966 GATGGTCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.17
21 33 0.82
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (21 bp):
CATCAAGATTTGCTGATAGCA
Found at i:2544421 original size:14 final size:15
Alignment explanation
Indices: 2544397--2544425 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2544387 AAAAGATTTT
2544397 TGAAGAAGAAAAAAA
1 TGAAGAAGAAAAAAA
2544412 TGAA-AAGAAAAAAA
1 TGAAGAAGAAAAAAA
2544426 AACGAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
TGAAGAAGAAAAAAA
Found at i:2544426 original size:16 final size:17
Alignment explanation
Indices: 2544399--2544432 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2544389 AAGATTTTTG
*
2544399 AAGAAGAAAAAAATGAA
1 AAGAAGAAAAAAACGAA
2544416 AAGAA-AAAAAAACGAA
1 AAGAAGAAAAAAACGAA
2544432 A
1 A
2544433 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (17 bp):
AAGAAGAAAAAAACGAA
Found at i:2554372 original size:17 final size:17
Alignment explanation
Indices: 2554350--2554382 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2554340 ATCGAAACAA
*
2554350 AATAAAGATAAAAATAG
1 AATAAAAATAAAAATAG
2554367 AATAAAAATAAAAATA
1 AATAAAAATAAAAATA
2554383 AAAGAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAAATAG
Found at i:2554376 original size:6 final size:6
Alignment explanation
Indices: 2554348--2554385 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2554338 TGATCGAAAC
* *
2554348 AAAATA AAGATA AAAAT- AGAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
2554386 GAAAAGGATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:2554390 original size:17 final size:17
Alignment explanation
Indices: 2554357--2554390 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2554347 CAAAATAAAG
* *
2554357 ATAAAAATAGAATAAAA
1 ATAAAAATAAAAGAAAA
2554374 ATAAAAATAAAAGAAAA
1 ATAAAAATAAAAGAAAA
2554391 GGATCATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
ATAAAAATAAAAGAAAA
Found at i:2555210 original size:21 final size:21
Alignment explanation
Indices: 2555185--2555235 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 21
2555175 AAATCCTCTT
2555185 AAATTTTCTTTCTTATTAGTG
1 AAATTTTCTTTCTTATTAGTG
2555206 AAA--TTC-TTCTTATTAGTG
1 AAATTTTCTTTCTTATTAGTG
2555224 AAATTCTTCTTT
1 AAATT-TTCTTT
2555236 TCTGCCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 15 0.58
19 3 0.12
21 6 0.23
22 2 0.08
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (21 bp):
AAATTTTCTTTCTTATTAGTG
Found at i:2555217 original size:18 final size:18
Alignment explanation
Indices: 2555194--2555234 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2555184 TAAATTTTCT
2555194 TTCTTATTAGTGAAATTC
1 TTCTTATTAGTGAAATTC
2555212 TTCTTATTAGTGAAATTC
1 TTCTTATTAGTGAAATTC
2555230 TTCTT
1 TTCTT
2555235 TTCTGCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (18 bp):
TTCTTATTAGTGAAATTC
Found at i:2557730 original size:22 final size:21
Alignment explanation
Indices: 2557705--2557752 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
2557695 TAGGTTGGTT
2557705 TTAAAATATAAACATATAAATA
1 TTAAAATATAAACATA-AAATA
* * *
2557727 TTAAGATTTAAACCTAAAATA
1 TTAAAATATAAACATAAAATA
*
2557748 ATAAA
1 TTAAA
2557753 TGTGTCCTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
TTAAAATATAAACATAAAATA
Found at i:2558333 original size:16 final size:16
Alignment explanation
Indices: 2558312--2558343 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2558302 TATGTCACAA
2558312 TTACCCATTTCAAAAG
1 TTACCCATTTCAAAAG
*
2558328 TTACCCATTTTAAAAG
1 TTACCCATTTCAAAAG
2558344 CGAAAAAAAA
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:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (16 bp):
TTACCCATTTCAAAAG
Found at i:2562223 original size:12 final size:12
Alignment explanation
Indices: 2562206--2562230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2562196 GGATATTCAA
2562206 CATCAAATTGAC
1 CATCAAATTGAC
2562218 CATCAAATTGAC
1 CATCAAATTGAC
2562230 C
1 C
2562231 TTGTTCCTAG
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (12 bp):
CATCAAATTGAC
Found at i:2566385 original size:48 final size:48
Alignment explanation
Indices: 2566281--2566387 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
2566271 ATTTTTTAAC
* ** * *
2566281 ATTTCCGGTAAAGTGTTCAACAATAATAAAATCGGTGGAAAAAATAAT
1 ATTTCCGGTAAAGCGACCAACAATAACAAAATCGGTAGAAAAAATAAT
*** * *
2566329 AAAACCGGTAAAGCGACCAATAATAACAAAATCGGTAGAAATAATAAT
1 ATTTCCGGTAAAGCGACCAACAATAACAAAATCGGTAGAAAAAATAAT
2566377 ATTTCCGGTAA
1 ATTTCCGGTAA
2566388 TTGAAGATAA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (48 bp):
ATTTCCGGTAAAGCGACCAACAATAACAAAATCGGTAGAAAAAATAAT
Found at i:2582275 original size:36 final size:36
Alignment explanation
Indices: 2582186--2582442 Score: 392
Period size: 36 Copynumber: 7.2 Consensus size: 36
2582176 AAGAATAACA
2582186 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAAC-
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
*
2582221 GAA-GACAGCATCGGCACTTCCGATTCAAGTCAAACG
1 GAAGGA-AGCATCGGCACTTCCGATTCAAGTCGAACG
* *
2582257 GAAGGAAGCATCGACACTTCCGATTTAAGTCGAACG
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
*
2582293 GAAGGAAGCAACGGCACTTCCGATTCAAGTCGAACG
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
*
2582329 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACA
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
* * *
2582365 GAATGAAGCATCGACACTTCTGATTCAAGTCGAACG
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
* * *
2582401 GAAGGAAGCATCGGTACTTCCGACTCAAGTCGAATG
1 GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
2582437 GAAGGA
1 GAAGGA
2582443 TGTATCACAC
Statistics
Matches: 200, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
34 2 0.01
35 31 0.16
36 165 0.82
37 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.18
Consensus pattern (36 bp):
GAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACG
Found at i:2586052 original size:255 final size:255
Alignment explanation
Indices: 2585594--2586105 Score: 979
Period size: 255 Copynumber: 2.0 Consensus size: 255
2585584 TCCGCTACCT
2585594 CATTTTGCTCAGGAGTATATGGTGCTGTCAATTCCCTGCGTATTCCAACACCTTCACAAAAAATA
1 CATTTTGCTCAGGAGTATATGGTGCTGTCAATTCCCTGCGTATTCCAACACCTTCACAAAAAATA
* *
2585659 ATAAAATCAGTGGAACAAAACTCAGCCCCTCTGTCTGTTCTGAGGATTTTAATGGTGGTCTCACT
66 ATAAAATCAGTGGAACAAAACTCACCCCCTCTGTCTGATCTGAGGATTTTAATGGTGGTCTCACT
2585724 TTGCTTTTCAACCATGGCTTTGAATTTTTTGAAATTCTCAAATGTTTCTGACTTGAGTTTGAGAA
131 TTGCTTTTCAACCATGGCTTTGAATTTTTTGAAATTCTCAAATGTTTCTGACTTGAGTTTGAGAA
2585789 AATAAACCCAACTCATCCTGCTATAATCGTCAGTGAACAATAAAAAATATCGACTTCCAC
196 AATAAACCCAACTCATCCTGCTATAATCGTCAGTGAACAATAAAAAATATCGACTTCCAC
* *
2585849 CATTTTTCTCAGGAGTATATGGTGCTGTCAATTCCCTGTGTATTCCAACACCTTCACAAAAAATA
1 CATTTTGCTCAGGAGTATATGGTGCTGTCAATTCCCTGCGTATTCCAACACCTTCACAAAAAATA
2585914 ATAAAATCAGTGGAACAAAACTCACCCCCTCTGTCTGATCTGAGGATTTTAATGGTGGTCTCACT
66 ATAAAATCAGTGGAACAAAACTCACCCCCTCTGTCTGATCTGAGGATTTTAATGGTGGTCTCACT
*
2585979 TTGCTTTTCAACTATGGCTTTGAATTTTTTGAAATTCTCAAATGTTTCTGACTTGAGTTTGAGAA
131 TTGCTTTTCAACCATGGCTTTGAATTTTTTGAAATTCTCAAATGTTTCTGACTTGAGTTTGAGAA
2586044 AATAAACCCAACTCATCCTGCTATAATCGTCAGTGAACAATAAAAAATATCGACTTCCAC
196 AATAAACCCAACTCATCCTGCTATAATCGTCAGTGAACAATAAAAAATATCGACTTCCAC
2586104 CA
1 CA
2586106 AACGATTCTG
Statistics
Matches: 252, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 252 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (255 bp):
CATTTTGCTCAGGAGTATATGGTGCTGTCAATTCCCTGCGTATTCCAACACCTTCACAAAAAATA
ATAAAATCAGTGGAACAAAACTCACCCCCTCTGTCTGATCTGAGGATTTTAATGGTGGTCTCACT
TTGCTTTTCAACCATGGCTTTGAATTTTTTGAAATTCTCAAATGTTTCTGACTTGAGTTTGAGAA
AATAAACCCAACTCATCCTGCTATAATCGTCAGTGAACAATAAAAAATATCGACTTCCAC
Found at i:2602711 original size:20 final size:19
Alignment explanation
Indices: 2602686--2602765 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 19
2602676 TTTTGGTGCA
*
2602686 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCC-T
*
2602706 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC--T
*
2602727 GAAGGAGAACCGATTCCCCCT
1 G-AGG-GAACCGATACCCCCT
*
2602748 -AGGGGAATCGATACCCCC
1 GA-GGGAACCGATACCCCC
2602766 CTGGGGTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 13 0.25
20 18 0.35
21 3 0.06
22 3 0.06
23 14 0.27
ACGTcount: A:0.26, C:0.33, G:0.25, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATACCCCCT
Found at i:2611918 original size:90 final size:89
Alignment explanation
Indices: 2611766--2611938 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 89
2611756 ACACACCCTT
* * *
2611766 TTATAGCCAAGTTACCTTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATAATAGGGTTTTATTATTTCAAATTAATTAAATCTATATTGA
* *
2611831 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
2611855 TTATATCCAAGTTACCCTAATCATAATAGGGATTTTATTATTTCAAATTAATTAAATCTATATTG
1 TTATAGCCAAGTTACCCTAATCATAATAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTG
2611920 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
2611939 TTAGGGATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 28 0.36
90 49 0.64
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATAATAGGGTTTTATTATTTCAAATTAATTAAATCTATATTGA
ATTAATTGAAATTAAATAATCCTC
Found at i:2613219 original size:32 final size:32
Alignment explanation
Indices: 2613183--2613245 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
2613173 AAGAAATAAT
2613183 GAATGATGGGGAATCTTTGGAGATTCAACATC
1 GAATGATGGGGAATCTTTGGAGATTCAACATC
* * * *
2613215 GAATGTTGGGGCATCTTTGGGGATTTAACAT
1 GAATGATGGGGAATCTTTGGAGATTCAACAT
2613246 TCTGATGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (32 bp):
GAATGATGGGGAATCTTTGGAGATTCAACATC
Found at i:2613616 original size:31 final size:32
Alignment explanation
Indices: 2613580--2613699 Score: 91
Period size: 33 Copynumber: 3.6 Consensus size: 32
2613570 TCCTTGAGAT
2613580 TGTTTCTCTTAAAACAAAATCATCTTTGAGTC
1 TGTTTCTCTTAAAACAAAATCATCTTTGAGTC
* ** *
2613612 -GTTTCTCTTGAAACGAATTTTGTC-TCTCTTGAGAC
1 TGTTTCTCTTAAAAC-AA---AATCATCT-TTGAGTC
* * *
2613647 AGTTTCTCGTAAAACAAAATCATCTTTTAGTC
1 TGTTTCTCTTAAAACAAAATCATCTTTGAGTC
* *
2613679 TTTTTTCTTTTAAAACAAAAT
1 -TGTTTCTCTTAAAACAAAAT
2613700 TTTATCTTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
31 13 0.20
32 9 0.14
33 19 0.29
34 3 0.05
35 10 0.15
36 12 0.18
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (32 bp):
TGTTTCTCTTAAAACAAAATCATCTTTGAGTC
Found at i:2613721 original size:70 final size:67
Alignment explanation
Indices: 2613533--2613791 Score: 252
Period size: 67 Copynumber: 3.8 Consensus size: 67
2613523 CTTTTGAAAA
* * **
2613533 ATCTTTGAGTATGTTTCTCTTGAAACAAATCTTAT-TTTCCTTGAGATTGTTTCTCTTAAAACAA
1 ATCTTTGAGT-CGTTTCTCTTGAAACAAATTTTATCTTT-CTTGAGACAGTTTCTCTTAAAACAA
2613597 AATC
64 AATC
* * * *
2613601 ATCTTTGAGTCGTTTCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCGTAAAACAAAA
1 ATCTTTGAGTCGTTTCTCTTGAAACAAATTTTATCTTTCTTGAGACAGTTTCTCTTAAAACAAAA
2613666 TC
66 TC
* * * * *
2613668 ATCTTTTAGTCTTTTTTCTTTTAAAACAAAATTTTATCTTTCTTGAGACAGTTTCTTTTAAAACA
1 ATCTTTGAGTC--GTTTCTCTTGAAAC-AAATTTTATCTTTCTTGAGACAGTTTCTCTTAAAACA
*
2613733 AAACC
63 AAATC
* * * * * * *
2613738 ATATTTGAGATCATTTCCCTT-AAGACGAATTTTGTCTATCTTGAGACAATTTCT
1 ATCTTTGAG-TCGTTTCTCTTGAA-ACAAATTTTATCTTTCTTGAGACAGTTTCT
2613792 GGTGGAGTAC
Statistics
Matches: 158, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
67 56 0.35
68 38 0.24
69 19 0.12
70 43 0.27
71 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (67 bp):
ATCTTTGAGTCGTTTCTCTTGAAACAAATTTTATCTTTCTTGAGACAGTTTCTCTTAAAACAAAA
TC
Found at i:2613948 original size:33 final size:31
Alignment explanation
Indices: 2613906--2613966 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
2613896 GAAACACTTA
2613906 ATCTTTGAGTCTGTTT-CTCTTGAAATAAAACAT
1 ATCTTTGAGT-TGTTTCCT-TTGAAA-AAAACAT
2613939 ATCTTTGAGTTGTTTCCTTTGAAAAAAA
1 ATCTTTGAGTTGTTTCCTTTGAAAAAAA
2613967 TTTGTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 4 0.15
32 11 0.41
33 12 0.44
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (31 bp):
ATCTTTGAGTTGTTTCCTTTGAAAAAAACAT
Found at i:2613961 original size:32 final size:32
Alignment explanation
Indices: 2613906--2613966 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2613896 GAAACACTTA
2613906 ATCTTTGAGTCTGTTTCTCTTGAAATAAAACAT
1 ATCTTTGAGTCTGTTTCTCTTGAAA-AAAACAT
2613939 ATCTTTGAGT-TGTTTC-CTTTGAAAAAAA
1 ATCTTTGAGTCTGTTTCTC-TTGAAAAAAA
2613967 TTTGTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 5 0.19
32 12 0.44
33 10 0.37
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (32 bp):
ATCTTTGAGTCTGTTTCTCTTGAAAAAAACAT
Found at i:2614026 original size:96 final size:100
Alignment explanation
Indices: 2613803--2614027 Score: 271
Period size: 102 Copynumber: 2.3 Consensus size: 100
2613793 GTGGAGTACC
* *
2613803 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAACATCTTTGAGCTTGTTTTCATTGAAACAAA
1 CATCTTTGAGTCTGTTTCTCTTGAAACAAAAC-AACATCTTTGAGCTTGTTTCCATTGAAACAAA
* * *
2613868 TTTTTTCTCCCTTGAGACAGCTTCTCCTGAAACACTT
65 ATTTGTCTCCCTTGAGACAGCTTATCCTGAAACAC-T
* * * *
2613905 AATCTTTGAGTCTGTTTCTCTTGAAATAAAAC-ATATCTTTGAG-TTGTTTCCTTTGAAA-AAAA
1 CATCTTTGAGTCTGTTTCTCTTGAAACAAAACAACATCTTTGAGCTTGTTTCCATTGAAACAAAA
* *
2613967 TTTGTCTCTCTTGAGACAGCTTAT-CTTAAAGCA-T
66 TTTGTCTCCCTTGAGACAGCTTATCCTGAAA-CACT
* *
2614001 CATCTTTAAGTCGGTTTCTCTTGAAAC
1 CATCTTTGAGTCTGTTTCTCTTGAAAC
2614028 CATTATCTCT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
96 24 0.22
97 5 0.05
98 26 0.24
99 13 0.12
100 10 0.09
102 29 0.27
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (100 bp):
CATCTTTGAGTCTGTTTCTCTTGAAACAAAACAACATCTTTGAGCTTGTTTCCATTGAAACAAAA
TTTGTCTCCCTTGAGACAGCTTATCCTGAAACACT
Found at i:2614650 original size:3 final size:3
Alignment explanation
Indices: 2614644--2614672 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2614634 ATTATTATTA
2614644 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
2614673 TTTCTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:2614866 original size:21 final size:21
Alignment explanation
Indices: 2614842--2614883 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2614832 AGGCCCAAAT
2614842 TTCAACCCGAACCGCCCCAGC
1 TTCAACCCGAACCGCCCCAGC
2614863 TTCAACCCGAACCGCCCCAGC
1 TTCAACCCGAACCGCCCCAGC
2614884 AAAATCCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.52, G:0.14, T:0.10
Consensus pattern (21 bp):
TTCAACCCGAACCGCCCCAGC
Found at i:2620105 original size:3 final size:3
Alignment explanation
Indices: 2620097--2620162 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
2620087 GTTTTATTTC
2620097 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2620144 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
2620163 CAATATTAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2620935 original size:37 final size:36
Alignment explanation
Indices: 2620860--2620935 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2620850 TTTTTATATT
*
2620860 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2620896 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2620933 TTT
1 TTT
2620936 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2623030 original size:13 final size:13
Alignment explanation
Indices: 2623014--2623043 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2623004 AAATTTTTCG
*
2623014 AGAAAATATTGTT
1 AGAAAAGATTGTT
2623027 AGAAAAGATTGTT
1 AGAAAAGATTGTT
2623040 AGAA
1 AGAA
2623044 TTTATCTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (13 bp):
AGAAAAGATTGTT
Found at i:2625347 original size:408 final size:408
Alignment explanation
Indices: 2624632--2625412 Score: 1009
Period size: 408 Copynumber: 1.9 Consensus size: 408
2624622 TTATACTGAT
* * ** *
2624632 AAAATATATTGTCACAAATATTTCCCTCCATCTTTTTTGCGCCAAAAAAGTCATATGGTGACAAA
1 AAAATATATTGTCACAAAGATTTCCCTCCATCTTTTTTGCACCAAAAAAGTCATATAATAACAAA
* * * * *
2624697 TTTGTATCTATAATTGTTAATAATTAGTATAAAAAATATTGTCACAAAAATAATGATATTCATAT
66 TTTGTAACTATAAATGTTAATAATTAGTAAAAAAAACATTGTCACAAAAATAATGATATTCACAT
* *
2624762 TTTTTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGTATATATTGTCATAACT
131 TTTTTGACAAATTATACTTGTAGTTATAAATTTTAACTATAGTGATAGCATATATTGTCATAAC-
** * * * * * * *
2624827 ATTTTCTCCACTTTTTTGTTTCAAACGTTATATTGGCAATTTTTATAATTGTAATTTATAGTTTT
195 A-TAACT-C-CTTTTTTGTTTCAAAAGTGATATTGACAAGTTCTATAATTATAATTTATAGTTAT
* * * * * *
2624892 TTTTATAGAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTACTAAATTATTTTTTT
257 TGTTATAAAAAAAATTATCACATCAAATAATAAAATTAAAGTTTTTTGCAATAAATTATTTTTGT
*
2624957 ACTTATATATTTTAATCATTATGAAAAATTATACTATCATAACCATTTATTCATATTTTTTTAGT
322 ACTTATATATTTTAATCATTATGAAAAATTATACTATCAAAACCATTTATTCATATTTTTTTAGT
2625022 GTAAAAAATGTTATATAGTAAC
387 GTAAAAAATGTTATATAGTAAC
* * *
2625044 AAAATATATTGTCATAAAGATTTTCCTCCATTTTTTTTGCACCAAAAAA-TCATATAATAACAAT
1 AAAATATATTGTCACAAAGATTTCCCTCCATCTTTTTTGCACCAAAAAAGTCATATAATAACAA-
* * *
2625108 TTTTGTAACTATAAATGTTTATAATTATTACAAAAAAAACATTGTCACAAAAAATAATGATATTC
65 ATTTGTAACTATAAATGTTAATAATTAGT--AAAAAAAACATTGTCAC-AAAAATAATGATATTC
* *
2625173 ACATTTTTGTGACAAATTATACTTGTAGTTATAAA-TTTAATTATAGTGAT-GACATATATTGTG
127 ACATTTTT-TGACAAATTATACTTGTAGTTATAAATTTTAACTATAGTGATAG-CATATATTGTC
* * * *
2625236 ATAA-A-AACT-TTTTTTTGTTTCAAAAAGTGATATTGATAAGTTCTGTAA-TATAATTTTTAGT
190 ATAACATAACTCCTTTTTTGTTTC-AAAAGTGATATTGACAAGTTCTATAATTATAATTTATAGT
* *
2625297 TATTGTTATAAAAAAAATTATCACATCATATAATAAAATTAAAGTTTTTTGCAATCAATTATTTT
254 TATTGTTATAAAAAAAATTATCACATCAAATAATAAAATTAAAGTTTTTTGCAATAAATTATTTT
* * *
2625362 TGTAGTTATATATTTTAATTATTATGAAATATTATACTATCAAAACCATTT
319 TGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAAAACCATTT
2625413 CTCTTATTTT
Statistics
Matches: 317, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
408 125 0.39
409 19 0.06
411 13 0.04
412 68 0.21
413 1 0.00
414 16 0.05
415 50 0.16
416 25 0.08
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (408 bp):
AAAATATATTGTCACAAAGATTTCCCTCCATCTTTTTTGCACCAAAAAAGTCATATAATAACAAA
TTTGTAACTATAAATGTTAATAATTAGTAAAAAAAACATTGTCACAAAAATAATGATATTCACAT
TTTTTGACAAATTATACTTGTAGTTATAAATTTTAACTATAGTGATAGCATATATTGTCATAACA
TAACTCCTTTTTTGTTTCAAAAGTGATATTGACAAGTTCTATAATTATAATTTATAGTTATTGTT
ATAAAAAAAATTATCACATCAAATAATAAAATTAAAGTTTTTTGCAATAAATTATTTTTGTACTT
ATATATTTTAATCATTATGAAAAATTATACTATCAAAACCATTTATTCATATTTTTTTAGTGTAA
AAAATGTTATATAGTAAC
Found at i:2626219 original size:3 final size:3
Alignment explanation
Indices: 2626211--2626237 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2626201 TTTTATCGTT
2626211 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
2626238 AATATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2626636 original size:20 final size:21
Alignment explanation
Indices: 2626591--2626640 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2626581 GATTTTCCAG
* *
2626591 AATCGCAAGGCGAATATGAAA
1 AATCGCAACGCGAACATGAAA
*
2626612 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAACATGAAA
2626632 AATCGCAAC
1 AATCGCAAC
2626641 ACGATTCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.14
Consensus pattern (21 bp):
AATCGCAACGCGAACATGAAA
Found at i:2626674 original size:40 final size:40
Alignment explanation
Indices: 2626653--2626806 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
2626643 GATTCTGACT
2626653 ATCGCAACGCGTATCCGTAAATCGCAACGA-GAATACGTAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACG-ATACGTAA
**
2626693 ATCGCAACGCGTATCTATAAATCGCAACGA-GAATACGTAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACG-ATACGTAA
* *
2626733 ATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACGATACGT-AA
2626774 ATCGCAACGCGTATCCGTAAATCGCAACG-CGAT
1 ATCGCAACGCGTATCCGTAAATCGCAACGACGAT
2626807 TTTTAAAGCG
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 74 0.71
41 30 0.29
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGACGATACGTAA
Found at i:2626676 original size:20 final size:20
Alignment explanation
Indices: 2626653--2626804 Score: 180
Period size: 20 Copynumber: 7.5 Consensus size: 20
2626643 GATTCTGACT
2626653 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
2626673 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
**
2626693 ATCGCAACGCGTATCTATAA
1 ATCGCAACGCGTATCCGTAA
* * *
2626713 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
2626733 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2626753 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
2626774 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
2626794 ATCGCAACGCG
1 ATCGCAACGCG
2626805 ATTTTTAAAG
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
20 90 0.84
21 17 0.16
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:2626680 original size:60 final size:59
Alignment explanation
Indices: 2626611--2626805 Score: 180
Period size: 60 Copynumber: 3.2 Consensus size: 59
2626601 CGAATATGAA
**
2626611 AAATCGCAACGCGAACATATAAATCGCAACACGATTCTGACTATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAACACGTAAATCGCAACACGATTCTGA-TATCGCAACGCGTATCCGT
* * * * * *
2626671 AAATCGCAACGAGAATACGTAAATCGCAACGCG-TATCT-ATAAATCGCAACGAGAATACGT
1 AAATCGCAACGCGAACACGTAAATCGCAACACGAT-TCTGAT--ATCGCAACGCGTATCCGT
* * * * * *
2626731 AAATCGCAATGCGTATC-CGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACACGTAAATCGCAAC-ACGATTC-TGATATCGCAACGCGTATCCGT
2626792 AAATCGCAACGCGA
1 AAATCGCAACGCGA
2626806 TTTTTAAAGC
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
58 1 0.01
59 2 0.02
60 71 0.66
61 30 0.28
62 2 0.02
63 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (59 bp):
AAATCGCAACGCGAACACGTAAATCGCAACACGATTCTGATATCGCAACGCGTATCCGT
Found at i:2627387 original size:20 final size:20
Alignment explanation
Indices: 2627362--2627412 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2627352 TTCTAAACTT
*
2627362 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
2627382 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
2627402 ACTATCGCAAC
1 AAAATCGCAAC
2627413 GAGAGAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2627442 original size:33 final size:33
Alignment explanation
Indices: 2627384--2627476 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
2627374 TGAAAATGAA
**
2627384 AATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AATCGCAACACG-AAATGAAAATCGCAACGAGAG
* *
2627418 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACACGAAATGAAAATCGCAACGAGAG
**
2627451 AATCGCAACACGAAACCAAAATCGCA
1 AATCGCAACACGAAATGAAAATCGCA
2627477 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 41 0.79
34 11 0.21
ACGTcount: A:0.46, C:0.25, G:0.18, T:0.11
Consensus pattern (33 bp):
AATCGCAACACGAAATGAAAATCGCAACGAGAG
Found at i:2627519 original size:33 final size:33
Alignment explanation
Indices: 2627477--2627602 Score: 171
Period size: 33 Copynumber: 3.8 Consensus size: 33
2627467 CAAAATCGCA
2627477 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
2627510 TTGCGATTTTAATTTCACGTTGCGATCCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2627543 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* ** *
2627576 TTGTGATAGTCATTTTCGCATTGCGAT
1 TTGCGATTTTCA-TTTCGCGTTGCGAT
2627603 AGTCATTCTC
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 68 0.85
34 12 0.15
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2627617 original size:20 final size:20
Alignment explanation
Indices: 2627567--2627617 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2627557 TCGCGTTGTG
* *
2627567 ATTCTCTCGTTGTGATAGTC
1 ATTCTCTCATTGCGATAGTC
* *
2627587 ATTTTCGCATTGCGATAGTC
1 ATTCTCTCATTGCGATAGTC
2627607 ATTCTCTCATT
1 ATTCTCTCATT
2627618 ACAATTTTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (20 bp):
ATTCTCTCATTGCGATAGTC
Found at i:2629455 original size:82 final size:83
Alignment explanation
Indices: 2629318--2629661 Score: 357
Period size: 94 Copynumber: 3.9 Consensus size: 83
2629308 TAGATTTCTT
* *
2629318 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2629383 ATTTGTCTTTTGGCT-AA
66 ATTTGTCTTTTGGCTGAA
* *
2629400 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTAAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2629465 ATTTGTCTTTTTTTGTCTTTTGGTTGAA
66 A----------TTTGTCTTTTGGCTGAA
* *
2629493 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTCAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2629558 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 A-----------TTTGTCTTTTGGCTGAA
* * * * * * *
2629587 AGTAAATTTGTTCGGTTGTTACCAATTCTGCTAAACTATGTATTCTTTAATACTCTGAAGTTAGA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2629652 ATTTGTCTTT
66 ATTTGTCTTT
2629662 GTTTTGTCTT
Statistics
Matches: 229, Mismatches: 21, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
82 62 0.27
83 9 0.04
92 13 0.06
93 64 0.28
94 81 0.35
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.46
Consensus pattern (83 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTTGGCTGAA
Found at i:2629614 original size:94 final size:94
Alignment explanation
Indices: 2629384--2629684 Score: 482
Period size: 94 Copynumber: 3.2 Consensus size: 94
2629374 GAAGTTAGTA
* * *
2629384 TTTGTCTTTTGGCT-AAAGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
*
2629448 AACACTGTAAAGTTAGTATTTGTCTTT-T
66 AACACTGTGAAGTTAGTATTTGTCTTTGT
*
2629476 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTCAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
2629541 AACACTGTGAAGTTAGTATTTGTCTTTGT
66 AACACTGTGAAGTTAGTATTTGTCTTTGT
* * *
2629570 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGTTACCAATTCTGCTAAACTATGTATTCTTT
1 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
* * *
2629635 AATACTCTGAAGTTAGAATTTGTCTTTGT
66 AACACTGTGAAGTTAGTATTTGTCTTTGT
2629664 TTTGTCTTTTGGTTG-AAGTAA
1 TTTGTCTTTTGGTTGAAAGTAA
2629685 TGCAATCCAT
Statistics
Matches: 195, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
92 13 0.07
93 79 0.41
94 103 0.53
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (94 bp):
TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
AACACTGTGAAGTTAGTATTTGTCTTTGT
Found at i:2629864 original size:19 final size:19
Alignment explanation
Indices: 2629802--2629855 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
2629792 TCAACGAGAG
2629802 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2629821 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2629840 AATCGCAACGCGAAAC
1 AATCGCAACGCGAAAC
2629856 TATAATCGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.46, C:0.31, G:0.17, T:0.06
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:2629924 original size:20 final size:20
Alignment explanation
Indices: 2629899--2629985 Score: 106
Period size: 20 Copynumber: 4.3 Consensus size: 20
2629889 GATTCTCTCG
*
2629899 TTGCGATAGTCAAATTTGCA
1 TTGCGATAGTCAATTTTGCA
*
2629919 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCAATTTTGCA
*
2629939 TTACGATAGTC-ATTTTCGCA
1 TTGCGATAGTCAATTTT-GCA
*
2629959 TTGCGATAGTC-ATTTTCGCG
1 TTGCGATAGTCAATTTT-GCA
2629979 TTGCGAT
1 TTGCGAT
2629986 TTTAAGTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 4 0.07
20 56 0.93
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCAATTTTGCA
Found at i:2630560 original size:21 final size:21
Alignment explanation
Indices: 2630469--2630576 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
2630459 GACTCACCTG
*
2630469 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
2630491 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
2630511 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
2630532 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
2630553 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
2630574 TCA
1 TCA
2630577 ACATTCTAGA
Statistics
Matches: 66, Mismatches: 19, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
20 3 0.05
21 62 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:2630573 original size:42 final size:43
Alignment explanation
Indices: 2630466--2630573 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 43
2630456 CCCGACTCAC
* *
2630466 CTGTCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCCCT-CCCTACCGTTCAAGAGGCCA
* **
2630508 CTATCATCCCTCAAGA-GTCCCCTCCC-ACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCCCTACCGTTCAAGAGGCCA
*
2630550 CTGTCATCGTTGAAGAGGTCCCTC
1 CTGTCATCGTTCAAGAGGTCCCTC
2630574 TCAACATTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.02
42 44 0.83
43 5 0.09
44 3 0.06
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.23
Consensus pattern (43 bp):
CTGTCATCGTTCAAGAGGTCCCTCCCTACCGTTCAAGAGGCCA
Found at i:2631951 original size:14 final size:14
Alignment explanation
Indices: 2631932--2631967 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2631922 ATTGTTTAAT
2631932 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2631946 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2631960 TGATTTGT
1 TGATTTGT
2631968 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:2632118 original size:33 final size:34
Alignment explanation
Indices: 2632076--2632151 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
2632066 ACTATTGACT
** *
2632076 ATCGCAACGAGAGAATCGTAATGTG-AAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
*
2632109 ATCGCAACGAGTGAATCACAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
2632143 ATCGCAACG
1 ATCGCAACG
2632152 CGAAACTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
Found at i:2632182 original size:19 final size:19
Alignment explanation
Indices: 2632160--2632327 Score: 327
Period size: 19 Copynumber: 8.8 Consensus size: 19
2632150 CGCGAAACTA
*
2632160 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632179 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632198 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632217 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632236 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632255 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632274 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632293 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2632312 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
2632328 CTCTCGTTGC
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 148 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:2632555 original size:33 final size:34
Alignment explanation
Indices: 2632505--2632581 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
2632495 AAAACAGACT
* **
2632505 ATCGCAACGCGGAAATGACTATAGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATAGCAACGAGAGA
* *
2632539 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGGAAATGAAAATAGCAACGAGAGA
2632572 ATCGCAATGC
1 ATCGCAATGC
2632582 AAAACTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATAGCAACGAGAGA
Found at i:2632638 original size:34 final size:34
Alignment explanation
Indices: 2632595--2632690 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
2632585 ACTAATTTCG
2632595 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
2632629 CGTTGCGATTTTCA-TTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
2632662 CGTTGCTATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
2632691 AGTCAATTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.53
34 25 0.47
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:2632687 original size:20 final size:20
Alignment explanation
Indices: 2632662--2632755 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
2632652 ACGATTCTCT
*
2632662 CGTTGCTATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2632682 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
2632702 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2632722 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
2632742 CGTTGCAATAGTCA
1 CGTTGCGATAGTCA
2632756 AATGATGTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2635194 original size:24 final size:24
Alignment explanation
Indices: 2635160--2635213 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2635150 TCTGAAAATC
2635160 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2635184 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2635208 ATCAAA
1 ATCAAA
2635214 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2635227 original size:24 final size:24
Alignment explanation
Indices: 2635160--2635227 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2635150 TCTGAAAATC
* * *
2635160 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2635184 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2635208 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2635228 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2636080 original size:20 final size:20
Alignment explanation
Indices: 2636060--2636316 Score: 200
Period size: 20 Copynumber: 12.7 Consensus size: 20
2636050 CGATAGTCAG
2636060 AATCTCGTTGCGATTTACAG-
1 AATCTCGTTGCGATTTAC-GT
* * *
2636080 ATTCGCATTGCGATTTACGT
1 AATCTCGTTGCGATTTACGT
* *
2636100 ATTCTCATTGCGATTTACGT
1 AATCTCGTTGCGATTTACGT
*
2636120 AATCGCGTTGCGATTTTACGT
1 AATCTCGTTGCGA-TTTACGT
* *
2636141 ATTGTCGTTGCGATTTACG-
1 AATCTCGTTGCGATTTACGT
* * *
2636160 GATACGCATTGCGATTTACGT
1 AAT-CTCGTTGCGATTTACGT
* *
2636181 ATTCTCGTTGCAATTTACGT
1 AATCTCGTTGCGATTTACGT
*
2636201 ATTCTCGTTGCGATTTACG-
1 AATCTCGTTGCGATTTACGT
* *
2636220 AATACGCATTGCGATTTTACGT
1 AAT-CTCGTTGCGA-TTTACGT
* *
2636242 ATTGTCGTTGCGATTTACGT
1 AATCTCGTTGCGATTTACGT
* *
2636262 ATTGTCGTTGCGATTTACG-
1 AATCTCGTTGCGATTTACGT
* *
2636281 GATACGCGTTGCGATTTTACG-
1 AAT-CTCGTTGCGA-TTTACGT
*
2636302 GATACTCGTTGCGAT
1 AAT-CTCGTTGCGAT
2636317 AGTCAGAATC
Statistics
Matches: 195, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
19 5 0.03
20 138 0.71
21 50 0.26
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
AATCTCGTTGCGATTTACGT
Found at i:2636298 original size:61 final size:60
Alignment explanation
Indices: 2636062--2636316 Score: 334
Period size: 61 Copynumber: 4.2 Consensus size: 60
2636052 ATAGTCAGAA
* * * * *
2636062 TCTCGTTGCGATTTACAG-ATTCG-CATTGCGATTTACGTATTCTCATTGCGATTTACGTAA
1 TCTCGTTGCGATTTAC-GTATT-GTCGTTGCGATTTACGGATACGCATTGCGATTTACGTAT
*
2636122 TCGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGATTTACGTAT
1 TCTCGTTGCGA-TTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGATTTACGTAT
* * *
2636183 TCTCGTTGCAATTTACGTATTCTCGTTGCGATTTACGAATACGCATTGCGATTTTACGTAT
1 TCTCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTAT
* * *
2636244 TGTCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTAT
*
2636305 ACTCGTTGCGAT
1 TCTCGTTGCGAT
2636317 AGTCAGAATC
Statistics
Matches: 173, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
60 50 0.29
61 123 0.71
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (60 bp):
TCTCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGATTTACGTAT
Found at i:2636332 original size:81 final size:81
Alignment explanation
Indices: 2636059--2636358 Score: 297
Period size: 81 Copynumber: 3.7 Consensus size: 81
2636049 GCGATAGTCA
* *
2636059 GAAT-CTCGTTGCGATTT-ACAGATTCGCATTGCGATTTACGTATTCTCATTGCGATTTACGTA-
1 GAATACTCGTTGCGATTTCAC-GAATCGCATTGCGATTTACGTATTCTCGTTGCGATTTACGTAT
2636121 ATCGCGTTGCGATTTTAC
65 A-CGCGTTGCGATTTTAC
* ** * *
2636139 GTATTGTCGTTGCGATTT-ACGGATACGCATTGCGATTTACGTATTCTCGTTGCAATTTACGTAT
1 GAATACTCGTTGCGATTTCACGAAT-CGCATTGCGATTTACGTATTCTCGTTGCGATTTACGTAT
* *
2636203 TCTCGTTGCGA-TTTAC
65 ACGCGTTGCGATTTTAC
* * * * * * * *
2636219 GAATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGAT
1 GAATACTCGTTGCGATTTCACGAATCG-CATTGCGATTTACGTATTCTCGTTGCGATTTACGTAT
2636284 ACGCGTTGCGATTTTAC
65 ACGCGTTGCGATTTTAC
* * * ** * *
2636301 GGATACTCGTTGCGATAGTCA-GAATCGCGTTGCGATTTATATGTTCACGTTGCGATTT
1 GAATACTCGTTGCGAT-TTCACGAATCGCATTGCGATTTACGTATTCTCGTTGCGATTT
2636359 TCAAATTTGC
Statistics
Matches: 180, Mismatches: 33, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
80 24 0.13
81 132 0.73
82 22 0.12
83 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (81 bp):
GAATACTCGTTGCGATTTCACGAATCGCATTGCGATTTACGTATTCTCGTTGCGATTTACGTATA
CGCGTTGCGATTTTAC
Found at i:2639064 original size:29 final size:30
Alignment explanation
Indices: 2639022--2639082 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
2639012 CAAGAAAGAT
* *
2639022 AATTTATGATAATTTATTTAGAC-AAATAA
1 AATTTATGAAAATTTATATAGACAAAATAA
*
2639051 AATTTTTGAAAATTTATATAGACAAAATAA
1 AATTTATGAAAATTTATATAGACAAAATAA
2639081 AA
1 AA
2639083 AATTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (30 bp):
AATTTATGAAAATTTATATAGACAAAATAA
Found at i:2639281 original size:22 final size:22
Alignment explanation
Indices: 2639255--2639311 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
2639245 ATAATCAATT
*
2639255 ATAACAAATTTATTTAGTCACA
1 ATAACAAATTTATTTAGTCAAA
* *
2639277 ATAACATATTAAATTTAGTCAAA
1 ATAACAAATT-TATTTAGTCAAA
2639300 ATAA-AAATTTAT
1 ATAACAAATTTAT
2639312 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.07
22 13 0.45
23 14 0.48
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
ATAACAAATTTATTTAGTCAAA
Found at i:2640859 original size:151 final size:151
Alignment explanation
Indices: 2640585--2640887 Score: 606
Period size: 151 Copynumber: 2.0 Consensus size: 151
2640575 GTTCTATGTC
2640585 TATTTTATTTTGATTTCATTGCATTTGCATCTTCATGTCATCCAAATGTGTTAATTCGCAAGTGA
1 TATTTTATTTTGATTTCATTGCATTTGCATCTTCATGTCATCCAAATGTGTTAATTCGCAAGTGA
2640650 TTGACTAATAAGAAGGCTGGTCATAATGAGACAATAAATTCTTAACCATGTAGTCAAAATCGGGA
66 TTGACTAATAAGAAGGCTGGTCATAATGAGACAATAAATTCTTAACCATGTAGTCAAAATCGGGA
2640715 GATCCAAAGATGTTTAAATCA
131 GATCCAAAGATGTTTAAATCA
2640736 TATTTTATTTTGATTTCATTGCATTTGCATCTTCATGTCATCCAAATGTGTTAATTCGCAAGTGA
1 TATTTTATTTTGATTTCATTGCATTTGCATCTTCATGTCATCCAAATGTGTTAATTCGCAAGTGA
2640801 TTGACTAATAAGAAGGCTGGTCATAATGAGACAATAAATTCTTAACCATGTAGTCAAAATCGGGA
66 TTGACTAATAAGAAGGCTGGTCATAATGAGACAATAAATTCTTAACCATGTAGTCAAAATCGGGA
2640866 GATCCAAAGATGTTTAAATCA
131 GATCCAAAGATGTTTAAATCA
2640887 T
1 T
2640888 CCATGAAGAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 152 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (151 bp):
TATTTTATTTTGATTTCATTGCATTTGCATCTTCATGTCATCCAAATGTGTTAATTCGCAAGTGA
TTGACTAATAAGAAGGCTGGTCATAATGAGACAATAAATTCTTAACCATGTAGTCAAAATCGGGA
GATCCAAAGATGTTTAAATCA
Found at i:2642064 original size:20 final size:20
Alignment explanation
Indices: 2642036--2642074 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2642026 CTTCCACTTG
*
2642036 GGGGCATTG-AGGCATTCTAC
1 GGGGAATTGTAGGC-TTCTAC
2642056 GGGGAATTGTAGGCTTCTA
1 GGGGAATTGTAGGCTTCTA
2642075 TTAAAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (20 bp):
GGGGAATTGTAGGCTTCTAC
Found at i:2645179 original size:37 final size:37
Alignment explanation
Indices: 2645125--2645237 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
2645115 TCGACCTTCA
2645125 AAGCAAATCAATCTTAAGCCTTCACGAAAGAGTAGTG
1 AAGCAAATCAATCTTAAGCCTTCACGAAAGAGTAGTG
* *
2645162 AAGTAAATCAATCTTAAGCCTTCA-TAGAAGAGTAGTG
1 AAGCAAATCAATCTTAAGCCTTCACGA-AAGAGTAGTG
* * *
2645199 AAACAAATC-ATCTTAAGTCTTCACGGAAGAGTAGTG
1 AAGCAAATCAATCTTAAGCCTTCACGAAAGAGTAGTG
2645235 AAG
1 AAG
2645238 ATTATTCGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
36 26 0.39
37 40 0.61
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (37 bp):
AAGCAAATCAATCTTAAGCCTTCACGAAAGAGTAGTG
Found at i:2645326 original size:55 final size:55
Alignment explanation
Indices: 2645233--2645743 Score: 639
Period size: 55 Copynumber: 9.3 Consensus size: 55
2645223 GGAAGAGTAG
* ** *
2645233 TGAAGATTATTCGAGTCCTATACTCCCTGAAAGAATAGGGAGTAGACACGTTTGT
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * * *
2645288 TGAGGATTGTTCGAGTCCTATACTCCCTAAAAGAATAGGGAGCAGACACATTTGC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * ** *
2645343 TAAAGATTGTTCGAGTCCTATACTCCCTGAAAAAATAGGGAGCATACATGTTTGC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * *
2645398 TGAATATTGTTCGAATCCTATACTCCCTGAAAGAATAGGGAGCGGATACGTTTGC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * * *
2645453 TGAAGATTGTTCGAGTCATATACTCTCTGAAAGAATAGGGAGCGGAAATGTTTGC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * * *
2645508 TGAAGATTGTTCGAGTCCTATACTCTCTGAAAGAATAGGGAGCGAATACGTTTGT
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * *
2645563 TGAAGATTGTTCAAGTCCTAAACTCCCTGAAAGAATAGGGAGCGGACACGTTTGT
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * * * *
2645618 TGAATATTGTTCGAGTCCTATACTCCCTAAAAGAATAGGAAG-GGACCCGTTT-T
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * * * *
2645671 TCGAAGATTGTTCGAGTCCCATATTCCCTAAAAGAATAGGGAGCGAACACGTTTTC
1 T-GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
* * *
2645727 CGAAGATTTTTCAAGTC
1 TGAAGATTGTTCGAGTC
2645744 TCACAGAGTA
Statistics
Matches: 400, Mismatches: 53, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.00
54 46 0.12
55 352 0.88
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTGC
Found at i:2653336 original size:19 final size:20
Alignment explanation
Indices: 2653305--2653342 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2653295 ATAAAAAATG
2653305 AAAAAAAGAAGAAA-AGTTC
1 AAAAAAAGAAGAAAGAGTTC
2653324 AAAAAAA-ATAGAAAGAGTT
1 AAAAAAAGA-AGAAAGAGTT
2653343 TATCCTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 12 0.71
20 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAAAAAGAAGAAAGAGTTC
Found at i:2659661 original size:47 final size:49
Alignment explanation
Indices: 2659592--2659695 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 49
2659582 ACATTGTGTT
*
2659592 TTATTAAATATATTCATAG-AAAAAAG-TTT-ACTTATTTAATTTAATAG
1 TTATTAAATATATTCATAGAAAAAAAGTTTTGA-ATATTTAATTTAATAG
*
2659639 TTATTAAATATATTCATAGAAAAAAAGTTTTGGAATGTTTAATTTAATAG
1 TTATTAAATATATTCATAGAAAAAAAGTTTT-GAATATTTAATTTAATAG
2659689 TTATTAA
1 TTATTAA
2659696 TTGATATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
47 19 0.37
48 7 0.14
49 3 0.06
50 21 0.41
51 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (49 bp):
TTATTAAATATATTCATAGAAAAAAAGTTTTGAATATTTAATTTAATAG
Found at i:2661931 original size:38 final size:38
Alignment explanation
Indices: 2661880--2662046 Score: 236
Period size: 38 Copynumber: 4.5 Consensus size: 38
2661870 ATTTAAATGA
2661880 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
1 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
2661918 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
1 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
* * * *
2661956 TAAACGAACATAAACGAACACAA-ATGAAC-AA---ACG
1 TAAACGAACACAAATGAACA-AACATAAACGAACGGATG
2661990 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
1 TAAACGAACACAAATGAACAAACATAAACGAACGGATG
* *
2662028 TAAACGAACATAAACGAAC
1 TAAACGAACACAAATGAAC
2662047 GTAAACGAAC
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.02
34 25 0.22
35 2 0.02
37 2 0.02
38 80 0.71
39 2 0.02
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.10
Consensus pattern (38 bp):
TAAACGAACACAAATGAACAAACATAAACGAACGGATG
Found at i:2661945 original size:24 final size:24
Alignment explanation
Indices: 2661918--2662022 Score: 147
Period size: 24 Copynumber: 4.4 Consensus size: 24
2661908 CGAACGGATG
2661918 TAAACGAACACAAATGAACAAACA
1 TAAACGAACACAAATGAACAAACA
** ** * *
2661942 TAAACGAACGGATGTAAACGAACA
1 TAAACGAACACAAATGAACAAACA
*
2661966 TAAACGAACACAAATGAACAAACG
1 TAAACGAACACAAATGAACAAACA
2661990 TAAACGAACACAAATGAACAAACA
1 TAAACGAACACAAATGAACAAACA
2662014 TAAACGAAC
1 TAAACGAAC
2662023 GGATGTAAAC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (24 bp):
TAAACGAACACAAATGAACAAACA
Found at i:2661969 original size:10 final size:10
Alignment explanation
Indices: 2661956--2662098 Score: 80
Period size: 10 Copynumber: 13.8 Consensus size: 10
2661946 CGAACGGATG
2661956 TAAACGAACA
1 TAAACGAACA
2661966 TAAACGAACA
1 TAAACGAACA
* *
2661976 CAAATGAAC-
1 TAAACGAACA
2661985 -AAACGTAAACGA
1 TAAACG--AAC-A
*
2661997 -ACAC-AA-A
1 TAAACGAACA
* *
2662004 TGAACAAACA
1 TAAACGAACA
2662014 TAAACGAACGGA
1 TAAACGAAC--A
2662026 TGTAAACGAACA
1 --TAAACGAACA
*
2662038 TAAACGAACG
1 TAAACGAACA
2662048 TAAACGAACACAA
1 TAAACG-A-AC-A
*
2662061 TAAATGAACA
1 TAAACGAACA
* *
2662071 TAAATGAACG
1 TAAACGAACA
2662081 TAAACGAACA
1 TAAACGAACA
2662091 TAAACGAA
1 TAAACGAA
2662099 AATAGATTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
7 1 0.01
8 6 0.06
9 4 0.04
10 69 0.66
11 3 0.03
12 8 0.08
13 5 0.05
14 9 0.09
ACGTcount: A:0.57, C:0.18, G:0.13, T:0.11
Consensus pattern (10 bp):
TAAACGAACA
Found at i:2662037 original size:24 final size:24
Alignment explanation
Indices: 2661918--2662047 Score: 125
Period size: 24 Copynumber: 5.4 Consensus size: 24
2661908 CGAACGGATG
* *
2661918 TAAACGAACACAAATGAACAAACA
1 TAAACGAACGCAAATAAACAAACA
* ** *
2661942 TAAACGAACGGATGTAAACGAACA
1 TAAACGAACGCAAATAAACAAACA
* * *
2661966 TAAACGAACACAAATGAACAAACG
1 TAAACGAACGCAAATAAACAAACA
* *
2661990 TAAACGAACACAAATGAACAAACA
1 TAAACGAACGCAAATAAACAAACA
* ** *
2662014 TAAACGAACGGATGTAAACGAACA
1 TAAACGAACGCAAATAAACAAACA
2662038 TAAACGAACG
1 TAAACGAACG
2662048 TAAACGAACA
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 86 1.00
ACGTcount: A:0.56, C:0.19, G:0.15, T:0.10
Consensus pattern (24 bp):
TAAACGAACGCAAATAAACAAACA
Found at i:2662057 original size:72 final size:72
Alignment explanation
Indices: 2661917--2662079 Score: 258
Period size: 72 Copynumber: 2.3 Consensus size: 72
2661907 ACGAACGGAT
*
2661917 GTAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACGAACATAAACGAACACAAATG
1 GTAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACGAACATAAACGAACACAAACG
2661982 AACA-AA
66 AACACAA
**
2661988 CGTAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACGAACATAAACGAACGTAAAC
1 -GTAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACGAACATAAACGAACACAAAC
2662053 GAACACAA
65 GAACACAA
* *
2662061 -TAAATGAACATAAATGAAC
1 GTAAACGAACACAAATGAAC
2662080 GTAAACGAAC
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
71 17 0.20
72 66 0.78
73 2 0.02
ACGTcount: A:0.56, C:0.18, G:0.14, T:0.11
Consensus pattern (72 bp):
GTAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACGAACATAAACGAACACAAACG
AACACAA
Found at i:2662074 original size:33 final size:33
Alignment explanation
Indices: 2662028--2662090 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2662018 CGAACGGATG
2662028 TAAACGAACATAAACGAACGTAAACGAACACAA
1 TAAACGAACATAAACGAACGTAAACGAACACAA
* *
2662061 TAAATGAACATAAATGAACGTAAACGAACA
1 TAAACGAACATAAACGAACGTAAACGAACA
2662091 TAAACGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (33 bp):
TAAACGAACATAAACGAACGTAAACGAACACAA
Found at i:2662286 original size:14 final size:14
Alignment explanation
Indices: 2662266--2662341 Score: 107
Period size: 14 Copynumber: 5.4 Consensus size: 14
2662256 GATTGGGCTA
2662266 AACATAAATGAACG
1 AACATAAATGAACG
* *
2662280 CACATAAACGAACG
1 AACATAAATGAACG
2662294 AACATAAATGAACG
1 AACATAAATGAACG
* *
2662308 CACATAAACGAACG
1 AACATAAATGAACG
*
2662322 AACATAAATGAACA
1 AACATAAATGAACG
2662336 AACATA
1 AACATA
2662342 TTACCGAACG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 53 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.12
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2662341 original size:28 final size:28
Alignment explanation
Indices: 2662266--2662334 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
2662256 GATTGGGCTA
2662266 AACATAAATGAACGCACATAAACGAACG
1 AACATAAATGAACGCACATAAACGAACG
2662294 AACATAAATGAACGCACATAAACGAACG
1 AACATAAATGAACGCACATAAACGAACG
2662322 AACATAAATGAAC
1 AACATAAATGAAC
2662335 AAACATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.55, C:0.20, G:0.13, T:0.12
Consensus pattern (28 bp):
AACATAAATGAACGCACATAAACGAACG
Found at i:2666468 original size:27 final size:27
Alignment explanation
Indices: 2666418--2666536 Score: 92
Period size: 27 Copynumber: 4.5 Consensus size: 27
2666408 TTAAATTCAT
2666418 AATA-ATTTTATATATTAAC-T-TTAAGA
1 AATATATTTTAT-TATTAACTTATTAA-A
* *
2666444 AATATA-TTTCTTATTCACTTATTAAA
1 AATATATTTTATTATTAACTTATTAAA
*
2666470 TATATATTTTATTATTAACTTATTTTAAA
1 AATATATTTTATTATTAACTTA--TTAAA
*
2666499 AATATTTTTTATT-TTAA--T-TTAAA
1 AATATATTTTATTATTAACTTATTAAA
2666522 AATATAAATTTTATT
1 AATAT--ATTTTATT
2666537 CTTATATGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
23 10 0.13
25 13 0.17
26 16 0.21
27 18 0.23
28 4 0.05
29 16 0.21
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (27 bp):
AATATATTTTATTATTAACTTATTAAA
Found at i:2666583 original size:87 final size:87
Alignment explanation
Indices: 2666492--2666674 Score: 203
Period size: 88 Copynumber: 2.1 Consensus size: 87
2666482 TATTAACTTA
* * * * * *
2666492 TTTTAAAA-ATATTTTTTATTTTAATTTA-AAAATATAAATTTTATTCTTATATGAAATT-TTAA
1 TTTTAAAATAAATATTTTATCTTAATTTACAAAATAT-AATTATACTATTATATGAAATTATT--
2666554 AAATATAGTTTATTAGTATTTTAAC
63 AAATATAGTTTATTAGTATTTTAAC
* * *
2666579 TTTTAAAATAAATATTTTATCTTAATTTACTAAATATAATTATACTATTATTTTAAATTATTAAA
1 TTTTAAAATAAATATTTTATCTTAATTTACAAAATATAATTATACTATTATATGAAATTATTAAA
* **
2666644 TATATTTTATTCTTATTTTAAC
66 TATAGTTTATTAGTATTTTAAC
2666666 -TTTAAAATA
1 TTTTAAAATA
2666675 TCTTAACATA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
86 9 0.11
87 30 0.37
88 34 0.42
89 8 0.10
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (87 bp):
TTTTAAAATAAATATTTTATCTTAATTTACAAAATATAATTATACTATTATATGAAATTATTAAA
TATAGTTTATTAGTATTTTAAC
Found at i:2666606 original size:56 final size:56
Alignment explanation
Indices: 2666546--2666664 Score: 122
Period size: 56 Copynumber: 2.1 Consensus size: 56
2666536 TCTTATATGA
* * *
2666546 AATTTTAAAAATATAGTT-TATTAGTATTTTAACTT-TTAAAATAAATATTTTA-TCTT
1 AATTTTAAAAATATAATTATACTAGTATTTTAAATTATT-AAAT--ATATTTTATTCTT
* *
2666602 AA-TTTACTAAATATAATTATACTATTATTTTAAATTATTAAATATATTTTATTCTT
1 AATTTTA-AAAATATAATTATACTAGTATTTTAAATTATTAAATATATTTTATTCTT
2666658 -ATTTTAA
1 AATTTTAA
2666665 CTTTAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
55 13 0.25
56 19 0.37
57 18 0.35
58 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (56 bp):
AATTTTAAAAATATAATTATACTAGTATTTTAAATTATTAAATATATTTTATTCTT
Found at i:2666644 original size:31 final size:30
Alignment explanation
Indices: 2666595--2666664 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
2666585 AATAAATATT
* *
2666595 TTATCTTAATTTACTAAATATAATTATACTA
1 TTATTTTAAATTACTAAATAT-ATTATACTA
* * * *
2666626 TTATTTTAAATTATTAAATATATTTTATTC
1 TTATTTTAAATTACTAAATATATTATACTA
2666656 TTATTTTAA
1 TTATTTTAA
2666665 CTTTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
TTATTTTAAATTACTAAATATATTATACTA
Found at i:2666778 original size:24 final size:23
Alignment explanation
Indices: 2666734--2666805 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 23
2666724 TAAATTAAAT
* *
2666734 TAAGCTAATAATAAAATATATTTAA
1 TAAGTTAAT-ATAAAAAATATTT-A
*
2666759 TAAGTTAATATAAAAAATATTTT
1 TAAGTTAATATAAAAAATATTTA
2666782 TAAAGTTAATATATATAAAATATT
1 T-AAGTTAATATA-A-AAAATATT
2666806 ATGAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 23 0.56
25 9 0.22
26 8 0.20
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAGTTAATATAAAAAATATTTA
Done.