Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 62
Found at i:3347720 original size:18 final size:18
Alignment explanation
Indices: 3347699--3347952 Score: 87
Period size: 18 Copynumber: 14.2 Consensus size: 18
3347689 ATATAGTTTT
3347699 TATATATAGTATATATAA
1 TATATATAGTATATATAA
* *
3347717 TATAAATAGTTTAT-TAA
1 TATATATAGTATATATAA
*
3347734 T-TA-AT-GTAT-T-CAA
1 TATATATAGTATATATAA
*
3347747 -CTATATAGTAT-TGATACA
1 TATATATAGTATAT-ATA-A
3347765 TATA-ATA-TATACT-TGGAA
1 TATATATAGTATA-TAT--AA
* * *
3347783 TTTATATAGTATAAATTA
1 TATATATAGTATATATAA
*
3347801 TATTTATAGTATATA-AA
1 TATATATAGTATATATAA
*
3347818 TATCAACTATAGTATATAGTTTA
1 TAT--A-TATAGTATATA--TAA
* * *
3347841 TATATAAACTATAGT-TTA
1 TATATATAGTATA-TATAA
*
3347859 TAT-TATAGTTCATATGTAAA
1 TATATATAG-T-ATATAT-AA
*
3347879 CTATACTATATAGTATATATAT
1 -TATA-T--ATAGTATATATAA
3347901 TATATATA-TATATAT-A
1 TATATATAGTATATATAA
3347917 TATATATA-TATATAT-A
1 TATATATAGTATATATAA
3347933 TATATATAGTATATA-AA
1 TATATATAGTATATATAA
3347950 TAT
1 TAT
3347953 CAACTATATA
Statistics
Matches: 181, Mismatches: 23, Indels: 65
0.67 0.09 0.24
Matches are distributed among these distances:
13 5 0.03
14 5 0.03
15 7 0.04
16 26 0.14
17 33 0.18
18 44 0.24
19 11 0.06
20 25 0.14
21 9 0.05
22 1 0.01
23 10 0.06
24 1 0.01
25 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (18 bp):
TATATATAGTATATATAA
Found at i:3347720 original size:31 final size:33
Alignment explanation
Indices: 3347621--3347730 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 33
3347611 TAATAAATTA
* ** *
3347621 ATATATAGCTTATATATATTAATGAACTATATA-
1 ATATATAGTTTATATATA-CCATGTACTATATAT
*
3347654 ATATATAGTTTATATATACCATGTACTTTATAT
1 ATATATAGTTTATATATACCATGTACTATATAT
* *
3347687 ATATATAGTTTTTATATA-TA-GTA-TATATAAT
1 ATATATAGTTTATATATACCATGTACTATAT-AT
*
3347718 ATAAATAGTTTAT
1 ATATATAGTTTAT
3347731 TAATTAATGT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
30 4 0.06
31 16 0.25
32 11 0.17
33 34 0.52
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (33 bp):
ATATATAGTTTATATATACCATGTACTATATAT
Found at i:3347833 original size:25 final size:25
Alignment explanation
Indices: 3347812--3347970 Score: 71
Period size: 25 Copynumber: 6.2 Consensus size: 25
3347802 ATTTATAGTA
*
3347812 TATAAATATCAACTATAGTATATAG
1 TATAAATATAAACTATAGTATATAG
* * * *
3347837 TTTATATATAAACTATAGTTTATAT
1 TATAAATATAAACTATAGTATATAG
* *
3347862 TATAGTTCATATGTAAACTATACTATATAG
1 TATA----A-ATATAAACTATAGTATATAG
3347892 TATATATATTATATATA-TATA-TATATA-
1 TATA-A-A-TATA-A-ACTATAGTATATAG
* *
3347919 TATATATATATA-TATA-TATATAG
1 TATAAATATAAACTATAGTATATAG
*
3347942 TATATAAATATCAACTATA-TATATA-
1 --TATAAATATAAACTATAGTATATAG
3347967 TATA
1 TATA
3347971 GTGTATACTA
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
22 11 0.11
23 4 0.04
24 4 0.04
25 33 0.32
26 10 0.10
27 7 0.07
28 9 0.09
29 5 0.05
30 21 0.20
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (25 bp):
TATAAATATAAACTATAGTATATAG
Found at i:3347926 original size:22 final size:22
Alignment explanation
Indices: 3347880--3348472 Score: 127
Period size: 22 Copynumber: 26.5 Consensus size: 22
3347870 ATATGTAAAC
3347880 TATACTATATAGTATATATAT-TA
1 TATA-TATATA-TATATATATATA
3347903 TATATATATATATATATATATA
1 TATATATATATATATATATATA
3347925 TATATATATATATATAGTATATA
1 TATATATATATATATA-TATATA
*
3347948 AATATCA-ACTATATATATATATA
1 TATAT-ATA-TATATATATATATA
* * *
3347971 GTGTATACTATATAAATAGATA-A
1 -TATATA-TATATATATATATATA
* *
3347994 TAT-TGT-TCATATGTA-ATA-A
1 TATATATAT-ATATATATATATA
* * *
3348013 TGTAAACTACATATAT-TATATA
1 TATATA-TATATATATATATATA
* *
3348035 GTATATAAATATCA-ACTAT-TAAA
1 -TATATATATAT-ATA-TATATATA
* *
3348058 TATAGTTTATATATAAAT-TATA
1 TATA-TATATATATATATATATA
* * *
3348080 GTTTATTTATATATATATAGT-TT
1 -TATATATATATATATATA-TATA
* *
3348103 TATATATAGT-TCATATGTAAACTA
1 TATATATA-TAT-ATATATATA-TA
3348127 TATATAGTCA-ATA-AT-TCATATA
1 TATATA-T-ATATATATAT-ATATA
* * *
3348149 TAAACTATATAGT-TATAGATGGTA
1 TATA-TATATA-TATATATAT-ATA
* *
3348173 TATATAGTTTATACATA-ATATA
1 TATATA-TATATATATATATATA
*
3348195 TATAGTTTATATATACTATATA-A
1 TATA-TATATATATA-TATATATA
* * *
3348218 TA-ATACAAATATACACTATATA
1 TATATATATATATATA-TATATA
*
3348240 -ATTTATATATATA-ATATATA
1 TATATATATATATATATATATA
* *
3348260 TATACTTTATATATAAACTATATA
1 TATA-TATATATATATA-TATATA
* * *
3348284 GTTTGTAT-TA-ATATAGTTTATA
1 -TATATATATATATATA-TATATA
* *
3348306 CATA-ATATATATATATGTA-A
1 TATATATATATATATATATATA
* * * *
3348326 TATAAATATAAACCATATAGTTTA
1 TATATATATATA-TATATA-TATA
*
3348350 TATATATA-ATATATTTATATA
1 TATATATATATATATATATATA
* * *
3348371 AAAACTATATAGTTTATAT-TA-A
1 TATA-TATATA-TATATATATATA
* * *
3348393 TAAACTATATAGTTTATACATA-A
1 TATA-TATATA-TATATATATATA
3348416 TATATATAGT-TCATATATAGTATA
1 TATATATA-TAT-ATATATA-TATA
* * * *
3348440 TAAATAAAAAT-TATATAGTTTA
1 TATATATATATATATATA-TATA
3348462 TATATAT-TATA
1 TATATATATATA
3348473 ATTGTTTCAA
Statistics
Matches: 418, Mismatches: 87, Indels: 131
0.66 0.14 0.21
Matches are distributed among these distances:
19 7 0.02
20 19 0.05
21 55 0.13
22 167 0.40
23 89 0.21
24 75 0.18
25 5 0.01
26 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATATATATATATATATA
Found at i:3348104 original size:20 final size:19
Alignment explanation
Indices: 3348057--3348434 Score: 155
Period size: 20 Copynumber: 18.8 Consensus size: 19
3348047 CAACTATTAA
3348057 ATATAGTTTATATATAAAT
1 ATATAGTTTATATATAAAT
* *
3348076 -TATAGTTTATTTATATAT
1 ATATAGTTTATATATAAAT
**
3348094 ATATAGTTTTATATATAGTT
1 ATATAG-TTTATATATAAAT
** *
3348114 CATAT-GTAAACTATATATAGT
1 -ATATAGTTTA-TATATA-AAT
* *
3348135 CA-ATAATTCATATATAAACT
1 -ATATAGTTTATATATAAA-T
* **
3348155 ATATAG-TTATAGATGGTAT
1 ATATAGTTTATATAT-AAAT
*
3348174 ATATAGTTTATACATAATAT
1 ATATAGTTTATATATAA-AT
*
3348194 ATATAGTTTATATATACTAT
1 ATATAGTTTATATATA-AAT
* ** * *
3348214 ATAATAATACAAATATACACT
1 AT-ATAGTTTATATATA-AAT
*
3348235 ATATAATTTATATATATAATATAT
1 ATAT-AGTT-TATATAT-A-A-AT
*
3348259 ATATACTTTATATATAAACT
1 ATATAGTTTATATATAAA-T
*
3348279 ATATAGTTTGTAT-T--A-
1 ATATAGTTTATATATAAAT
*
3348294 ATATAGTTTATACATAATATAT
1 ATATAGTTTAT--AT-ATAAAT
* *
3348316 ATATATGTAATATAAATATAAACC
1 ATATA-GT--T-TATATATAAA-T
*
3348340 ATATAGTTTATATATATA-
1 ATATAGTTTATATATAAAT
*
3348358 ATATA-TTTATATAAAAACT
1 ATATAGTTTATATATAAA-T
3348377 ATATAGTTTATATTAATAAACT
1 ATATAGTTTATA-T-ATAAA-T
*
3348399 ATATAGTTTATACATAATAT
1 ATATAGTTTATATATAA-AT
*
3348419 ATATAGTTCATATATA
1 ATATAGTTTATATATA
3348435 GTATATAAAT
Statistics
Matches: 273, Mismatches: 50, Indels: 71
0.69 0.13 0.18
Matches are distributed among these distances:
15 10 0.04
17 13 0.05
18 21 0.08
19 30 0.11
20 106 0.39
21 30 0.11
22 35 0.13
23 13 0.05
24 12 0.04
25 1 0.00
26 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATAGTTTATATATAAAT
Found at i:3348214 original size:9 final size:8
Alignment explanation
Indices: 3348171--3348370 Score: 69
Period size: 9 Copynumber: 25.0 Consensus size: 8
3348161 TTATAGATGG
3348171 TATATATA
1 TATATATA
* *
3348179 GTTTATACA
1 -TATATATA
3348188 TA-ATATA
1 TATATATA
*
3348195 TATAGTTTA
1 TATA-TATA
3348204 TATATACTA
1 TATATA-TA
3348213 TATA-ATA
1 TATATATA
* *
3348220 -ATACAAA
1 TATATATA
*
3348227 TATACACTA
1 TATATA-TA
*
3348236 TATA-ATT
1 TATATATA
3348243 TATATATA
1 TATATATA
3348251 TA-ATATA
1 TATATATA
*
3348258 TATATACTT
1 TATATA-TA
3348267 TATATATA
1 TATATATA
*
3348275 AACTATATA
1 TA-TATATA
* *
3348284 GTTTGTAT-
1 -TATATATA
3348292 TA-ATATA
1 TATATATA
* *
3348299 GTTTATACA
1 -TATATATA
3348308 TA-ATATA
1 TATATATA
*
3348315 TATATATG
1 TATATATA
3348323 TA-ATATA
1 TATATATA
* *
3348330 AATATAAA
1 TATATATA
* *
3348338 CCATATAGTT
1 -TATATA-TA
3348348 TATATATA
1 TATATATA
3348356 TA-ATATA
1 TATATATA
*
3348363 TTTATATA
1 TATATATA
3348371 AAAACTATAT
Statistics
Matches: 140, Mismatches: 32, Indels: 39
0.66 0.15 0.18
Matches are distributed among these distances:
6 6 0.04
7 40 0.29
8 39 0.28
9 55 0.39
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:3348216 original size:11 final size:11
Alignment explanation
Indices: 3348190--3348274 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
3348180 TTTATACATA
*
3348190 ATATATATAGT
1 ATATATATACT
*
3348201 TTATATATACT
1 ATATATATACT
3348212 ATATAATAATAC-
1 ATAT-AT-ATACT
* *
3348224 AAATATACACT
1 ATATATATACT
*
3348235 ATATA-AT-TT
1 ATATATATACT
*
3348244 ATATATATAAT
1 ATATATATACT
3348255 ATATATATACT
1 ATATATATACT
*
3348266 TTATATATA
1 ATATATATA
3348275 AACTATATAG
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
9 6 0.10
10 6 0.10
11 37 0.64
12 5 0.09
13 4 0.07
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (11 bp):
ATATATATACT
Found at i:3348318 original size:59 final size:58
Alignment explanation
Indices: 3348235--3348472 Score: 160
Period size: 59 Copynumber: 4.1 Consensus size: 58
3348225 AATATACACT
* *
3348235 ATATAATTTAT-ATATATAATATATATATACTTTATATATAAACTATATAGTTTGTAT-TA
1 ATAT-ATTTATAATA-AT-ATATATATATAATTTATATATAAACTATATAGTTTATATATA
* * *
3348294 ATATAGTTTATACATAATATATATATATGTAATATAAATATAAACCATATAGTTTATATATATA
1 ATATA-TTTATA-ATAATATATATATA--TAATTTATATATAAACTATATAG-TT-TATATATA
* *
3348358 ATATATTTAT-ATAA-A-A-ACTATATAGTTTATATTAATAAACTATATAGTTTATACATA
1 ATATATTTATAATAATATATA-TATATAATTTATA-T-ATAAACTATATAGTTTATATATA
* * *
3348415 ATATA--TATAGTTCATATATAGTATATAA---ATA-A-AAATTATATAGTTTATATATA
1 ATATATTTATA-ATAATATATA-TATATAATTTATATATAAACTATATAGTTTATATATA
*
3348468 TTATA
1 ATATA
3348473 ATTGTTTCAA
Statistics
Matches: 146, Mismatches: 17, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
53 23 0.16
54 1 0.01
55 3 0.02
57 23 0.16
58 6 0.04
59 36 0.25
60 10 0.07
61 26 0.18
62 2 0.01
63 9 0.06
64 7 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (58 bp):
ATATATTTATAATAATATATATATATAATTTATATATAAACTATATAGTTTATATATA
Found at i:3348381 original size:2 final size:2
Alignment explanation
Indices: 3347880--3348370 Score: 127
Period size: 2 Copynumber: 242.0 Consensus size: 2
3347870 ATATGTAAAC
3347880 TA TA CTA TA TA GTA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3347923 TA TA TA TA TA TA TA TA TA GTA TA TA AA TA TCA -A CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA
* * * *
3347965 TA TA TA GTG TA TA CTA TA TA AA TA GA TA -A TA T- TG T- TCA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * * *
3348005 TG TA -A TA -A TG TA AA CTA CA TA TA T- TA TA TA GTA TA TA AA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
3348046 TCA -A CTA T- TA AA TA TA GTT TA TA TA TA AA T- TA TA GTT TA TT
1 T-A TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
3348087 TA TA TA TA TA TA GT- TT TA TA TA TA GT- TCA TA TG TA AA CTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA
* * *
3348129 TA TA GTCA -A TA -A T- TCA TA TA TA AA CTA TA TA GT- TA TA GA TGG
1 TA TA -T-A TA TA TA TA T-A TA TA TA TA -TA TA TA -TA TA TA TA T-A
* * *
3348171 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA GTT TA TA TA TA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * *
3348213 TA TA -A TA -A TA CA AA TA TA CA CTA TA TA -A TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
3348253 -A TA TA TA TA TA CTT TA TA TA TA AA CTA TA TA GTT TG TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * * *
3348294 -A TA TA GTT TA TA CA TA -A TA TA TA TA TA TG TA -A TA TA AA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3348334 TA AA CCA TA TA GTT TA TA TA TA TA -A TA TA TT TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
3348371 AAAACTATAT
Statistics
Matches: 354, Mismatches: 74, Indels: 122
0.64 0.13 0.22
Matches are distributed among these distances:
1 27 0.08
2 287 0.81
3 39 0.11
4 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:3348439 original size:20 final size:20
Alignment explanation
Indices: 3348398--3348441 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3348388 ATTAATAAAC
*
3348398 TATATAGTTTATACATAATA
1 TATATAGTTCATACATAATA
* *
3348418 TATATAGTTCATATATAGTA
1 TATATAGTTCATACATAATA
3348438 TATA
1 TATA
3348442 AATAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
TATATAGTTCATACATAATA
Found at i:3349288 original size:26 final size:26
Alignment explanation
Indices: 3349257--3349318 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
3349247 AAGCATCAAA
3349257 TTTACCTGACTTAACCTATATCCGAT
1 TTTACCTGACTTAACCTATATCCGAT
*
3349283 TTTACCTGACTTGACCTATATCCGAT
1 TTTACCTGACTTAACCTATATCCGAT
3349309 TTTACCTGAC
1 TTTACCTGAC
3349319 ATTACATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (26 bp):
TTTACCTGACTTAACCTATATCCGAT
Found at i:3349568 original size:115 final size:115
Alignment explanation
Indices: 3349377--3349613 Score: 474
Period size: 115 Copynumber: 2.1 Consensus size: 115
3349367 TAATCGGAGG
3349377 CTGCTCACTTGAGAACCTAGGAAAGTGAGAGAGAGAATGCAATGTTCTTGAGATGAAAGTTTGTT
1 CTGCTCACTTGAGAACCTAGGAAAGTGAGAGAGAGAATGCAATGTTCTTGAGATGAAAGTTTGTT
3349442 AATATTTTTTTGACCCTGAAGCTTTTTAAATATTCTTCACCTTTCTTAGA
66 AATATTTTTTTGACCCTGAAGCTTTTTAAATATTCTTCACCTTTCTTAGA
3349492 CTGCTCACTTGAGAACCTAGGAAAGTGAGAGAGAGAATGCAATGTTCTTGAGATGAAAGTTTGTT
1 CTGCTCACTTGAGAACCTAGGAAAGTGAGAGAGAGAATGCAATGTTCTTGAGATGAAAGTTTGTT
3349557 AATATTTTTTTGACCCTGAAGCTTTTTAAATATTCTTCACCTTTCTTAGA
66 AATATTTTTTTGACCCTGAAGCTTTTTAAATATTCTTCACCTTTCTTAGA
3349607 CTGCTCA
1 CTGCTCA
3349614 GCCATTTTTT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 122 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (115 bp):
CTGCTCACTTGAGAACCTAGGAAAGTGAGAGAGAGAATGCAATGTTCTTGAGATGAAAGTTTGTT
AATATTTTTTTGACCCTGAAGCTTTTTAAATATTCTTCACCTTTCTTAGA
Found at i:3359013 original size:220 final size:220
Alignment explanation
Indices: 3358604--3359309 Score: 970
Period size: 220 Copynumber: 3.2 Consensus size: 220
3358594 AGGAGAAGTT
* * * * *
3358604 ACAATCAGACTTCCTCAATGTGAAGGAACAGTGTAGTCTCTAAATTATCTCTTGATTGACCCGAT
1 ACAATCAGACTTCCTCAACGCGAAGGAACAGTGTTGTCTCCAAATTATCTCCTGATTGACCCGAT
*
3358669 ATCCTCAACACGAAGGAACAACGTCATCTTCAACAAATAATTTACCTGAAAACGACCAGATCTCT
66 TTCCTCAACACGAAGGAACAACGTCATCTTCAACAAATAATTTACCTGAAAACGACCAGATCTCT
* * * * *
3358734 TCAACACGGATAAGCAGTGTTGTCTTCAACATCAAATTATCTCCGGGTTGACTCGATCTCCTCAA
131 TCAACACGGATGAGCAATGTCGTCTTCAACATCAAATTATCTCCAGGTTGACCCGATCTCCTCAA
*
3358799 CGCAAAGGAGTAGTGTCATCCTCAG
196 CGCAAAGGAGTAGTGTCATTCTCAG
* * * * *
3358824 ACAATTAGACTTACTCAACGCGAAGGAACAATGTTGTCTCCAAAGTATCTCCTGATTGACCCAAT
1 ACAATCAGACTTCCTCAACGCGAAGGAACAGTGTTGTCTCCAAATTATCTCCTGATTGACCCGAT
* * *
3358889 TTTCTCAACACGAATGAACAACGTCATCTTCAACAAATAGTTTACCTGAAAACGACCAGATCTCT
66 TTCCTCAACACGAAGGAACAACGTCATCTTCAACAAATAATTTACCTGAAAACGACCAGATCTCT
* *
3358954 TCAAGACGGATGAGCAATATCGTCTTCAACATCAAATTATCTCCAGGTTGACCCGATCTCCTCAA
131 TCAACACGGATGAGCAATGTCGTCTTCAACATCAAATTATCTCCAGGTTGACCCGATCTCCTCAA
* * *
3359019 CACAAAAGAGCT-GTGTTATTCTCAG
196 CGCAAAGGAG-TAGTGTCATTCTCAG
* *
3359044 ACAATCAGACTTCCTCAACGCGAAGGAACAGTGTTTTCTCCAAATTATCTCCTGATTGACCCGAC
1 ACAATCAGACTTCCTCAACGCGAAGGAACAGTGTTGTCTCCAAATTATCTCCTGATTGACCCGAT
* * * * *
3359109 TTCCTCAATGA-GAAGGAACATCGTCATCTTCAACAAACAATTTATCTAAAAACGACCAGATCTC
66 TTCCTCAA-CACGAAGGAACAACGTCATCTTCAACAAATAATTTACCTGAAAACGACCAGATCTC
* * * *
3359173 TTCAACACAGATGAGCAGA-GTCGTCTTTAATATCAAATTATCTCCAGATTGACCCGATCTCCTC
130 TTCAACACGGATGAGCA-ATGTCGTCTTCAACATCAAATTATCTCCAGGTTGACCCGATCTCCTC
* * * *
3359237 AACGCGAAGGAGCACTGTCATTCTCCG
194 AACGCAAAGGAGTAGTGTCATTCTCAG
* *
3359264 ACAATCAAACTTCCTCAATGCGAAGGAATC-GTGTTGTCTCCAAATT
1 ACAATCAGACTTCCTCAACGCGAAGGAA-CAGTGTTGTCTCCAAATT
3359310 GACCCAATTT
Statistics
Matches: 425, Mismatches: 56, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
220 421 0.99
221 4 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (220 bp):
ACAATCAGACTTCCTCAACGCGAAGGAACAGTGTTGTCTCCAAATTATCTCCTGATTGACCCGAT
TTCCTCAACACGAAGGAACAACGTCATCTTCAACAAATAATTTACCTGAAAACGACCAGATCTCT
TCAACACGGATGAGCAATGTCGTCTTCAACATCAAATTATCTCCAGGTTGACCCGATCTCCTCAA
CGCAAAGGAGTAGTGTCATTCTCAG
Found at i:3365129 original size:65 final size:65
Alignment explanation
Indices: 3365025--3365157 Score: 232
Period size: 65 Copynumber: 2.0 Consensus size: 65
3365015 TTAAGCTCTC
*
3365025 AACAATTAAATTTCAAAATGATTAAACAACAAATAATCCAAGTGCTAAGA-ATGAAAAATATATT
1 AACAATTAAATTTCAAAATGATTAAACAACAAATAATCCAAGTACTAA-ACATGAAAAATATATT
3365089 A
65 A
*
3365090 AACAATTAAATTTCAAAATGATTAAACAGCAAATAATCCAAGTACTAAACATGAAAAATATATTA
1 AACAATTAAATTTCAAAATGATTAAACAACAAATAATCCAAGTACTAAACATGAAAAATATATTA
3365155 AAC
1 AAC
3365158 GGAGAAGAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 1 0.02
65 64 0.98
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.26
Consensus pattern (65 bp):
AACAATTAAATTTCAAAATGATTAAACAACAAATAATCCAAGTACTAAACATGAAAAATATATTA
Found at i:3370837 original size:31 final size:32
Alignment explanation
Indices: 3370789--3370868 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 32
3370779 TTCAATCTGT
* * *
3370789 AAAGTTCAGTGAGAAAAATAT-A-AAAAATTA
1 AAAGTTCAGTGAAAAAAAAATGAGAAAAAGTA
* *
3370819 AAAGTACAGTGAATAAAAAATGAGAAAAAGTA
1 AAAGTTCAGTGAAAAAAAAATGAGAAAAAGTA
3370851 AAA-TTCAGTGAAAAAAAA
1 AAAGTTCAGTGAAAAAAAA
3370869 GACATAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 17 0.41
31 14 0.34
32 10 0.24
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (32 bp):
AAAGTTCAGTGAAAAAAAAATGAGAAAAAGTA
Found at i:3372730 original size:3 final size:3
Alignment explanation
Indices: 3372705--3372743 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
3372695 AATTTTTTCA
* *
3372705 TAT TTT TAT TAA TAT TA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3372744 TATAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3372752 original size:29 final size:29
Alignment explanation
Indices: 3372705--3372767 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
3372695 AATTTTTTCA
* * *
3372705 TATTTTTATTAATATTAT-ATTATTATTAT
1 TATTATTATTAATAATATAATAATTATT-T
*
3372734 TATTATTATTTATAATATAATAATTATTT
1 TATTATTATTAATAATATAATAATTATTT
3372763 TATTA
1 TATTA
3372768 CAATTCCGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTATTATTAATAATATAATAATTATTT
Found at i:3373528 original size:25 final size:25
Alignment explanation
Indices: 3373500--3373557 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
3373490 CGAAGAAGGC
*
3373500 AGAGAGAATTTTTATCTCTCTTTTT
1 AGAGAGAATTTTTATCTCCCTTTTT
*
3373525 AGAGAGATTTTTTATCTCCCTTTTT
1 AGAGAGAATTTTTATCTCCCTTTTT
3373550 AGAGAGAA
1 AGAGAGAA
3373558 AAAGGAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.45
Consensus pattern (25 bp):
AGAGAGAATTTTTATCTCCCTTTTT
Found at i:3374796 original size:140 final size:139
Alignment explanation
Indices: 3374530--3374797 Score: 305
Period size: 139 Copynumber: 1.9 Consensus size: 139
3374520 CATATTGTCA
* * *
3374530 TATTTATTTTTTATACTAAGAAAATGATTGTCTTAAAGTACCTAAAAGTTTTTTTTCTAATATTT
1 TATTTATTTTTTATACTAAGAAAATGACTGTCTTAAAGCACCTAAAAGTTTCTTTTCTAATATTT
* * * * *
3374595 CTAAATAAACAAATATCTTACTTTTATAAATTATATCTATTTTTTAATTATTTTTAGATAAATGT
66 CTAAATAAACAAATATCTTACTTTAATAAATTATATATATTTTTAAACTATTATTAGATAAATGT
3374660 TTTAATATT
131 TTTAATATT
* * *
3374669 TATTTATTTTTTAATATTAAGAAAA-GAGCTGTCTTAAAGCACCTAGAAG-TTCTTTTCTGATAT
1 TATTTATTTTTT-ATACTAAGAAAATGA-CTGTCTTAAAGCACCTAAAAGTTTCTTTTCTAATAT
* * *
3374732 TTCTAAGTAAATAAATATCTTA-TATATAAATACATTA-ATATATTTCTTAAAACTA-TATTA-A
64 TTCTAAATAAACAAATATCTTACT-T-T-AATAAATTATATATATTT-TT-AAACTATTATTAGA
3374793 TAAAT
124 TAAAT
3374798 TTAAAGGATT
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
138 1 0.01
139 47 0.44
140 43 0.40
141 13 0.12
142 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (139 bp):
TATTTATTTTTTATACTAAGAAAATGACTGTCTTAAAGCACCTAAAAGTTTCTTTTCTAATATTT
CTAAATAAACAAATATCTTACTTTAATAAATTATATATATTTTTAAACTATTATTAGATAAATGT
TTTAATATT
Found at i:3375289 original size:2 final size:2
Alignment explanation
Indices: 3375284--3375317 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3375274 TATTATTTTC
3375284 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
3375318 CTTTACTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3376224 original size:36 final size:36
Alignment explanation
Indices: 3376177--3376245 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
3376167 AAGCAATGCA
** *
3376177 CACAAAGATCCTGTTATATTAATACCAAAAGTACTC
1 CACAAAGATCCTGCCAGATTAATACCAAAAGTACTC
*
3376213 CACAAAGATCCTGCCAGATTGATACCAAAAGTA
1 CACAAAGATCCTGCCAGATTAATACCAAAAGTA
3376246 GTATATGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (36 bp):
CACAAAGATCCTGCCAGATTAATACCAAAAGTACTC
Found at i:3377037 original size:20 final size:20
Alignment explanation
Indices: 3377004--3377042 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3376994 CATTTTTTTT
*
3377004 CATTTTTACGTTTGTATTTA
1 CATTTTTACGTTTGCATTTA
**
3377024 CATTTTTATTTTTGCATTT
1 CATTTTTACGTTTGCATTT
3377043 GCATATTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (20 bp):
CATTTTTACGTTTGCATTTA
Found at i:3383571 original size:21 final size:22
Alignment explanation
Indices: 3383517--3383572 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
3383507 TACATCTACA
3383517 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
3383539 TCTCCGAAGATGATAGATTCT-
1 TCTTCAAAGATGATAGATTCTC
*
3383560 TTTTCAAAGATGA
1 TCTTCAAAGATGA
3383573 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:3384327 original size:45 final size:45
Alignment explanation
Indices: 3384278--3384376 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
3384268 CTTTTCCATA
* * * *
3384278 TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATG
*
3384323 TTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGTAGGATG
1 TTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATG
*
3384368 TTTTTAAAA
1 TTTTCAAAA
3384377 AGCCTTCGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATG
Found at i:3384435 original size:121 final size:121
Alignment explanation
Indices: 3384221--3384505 Score: 421
Period size: 121 Copynumber: 2.4 Consensus size: 121
3384211 ATTTCCCACT
* * * *
3384221 ATCCGTAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTCCATATTTTCAAA
1 ATCCGTAAGCCCTGCAGTGCAGGATGTTTTTAAAAAGCCTTCGAGAGCTTTTCCATATTTCCAAA
*
3384286 GCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
66 GCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGTC
* ** *
3384342 ATCCGTAAGCCCTGCAGTGTAGGATGTTTTTAAAAAGCCTTCGAGAGCTTTTTGATATTTCCAAT
1 ATCCGTAAGCCCTGCAGTGCAGGATGTTTTTAAAAAGCCTTCGAGAGCTTTTCCATATTTCCAAA
* *
3384407 GCCTTCGGGTCATCTGTGAGCCCTTCAGTGCATGATATTTTCAAAGCCTTCGGGTC
66 GCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGTC
* * * *
3384463 ATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAA-CCTTCGAG
1 ATCCGTAAGCCCTGCAGTGCAGGATGTTTTTAAAAAGCCTTCGAG
3384506 TCATCTGTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 8 0.05
120 8 0.05
121 132 0.89
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (121 bp):
ATCCGTAAGCCCTGCAGTGCAGGATGTTTTTAAAAAGCCTTCGAGAGCTTTTCCATATTTCCAAA
GCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGTC
Found at i:3384456 original size:45 final size:45
Alignment explanation
Indices: 3384394--3384552 Score: 210
Period size: 45 Copynumber: 3.5 Consensus size: 45
3384384 GAGAGCTTTT
* * *
3384394 TGATATTTCCAATGCCTTCGGGTCATCTGTGAGCCCTTCAGTGCA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
3384439 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * * *
3384484 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGACCTACAGTGCA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
3384529 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATATTTTC--AAAGCCTTCGGG
3384553 AGCTTTTTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 91 0.90
47 10 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:3384549 original size:166 final size:165
Alignment explanation
Indices: 3384275--3384708 Score: 636
Period size: 166 Copynumber: 2.6 Consensus size: 165
3384265 GAGCTTTTCC
3384275 ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
1 ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GG
* * * * *
3384340 TCATCCGTAAGCCCTGCAGTGTAGGATGTTTTTAAAAAGCCTTCGAGAGCTTTTTGATATTTCCA
65 TCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTCCA
** *
3384405 ATGCCTTCGGGTCATCTGTGAGCCCTTCAGTGCATG
130 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
3384441 ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAG
1 ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG-G
* *
3384506 TCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCA
65 TCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTCCA
3384571 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
130 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* * * * * * * *
3384607 ATGTTATCAAAGCCTTCAGGTCATCTATAAGTCATTCAGTGCATGATGTTATCAAAGCCTTCTGG
1 ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GG
* * *
3384672 TCGTCTGTAA-ACCCTTCAGTGCATGATGTTTTCAAAA
65 TCATCTGTAAGA-CCTACAGTGCAGGATGTTTTCAAAA
3384709 CCTTAGGGTT
Statistics
Matches: 244, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
165 2 0.01
166 241 0.99
167 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (165 bp):
ATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGT
CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTCCAA
AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
Found at i:3384564 original size:121 final size:121
Alignment explanation
Indices: 3384439--3384662 Score: 351
Period size: 121 Copynumber: 1.9 Consensus size: 121
3384429 CTTCAGTGCA
* *
3384439 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCA
* * *
3384503 GAGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
66 G-GTCATCTATAAGACATACAGTGCAGGATGTTATCAAAAAGCCTTCGGGAGCTTTT
*
3384560 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAGCCTTCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCA
* * *
3384625 GGTCATCTATAAGTCATTCAGTGCATGATGTTATCAAA
66 GGTCATCTATAAGACATACAGTGCAGGATGTTATCAAA
3384663 GCCTTCTGGT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 92 0.99
122 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (121 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCA
GGTCATCTATAAGACATACAGTGCAGGATGTTATCAAAAAGCCTTCGGGAGCTTTT
Found at i:3384617 original size:45 final size:45
Alignment explanation
Indices: 3384568--3384763 Score: 230
Period size: 45 Copynumber: 4.3 Consensus size: 45
3384558 TTTGATATTT
3384568 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
* * * * *
3384613 TCAAAGCCTTCAGGTCATCTATAAGTCATTCAGTGCATGATGTTA
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
* * * * *
3384658 TCAAAGCCTTCTGGTCGTCTGTAAACCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
* * * * * *
3384703 TCAAAACCTTAGGGTTATCCGTAAGCCCTGCAGTGCAAGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
3384748 TCAAAAAGCCTTCGGG
1 TC-AAAA-CCTTCGGG
3384764 ATCTTTTTGA
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 116 0.91
46 4 0.03
47 7 0.06
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (45 bp):
TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTA
Found at i:3384625 original size:25 final size:25
Alignment explanation
Indices: 3384594--3384668 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
3384584 ATCTGTAAGC
3384594 CCTTCAGTGCATGATGTTATCAAAG
1 CCTTCAGTGCATGATGTTATCAAAG
* *
3384619 CCTTCAG-G--TCAT-CTAT--AAG
1 CCTTCAGTGCATGATGTTATCAAAG
*
3384638 TCATTCAGTGCATGATGTTATCAAAG
1 -CCTTCAGTGCATGATGTTATCAAAG
3384664 CCTTC
1 CCTTC
3384669 TGGTCGTCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 3 0.08
20 6 0.16
21 4 0.11
22 3 0.08
23 3 0.08
24 4 0.11
25 11 0.30
26 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTATCAAAG
Found at i:3384647 original size:211 final size:211
Alignment explanation
Indices: 3384407--3384828 Score: 628
Period size: 211 Copynumber: 2.0 Consensus size: 211
3384397 TATTTCCAAT
* * * * * *
3384407 GCCTTCGGGTCATCTGTGAGCCCTTCAGTGCATGATATTTTCAAAGCCTTCGGGTCATCTGTAAG
1 GCCTTCAGGTCATCTATAAGCCATTCAGTGCATGATATTATCAAAGCCTTCGGGTCATCTGTAAA
* * *
3384472 CCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCTGTAAGACCTACAGTGCAGGATGTTT
66 CCCTTCAGTGCATGATGTTTTCAAAACCTTAGAGTCATCCGTAAGACCTACAGTGCAAGATGTTT
* *
3384537 TCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
131 TCAAAAAGCCTTCGGGAGCTTTTTGATATTGTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGT
3384602 GCATGATGTTATCAAA
196 GCATGATGTTATCAAA
* * * *
3384618 GCCTTCAGGTCATCTATAAGTCATTCAGTGCATGATGTTATCAAAGCCTTCTGGTCGTCTGTAAA
1 GCCTTCAGGTCATCTATAAGCCATTCAGTGCATGATATTATCAAAGCCTTCGGGTCATCTGTAAA
* * * *
3384683 CCCTTCAGTGCATGATGTTTTCAAAACCTTAGGGTTATCCGTAAGCCCTGCAGTGCAAGATGTTT
66 CCCTTCAGTGCATGATGTTTTCAAAACCTTAGAGTCATCCGTAAGACCTACAGTGCAAGATGTTT
* * * *
3384748 TCAAAAAGCCTTCGGGATCTTTTTGATGTTGTCAAAATCTTTGGGTCATCTATAAGCCCTTCAGT
131 TCAAAAAGCCTTCGGGAGCTTTTTGATATTGTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGT
*
3384813 GCATGATGTTTTCAAA
196 GCATGATGTTATCAAA
3384829 CATTTCCATC
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
211 187 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (211 bp):
GCCTTCAGGTCATCTATAAGCCATTCAGTGCATGATATTATCAAAGCCTTCGGGTCATCTGTAAA
CCCTTCAGTGCATGATGTTTTCAAAACCTTAGAGTCATCCGTAAGACCTACAGTGCAAGATGTTT
TCAAAAAGCCTTCGGGAGCTTTTTGATATTGTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGT
GCATGATGTTATCAAA
Found at i:3384960 original size:20 final size:20
Alignment explanation
Indices: 3384950--3384990 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3384940 TTTTTTCATA
3384950 TTTTTATTAATATTATATAT
1 TTTTTATTAATATTATATAT
*
3384970 TTTTTATTATTATTAT-TAT
1 TTTTTATTAATATTATATAT
3384989 TT
1 TT
3384991 ATAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTAATATTATATAT
Found at i:3384981 original size:3 final size:3
Alignment explanation
Indices: 3384948--3385014 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
3384938 AATTTTTTCA
* *
3384948 TAT TTT TAT TAA TAT TAT ATAT T-T T-T TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
3384991 ATAA TAT AAT TAT TAT T-T TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT
3385015 AATTCTGGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 7 0.14
3 41 0.80
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3384996 original size:35 final size:35
Alignment explanation
Indices: 3384948--3385014 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
3384938 AATTTTTTCA
*
3384948 TATTTTTATTAATATTATATATT-TTTTATTATTAT
1 TATTTTTATTAATATAAT-TATTATTTTATTATTAT
3384983 TATTATTTA-TAATATAATTATTATTTTATTAT
1 TATT-TTTATTAATATAATTATTATTTTATTAT
3385015 AATTCTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.14
35 21 0.72
36 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (35 bp):
TATTTTTATTAATATAATTATTATTTTATTATTAT
Found at i:3385004 original size:18 final size:17
Alignment explanation
Indices: 3384956--3385018 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
3384946 CATATTTTTA
*
3384956 TTAATATTATATATT-TT
1 TTAATATAAT-TATTATT
* *
3384973 TTATTATTATTATTATT
1 TTAATATAATTATTATT
3384990 TATAATATAATTATTATT
1 T-TAATATAATTATTATT
*
3385008 TTATTATAATT
1 TTAATATAATT
3385019 CTGGGCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.10
17 21 0.52
18 15 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATATAATTATTATT
Found at i:3387007 original size:140 final size:139
Alignment explanation
Indices: 3386741--3387008 Score: 305
Period size: 139 Copynumber: 1.9 Consensus size: 139
3386731 CATGTTGTCA
* * ***
3386741 TATTTATTTTTTATACTAAGAAAATGACTGTCTTAAAGTACCTAGAAGTTTTTTTTCTAATATTT
1 TATTTATTTTTTATACTAAGAAAAGGACTGTCTTAAAGCACCTAGAAGTCCCTTTTCTAATATTT
* * *
3386806 CTAAATAAATAAATATCTTACTTTTATAAATTATATATATTTTTAAATTATTTTTAGATAAATGT
66 CTAAATAAATAAATATCTTACTTTAATAAATTATATATATTTTTAAACTATTATTAGATAAATGT
3386871 TTTAATATT
131 TTTAATATT
* * * *
3386880 TATTTATTTTTTAATATTAAG-AAAGGAGTTGTCTTAAAGCACCTAGAAG-CCCTTTTCTGATGT
1 TATTTATTTTTT-ATACTAAGAAAAGGA-CTGTCTTAAAGCACCTAGAAGTCCCTTTTCTAATAT
* *
3386943 TTCTAAGTAAATAAATATCTTA-TATATAAATACATTA-ATATATTTCTTAAAACTA-TATTA-A
64 TTCTAAATAAATAAATATCTTACT-T-T-AATAAATTATATATATTT-TT-AAACTATTATTAGA
3387004 TAAAT
124 TAAAT
3387009 TTAAAGGATT
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
138 1 0.01
139 48 0.44
140 41 0.38
141 13 0.12
142 5 0.05
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (139 bp):
TATTTATTTTTTATACTAAGAAAAGGACTGTCTTAAAGCACCTAGAAGTCCCTTTTCTAATATTT
CTAAATAAATAAATATCTTACTTTAATAAATTATATATATTTTTAAACTATTATTAGATAAATGT
TTTAATATT
Found at i:3396138 original size:25 final size:25
Alignment explanation
Indices: 3396110--3396164 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
3396100 ACACTTTAGA
3396110 TATATGTG-ATAT-TAATATAAGTAAT
1 TATATG-GAATATGTAATATAAGT-AT
*
3396135 TATA-GGAATATGTAATATAAGTGT
1 TATATGGAATATGTAATATAAGTAT
3396159 TATATG
1 TATATG
3396165 AAATGTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
24 10 0.38
25 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (25 bp):
TATATGGAATATGTAATATAAGTAT
Found at i:3396592 original size:31 final size:32
Alignment explanation
Indices: 3396505--3396593 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 32
3396495 AGTCGAGGGT
* *
3396505 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTAAGGAACATATGAACAGAA
*** *
3396537 TTACCTATG-TCTTTCGAGATATATGAAC--AA
1 TTACCTATGTTCTAAGGA-ACATATGAACAGAA
3396567 TATACCTATGTTCTAAGGAACATATGA
1 T-TACCTATGTTCTAAGGAACATATGA
3396594 CAGTTTACCT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
30 3 0.07
31 20 0.44
32 22 0.49
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGAACAGAA
Found at i:3398673 original size:23 final size:23
Alignment explanation
Indices: 3398647--3398717 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
3398637 GGTTCTACGC
3398647 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
3398670 GGTCCTTCAGGACAATTCTATGG
1 GGTCCTTCGGGACAATTCTATGT
*
3398693 GGTCCTTCGGGACAAATCTATGT
1 GGTCCTTCGGGACAATTCTATGT
3398716 GG
1 GG
3398718 CAATTTGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:3398741 original size:24 final size:24
Alignment explanation
Indices: 3398705--3398780 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
3398695 TCCTTCGGGA
*
3398705 CAAA-TCTATGTGGCAATTTGATG
1 CAAATTCTACGTGGCAATTTGATG
* * *
3398728 CATATTCTACGTGGCACTTCGATG
1 CAAATTCTACGTGGCAATTTGATG
* *
3398752 CAAATTCTACGCGGTAATTTTGACTG
1 CAAATTCTACGTGGCAA-TTTGA-TG
3398778 CAA
1 CAA
3398781 TTACAGTGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 3 0.07
24 29 0.71
25 4 0.10
26 5 0.12
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (24 bp):
CAAATTCTACGTGGCAATTTGATG
Found at i:3403781 original size:52 final size:53
Alignment explanation
Indices: 3403716--3403822 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
3403706 CACAAGATGG
* *
3403716 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
* *
3403770 GGCACAT-AAATAGGAGACTAGTCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
3403822 G
1 G
3403823 AATATTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 42 0.86
54 7 0.14
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:3411892 original size:2 final size:2
Alignment explanation
Indices: 3411885--3411950 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
3411875 TTGAGAAACA
3411885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3411926 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3411951 GTTTCATAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3419905 original size:23 final size:23
Alignment explanation
Indices: 3419858--3419907 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3419848 AATAACATAT
**
3419858 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
3419881 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
3419904 TAGG
1 TAGG
3419908 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:3419980 original size:87 final size:87
Alignment explanation
Indices: 3419821--3419983 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
3419811 TATGTCATAT
* * * *
3419821 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATATAATAGAT
*
3419886 AGCGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
*
3419908 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATATAATATAT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATATAATAGAT
*
3419973 AATGCTTATAT
66 AACGCTTATAT
3419984 TGACCTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATATAATAGAT
AACGCTTATATAATAAAATAGG
Found at i:3420475 original size:199 final size:195
Alignment explanation
Indices: 3419984--3420505 Score: 624
Period size: 198 Copynumber: 2.6 Consensus size: 195
3419974 ATGCTTATAT
* * * * *
3419984 TGACCTATTTTATAAGT-AAACCGGTATATTTATACCGATAATATTGCAAATTTACCTATTACAT
1 TGACCTATTTTCTAA-TAAAACCGGTATATTTATACAG-TTACATTGTAAATTTACCTATTACAT
* *
3420048 TATAATTATCGGTTTCGATGTTTTTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATG
64 TATAATTATCGGTTTCGATG--TTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATG
* * *
3420111 CATGCACCTCGTTGGACATTCATTCTGGAAAAAATATTGACACAAACTTAAAAAGTGTCGATACA
126 CATGCACCCCGTTGGACATTCATTATGGAAAAAATATCGACACAAACTTAAAAAGTGTCGATACA
*
3420176 TTATT
191 TTATC
* * * * * * *
3420181 TAGACATATTTTCTCATAAAACCGGTATATATCTGT-CGGGTACATTGTAAATTTACGTATCACA
1 T-GACCTATTTTCTAATAAAACCGGTATAT-T-TATACAGTTACATTGTAAATTTACCTATTACA
* * *
3420245 TTGTAATTATCGGTATCGATGTTTGTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGC
63 TTATAATTATCGGTTTCGATGTTT-TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGC
* * *
3420310 GTGCACCCCGTTTGG-CATTCATTATGGACAAAAAGTATCGACACAAA-TTTAAATGATGTCGAT
127 ATGCACCCCG-TTGGACATTCATTATGGA-AAAAA-TATCGACACAAACTTAAAAAG-TGTCGAT
*
3420373 ACTTTATGC
188 ACATTAT-C
* *
3420382 TGACCTATTTTCTTATAAAACCGGTATATTTATACAGTTGCATTGTAAATTTACCTATTACATTA
1 TGACCTATTTTCTAATAAAACCGGTATATTTATACAGTTACATTGTAAATTTACCTATTACATTA
3420447 TAATTATCGGTTTCGATGTTATTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
66 TAATTATCGGTTTCGATGTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
3420506 AATTCTGGAC
Statistics
Matches: 276, Mismatches: 35, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
196 6 0.02
197 12 0.04
198 105 0.38
199 99 0.36
200 53 0.19
201 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (195 bp):
TGACCTATTTTCTAATAAAACCGGTATATTTATACAGTTACATTGTAAATTTACCTATTACATTA
TAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGC
ACCCCGTTGGACATTCATTATGGAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATC
Found at i:3420754 original size:19 final size:19
Alignment explanation
Indices: 3420688--3420754 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
3420678 TTCTCGTCTC
* * *
3420688 ATACATAATTAT-ATTCAC
1 ATACAAAATTATAAATCAT
*
3420706 ATATAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
* *
3420725 ATACAACATTATAAATCTT
1 ATACAAAATTATAAATCAT
3420744 ATACAAAATTA
1 ATACAAAATTA
3420755 ACCCTACATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 10 0.25
19 30 0.75
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:3422345 original size:200 final size:200
Alignment explanation
Indices: 3421917--3422876 Score: 1324
Period size: 200 Copynumber: 4.8 Consensus size: 200
3421907 TTAAAAACAA
* * *
3421917 ATCGACACAAATTT-AAAAGTATCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATAT
1 ATCGACACAAATTTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGATATAT
*
3421981 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGGT-TTTTTTGGAT
66 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGAT
* * * * * *
3422045 CGATATTTTTTATAAATGTATCAACACTTTATGCGTGCACCCCGTTTTGCATTCATTCTTGAAAA
131 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAACCCCGTTTTGCATTCATTCTGGACAA
3422110 AATGT
196 AATGT
* * * * * *
3422115 ATCGACACAAATATAAAAAGTATTGATACATTATGTTCACTTATTTTCTCATAAAACCGAAATAC
1 ATCGACACAAATTTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGATATAT
* * * **
3422180 TTATACCGGTTATATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATGTTTTTAAGAT
66 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGAT
* *
3422245 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAATCCTGTTTTGCATTCATTCTGGACAA
131 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAACCCCGTTTTGCATTCATTCTGGACAA
3422310 AATGT
196 AATGT
* * *
3422315 ATCGACACAAATCTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAC
1 ATCGACACAAATTTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGATATAT
*
3422380 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTTTTGAGA
66 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTG-GA
* * * * *
3422444 TCGATACTTTTTAAAAATATATCAACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGACA
130 TCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAACCCCGTTTTGCATTCATTCTGGACA
3422509 AAATGT
195 AAATGT
* *
3422515 ATCGAAACAAATTTAAAAAGTGTCGATACATTATGTAT-ACCTATTTTCACATAAAACCGATATA
1 ATCGACACAAATTTAAAAAGTGTCGATACATTATGT-TCACCTATTTTCTCATAAAACCGATATA
*
3422579 TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATATTTTTTGGA
65 TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGA
* * * ** * **
3422644 TCGATACAATTTT--AAATGTATCGACACTTTTATGCGTGAAGCTCGTTGAGCA--AAGGCTCGG
130 TCGATAC-TTTTTAAAAATGTATCGACAC-TTTATGCGTGAACCCCGTTTTGCATTCATTCT-GG
*
3422705 ACAAAAAGT
192 ACAAAATGT
* * * * * *
3422714 ATCGACACAAATTTAAAAGGTGTCGATACTTTATGCTGACCTATTTGCTCATAAAATCGATATAT
1 ATCGACACAAATTTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGATATAT
* * *
3422779 TTATACTGGTCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATGTTTTTTGGAT
66 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGAT
* *
3422844 GGATACTTTTTAAAAATGTATCGAAACTTTATG
131 CGATACTTTTTAAAAATGTATCGACACTTTATG
3422877 AGAAACTTTA
Statistics
Matches: 679, Mismatches: 72, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
198 20 0.03
199 248 0.37
200 400 0.59
201 11 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (200 bp):
ATCGACACAAATTTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGATATAT
TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGAT
CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAACCCCGTTTTGCATTCATTCTGGACAA
AATGT
Found at i:3422739 original size:399 final size:396
Alignment explanation
Indices: 3421917--3422876 Score: 1363
Period size: 399 Copynumber: 2.4 Consensus size: 396
3421907 TTAAAAACAA
*
3421917 ATCGACACAAATTTAAAAGTATCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATATT
1 ATCGACACAAATTTAAAAGTGTCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATATT
* *
3421982 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGGTTTTTTTGGATCG
66 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTGGATCG
* * * * *
3422047 ATATTTTTTATAAATGTATCAACACTTTATGCGTGCACCCCGTTTTGCATTCATTCTTGAAAAAA
131 ATACTTTTTAAAAATGTATCAACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGAAAAAA
* * * *
3422112 TGTATCGACACAAATATAAAAAGTATTGATACATTATGTTCACTTATTTTCTCATAAAACCGAAA
196 TGTATCGAAACAAATATAAAAAGTATCGATACATTATGTTCACCTATTTTCACATAAAACCGAAA
* *
3422177 TACTTATACCGGTTATATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATGTTTTTAA
261 TACTTATACCGGTTACATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATATTTTTAA
* * ** * **
3422242 GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGAATCCTGTTTTGCATTCATTCTGGA
326 GATCGATACATTTT-AAAATGTATCGACACTTTATGCGTGAAGCCTGTTGAGCA-TAAGGCTGGA
*
3422307 CAAAATGT
389 CAAAAAGT
* * *
3422315 ATCGACACAAATCTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAC
1 ATCGACACAAAT-TTAAAAGTGTCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATAT
*
3422380 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGAGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTG-GAT
* *
3422445 CGATACTTTTTAAAAATATATCAACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGACAA
129 CGATACTTTTTAAAAATGTATCAACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGAAAA
* *
3422510 AATGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTAT-ACCTATTTTCACATAAAACCG
194 AATGTATCGAAACAAATATAAAAAGTATCGATACATTATGT-TCACCTATTTTCACATAAAACCG
* * * *
3422574 ATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATATTTT
258 AAATACTTATACCGGTTACATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATATTTT
**
3422639 TTGGATCGATACAATTTT-AAATGTATCGACACTTTTATGCGTGAAG-CTCGTTGAGCA-AAGGC
323 TAAGATCGATAC-ATTTTAAAATGTATCGACAC-TTTATGCGTGAAGCCT-GTTGAGCATAAGGC
3422701 TCGGACAAAAAGT
385 T-GGACAAAAAGT
* * * * * *
3422714 ATCGACACAAATTTAAAAGGTGTCGATACTTTATGCTGACCTATTTGCTCATAAAATCGATATAT
1 ATCGACACAAATTTAAAA-GTGTCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATAT
* * *
3422779 TTATACTGGTCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCAATGTTTTTTGGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATG-TTTTTGGAT
*
3422844 GGATACTTTTTAAAAATGTATCGAA-ACTTTATG
129 CGATACTTTTTAAAAATGTATC-AACACTTTATG
3422877 AGAAACTTTA
Statistics
Matches: 502, Mismatches: 50, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
398 20 0.04
399 265 0.53
400 212 0.42
401 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (396 bp):
ATCGACACAAATTTAAAAGTGTCGATACATTATGTTAACCTATTTTCTCATAAAACCGGTATATT
TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTGGATCG
ATACTTTTTAAAAATGTATCAACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGAAAAAA
TGTATCGAAACAAATATAAAAAGTATCGATACATTATGTTCACCTATTTTCACATAAAACCGAAA
TACTTATACCGGTTACATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATATTTTTAA
GATCGATACATTTTAAAATGTATCGACACTTTATGCGTGAAGCCTGTTGAGCATAAGGCTGGACA
AAAAGT
Found at i:3423135 original size:18 final size:18
Alignment explanation
Indices: 3423112--3423148 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3423102 AAAAATTTAT
3423112 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
3423130 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
3423148 A
1 A
3423149 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:3426664 original size:202 final size:200
Alignment explanation
Indices: 3425816--3427376 Score: 1812
Period size: 202 Copynumber: 7.8 Consensus size: 200
3425806 TTTTAAAATG
* * * * *
3425816 GTATCGACACAAATTTA-ACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAA-CGAG
1 GTATCGACACAAATTCAGA-AAGTGTCGATACATTATG-TAGACCTATTCTCACATAAAACCGA-
* * * * *
3425878 TATA-TTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
63 TATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
* * * *
3425942 GGGATCAAAACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTAGGCATTCATTCTA
128 GGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTG
3426007 GACAAAAA
193 GACAAAAA
* * * * *
3426015 GTATCGGCACAAATTCCAG-AAGTGTCGATACATTTTGTATACCTATTCTCACATAAAACTGGTA
1 GTATCGACACAAATT-CAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
* ** *
3426079 TATTTATACCGGTTACATTG-AAATTTACCTATTACATTATAATTATTTGTTTCGATGCTTT-TA
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG-TTTCTG
* * *
3426142 GGATCAACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTTTGG
129 GGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGG
*
3426207 ACCAAAA
194 ACAAAAA
* * * * *
3426214 GTATCGACACAAATTCCA-CAAGTGTCGATACATTTTATAGACCTATTCTCTCATAAAA-CGGTA
1 GTATCGACACAAATT-CAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
* * ** * *
3426277 TATTTATATCGGTTACATTG-AAATTTACCTATTACATTATAATTATCTGTTTCGTTGTTTTTGG
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * *
3426341 GATCGACACTTTTTAAAAATGTATCGACACTTTAAGGGTGGACCCTTTTTGGGCATTCCTTCTGG
130 GATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCC-TTTTGGGCATTCATTCTGG
3426406 ACAAAAA
194 ACAAAAA
* * * * * *
3426413 GTATCGACACAAAATACA-CAAGTATCGATACATTTTCTAGACCTATTCTCGCATAAAACCGATA
1 GTATCGACAC-AAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
*
3426477 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCATGGGTTTCGATGTTTCTGG
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * **
3426542 GATCGATACTTTTTATAAATG-ATCGACACTTTATGCGTGCACAATTTTTTTGGGCATTCATTCT
130 GATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCAC---CCTTTTGGGCATTCATTCT
*
3426606 GGACAAAAT
192 GGACAAAAA
* * * * * *
3426615 GTATCGACATAAAATT-AGAAAGTGTAGATAAATTAAGTAGACTTATTCTCAAATAAAACCGATA
1 GTATCGACA-CAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
* * *
3426679 TATTTATATCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTCTCTG
65 TATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * ** *
3426743 GGACCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTTACCATTTTGGGCATTCATTCTGG
129 GGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGG
3426808 ACAAAAA
194 ACAAAAA
* * * * *
3426815 GTATTGACACCAATTTCA-AAAGTGCCGATACATTATGTAGACCTATTCTAACATAAAA-CTAGT
1 GTATCGACA-CAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGA-T
* * * * *
3426878 ATATTTATACCGATTAAATT-ACAAAATTCCCTATTACATTATAATTATGAGTTTCGATGTCTCT
64 ATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
* * * *
3426942 GGGATCGACACTTTTAAAAAAACGTATCGATACTTTATGGGTGCACCCTTTTGGGCATTCCTTCT
128 GGGATCGACACTTTT-TAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCT
*
3427007 GGACAAACA
192 GGACAAAAA
* *
3427016 GTATCGACACAAATTCCAG-AAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAATT-CAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
* * * * *
3427080 TAGTTATACCGGTTACAATGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTAG
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * * * * **
3427145 GATCAATACGTGTTTTATAAATGTATCGATACTTTATGCGTTCACTATTTTGGGCATTCATTCTG
130 GATCGACAC-T-TTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTG
3427210 GACAAAAA
193 GACAAAAA
* * *
3427218 GTATCGACACCAATTTCA-AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACTGGTA
1 GTATCGACA-CAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
* * * * *
3427282 TATTTATACCAGTTATATT-ATAAAATTACCTATTACATTATAATTATGAGTTTCAATGTTTTTG
65 TATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* *
3427346 GGATCGATACTTTTTATAAATGTATCGACAC
129 GGATCGACACTTTTTAAAAATGTATCGACAC
3427377 ATCTGCTTAC
Statistics
Matches: 1181, Mismatches: 150, Indels: 61
0.85 0.11 0.04
Matches are distributed among these distances:
197 3 0.00
198 103 0.09
199 279 0.24
200 233 0.20
201 219 0.19
202 317 0.27
203 27 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (200 bp):
GTATCGACACAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATAT
ATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
ATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGAC
AAAAA
Found at i:3427073 original size:603 final size:598
Alignment explanation
Indices: 3425816--3427376 Score: 2044
Period size: 603 Copynumber: 2.6 Consensus size: 598
3425806 TTTTAAAATG
* * *
3425816 GTATCGACACAAATTTA-ACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAA-CGAG
1 GTATCGACACAAA-TTACACAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAACCGA-
* * * *
3425878 TATATTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
63 TATATTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * * ** * *
3425943 GGATCAAAACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTAGGCATTCATTCTAG
128 GGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTATTTTGGGCATTCATTCTGG
* * *
3426008 ACAAAAAGTATCGGCACAAATTCCAG-AAGTGTCGATACATTTTGTATACCTATTCTCACATAAA
193 ACAAAAAGTATCGACACAAATT-CAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAA
* * ** *
3426072 ACTGGTATATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATTTGTTTCGATG
257 ACTGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGAGTTTCAATG
* * * *
3426136 -CTTTTAGGATCAACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTC
322 TC-TTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTC
* * * * * * **
3426200 CTTTTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTTTATAGACCTATTCTCT
386 ATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGCCGATACATTATATAGACCTATTCTAA
* * * * * * *
3426265 CATAAAACGGTATATTTATATCGGTTACATTGAAATTTACCTATTACATTATAATTATCTGTTTC
451 CATAAAACAGTATATTTATACCGATTAAATTCAAAATTACCTATTACATTATAATTATCAGTTTC
* * * * * *
3426330 GTTGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTAAGGGTGGACCCTTTTTGGGC
516 GATGTCTCTGGGATCGACACTTTTAAAAAACGTATCGACACTTTAAGGGTGCACCCTTTTTGGGC
3426395 ATTCCTTCTGGACAAAAA
581 ATTCCTTCTGGACAAAAA
* * * * *
3426413 GTATCGACACAAAATACACAAGTATCGATACATTTTCTAGACCTATTCTCGCATAAAACCGATAT
1 GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATAT
* *
3426478 ATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCATGGGTTTCGATGTTTCTGGG
66 A-TTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* *
3426543 ATCGATACTTTTTATAAATG-ATCGACACTTTATGCGTGCACAATTTTTTTGGGCATTCATTCTG
130 ATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCAC---TATTTTGGGCATTCATTCTG
* * * * * * *
3426607 GACAAAATGTATCGACATAAAATT-AGAAAGTGTAGATAAATTAAGTAGACTTATTCTCAAATAA
192 GACAAAAAGTATCGACA-CAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA
* * * *
3426671 AACCGATATATTTATATCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAAT
256 AACTGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGAGTTTCAAT
* * **
3426736 GTCTCTGGGACCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTTACCATTTTGGGCATTC
321 GTCTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTC
* * * *
3426801 ATTCTGGACAAAAAGTATTGACACCAATTTCAAAAGTGCCGATACATTATGTAGACCTATTCTAA
386 ATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGCCGATACATTATATAGACCTATTCTAA
* *
3426866 CATAAAACTAGTATATTTATACCGATTAAATTACAAAATTCCCTATTACATTATAATTATGAGTT
451 CATAAAAC-AGTATATTTATACCGATTAAATT-CAAAATTACCTATTACATTATAATTATCAGTT
* *
3426931 TCGATGTCTCTGGGATCGACACTTTTAAAAAAACGTATCGATACTTTATGGGTGCACCC-TTTTG
514 TCGATGTCTCTGGGATCGACACTTTT-AAAAAACGTATCGACACTTTAAGGGTGCACCCTTTTTG
*
3426995 GGCATTCCTTCTGGACAAACA
578 GGCATTCCTTCTGGACAAAAA
* * *
3427016 GTATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATAT
* * *
3427081 AGTTATACCGGTTACAATGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTAGG
66 A-TTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* *
3427146 ATCAATACGTGTTTTATAAATGTATCGATACTTTATGCGTTCACTATTTTGGGCATTCATTCTGG
130 ATCAATAC-T-TTTTATAAATGTATCGACACTTTATGCGTGCACTATTTTGGGCATTCATTCTGG
*
3427211 ACAAAAAGTATCGACACCAATTTCA-AAAGTGTCGATACATTATGTAGACCTATTCTCACATAAA
193 ACAAAAAGTATCGACA-CAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAA
* * *
3427275 ACTGGTATATTTATACCAGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCAATG
257 ACTGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGAGTTTCAATG
* * *
3427340 TTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
322 TCTTTGGGATCGACACTTTTTAAAAATGTATCGACAC
3427377 ATCTGCTTAC
Statistics
Matches: 829, Mismatches: 117, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
596 3 0.00
597 69 0.08
598 77 0.09
599 2 0.00
600 85 0.10
601 153 0.18
602 20 0.02
603 361 0.44
604 29 0.03
605 11 0.01
606 19 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (598 bp):
GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATAT
ATTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGA
TCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTATTTTGGGCATTCATTCTGGACA
AAAAGTATCGACACAAATTCAGAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACTG
GTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGAGTTTCAATGTCTT
TGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCT
GGACAAAAAGTATCGACACAAATTCCAAAAGTGCCGATACATTATATAGACCTATTCTAACATAA
AACAGTATATTTATACCGATTAAATTCAAAATTACCTATTACATTATAATTATCAGTTTCGATGT
CTCTGGGATCGACACTTTTAAAAAACGTATCGACACTTTAAGGGTGCACCCTTTTTGGGCATTCC
TTCTGGACAAAAA
Found at i:3427417 original size:15 final size:15
Alignment explanation
Indices: 3427393--3427442 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
3427383 TTACCTATTT
3427393 TTTGGAAACTTTACG
1 TTTGGAAACTTTACG
*
3427408 TTTGGGAACTTTACG
1 TTTGGAAACTTTACG
3427423 TTTGGAAACTTTACG
1 TTTGGAAACTTTACG
3427438 TTTGG
1 TTTGG
3427443 GAACCATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.42
Consensus pattern (15 bp):
TTTGGAAACTTTACG
Found at i:3429367 original size:18 final size:18
Alignment explanation
Indices: 3429343--3429393 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
3429333 TCCTCCTCAT
*
3429343 TTCCTCCATCCTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
3429361 TTTCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
3429379 TTCCTCCATCTTTTC
1 TTCCTCCATCTTTTC
3429394 AGTTCATCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:3432052 original size:182 final size:182
Alignment explanation
Indices: 3431745--3432149 Score: 621
Period size: 182 Copynumber: 2.2 Consensus size: 182
3431735 CGCGTACTTG
* * * * * *
3431745 TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGACACCGGT
1 TTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCATTTAGACACCGGT
** *
3431810 TTTGTCATATTTTTACCTGTTATATCGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATCGTTATGGATCAATACATAGTTATAAAATATCGACACTTT
*
3431875 ATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATACTTATA
131 ATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATA
* * * * *
3431927 TTAAAGTATCGACACTTGCAATATATTCAATCGCTCTATACCGATTTTGTCCTTTAGAGACCGGT
1 TTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCATTTAGACACCGGT
* * *
3431992 TTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATAGTTATAAAATATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATCGTTATGGATCAATACATAGTTATAAAATATCGACACTTT
* * *
3432057 ATAGGCGCTAAAATTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATA
131 ATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATA
3432109 TTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATAC
1 TTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATAC
3432150 TAGTTTTATC
Statistics
Matches: 199, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 199 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (182 bp):
TTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCATTTAGACACCGGT
TTTGTCATATTTTTACCTGTTATATCGTTATGGATCAATACATAGTTATAAAATATCGACACTTT
ATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATA
Found at i:3432179 original size:162 final size:162
Alignment explanation
Indices: 3431990--3432297 Score: 544
Period size: 162 Copynumber: 1.9 Consensus size: 162
3431980 TTAGAGACCG
* *
3431990 GTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATAGTTATAAAATATCGACACT
1 GTTTTATCATATTTTTACTTGTTATATCGTTGTGAATCGATACATAGTTATAAAATATCGACACT
* * *
3432055 TTATAGGCGCTAAAATTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCG
66 TTATAGACGCTAAAACTATTTATCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCG
3432120 ACACTTTCAATATATCCGATCGCTCTATACTA
131 ACACTTTCAATATATCCGATCGCTCTATACTA
* *
3432152 GTTTTATCATATTTTTACTTGTTATATCGTTGTGAATCGATACATTGTTATAAAGTATCGACACT
1 GTTTTATCATATTTTTACTTGTTATATCGTTGTGAATCGATACATAGTTATAAAATATCGACACT
*
3432217 TTATAGACGCTAAAACTGTTTATCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCG
66 TTATAGACGCTAAAACTATTTATCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCG
3432282 ACACTTTCAATATATC
131 ACACTTTCAATATATC
3432298 TGGTAGAGCT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 138 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (162 bp):
GTTTTATCATATTTTTACTTGTTATATCGTTGTGAATCGATACATAGTTATAAAATATCGACACT
TTATAGACGCTAAAACTATTTATCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCG
ACACTTTCAATATATCCGATCGCTCTATACTA
Found at i:3437565 original size:23 final size:23
Alignment explanation
Indices: 3437535--3437582 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3437525 AAGATTTAGG
3437535 GTCAGTTTGTTTCACTGAAAACA
1 GTCAGTTTGTTTCACTGAAAACA
3437558 GTCAGTTTGTTTCACTGAAAACA
1 GTCAGTTTGTTTCACTGAAAACA
3437581 GT
1 GT
3437583 TTTCGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (23 bp):
GTCAGTTTGTTTCACTGAAAACA
Found at i:3437797 original size:15 final size:15
Alignment explanation
Indices: 3437777--3437805 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3437767 TTTAAGTTGT
3437777 TTTTATAAAATTTTA
1 TTTTATAAAATTTTA
3437792 TTTTATAAAATTTT
1 TTTTATAAAATTTT
3437806 TGAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATAAAATTTTA
Found at i:3440817 original size:33 final size:33
Alignment explanation
Indices: 3440774--3440850 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
3440764 AAAAAAAAAA
*
3440774 AGAAGGCAAGATGGTACCGCCGGTGAGGAGAAG
1 AGAAGGCAAGATGGTACCGCCGGCGAGGAGAAG
* * *
3440807 AGAAGACAAGATGGTACCGTCGGCGATGAGAAG
1 AGAAGGCAAGATGGTACCGCCGGCGAGGAGAAG
3440840 AGAAGGCAAGA
1 AGAAGGCAAGA
3440851 AAATATTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.39, T:0.09
Consensus pattern (33 bp):
AGAAGGCAAGATGGTACCGCCGGCGAGGAGAAG
Found at i:3441389 original size:181 final size:181
Alignment explanation
Indices: 3441063--3441661 Score: 859
Period size: 181 Copynumber: 3.3 Consensus size: 181
3441053 GTTTATGTTT
* * * * * * *
3441063 ATACTTTATAAAAATGTATCGATCTATATCAATATAATAGGTAAAAATATGACAAAACCGGTCTC
1 ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCTC
* * * * * *
3441128 GAAAAGACAAAACGGTAAAGGGCTATCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATC
66 TAAAGGACAAAACGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATC
* * ** *
3441193 AACACTTTATGAATTTAAGAGAGAAATAGTTTTAGCGCCTATAAAATGTCG
131 GACACTTTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCG
* *
3441244 ATACTTTATAACAATATATCGATCCACAACGATATAACAAGTAAAAATATGACAAAACTGGTCTC
1 ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCTC
3441309 TAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAATGTGTCGATACTTTAATATAAGTA
66 TAAAGGACAAAA-CGGTATAGAGCGACCGGATATATTGAAA-GTGTCGATACTTTAATATAAGTA
*
3441374 TCGACAC-TT-TGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAAAGTGTCG
129 TCGACACTTTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCG
*
3441425 ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATTGGTCTC
1 ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCTC
* *
3441490 TAAAGAACAAAACCGGTATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTAT
66 TAAAGGACAAAA-CGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTAT
* *
3441555 CGACCCTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCC--T-AAGTGTCG
130 CGACACTTTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCG
* * *
3441604 CTACTTTATAA-AATTGTATCGATCCATAACGATATAACAGGTAAACATATGACAAAAC
1 ATACTTTATAACAA-TGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAAC
3441662 CGGTAAAGCG
Statistics
Matches: 380, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
178 2 0.01
179 59 0.16
180 30 0.08
181 205 0.54
182 55 0.14
183 29 0.08
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCTC
TAAAGGACAAAACGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATC
GACACTTTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCG
Found at i:3444235 original size:65 final size:66
Alignment explanation
Indices: 3444112--3444235 Score: 144
Period size: 65 Copynumber: 1.9 Consensus size: 66
3444102 AAGTGGAAGG
** * *
3444112 AAAAATAGATGGAATGGTGAAAGAAGTTGAGGTGTTAAGGGGTGAACTTAAGATGGTGATGGGTG
1 AAAAATAGATGGAATGGTGAAAGAAGTTGAGGAATTAAGGAGTGAACTTAAGAGGGTGATGGGTG
3444177 A
66 A
* * * * *
3444178 AAAAAT-GATGGAGTGGTGAAGGAGGTTGTGGAATTGAGGAGTGAACTTACAG-GGGTGA
1 AAAAATAGATGGAATGGTGAAAGAAGTTGAGGAATTAAGGAGTGAACTTA-AGAGGGTGA
3444236 AGGGGGTGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
65 40 0.83
66 8 0.17
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (66 bp):
AAAAATAGATGGAATGGTGAAAGAAGTTGAGGAATTAAGGAGTGAACTTAAGAGGGTGATGGGTG
A
Found at i:3444361 original size:15 final size:15
Alignment explanation
Indices: 3444333--3444381 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
3444323 ATGAACTGAA
*
3444333 AAAATAT-GAAGAAG
1 AAAATATGGAGGAAG
3444347 AAAATATGGAGGAAGAAG
1 AAAATATGGA-G--GAAG
3444365 AAAATATGGAGGAAG
1 AAAATATGGAGGAAG
3444380 AA
1 AA
3444382 GAAAATATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.23
15 8 0.27
17 1 0.03
18 14 0.47
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (15 bp):
AAAATATGGAGGAAG
Found at i:3444363 original size:18 final size:18
Alignment explanation
Indices: 3444340--3444396 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
3444330 GAAAAAATAT
3444340 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAATATGGAG
3444358 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAATATGGAG
*
3444376 GAAGAAGAAAATATAGAG
1 GAAGAAGAAAATATGGAG
3444394 GAA
1 GAA
3444397 ATGAGGAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAAATATGGAG
Found at i:3445972 original size:19 final size:19
Alignment explanation
Indices: 3445948--3445996 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3445938 AATGTAGGGT
3445948 TAATTTTGTATAATATTTA
1 TAATTTTGTATAATATTTA
*
3445967 TAATTTTGTATACTATTTA
1 TAATTTTGTATAATATTTA
3445986 TAATTTTGTAT
1 TAATTTTGTAT
3445997 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (19 bp):
TAATTTTGTATAATATTTA
Found at i:3446667 original size:200 final size:200
Alignment explanation
Indices: 3446348--3447905 Score: 2018
Period size: 200 Copynumber: 7.8 Consensus size: 200
3446338 AATCAAATGG
* * * *
3446348 GTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACACATAATTATAATGTAATAGA
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * * ** *
3446413 TAATTTTGTAATATAACATGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * * *
3446478 CGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGCAT
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
3446543 AAAGT
196 AAAGT
* *
3446548 GTCGATACATTTATAAAAAGTATCGATCTCAGAAACATCGAAACACATAATTATAATGTAATAGG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * * *
3446613 TAAATTTACAATGTAACCGGTATAACTATATCGGTTTTATGAGAGAATAGGTCTACATAATGCAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * *
3446678 TGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
3446743 AAAGT
196 AAAGT
* * * *
3446748 GTCGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATAGG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * *
3446813 TAATTTTGTAATGTAACCGGTATAAATATACC-GTTTTATGTGAGAATAGGTCTACATAATGTAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * *
3446877 CGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCAT
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
3446942 AAAGT
196 AAAGT
* * * * *
3446947 GTCGATAAATTTTTAAAACGTGTCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATAGG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * * * *
3447012 TAATTTTGTAATGTAATCGGTATAAATATACCGGTTTTATGTGAGAATAAGTCTACATAATGTAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * * * * *
3447077 CAACACTTTTTAATTTTGTGTCTATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCACG
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAAGGGTGCACC
3447142 CATAAAGT
193 CATAAAGT
* * * * *
3447150 GTCAATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACTCATGATTATAATATAATAGG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * * * * * *
3447215 TAATTTTTCAATGTAACCGATATAAATATATCGGTTTTATGTGAGAATAGGTCTAAAAAATGTAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * *
3447280 CGACACTTGTGTATTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCATAAAGGGTGCACCCA
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA-AAAGGGTGCACCCA
3447345 TAAAGT
195 TAAAGT
* * * *
3447351 GTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATAGATAATTATAATGTAATAGG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
* * * * * *
3447416 TAAATTT-CAATGTAATCAGTATAAATATACCGATTTTATGAGAGAATAGGTCTAAAAAATATAT
66 TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * * *
3447480 CGACAGTTGTGGAATTTGTGTCGATACTTTTTGTCGAGAAGGAATGCCCAAAAGGGTGCACCCAT
131 CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
3447545 AAAGT
196 AAAGT
* *
3447550 GTCGATACTTTTTTAAAAAGTATCGATCCCAAAAACATCGAAAC-CGATAATTATAATGTAATAG
1 GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACAC-ATAATTATAATGTAATAG
** * * *
3447614 GTAAATTT-CAATGTAACCAATATAAATATATCGGTTTTATGAGAGAATATGTCTACAAAATGTA
65 GTAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
3447678 TCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCGAGAATGAATGCCTAAAAGGGTGCACCCA
130 TCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
3447743 TAAAGT
195 TAAAGT
* *
3447749 GTCGATACATTTTTAAAAAGTTTCGATCCCTA-AAATATCGAAAC-CGATAATTATAATGTAATA
1 GTCGATACATTTTTAAAAAGTATCGATCCC-AGAAACATCGAAACAC-ATAATTATAATGTAATA
* *** * * *
3447812 GGTAAATTTCCAATGTAACATATATAAATATA-CGAGTATTATGAGAAAATAGGTC-AGCATAAA
64 GGTAAATTTGCAATGTAACCGGTATAAATATACCG-GTTTTATGAGAGAATAGGTCTA-CATAAT
*
3447875 GTATCGACAATTGTT-AAATTTGTGTCGATAC
127 GTATCGACACTT-TTGAAATTTGTGTCGATAC
3447906 CATTTTAAAA
Statistics
Matches: 1215, Mismatches: 132, Indels: 22
0.89 0.10 0.02
Matches are distributed among these distances:
199 458 0.38
200 501 0.41
201 81 0.07
203 175 0.14
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
GTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACACATAATTATAATGTAATAGG
TAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
CGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCAT
AAAGT
Found at i:3447899 original size:802 final size:803
Alignment explanation
Indices: 3446352--3447911 Score: 2231
Period size: 802 Copynumber: 1.9 Consensus size: 803
3446342 AAATGGGTCG
* *
3446352 ATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACACATAATTATAATGTAATAGATAAT
1 ATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATATAATAGATAAT
* * *
3446417 TTTGTAATATAACATGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGAC
66 TTTGTAATATAACACGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAAAAAATGTATCGAC
* * * *
3446482 ACTTTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACGCATAAAG
131 ACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATAAAG
* *
3446547 TGTCGATACATTTATAAAAAGTATCGATCTCAGAAACATCGAAACACATAATTATAATGTAATAG
196 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAG
* * * * * * *
3446612 GTAAATTTACAATGTAACCGGTATAACTATATCGGTTTTATGAGAGAATAGGTCTACATAATGCA
261 GTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAGAATAGGTCTAAAAAATACA
* *
3446677 TTGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
326 TCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCA
* * *
3446742 TAAAGTGTCGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATAATGT
391 TAAAGTGTCGATACATTTTTTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * ** * *
3446807 AATAGGTAATTTTGTAATGTAACCGGTATAAATATACCGTTTTATGTGAGAATAGGTCTACATAA
456 AATAGGTAAATTTGCAATGTAACCAATATAAATATACCGTTTTATGAGAGAATAGGTCTACAAAA
* *
3446872 TGTATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAA
521 TGTATCGACACTTCTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAA
* * *
3446937 CGCATAAAGTGTCGATAAATTTTTAAAACGTGTCGATCCCAGAGACATCGAAACCCATAATTATA
586 CCCATAAAGTGTCGATAAATTTTTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATA
* ** * * * *
3447002 ATGTAATAGGTAATTTTGTAATGTAATCGGTATAAATATACCGGTTTTATGTGAGAATAAGTCTA
651 ATGTAATAGGTAAATTTCCAATGTAATCGATATAAATATACCGGTATTATGAGAAAATAAGTCTA
* * * * *
3447067 CATAATGTATCAACACTTTTTAATTTTGTGTCTATA-CATTTTGTCCAGAATGAATGCCCAAAAA
716 CATAAAGTATCAACAATTGTTAAATTTGTGTCGATACCATTTTGTCCAGAATGAATGCCCAAAAA
3447131 AATGGTGCACGCATAAAGTGTCA
781 AATGGTGCACGCATAAAGTGTCA
* * * *
3447154 ATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACTCATGATTATAATATAATAGGTAAT
1 ATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATATAATAGATAAT
* *
3447219 TTT-TCAATGTAAC-CGATATAAATATATCGGTTTTATGTGAGAATAGGTCTAAAAAATGTATCG
66 TTTGT-AATATAACACG-TATAAATATACCGGTTTTATGTGAGAATAGGTCTAAAAAATGTATCG
* * * * *
3447282 ACACTTGTGTATTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCATAAAGGGTGCACCCATA
129 ACACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCA-AAAGGGTGAACCCATA
* * * *
3447347 AAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATAGATAATTATAATGTAA
193 AAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAA
*
3447412 TAGGTAAATTT-CAATGTAATCAGTATAAATATACCGATTTTATGAGAGAATAGGTCTAAAAAAT
258 TAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAGAATAGGTCTAAAAAAT
* * * * *
3447476 ATATCGACAGTTGTGGAATTTGTGTCGATACTTTTTGTCGAGAAGGAATGCCCAAAAGGGTGCAC
323 ACATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCAC
*
3447541 CCATAAAGTGTCGATAC-TTTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
388 CCATAAAGTGTCGATACATTTTTT-AAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
* *
3447605 ATGTAATAGGTAAATTT-CAATGTAACCAATATAAATATATCGGTTTTATGAGAGAATATGTCTA
452 ATGTAATAGGTAAATTTGCAATGTAACCAATATAAATATA-CCGTTTTATGAGAGAATAGGTCTA
* * * *
3447669 CAAAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCGAGAATGAATGCCTAAAAGG
516 CAAAATGTATCGACACTTCTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGG
* * * * *
3447734 GTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTTTCGATCCCTA-AAATATCGAAACCGATA
581 GTGAACCCATAAAGTGTCGATAAATTTTTAAAAAGTGTCGATCCC-AGAAACATCGAAACCCATA
*
3447798 ATTATAATGTAATAGGTAAATTTCCAATGTAA-CATATATAAATATA-CGAGTATTATGAGAAAA
645 ATTATAATGTAATAGGTAAATTTCCAATGTAATC-GATATAAATATACCG-GTATTATGAGAAAA
* *
3447861 TAGGTC-AGCATAAAGTATCGACAATTGTTAAATTTGTGTCGATACCATTTT
708 TAAGTCTA-CATAAAGTATCAACAATTGTTAAATTTGTGTCGATACCATTTT
3447912 AAAAATCGCG
Statistics
Matches: 666, Mismatches: 82, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
801 31 0.05
802 545 0.82
803 90 0.14
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (803 bp):
ATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATATAATAGATAAT
TTTGTAATATAACACGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAAAAAATGTATCGAC
ACTTGTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATAAAG
TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAG
GTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGAGAGAATAGGTCTAAAAAATACA
TCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCA
TAAAGTGTCGATACATTTTTTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTTGCAATGTAACCAATATAAATATACCGTTTTATGAGAGAATAGGTCTACAAAA
TGTATCGACACTTCTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAA
CCCATAAAGTGTCGATAAATTTTTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATA
ATGTAATAGGTAAATTTCCAATGTAATCGATATAAATATACCGGTATTATGAGAAAATAAGTCTA
CATAAAGTATCAACAATTGTTAAATTTGTGTCGATACCATTTTGTCCAGAATGAATGCCCAAAAA
AATGGTGCACGCATAAAGTGTCA
Found at i:3449407 original size:3 final size:3
Alignment explanation
Indices: 3449401--3449436 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
3449391 TGACGATAAA
*
3449401 GAT GAT GAT GAT GAT GAT GAT CAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3449437 CTAAACAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:3450755 original size:24 final size:25
Alignment explanation
Indices: 3450728--3450779 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
3450718 TTTCAAATTC
*
3450728 ATTTTATATGT-AATTGGAGTTTGA
1 ATTTTAAATGTCAATTGGAGTTTGA
* *
3450752 A-TTTAAATTTCAATTTGAGTTTGA
1 ATTTTAAATGTCAATTGGAGTTTGA
3450776 ATTT
1 ATTT
3450780 CAATATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 7 0.30
24 14 0.61
25 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (25 bp):
ATTTTAAATGTCAATTGGAGTTTGA
Found at i:3450768 original size:18 final size:18
Alignment explanation
Indices: 3450747--3450783 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3450737 GTAATTGGAG
3450747 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3450765 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3450783 T
1 T
3450784 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3450790 original size:24 final size:24
Alignment explanation
Indices: 3450739--3450791 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3450729 TTTTATATGT
* * *
3450739 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
3450763 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
3450787 AATTT
1 AATTT
3450792 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:3451510 original size:200 final size:198
Alignment explanation
Indices: 3451006--3451770 Score: 1008
Period size: 200 Copynumber: 3.8 Consensus size: 198
3450996 AAGTTTCCCG
*
3451006 TAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAATATCGAAACCGAAAATTATAATGT
1 TAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATGT
* * * *
3451071 AATAGGTAAA-TTACAATGTGACCGGTATAAATATACCGATTTTATGTGCAAATAGGTCAGCATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATA
* * **** *
3451135 AAGTATCGACACCTTTTAAATTTGTGTCGATACTTTTTGTCC-GAACCTTTGCTC-AACGAGCTT
131 ATGTATCGACA-CTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATG-TCAAACG-GGTT
3451198 CACGCA
193 CACGCA
* * * *
3451204 TAAAAGTGTTGATACA--TTTAAAATTGTATCGATCCAAAAAATATCGAAATCGAAAATTATAAT
1 T-AAAGTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
** * *
3451267 GTAATAGGTAAATTTACAATGTAACTAGTATAAATATACCGGTTTTATGAGAAAATATGT-ATAC
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCA-AC
*
3451331 ATAATGTATCGACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGTCAAACAGGG
128 ATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGTCAAAC-GGG
* *
3451396 TGCACACA
191 TTCACGCA
*
3451404 TAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAACCATCGAAACC-AATAATTATAAT
1 TAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCGAA-AATTATAAT
* * * * *
3451467 GTAATAGGTAAATTTACAATGTAACCCGTATAAGTATACCGGTTTTATGAGAAAATAAGTGAACA
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
* * *
3451532 TAATGTATCGACACTTTTTAGATTTGGGTCGATACATTTTGTCTAGAATGAATG-CAAAACGGGG
129 TAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGTC-AAAC-GGG
3451596 TTCACGCA
191 TTCACGCA
* *
3451604 TAAAGTGTCAATACATTTTTAAAAAGTATCGATCCAAAAAACATTGAAACCGAAAATTATAATGT
1 TAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATGT
*
3451669 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTTAACATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATA
* * *
3451734 ATGTATCAACACTTTTAAATTTGTGTTGATACGTTTT
131 ATGTATCGACACTTTTAAATTTGTGTCGATACATTTT
3451771 TAAATTACGT
Statistics
Matches: 500, Mismatches: 50, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
197 7 0.01
198 53 0.11
199 134 0.27
200 293 0.59
201 13 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (198 bp):
TAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATGT
AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATA
ATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGTCAAACGGGTTCAC
GCA
Found at i:3452950 original size:19 final size:19
Alignment explanation
Indices: 3452926--3452969 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3452916 AGGGTTGATT
3452926 TTGTATAAGATTTATAATG
1 TTGTATAAGATTTATAATG
* *
3452945 TTGTATACGATTTATAATT
1 TTGTATAAGATTTATAATG
3452964 TTGTAT
1 TTGTAT
3452970 GTGAATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
TTGTATAAGATTTATAATG
Found at i:3455975 original size:200 final size:197
Alignment explanation
Indices: 3455626--3456141 Score: 621
Period size: 200 Copynumber: 2.6 Consensus size: 197
3455616 ATATAAAGTA
* *
3455626 TCGATACATTTATTAAAAT-TATCGATCTCAATAACATCGAAACCGATAATTATAATATAAT-AG
1 TCGATACATTTATT-AAATGTATCGATCCCAA-AACATCGAAACCGATAATTATAATGTAATAAG
** * * *
3455689 ATAAATTTACAATGTAATTGGTATAAATATACCGGTTTTATAAGAAAATATGTCAGCATAAAGTA
64 -TAAATTTACAATGT-ACCGGTATAAATATATCGGTTTTATAAGAAAATAGGTCAGAATAAAGTA
* * *
3455754 TCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCAAACGGGGTGCACGCA
127 TCGACACCATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGCCAAACGAGGTGCACGCA
3455819 TAAAATG
191 TAAAATG
* *
3455826 TCGATACATTTATTAAATGTATCGATCCCACAAACATCGAAACCGATAATTACAATGTGATAAGT
1 TCGATACATTTATTAAATGTATCGATCCCA-AAACATCGAAACCGATAATTATAATGTAATAAGT
* * * * *
3455891 AAATTTACAATGTACCCGATAGAAATATATCGGTTTTATGATAAAATAGGTCTA-AATAATGTAT
65 AAATTTACAATGTA-CCGGTATAAATATATCGGTTTTATAAGAAAATAGGTC-AGAATAAAGTAT
** * * **
3455955 CGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCTTGCATA
128 CGACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTGCACGCATA
*
3456020 AAGTG
193 AAATG
* * *
3456025 TCGATACATTTA--AAATTGTATCGATCCAAAAAACATCGAAATCGATAATTATAATGTAATAAT
1 TCGATACATTTATTAAA-TGTATCGATCC-CAAAACATCGAAACCGATAATTATAATGTAATAAG
* *
3456088 TAAATTTGCAATGTTACCGGTATAAATATATCGG-TTTACTTAGAAAATAGGTCA
64 TAAATTTACAATG-TACCGGTATAAATATATCGGTTTTA-TAAGAAAATAGGTCA
3456142 ATATAAGCGT
Statistics
Matches: 273, Mismatches: 34, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
197 8 0.03
198 80 0.29
199 51 0.19
200 130 0.48
201 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (197 bp):
TCGATACATTTATTAAATGTATCGATCCCAAAACATCGAAACCGATAATTATAATGTAATAAGTA
AATTTACAATGTACCGGTATAAATATATCGGTTTTATAAGAAAATAGGTCAGAATAAAGTATCGA
CACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAA
TG
Found at i:3463110 original size:20 final size:21
Alignment explanation
Indices: 3463087--3463132 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
3463077 TTTGAGTTGA
3463087 TTAAAATATGTTT-AAACTGT
1 TTAAAATATGTTTAAAACTGT
* *
3463107 TTAAAATGTGTTTAAAACTTT
1 TTAAAATATGTTTAAAACTGT
3463128 TTAAA
1 TTAAA
3463133 TGTGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (21 bp):
TTAAAATATGTTTAAAACTGT
Found at i:3463194 original size:16 final size:16
Alignment explanation
Indices: 3463170--3463201 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3463160 TGGTACTATT
3463170 CATGATATTGTTCATA
1 CATGATATTGTTCATA
*
3463186 CATGGTATTGTTCATA
1 CATGATATTGTTCATA
3463202 GTTTGGAAAA
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:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (16 bp):
CATGATATTGTTCATA
Found at i:3463422 original size:19 final size:19
Alignment explanation
Indices: 3463393--3463448 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
3463383 TAGTGTGTTT
3463393 AAAAGTTTCGATACTTTCAC
1 AAAA-TTTCGATACTTTCAC
3463413 AAAATTTCGATACTTTCAC
1 AAAATTTCGATACTTTCAC
*
3463432 AAAATTTCGAAACTTTC
1 AAAATTTCGATACTTTC
3463449 TTCGAAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (19 bp):
AAAATTTCGATACTTTCAC
Found at i:3466435 original size:20 final size:19
Alignment explanation
Indices: 3466391--3466463 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
3466381 AGTGTGTTTA
* * *
3466391 AAAGTTTCGATACTTTCAC
1 AAAGTTTCAAAACTTTCTC
3466410 AAAGTTTCAAAACTTTCTC
1 AAAGTTTCAAAACTTTCTC
3466429 AAAAGTTTCAAAACTTTCTTC
1 -AAAGTTTCAAAACTTTC-TC
*
3466450 AAAGTTTCGAAACT
1 AAAGTTTCAAAACT
3466464 CCATGTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 16 0.33
20 30 0.62
21 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (19 bp):
AAAGTTTCAAAACTTTCTC
Found at i:3467989 original size:14 final size:14
Alignment explanation
Indices: 3467952--3467992 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
3467942 GTAAAATAGC
3467952 TTTTTAATGTATT-
1 TTTTTAATGTATTA
*
3467965 TTTTCAA--TATTA
1 TTTTTAATGTATTA
3467977 TTTTTAATGTATTA
1 TTTTTAATGTATTA
3467991 TT
1 TT
3467993 AATAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 6 0.26
14 7 0.30
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (14 bp):
TTTTTAATGTATTA
Found at i:3468206 original size:16 final size:16
Alignment explanation
Indices: 3468187--3468217 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3468177 TAAATAGATA
*
3468187 TAAATAATAATAAAGG
1 TAAAAAATAATAAAGG
3468203 TAAAAAATAATAAAG
1 TAAAAAATAATAAAG
3468218 AAGCCGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAAAAATAATAAAGG
Found at i:3468857 original size:17 final size:17
Alignment explanation
Indices: 3468835--3468875 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
3468825 ATGATTTTCA
3468835 GAACCGGACCGGTTAGC
1 GAACCGGACCGGTTAGC
*
3468852 GAACCGGATCGGTTAGC
1 GAACCGGACCGGTTAGC
3468869 GAACCGG
1 GAACCGG
3468876 CCATGCTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.37, T:0.12
Consensus pattern (17 bp):
GAACCGGACCGGTTAGC
Found at i:3473472 original size:13 final size:14
Alignment explanation
Indices: 3473446--3473975 Score: 77
Period size: 14 Copynumber: 38.1 Consensus size: 14
3473436 TACGATTGTG
3473446 TAATAATAATAACAA
1 TAATAAT-ATAACAA
3473461 TAA-AATATAACAA
1 TAATAATATAACAA
*
3473474 TAATAATATATA-TA
1 TAATAATATA-ACAA
*
3473488 TATATAATA-AATAA
1 TA-ATAATATAACAA
3473502 T-ATAATAT---AA
1 TAATAATATAACAA
*
3473512 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473524 TAATAAATATAATAA
1 TAAT-AATATAACAA
3473539 T-ATAATAATAA-ATA
1 TAATAAT-ATAACA-A
*
3473553 TAAATAATATAA-TA
1 T-AATAATATAACAA
* *
3473567 TATATAATAAATATAA
1 TA-ATAATATA-ACAA
*
3473583 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473595 TAAT-ATA-ATATAA
1 TAATAATATA-ACAA
*
3473608 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473620 TAAT-ATATAA-TA
1 TAATAATATAACAA
*
3473632 TAATATAATATAA-TA
1 T-A-ATAATATAACAA
*
3473647 TAATATAATATAA-TA
1 T-A-ATAATATAACAA
*
3473662 TAAT-ATAATAA-TA
1 TAATAAT-ATAACAA
*
3473675 TAATAATATAATAAA
1 TAATAATATAA-CAA
*
3473690 TATATAATATAA-TA
1 TA-ATAATATAACAA
3473704 TAAT-ATAATAA-ATA
1 TAATAAT-ATAACA-A
*
3473718 TAATTAAATATAA-TA
1 TAA-T-AATATAACAA
*
3473733 TAATAA-ATATATAA
1 TAATAATATA-ACAA
*
3473747 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473759 TAATATAATATAA-TA
1 T-A-ATAATATAACAA
*
3473774 TATATAATATAAATAA
1 TA-ATAATAT-AACAA
*
3473790 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473802 TAATATAATATAATTAA
1 T-A-ATAATATAA-CAA
*
3473819 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473831 TAATTAATATAATAA
1 TAA-TAATATAACAA
*
3473846 T-ATAATATAA-TA
1 TAATAATATAACAA
*
3473858 TAATATAATATAATTAA
1 T-A-ATAATATAA-CAA
*
3473875 T-ATAAT-TAA-TA
1 TAATAATATAACAA
*
3473886 TAATATATATAATAA
1 TAATA-ATATAACAA
* *
3473901 T-ATAATAAATATAA
1 TAATAATATA-ACAA
3473915 T-ATAATATAA-ATA
1 TAATAATATAACA-A
*
3473928 TAATATAATATAATAAA
1 T-A-ATAATATAA-CAA
* *
3473945 TAAATAATACAATAA
1 T-AATAATATAACAA
*
3473960 TAATAATATAAGAA
1 TAATAATATAACAA
3473974 TA
1 TA
3473976 GTAAATACGT
Statistics
Matches: 415, Mismatches: 32, Indels: 137
0.71 0.05 0.23
Matches are distributed among these distances:
10 10 0.02
11 3 0.01
12 46 0.11
13 83 0.20
14 135 0.33
15 88 0.21
16 39 0.09
17 10 0.02
18 1 0.00
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATATAACAA
Found at i:3473508 original size:5 final size:5
Alignment explanation
Indices: 3473476--3473970 Score: 656
Period size: 5 Copynumber: 99.8 Consensus size: 5
3473466 TATAACAATA
3473476 ATAAT AT-AT ATATAT ATAAT AAATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATA-AT ATAAT --ATAAT ATAAT ATAAT ATAAT ATAAT
3473523 ATAAT A-AAT AT-A- ATAAT ATAAT AATAAAT ATAA- ATAAT ATAAT AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -AT-AAT ATAAT ATAAT ATAAT ATAAT
3473570 ATAAT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3473619 ATAATAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 AT-A-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
3473671 A-ATAT AATAAT ATAAT AAATAT ATAAT ATAAT ATAAT ATAAT A-AAT
1 ATA-AT -ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
*
3473717 ATAAT -TAAAT ATAAT ATAAT AAATAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT AT-AAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
3473768 ATAAT AT-AT ATAAT ATAA- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3473816 -TAAT ATAAT ATAAT ATAAT -TAAT AT-A- ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3473862 ATAAT ATAAT -TAAT ATAAT -TAAT ATAAT ATATAT AATAAT ATAAT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATAAT ATAAT
3473911 ATAAT ATAAT ATAAAT ATAAT ATAAT ATAAT A-AAT A-AAT AATACA-
1 ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATA-AT
3473956 ATAAT AATAAT ATAA
1 ATAAT -ATAAT ATAA
3473971 GAATAGTAAA
Statistics
Matches: 447, Mismatches: 4, Indels: 78
0.84 0.01 0.15
Matches are distributed among these distances:
3 4 0.01
4 66 0.15
5 322 0.72
6 38 0.09
7 17 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:3473618 original size:91 final size:95
Alignment explanation
Indices: 3473476--3473970 Score: 641
Period size: 91 Copynumber: 5.4 Consensus size: 95
3473466 TATAACAATA
3473476 ATAATATATATATATATAATAA-ATAATATAATATAATATAATATAATATAATAAATATAATAAT
1 ATAATATA-ATATA-ATAATAATATAATATAATATAATATAATATAATATAATAAATATAATAAT
3473540 ATAATAATAAATATAA-ATAATATAATAT-AT
64 ATAATAATAAATATAATATAATATAATATAAT
3473570 ATAATA-AATATAAT-ATAATATAATATAATATAATATAATATAATATAATATAATAT-ATAATA
1 ATAATATAATATAATAATAATATAATATAATATAATATAATATAATATAATA-AATATAATAATA
3473632 TAAT-AT-AATATAATATAATATAATATAAT
65 TAATAATAAATATAATATAATATAATATAAT
*
3473661 ATAATATAATA-ATATAATAATATAATAAATATATAATATAATATAATATAATAAATATAAT--T
1 ATAATATAATATA-ATAATAATATAATATA-ATATAATATAATATAATATAATAAATATAATAAT
*
3473723 A-AAT-AT-AATATAATAAATATATAATATAAT
64 ATAATAATAAATATAATATA-ATATAATATAAT
3473753 ATAATATAATATAAT-ATAATAT-ATATAATATAA-ATAATATAATATAATATAATATAAT-ATA
1 ATAATATAATATAATAATAATATAATATAATATAATATAATATAATATAATA-AATATAATAATA
*
3473814 -ATTAATATAATATAATATAAT-TAATAT-A-
65 TAATAATA-AATATAATATAATATAATATAAT
*
3473842 ATAATATAATATAAT-ATAATATAATATAAT-TAATATAAT-TAATATAATATATATAATAATAT
1 ATAATATAATATAATAATAATATAATATAATATAATATAATATAATATAATAAATATAATAATAT
3473904 AATAAATATAATATAATATAAATATAATATAAT
66 AAT-AATA-AATATAATAT-AATATAATATAAT
3473937 ATAATA-AATA-AATAATACA-ATAATAATAATATAA
1 ATAATATAATATAATAATA-ATATAAT-ATAATATAA
3473971 GAATAGTAAA
Statistics
Matches: 365, Mismatches: 7, Indels: 56
0.85 0.02 0.13
Matches are distributed among these distances:
88 23 0.06
89 59 0.16
90 41 0.11
91 97 0.27
92 48 0.13
93 38 0.10
94 44 0.12
95 12 0.03
96 3 0.01
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (95 bp):
ATAATATAATATAATAATAATATAATATAATATAATATAATATAATATAATAAATATAATAATAT
AATAATAAATATAATATAATATAATATAAT
Found at i:3473958 original size:8 final size:7
Alignment explanation
Indices: 3473475--3473967 Score: 238
Period size: 8 Copynumber: 65.0 Consensus size: 7
3473465 ATATAACAAT
3473475 AATAATA
1 AATAATA
*
3473482 TATATATA
1 AATA-ATA
*
3473490 TATAATA
1 AATAATA
3473497 AATAAT-
1 AATAATA
3473503 -ATAATA
1 AATAATA
3473509 TAAT-ATA
1 -AATAATA
3473516 ATATAATA
1 A-ATAATA
3473524 TAATAAATA
1 -AAT-AATA
3473533 TAATAATA
1 -AATAATA
3473541 TAATAATA
1 -AATAATA
3473549 AAT-ATA
1 AATAATA
3473555 AATAATA
1 AATAATA
3473562 TAAT-ATA
1 -AATAATA
*
3473569 TATAATA
1 AATAATA
3473576 AAT-ATA
1 AATAATA
3473582 ATATAATA
1 A-ATAATA
3473590 TAAT-ATA
1 -AATAATA
3473597 ATATAATA
1 A-ATAATA
3473605 TAAT-ATA
1 -AATAATA
3473612 ATATAATA
1 A-ATAATA
3473620 TAATATATA
1 -AATA-ATA
3473629 ATATAATA
1 A-ATAATA
3473637 TAAT-ATA
1 -AATAATA
3473644 ATATAATA
1 A-ATAATA
3473652 TAAT-ATA
1 -AATAATA
3473659 ATATAATA
1 A-ATAATA
3473667 TAATAATA
1 -AATAATA
3473675 TAATAATA
1 -AATAATA
3473683 TAATAAATA
1 -AAT-AATA
*
3473692 TATAATA
1 AATAATA
3473699 TAAT-ATA
1 -AATAATA
3473706 ATATAATAA
1 A-ATAAT-A
3473715 ATATAATTA
1 A-ATAA-TA
3473724 AAT-ATA
1 AATAATA
3473730 ATATAATA
1 A-ATAATA
3473738 AATATATA
1 AATA-ATA
3473746 ATATAATA
1 A-ATAATA
3473754 TAAT-ATA
1 -AATAATA
3473761 ATATAATA
1 A-ATAATA
3473769 TAATATATA
1 -AATA-ATA
3473778 TAAT-ATA
1 -AATAATA
3473785 AATAATA
1 AATAATA
3473792 TAAT-ATA
1 -AATAATA
3473799 ATATAATA
1 A-ATAATA
3473807 TAAT-ATA
1 -AATAATA
*
3473814 ATTAATA
1 AATAATA
3473821 TAAT-ATA
1 -AATAATA
3473828 ATATAATTA
1 A-ATAA-TA
3473837 ATATAATA
1 A-ATAATA
3473845 ATATAATA
1 A-ATAATA
3473853 TAAT-ATA
1 -AATAATA
3473860 ATATAATA
1 A-ATAATA
3473868 TAATTAATA
1 -AA-TAATA
3473877 TAATTAATA
1 -AA-TAATA
3473886 TAAT-ATA
1 -AATAATA
*
3473893 TATAATA
1 AATAATA
3473900 ATATAATA
1 A-ATAATA
3473908 AAT-ATA
1 AATAATA
3473914 ATATAATA
1 A-ATAATA
3473922 TAA-ATATA
1 -AATA-ATA
3473930 ATATAATA
1 A-ATAATA
3473938 TAATAAATA
1 -AAT-AATA
3473947 AATAATA
1 AATAATA
3473954 CAATAAT-
1 -AATAATA
3473961 AATAATA
1 AATAATA
3473968 TAAGAATAGT
Statistics
Matches: 405, Mismatches: 10, Indels: 142
0.73 0.02 0.25
Matches are distributed among these distances:
5 5 0.01
6 42 0.10
7 115 0.28
8 161 0.40
9 81 0.20
10 1 0.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATAATA
Found at i:3474298 original size:52 final size:52
Alignment explanation
Indices: 3474192--3474451 Score: 364
Period size: 52 Copynumber: 5.0 Consensus size: 52
3474182 TTTAGAGATA
* ** * *
3474192 ATTGAGATAACACAGTTCCTTCACGAT-A-GAATGTTTGGCTATCTAAGGATG
1 ATTGAGATAACACGGTTCCTTCGTGATGAGGACT-TCTGGCTATCTAAGGATG
*
3474243 ATTGAGATAACACGATTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATG
1 ATTGAGATAACACGGTTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATG
* *
3474295 ATTGAAATAACAAGGTTCCTTCGTGATGAGGACTT-TAGGCTATCTAAGGATG
1 ATTGAGATAACACGGTTCCTTCGTGATGAGGACTTCT-GGCTATCTAAGGATG
*
3474347 ATTGAGATAACACGGTTCCTTCGTGATGAAGACTTCTGGCTATCTAAGGATG
1 ATTGAGATAACACGGTTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATG
* * * *
3474399 ATTGAGAAAAGACGGTTCCTTCGTGATGAGGACATCTGGCTATCAAAGGATG
1 ATTGAGATAACACGGTTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATG
3474451 A
1 A
3474452 CTTGGCTCAT
Statistics
Matches: 188, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
51 24 0.13
52 160 0.85
53 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (52 bp):
ATTGAGATAACACGGTTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATG
Found at i:3474595 original size:52 final size:52
Alignment explanation
Indices: 3474539--3474950 Score: 592
Period size: 52 Copynumber: 7.9 Consensus size: 52
3474529 AGAGATAAAT
* * *
3474539 GATAACACGGTTCCTTCACGATGAGGACATCTGGCTATCTAAGGATGATGGA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
** * *
3474591 GATAACACGGTTTATTCGTGATGAGGACTTCTGGCTATCTAAGAATGATTGA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
** *
3474643 GATAACACAATTCCTT-AGTGATGAGGACTTCTGACTATCTAAGGATGATTGA
1 GATAACACGGTTCCTTCA-TGATGAGGACTTCTGGCTATCTAAGGATGATTGA
* * * *
3474695 GATAACATGGTTCCTTCGTGATGAAGACTTCTGGCTATCTAAGGATGATTCA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
* *
3474747 GATAACATGGTTCCTTCGTGATGAGGACTTCTGGCTATCTAAGGATGATTGA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
* *
3474799 GATAACACGGTTCCTTCGTGATGAGGACTTATGGCTATCTAAGGATGATTGA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
* ** * *
3474851 GATAGCACAATTCCTTCATGATAAGGACTTCTGGCTATCTAAGGATGATTGG
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
*
3474903 GATAACACAGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGA
1 GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGA
3474951 CTTGGCTCCT
Statistics
Matches: 323, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
52 323 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (52 bp):
GATAACACGGTTCCTTCATGATGAGGACTTCTGGCTATCTAAGGATGATTGA
Found at i:3475563 original size:37 final size:36
Alignment explanation
Indices: 3475332--3475774 Score: 546
Period size: 36 Copynumber: 12.2 Consensus size: 36
3475322 GGCTTGGATC
* * * **
3475332 GCTTTTCTTCATTACTCTTCTGTGAAGGCTAGGATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
* * * * *
3475368 TCTTTTCTTCACTACTTTTCTGTGAAGGCTAAGA-T
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
* *
3475403 GACTTTGCTTCACTACTCTTCCGTAAAGGCTAAGATT
1 G-CTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
*
3475440 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAGATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
** * * * *
3475476 TATTTACTTCACTACTCTTCTGTGAAGGTTAAGATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
* ** *
3475512 GCTTTGCTTTACTACTCTTTTGTGAAGACTAAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
*
3475549 GCTTTGCTTCACTACTCTTCCGTGAAGACTAAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
* * *
3475586 ACTTTGCTTCACTACTCTTTCATGAAGGCTAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
*
3475622 GCTTTACTTCACTACTCTTCCGTGAAGGCTAAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
*
3475659 GCTTTGCTTCACTACTCTTCTGTGAAGGCTAGAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTA-AAATT
*
3475696 GCTTTGCTTCACTACTCTTCCATGAAGGCTAAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
*
3475733 GCTTTGCTTCACTACTCTTCCATGAAGGCTAAAATT
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
3475769 GCTTTG
1 GCTTTG
3475775 AGAAGAATCT
Statistics
Matches: 363, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
35 1 0.00
36 192 0.53
37 169 0.47
38 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
Found at i:3475636 original size:110 final size:110
Alignment explanation
Indices: 3475332--3475774 Score: 549
Period size: 110 Copynumber: 4.1 Consensus size: 110
3475322 GGCTTGGATC
* * * ** * * *
3475332 GCTTTTCTTCATTACTCTTCTGTGAAGGCT-AGGATTTCTTTTCTTCACTACT-TTTCTGTGAAG
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAAATTACTTTGCTTCACTACTCTTTCTATGAAG
* * *
3475395 GCTAAGA-TGACTTTGCTTCACTACTCTTCCGTAAAGGCTAAGATT
66 GCTAAAATTG-CTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
* * * *
3475440 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAGATTTA-TTTACTTCACTACTC-TTCTGTGAAG
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAAATTACTTTGCTTCACTACTCTTTCTATGAAG
* * * ** *
3475503 GTTAAGATTGCTTTGCTTTACTACTCTTTTGTGAAGACTAAAAATT
66 GCTAAAATTGCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
*
3475549 GCTTTGCTTCACTACTCTTCCGTGAAGACTAAAAATTACTTTGCTTCACTACTCTTTC-ATGAAG
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAAATTACTTTGCTTCACTACTCTTTCTATGAAG
*
3475613 GCTAAAATTGCTTTACTTCACTACTCTTCCGTGAAGGCTAAAAATT
66 GCTAAAATTGCTTTGCTTCACTACTCTTCCGTGAAGGCT-AAAATT
* * * *
3475659 GCTTTGCTTCACTACTCTTCTGTGAAGGCTAGAAATTGCTTTGCTTCACTACTC-TTCCATGAAG
1 GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAAATTACTTTGCTTCACTACTCTTTCTATGAAG
*
3475723 GCTAAAAATTGCTTTGCTTCACTACTCTTCCATGAAGGCTAAAATT
66 GCT-AAAATTGCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
3475769 GCTTTG
1 GCTTTG
3475775 AGAAGAATCT
Statistics
Matches: 295, Mismatches: 32, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
108 80 0.27
109 49 0.17
110 129 0.44
111 37 0.13
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (110 bp):
GCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAAATTACTTTGCTTCACTACTCTTTCTATGAAG
GCTAAAATTGCTTTGCTTCACTACTCTTCCGTGAAGGCTAAAATT
Found at i:3475985 original size:61 final size:60
Alignment explanation
Indices: 3475915--3476058 Score: 220
Period size: 61 Copynumber: 2.4 Consensus size: 60
3475905 TATTGACTTA
*
3475915 TCTTCATGAGGAAGTCAAGGATTGACTC-TACTGGGGAGTTAGG-AATAACACAAGTTGATTC
1 TCTTCATGAGGAAGTCAAGGATTGACTCAT-CTGGGGAGTTAGGAAATAACAAAAGTTGA--C
*
3475976 TCTTCATGAGGAAGTCAAGGATTGGCTCATCTGGGGAGTTAGGAAATAACAAAAGTTGAC
1 TCTTCATGAGGAAGTCAAGGATTGACTCATCTGGGGAGTTAGGAAATAACAAAAGTTGAC
*
3476036 TCTTCACGAGGAAGTCAAGGATT
1 TCTTCATGAGGAAGTCAAGGATT
3476059 AACTGTGAGG
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
60 23 0.29
61 40 0.51
62 15 0.19
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (60 bp):
TCTTCATGAGGAAGTCAAGGATTGACTCATCTGGGGAGTTAGGAAATAACAAAAGTTGAC
Found at i:3476657 original size:50 final size:50
Alignment explanation
Indices: 3476582--3476681 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
3476572 CACATTCATC
*
3476582 CTCTCCTATGGCTTCTGCCTAGATTTCTCAACTAGTGAAGCTCTTTGCAT
1 CTCTCCTATGGCTTCTGCCTAGATTTCTCAACTAGAGAAGCTCTTTGCAT
3476632 CTCTCCTATGGCTTCTGCCTAGATTTCTCAACTAGAGAAGCTCTTTGCAT
1 CTCTCCTATGGCTTCTGCCTAGATTTCTCAACTAGAGAAGCTCTTTGCAT
3476682 GGTGTTATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (50 bp):
CTCTCCTATGGCTTCTGCCTAGATTTCTCAACTAGAGAAGCTCTTTGCAT
Found at i:3479366 original size:29 final size:32
Alignment explanation
Indices: 3479334--3479416 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 32
3479324 GTTGGGATAA
3479334 GTAA-TAAGGG-TTT-AATAGTATTGTTAGAG
1 GTAAGTAAGGGATTTGAATAGTATTGTTAGAG
3479363 GTAAAGTAAGGGAATTTGAATAGTATTGTTAGAG
1 GT-AAGTAAGGG-ATTTGAATAGTATTGTTAGAG
3479397 GTAAAAGTAAGGGAATTTGA
1 GT--AAGTAAGGG-ATTTGA
3479417 CTAAATTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 6 0.12
33 3 0.06
34 18 0.38
35 17 0.35
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.33
Consensus pattern (32 bp):
GTAAGTAAGGGATTTGAATAGTATTGTTAGAG
Found at i:3479411 original size:35 final size:34
Alignment explanation
Indices: 3479347--3479416 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 34
3479337 ATAAGGGTTT
3479347 AATAGTATTGTTAGAGGTAAAGTAAGGGAATTTG
1 AATAGTATTGTTAGAGGTAAAGTAAGGGAATTTG
3479381 AATAGTATTGTTAGAGGTAAAAGTAAGGGAATTTG
1 AATAGTATTGTTAGAGGT-AAAGTAAGGGAATTTG
3479416 A
1 A
3479417 CTAAATTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 18 0.51
35 17 0.49
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (34 bp):
AATAGTATTGTTAGAGGTAAAGTAAGGGAATTTG
Found at i:3479566 original size:13 final size:13
Alignment explanation
Indices: 3479548--3479574 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3479538 TTATGTAAGT
3479548 AGTATCGATACTG
1 AGTATCGATACTG
3479561 AGTATCGATACTG
1 AGTATCGATACTG
3479574 A
1 A
3479575 TGTGAGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (13 bp):
AGTATCGATACTG
Found at i:3479572 original size:34 final size:31
Alignment explanation
Indices: 3479529--3479590 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
3479519 CATTGAACAA
*
3479529 TATCGATACTTATGTAAGTAGTATCGATACTGAG
1 TATCGATACTGATGT--G-AGTATCGATACTGAG
3479563 TATCGATACTGATGTGAGTATCGATACT
1 TATCGATACTGATGTGAGTATCGATACT
3479591 AAGAGAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
34 14 0.52
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (31 bp):
TATCGATACTGATGTGAGTATCGATACTGAG
Found at i:3480227 original size:45 final size:45
Alignment explanation
Indices: 3480178--3480524 Score: 452
Period size: 45 Copynumber: 7.8 Consensus size: 45
3480168 TGTATAACAA
* * * *
3480178 TGCATAATAGGAATGAAAGGATGCCATAAATGAAATCCATAACGG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* * * *
3480223 TGCATTATCGACATGAAATGAT-TCAT-AATG-AATGTATAACGG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* *
3480265 TGCATTATCA-GCATGAAAGGATGCCATAAATGAAATGCATAATGG
1 TGCATTAT-AGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* *
3480310 TGCATTATCA-ACATGAAAGGATGCCATAAATGAAATGCATAACGG
1 TGCATTAT-AGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* *
3480355 TGCATTATCGGCATGAAATGATGTCATAAATGAAATGCATAACGG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
*
3480400 TGCATTATCGGCATGAAATGATGCCATAAATGAAATGCATAACGG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* * *
3480445 TGCATTATCGGCATGAAATGATACCATAAATGAAATGCATAACGA
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
* * *
3480490 TGCATTATAAGCATGAAATTATGCTATAAATGAAA
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAA
3480525 ATAAAGTTTA
Statistics
Matches: 269, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
42 28 0.10
43 7 0.03
44 7 0.03
45 227 0.84
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (45 bp):
TGCATTATAGGCATGAAATGATGCCATAAATGAAATGCATAACGG
Found at i:3480448 original size:135 final size:135
Alignment explanation
Indices: 3480190--3480524 Score: 507
Period size: 135 Copynumber: 2.5 Consensus size: 135
3480180 CATAATAGGA
* *
3480190 ATGAAAGGATGCCATAAATGAAATCCATAACGGTGCATTATCGACATGAAATGAT-TCAT-AATG
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATG
* *
3480253 -AATGTATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAATGCATAATGGTGCATTA
66 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
3480317 TCAAC
131 TCAAC
3480322 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATG
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATG
* *
3480387 AAATGCATAACGGTGCATTATCGGCATGAAATGATGCCATAAATGAAATGCATAACGGTGCATTA
66 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
**
3480452 TCGGC
131 TCAAC
* * * ** *
3480457 ATGAAATGATACCATAAATGAAATGCATAACGATGCATTATAAGCATGAAATTATG-CTATAAAT
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTC-ATAAAT
3480521 GAAA
65 GAAA
3480525 ATAAAGTTTA
Statistics
Matches: 185, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
132 53 0.29
133 4 0.02
134 5 0.03
135 123 0.66
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (135 bp):
ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATG
AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
TCAAC
Found at i:3485527 original size:44 final size:45
Alignment explanation
Indices: 3485471--3486044 Score: 543
Period size: 44 Copynumber: 13.2 Consensus size: 45
3485461 TGCAAGTTGG
* ** * *
3485471 ATAAATGAAAATGTATAACAATGCA-TATAGGCATGAAAAGTTGCC
1 ATAAATG-AAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* * *
3485516 ATAAATGAAATGCATAATGGTGCATTATCGACATGAAAGGTTTCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* * *
3485561 ATAAATTAAATGC-TAACGGTGCATTATTGGCATGAAAGGAT-CC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
3485604 ATAAATG-AATGCATAA---TGCATTATCGGCATGAAAGGATT-CC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG-TTGCC
* *
3485645 GTAAA-GAAATGCAT-ACGGTGCATTATC-GCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
** * * * * *
3485687 GCAAATGAAATGCATAACAGTGCATTATCAGAATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* *
3485732 ATAAATGAAATGCATAACGATG-ATTATCGGCAAGAAAGGTT-CC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* * * * *
3485775 AT-AATGAAATGCAT-ACGGTACA-TGTCGGCACGAAAGGATGCT
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
** *
3485817 ATAAATGAAATGTGTAACGGTGCATTATCGGCATGAAAGGAGTGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG-TTGCC
* *
3485863 ATAAATGAAATGCATAACAGTGCATTATCGACATGAAAGGATT-CC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG-TTGCC
* * * *
3485908 -TAAATGAAATGCAT---GGTGCATTATCGACATG-AATGATACC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* * * * *
3485948 AGAAAT-AAATACATAACGATGCATTATCGGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
* *
3485992 ATAAATGAAATGC--AACGGTGCATTATCGGCATGAAAGGATG-A
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
3486034 ATAAATGAAAT
1 ATAAATGAAAT
3486045 AACGATAATG
Statistics
Matches: 443, Mismatches: 62, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.00
40 33 0.07
41 53 0.12
42 48 0.11
43 84 0.19
44 97 0.22
45 86 0.19
46 41 0.09
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTGCC
Found at i:3485788 original size:171 final size:175
Alignment explanation
Indices: 3485492--3486032 Score: 617
Period size: 171 Copynumber: 3.1 Consensus size: 175
3485482 TGTATAACAA
* * * * **
3485492 TGCA-TATAGGCATGAAAAGTTGCCATAAATGAAATGCATAATGGTGCATTATCGACATGAAAGG
1 TGCATTATCGGCATGAAAGGATGCCACAAATGAAATGCATAACAGTGCATTATCGACATGAAAGG
* * * *
3485556 TTTCCATAAATTAAATGC-TAACGGTGCATTATTGGCATGAAAGGATCCATAAATG-AATGCATA
66 ATTCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTCCAT-AATGAAATGCATA
* *
3485619 -ATGCATTATCGGCATGAAAGGATTCCGTAAA-GAAATGCATACGG
130 CATGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCATACGG
* *
3485663 TGCATTATC-GCATGAAAGGATGCCGCAAATGAAATGCATAACAGTGCATTATCAGA-ATGAAAT
1 TGCATTATCGGCATGAAAGGATGCCACAAATGAAATGCATAACAGTGCATTATC-GACATGAAAG
* * *
3485726 GATGCCATAAATGAAATGCATAACGATG-ATTATCGGCAAGAAAGGTTCCATAATGAAATGCATA
65 GATTCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTCCATAATGAAATGCATA
* * * * * **
3485790 CGGTACA-TGTCGGCACGAAAGGATGCTATAAATGAAATGTGTAACGG
130 C-ATGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCAT-ACGG
*
3485837 TGCATTATCGGCATGAAAGGAGTGCCATAAATGAAATGCATAACAGTGCATTATCGACATGAAAG
1 TGCATTATCGGCATGAAAGGA-TGCCACAAATGAAATGCATAACAGTGCATTATCGACATGAAAG
* * * * * *
3485902 GATTCC-TAAATGAAATGCAT---GGTGCATTATCGACATGAATGATACCAGAAAT-AAATACAT
65 GATTCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTCCA-TAATGAAATGCAT
*
3485962 AACGATGCATTATCGGCATGAAATGATGCCATAAATGAAATGCA-ACGG
129 -AC-ATGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCATACGG
3486010 TGCATTATCGGCATGAAAGGATG
1 TGCATTATCGGCATGAAAGGATG
3486033 AATAAATGAA
Statistics
Matches: 311, Mismatches: 44, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
170 4 0.01
171 92 0.30
172 37 0.12
173 59 0.19
174 22 0.07
175 55 0.18
176 42 0.14
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (175 bp):
TGCATTATCGGCATGAAAGGATGCCACAAATGAAATGCATAACAGTGCATTATCGACATGAAAGG
ATTCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGTTCCATAATGAAATGCATAC
ATGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCATACGG
Found at i:3485810 original size:130 final size:130
Alignment explanation
Indices: 3485471--3486031 Score: 571
Period size: 130 Copynumber: 4.3 Consensus size: 130
3485461 TGCAAGTTGG
* * * *
3485471 ATAAATGAAAATGTATAACAATGCA-TATAGGCATGAAAAG-TTGCCATAAATGAAATGCATAAT
1 ATAAATG-AAATGCATAAC-ATGCATTATCGGCATGAAAGGATT-CC-T-AATGAAATGCAT-AC
* * * * * *
3485534 GGTGCATTATCGACATGAAAGGTTTCCATAAATTAAATGC-TAACGGTGCATTATTGGCATGAAA
60 GGTGCATTATCGGCATGAAAGGATGCC-GAAATGAAATGCATAACGGTGCATTATCGGCATGAAA
3485598 GGAT-CC
124 GGATGCC
*
3485604 ATAAATG-AATGCAT-A-ATGCATTATCGGCATGAAAGGATTCCGTAAAGAAATGCATACGGTGC
1 ATAAATGAAATGCATAACATGCATTATCGGCATGAAAGGATTCC-TAATGAAATGCATACGGTGC
* * * *
3485666 ATTATC-GCATGAAAGGATGCCGCAAATGAAATGCATAACAGTGCATTATCAGAATGAAATGATG
65 ATTATCGGCATGAAAGGATGCCG-AAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATG
3485730 CC
129 CC
* *
3485732 ATAAATGAAATGCATAACGATG-ATTATCGGCAAGAAAGG-TTCCATAATGAAATGCATACGGTA
1 ATAAATGAAATGCATAAC-ATGCATTATCGGCATGAAAGGATTCC-TAATGAAATGCATACGGTG
* * ** **
3485795 CA-TGTCGGCACGAAAGGATGCTATAAATGAAATGTGTAACGGTGCATTATCGGCATGAAAGGAG
64 CATTATCGGCATGAAAGGATGC-CGAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGA-
3485859 TGCC
127 TGCC
*
3485863 ATAAATGAAATGCATAACAGTGCATTATCGACATGAAAGGATTCCTAAATGAAATGCAT--GGTG
1 ATAAATGAAATGCATAACA-TGCATTATCGGCATGAAAGGATTCCT-AATGAAATGCATACGGTG
* * * * * *
3485926 CATTATCGACATG-AATGATACCAGAAAT-AAATACATAACGATGCATTATCGGCATGAAATGAT
64 CATTATCGGCATGAAAGGATGCC-GAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGAT
3485989 GCC
128 GCC
*
3485992 ATAAATGAAATGC--AACGGTGCATTATCGGCATGAAAGGAT
1 ATAAATGAAATGCATAAC-ATGCATTATCGGCATGAAAGGAT
3486032 GAATAAATGA
Statistics
Matches: 362, Mismatches: 47, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
126 22 0.06
127 59 0.16
128 25 0.07
129 43 0.12
130 103 0.28
131 61 0.17
132 26 0.07
133 23 0.06
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (130 bp):
ATAAATGAAATGCATAACATGCATTATCGGCATGAAAGGATTCCTAATGAAATGCATACGGTGCA
TTATCGGCATGAAAGGATGCCGAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:3490241 original size:13 final size:13
Alignment explanation
Indices: 3490205--3490245 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
3490195 ATTTATGAAG
*
3490205 ATATTGATAATTC
1 ATATTGATAATTT
3490218 ATATT-AT-ATTT
1 ATATTGATAATTT
*
3490229 ATTTTGATAATTT
1 ATATTGATAATTT
3490242 ATAT
1 ATAT
3490246 ATTTATTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
13 12 0.52
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
ATATTGATAATTT
Found at i:3490248 original size:21 final size:23
Alignment explanation
Indices: 3490208--3490253 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 23
3490198 TATGAAGATA
3490208 TTGATAATTCATATTATATTTATT
1 TTGATAATT-ATATTATATTTATT
3490232 TTGATAATT-TA-TATATTTATT
1 TTGATAATTATATTATATTTATT
3490253 T
1 T
3490254 CCTATATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
24 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTGATAATTATATTATATTTATT
Found at i:3492094 original size:30 final size:30
Alignment explanation
Indices: 3492058--3492183 Score: 198
Period size: 30 Copynumber: 4.2 Consensus size: 30
3492048 AGAGAACCGG
*
3492058 CGGTTCACACTGGTTTTGCCGGTTTTCAGT
1 CGGTTCACACTGGTTTTGCCGGTTTTCAGC
*
3492088 CGGTTCACACTGGTTTTGCCGGTTTCCAGC
1 CGGTTCACACTGGTTTTGCCGGTTTTCAGC
**
3492118 CGGTTCACACTGGTTTTTTCGGTTTTCAGC
1 CGGTTCACACTGGTTTTGCCGGTTTTCAGC
* *
3492148 CGGTTCACCCTGGTTTTGTCGGTTTTCAGC
1 CGGTTCACACTGGTTTTGCCGGTTTTCAGC
3492178 CGGTTC
1 CGGTTC
3492184 TACCGGTTCT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.39
Consensus pattern (30 bp):
CGGTTCACACTGGTTTTGCCGGTTTTCAGC
Found at i:3493074 original size:24 final size:24
Alignment explanation
Indices: 3493038--3493106 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
3493028 ACTTTGTGGG
*
3493038 CGAG-TTCGAGCTTGAATCGAGTT
1 CGAGTTTCGAGCTTCAATCGAGTT
*
3493061 CGAGTTTTGAGCTTCAATCGAGTT
1 CGAGTTTCGAGCTTCAATCGAGTT
*
3493085 CGAGTTTCGAGCTTCAGTCGAG
1 CGAGTTTCGAGCTTCAATCGAG
3493107 CTCTTGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 4 0.10
24 37 0.90
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (24 bp):
CGAGTTTCGAGCTTCAATCGAGTT
Found at i:3496460 original size:2 final size:2
Alignment explanation
Indices: 3496453--3496487 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3496443 TTAAAGGTTG
3496453 AT AT AT AT AT AT AT AT A- 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
3496488 TGATCACCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3496475 original size:15 final size:15
Alignment explanation
Indices: 3496455--3496484 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3496445 AAAGGTTGAT
3496455 ATATATATATATATA
1 ATATATATATATATA
3496470 ATATATATATATATA
1 ATATATATATATATA
3496485 TATTGATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:3496475 original size:17 final size:17
Alignment explanation
Indices: 3496453--3496486 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3496443 TTAAAGGTTG
3496453 ATATATATATATATATA
1 ATATATATATATATATA
3496470 ATATATATATATATATA
1 ATATATATATATATATA
3496487 TTGATCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:3498396 original size:85 final size:85
Alignment explanation
Indices: 3498292--3498475 Score: 262
Period size: 85 Copynumber: 2.2 Consensus size: 85
3498282 AAATAAAAAA
* * *
3498292 CGTTGGAACTCGTCACGTCGAGGTGACAAGTTCCTTTGGTTTCAATTATATAGT-CGTTTAGATT
1 CGTTGGAACTCGTCACGTCGAGCTGACAAGTTACTTTGGTTTCAAATATATA-TACGTTTAGATT
*
3498356 TGAAAAATAGTTGTTGGTAGC
65 TGAAAAATAGTTGTTGCTAGC
*** *
3498377 CGTTGGAACTCGTCACGTCGAGCTGGTGAGTTATTTTGGTTTCAAATATATATACGTTTAGATTT
1 CGTTGGAACTCGTCACGTCGAGCTGACAAGTTACTTTGGTTTCAAATATATATACGTTTAGATTT
3498442 GAAAAATAGTTGTTGCTAGC
66 GAAAAATAGTTGTTGCTAGC
* *
3498462 CATTAGAACTCGTC
1 CGTTGGAACTCGTC
3498476 GTGTGGGCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 1 0.01
85 87 0.99
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (85 bp):
CGTTGGAACTCGTCACGTCGAGCTGACAAGTTACTTTGGTTTCAAATATATATACGTTTAGATTT
GAAAAATAGTTGTTGCTAGC
Found at i:3502741 original size:20 final size:21
Alignment explanation
Indices: 3502716--3502756 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3502706 GATTTAATTA
* *
3502716 GTGACCTAATTATAAA-TTTG
1 GTGACCAAAGTATAAACTTTG
3502736 GTGACCAAAGTATAAACTTTG
1 GTGACCAAAGTATAAACTTTG
3502757 AAAAGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (21 bp):
GTGACCAAAGTATAAACTTTG
Found at i:3503782 original size:30 final size:31
Alignment explanation
Indices: 3503736--3503808 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
3503726 TCTACAAGCC
* * ** *
3503736 TTGGAAAAATTTGGGGATC-ATTTTGTAATT
1 TTGGAAAAGTTGGGGGATCAATTCGGTAACT
*
3503766 TTTGAAAAGTTGGGGGATCAATTCGGTAACT
1 TTGGAAAAGTTGGGGGATCAATTCGGTAACT
3503797 TTGGAAAAGTTG
1 TTGGAAAAGTTG
3503809 TGAATGGTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.37
Consensus pattern (31 bp):
TTGGAAAAGTTGGGGGATCAATTCGGTAACT
Found at i:3504903 original size:45 final size:45
Alignment explanation
Indices: 3504839--3505008 Score: 270
Period size: 45 Copynumber: 3.7 Consensus size: 45
3504829 GGTAAACATG
3504839 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
3504884 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
3504929 AAAATAAGCTTACGAGCTTATTGAATAAATGGTTTATGGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGG--TA-AGTATATTGGT
*
3504977 -AAATAAGCTTATGAGCTTATGGAATAAATGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGT
3505009 TTATAGCATT
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
45 76 0.66
47 31 0.27
48 9 0.08
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:3513481 original size:19 final size:17
Alignment explanation
Indices: 3513449--3513499 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
3513439 ATTCAGCTCA
3513449 AACAATCTTCTCTCTCC
1 AACAATCTTCTCTCTCC
*
3513466 AATAATCTTCTCTCTCC
1 AACAATCTTCTCTCTCC
3513483 AACAATCTTCTCTCTCC
1 AACAATCTTCTCTCTCC
3513500 TTAGCTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (17 bp):
AACAATCTTCTCTCTCC
Found at i:3516799 original size:19 final size:19
Alignment explanation
Indices: 3516758--3516799 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
3516748 TCCTTCTTTT
**
3516758 TCAATGATATCCCACTCTT
1 TCAATGATATCCCACTCCC
3516777 TCAATGATATCCCAAC-CCC
1 TCAATGATATCCC-ACTCCC
3516796 TCAA
1 TCAA
3516800 GAGCTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.29
Consensus pattern (19 bp):
TCAATGATATCCCACTCCC
Found at i:3525206 original size:61 final size:60
Alignment explanation
Indices: 3525116--3525230 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 60
3525106 TATTTGAATG
* * *
3525116 AATTTGAGAATGAAATTGGAAAATTCAAAAGTTTGAGAGA-CTAATTTAGAATAAGGGTCAT
1 AATTTGAAAATGAAATTGGAAAATGCAAAAATTTGAGA-ATC-AATTTAGAATAAGGGTCAT
* ** *
3525177 AATTTGAAAATTAAATTGGAACGTGCAAAAATTTGTGAATCAATTTAGAATAAG
1 AATTTGAAAATGAAATTGGAAAATGCAAAAATTTGAGAATCAATTTAGAATAAG
3525231 AGTCGGGGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 14 0.30
61 32 0.70
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.30
Consensus pattern (60 bp):
AATTTGAAAATGAAATTGGAAAATGCAAAAATTTGAGAATCAATTTAGAATAAGGGTCAT
Found at i:3528040 original size:14 final size:16
Alignment explanation
Indices: 3528021--3528052 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3528011 TATATTTCCC
3528021 GAAAA-ATATTTTATG
1 GAAAACATATTTTATG
3528036 GAAAACATATTTTATG
1 GAAAACATATTTTATG
3528052 G
1 G
3528053 TGTTTAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.38
Consensus pattern (16 bp):
GAAAACATATTTTATG
Found at i:3528381 original size:15 final size:16
Alignment explanation
Indices: 3528351--3528386 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3528341 TTTATTAAAA
3528351 ATAAATTATAAATATT
1 ATAAATTATAAATATT
3528367 ATAAATTAT-AATATT
1 ATAAATTATAAATATT
3528382 A-AAAT
1 ATAAAT
3528387 AAAATTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATTATAAATATT
Found at i:3528515 original size:8 final size:8
Alignment explanation
Indices: 3528496--3528575 Score: 53
Period size: 8 Copynumber: 10.2 Consensus size: 8
3528486 AATTTTTTTA
*
3528496 TATATTAT
1 TATAATAT
*
3528504 TATAATAG
1 TATAATAT
3528512 TATAATAT
1 TATAATAT
3528520 TAT-ATAT
1 TATAATAT
3528527 TATAATA-
1 TATAATAT
3528534 -AT-ATACT
1 TATAATA-T
3528541 TATAATA-
1 TATAATAT
* *
3528548 AAAAATAT
1 TATAATAT
3528556 AATATAATAT
1 --TATAATAT
*
3528566 TATATTAT
1 TATAATAT
3528574 TA
1 TA
3528576 AAATTATCAG
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 12 0.21
8 30 0.54
9 3 0.05
10 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
TATAATAT
Found at i:3528545 original size:14 final size:13
Alignment explanation
Indices: 3528495--3528569 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
3528485 TAATTTTTTT
*
3528495 ATATATTATTATA
1 ATATATTATAATA
* *
3528508 ATAGTATAAT-ATT
1 ATA-TATTATAATA
3528521 ATATATTATAATA
1 ATATATTATAATA
3528534 ATATACTTATAATA
1 ATATA-TTATAATA
* *
3528548 A-AAAATATAAT-
1 ATATATTATAATA
3528559 ATAATATTATA
1 AT-ATATTATA
3528570 TTATTAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 11 0.22
13 23 0.47
14 14 0.29
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (13 bp):
ATATATTATAATA
Found at i:3530354 original size:20 final size:20
Alignment explanation
Indices: 3530329--3530379 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3530319 CAGTCAGGGG
* *
3530329 GTATCGATACCAAAGGTTTA
1 GTATCGATACCAAAGGCTCA
*
3530349 GTATCGATACTAAAGGCTCA
1 GTATCGATACCAAAGGCTCA
*
3530369 GTATCGGTACC
1 GTATCGATACC
3530380 CACGAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (20 bp):
GTATCGATACCAAAGGCTCA
Found at i:3534887 original size:30 final size:30
Alignment explanation
Indices: 3534816--3534888 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
3534806 GGATGAGATT
*
3534816 GGTCGCCATGTAGTCAGGGCGAAGCTTGAA
1 GGTCGCCATGCAGTCAGGGCGAAGCTTGAA
* *
3534846 GGATTGCCATGCAGT-TGAGGCGAAGCTTGAA
1 GG-TCGCCATGCAGTCAG-GGCGAAGCTTGAA
3534877 GGTCGCCATGCA
1 GGTCGCCATGCA
3534889 ATCGGGACGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.21
Consensus pattern (30 bp):
GGTCGCCATGCAGTCAGGGCGAAGCTTGAA
Found at i:3535169 original size:23 final size:23
Alignment explanation
Indices: 3535135--3535179 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3535125 ACTGAAGAAG
*
3535135 AAAGAAAAGTGAAGGAAAGGAAT
1 AAAGAAAAGTGAAAGAAAGGAAT
*
3535158 AAAGAAAGGTGAAAGAAAGGAA
1 AAAGAAAAGTGAAAGAAAGGAA
3535180 GAGAAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (23 bp):
AAAGAAAAGTGAAAGAAAGGAAT
Found at i:3535809 original size:30 final size:29
Alignment explanation
Indices: 3535741--3535812 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
3535731 GGATGAGATT
*
3535741 GGTCGCCATGTAGTCAGGCGAAGCTTGAA
1 GGTCGCCATGCAGTCAGGCGAAGCTTGAA
* *
3535770 GGATTGCCATGCAGTTGAGGCGAAGCTTGAA
1 GG-TCGCCATGCAG-TCAGGCGAAGCTTGAA
3535801 GGTCGCCATGCA
1 GGTCGCCATGCA
3535813 ATCGGACGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.05
30 18 0.49
31 17 0.46
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (29 bp):
GGTCGCCATGCAGTCAGGCGAAGCTTGAA
Done.