Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 25
Found at i:318774 original size:20 final size:20
Alignment explanation
Indices: 318749--318857 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
318739 GCGATTCTCT
*
318749 CGTTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
318769 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
318789 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
318809 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
318829 TGTTACGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
318849 CATTGCGAT
1 CGTTGCGAT
318858 TTCCGCGTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 76 0.97
21 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:321332 original size:24 final size:24
Alignment explanation
Indices: 321281--321332 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
321271 ATCTGAGTAT
** *
321281 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
321305 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
321329 TGAC
1 TGAC
321333 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:322185 original size:20 final size:20
Alignment explanation
Indices: 322160--322226 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
322150 AAATTCAATA
322160 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* * *
322180 TTGCGATAGTAATAATCTCA
1 TTGCGATAGTCAGAATCTCG
* *
322200 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
322220 TTGCGAT
1 TTGCGAT
322227 TTACATATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:322236 original size:20 final size:20
Alignment explanation
Indices: 322213--322326 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
322203 CGATAGTCAG
* *
322213 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
322233 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
322253 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
322273 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
322294 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
322314 ATTCGCATTGCGA
1 ATTCGCATTGCGA
322327 ATTAGGAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 64 0.81
21 15 0.19
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:322242 original size:40 final size:40
Alignment explanation
Indices: 322159--322326 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
322149 GAAATTCAAT
* * * *
322159 ATTGCGATAGTCAGAATCTCGTTGCGATAGTA-ATAATCTC
1 ATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATAATCGC
*
322199 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATAATCGC
* * * *
322239 ATTGCGAT--TTACGTATTCGCATTGTGATTTACGTAATCGC
1 ATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATAATCGC
** * * *
322279 ATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTATTCGC
1 ATTGCGATAGT-CAGATTCGCGTTGCGATTTACATAATCGC
322320 ATTGCGA
1 ATTGCGA
322327 ATTAGGAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 70 0.65
41 30 0.28
42 1 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (40 bp):
ATTGCGATAGTCAGATTCGCGTTGCGATTTACATAATCGC
Found at i:322389 original size:21 final size:21
Alignment explanation
Indices: 322326--322389 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
322316 TCGCATTGCG
*
322326 AATTAGGAAAATCGCAACACGA
1 AATT-GGAAAATCGCAACGCGA
*
322348 ATTTGGAAAATCGCAACGCGA
1 AATTGGAAAATCGCAACGCGA
*
322369 AATTGGAAAATCGCAATGCGA
1 AATTGGAAAATCGCAACGCGA
322390 TAGTCAGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AATTGGAAAATCGCAACGCGA
Found at i:324252 original size:16 final size:16
Alignment explanation
Indices: 324233--324279 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
324223 AACCAAAAGC
324233 AATCTGAATCGAAATT
1 AATCTGAATCGAAATT
*
324249 AATCTGAATCAAAATT
1 AATCTGAATCGAAATT
324265 AACTCT-AATCGAAAT
1 AA-TCTGAATCGAAAT
324280 CAATGCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (16 bp):
AATCTGAATCGAAATT
Found at i:327385 original size:14 final size:14
Alignment explanation
Indices: 327360--327400 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
327350 CATTTCCTAT
327360 AGTTGA-ATTCATG
1 AGTTGATATTCATG
327373 AGTTGATATTCATG
1 AGTTGATATTCATG
327387 AGTTGATATTCATG
1 AGTTGATATTCATG
327401 TACATGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (14 bp):
AGTTGATATTCATG
Found at i:329661 original size:46 final size:46
Alignment explanation
Indices: 329600--329816 Score: 296
Period size: 46 Copynumber: 4.8 Consensus size: 46
329590 TATAAAATCT
* *
329600 CTTACCATTT-ATCCCATAATCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
329645 CTTACCATTTAATCCCATAAGCTAGTAAGTTTATTTTACCAGTATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
329691 CTAACCATTTAATCTCATAAGCTCGTAATCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
329737 CTAACCATTTAATCTCATAAGCTCGTAATCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
329783 CTTGCCA-TT-ATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTT
329817 GCCAGTTTAT
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.14
45 12 0.08
46 121 0.78
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.39
Consensus pattern (46 bp):
CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:329976 original size:40 final size:40
Alignment explanation
Indices: 329897--329976 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
329887 ATAGGAGTCA
* * *
329897 AATATTGCACCGAAGTGCTGAGGTCGAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
* *
329937 AATAATGCACCGTAGTGCTGAGGTCGGGCTTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
329977 GATACACCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
Found at i:330963 original size:114 final size:114
Alignment explanation
Indices: 330832--331054 Score: 437
Period size: 114 Copynumber: 2.0 Consensus size: 114
330822 AAGAATCAGT
*
330832 ATTTTGTATTGATATACACACTAGAATTTAATTCTGTTTCTTCCGTTGAACACTAGACTCGAATA
1 ATTTTGTATTGATATACACACTAGAATTTAATTCCGTTTCTTCCGTTGAACACTAGACTCGAATA
330897 AGAATCTATCCATATAAAGAACTCCTTCTAATTCATTCTGTACACTAGA
66 AGAATCTATCCATATAAAGAACTCCTTCTAATTCATTCTGTACACTAGA
330946 ATTTTGTATTGATATACACACTAGAATTTAATTCCGTTTCTTCCGTTGAACACTAGACTCGAATA
1 ATTTTGTATTGATATACACACTAGAATTTAATTCCGTTTCTTCCGTTGAACACTAGACTCGAATA
331011 AGAATCTATCCATATAAAGAACTCCTTCTAATTCATTCTGTACA
66 AGAATCTATCCATATAAAGAACTCCTTCTAATTCATTCTGTACA
331055 ATTTATGGTG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (114 bp):
ATTTTGTATTGATATACACACTAGAATTTAATTCCGTTTCTTCCGTTGAACACTAGACTCGAATA
AGAATCTATCCATATAAAGAACTCCTTCTAATTCATTCTGTACACTAGA
Found at i:332549 original size:15 final size:14
Alignment explanation
Indices: 332529--332559 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
332519 GAAGGAGAAT
332529 AATGAAATGAGAAAG
1 AATGAAATGA-AAAG
332544 AATGAAATGAAAAG
1 AATGAAATGAAAAG
332558 AA
1 AA
332560 GAAGATGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (14 bp):
AATGAAATGAAAAG
Found at i:333598 original size:32 final size:32
Alignment explanation
Indices: 333524--333598 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
333514 TTGATCAATT
* *
333524 CGATTATTGACCTGACCCAAAAGTTGAATGATC
1 CGATT-TTGACCTGACCCAAAAGATCAATGATC
* *
333557 CGATATTGACCTGACCTAAAA-ATCAATCGATC
1 CGATTTTGACCTGACCCAAAAGATCAAT-GATC
*
333589 TGATTTTGAC
1 CGATTTTGAC
333599 TCGACGTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
31 4 0.11
32 27 0.77
33 4 0.11
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (32 bp):
CGATTTTGACCTGACCCAAAAGATCAATGATC
Found at i:334107 original size:20 final size:20
Alignment explanation
Indices: 334013--334381 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
334003 GATTTTCCAT
* ** *
334013 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
334033 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
334053 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
334073 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
334093 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
334113 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
334133 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
334153 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
334173 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
334193 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
334213 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
334233 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
334253 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
334273 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
334293 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
334313 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
334333 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
334353 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
334373 AATCACAAC
1 AATCGCAAC
334382 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:335094 original size:24 final size:24
Alignment explanation
Indices: 335055--335101 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
335045 AAATTTGGTC
335055 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
335079 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
335102 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:335293 original size:12 final size:12
Alignment explanation
Indices: 335276--335300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
335266 ATATAATCCT
335276 GAAGAAGAAAAA
1 GAAGAAGAAAAA
335288 GAAGAAGAAAAA
1 GAAGAAGAAAAA
335300 G
1 G
335301 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:337624 original size:19 final size:19
Alignment explanation
Indices: 337602--337926 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
337592 CGGAAAATAC
*
337602 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
337621 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
337635 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
*
337654 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
337668 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337687 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
337706 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
337720 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337739 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
337758 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
337772 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
337791 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
337810 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
337829 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337848 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337867 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
337881 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337900 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337919 AATCGCAA
1 AATCGCAA
337927 CGAGATAATC
Statistics
Matches: 267, Mismatches: 12, Indels: 54
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.00
14 49 0.18
15 2 0.01
16 14 0.05
17 12 0.04
18 3 0.01
19 183 0.69
20 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:337657 original size:33 final size:34
Alignment explanation
Indices: 337602--337926 Score: 290
Period size: 33 Copynumber: 9.2 Consensus size: 34
337592 CGGAAAATAC
* *
337602 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
* *
337635 AATCGCAATGCGGAAATG-AAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACAATGAA
337668 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* * * *
337706 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCGCAACAATGAA
* *
337739 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
*
337772 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
337810 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
337848 AATCGCAATGCGAAATGAAAATCGCAACGAA--AG
1 AATCGCAATGCGAAATGAAAATCGCAAC-AATGAA
337881 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
337919 AATCGCAA
1 AATCGCAA
337927 CGAGATAATC
Statistics
Matches: 244, Mismatches: 25, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
31 1 0.00
32 12 0.05
33 118 0.48
34 8 0.03
35 5 0.02
36 3 0.01
37 2 0.01
38 88 0.36
39 6 0.02
40 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACAATGAA
Found at i:337964 original size:52 final size:52
Alignment explanation
Indices: 337630--337948 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
337620 AAATCCCAAC
337630 ATGAAAATCGCAATGCGGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
337682 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
337734 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
337786 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
337843 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
337895 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
337947 AT
1 AT
337949 TATAAACGCA
Statistics
Matches: 254, Mismatches: 7, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
51 6 0.02
52 193 0.76
53 2 0.01
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:338064 original size:19 final size:19
Alignment explanation
Indices: 337955--338056 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
337945 AAATTATAAA
337955 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
337974 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
337994 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
338010 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
338027 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
338046 CGCATTGCGAT
1 CGCATTGCGAT
338057 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:338182 original size:14 final size:14
Alignment explanation
Indices: 338163--338199 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
338153 CATCAATTAC
338163 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
338177 ACAAATCATCTTTT
1 ACAAATCAACTTTT
338191 ACAAATCAA
1 ACAAATCAA
338200 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:338227 original size:37 final size:37
Alignment explanation
Indices: 338180--338250 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
338170 AACTTTTACA
*
338180 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
338217 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
338251 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:338258 original size:37 final size:37
Alignment explanation
Indices: 338180--338259 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
338170 AACTTTTACA
* ***
338180 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
338217 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
338254 AATCAA
1 AATCAA
338260 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:340123 original size:19 final size:19
Alignment explanation
Indices: 340065--340198 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
340055 TAGTTTACTT
* *
340065 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
340085 TCGCAACGCGAAA-CAAAA
1 TCGCAACGCGAAATGAAAA
340103 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
340122 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
340136 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
340155 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
340169 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
340188 TCGCAATGCGA
1 TCGCAACGCGA
340199 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
18 17 0.18
19 30 0.31
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:340139 original size:14 final size:14
Alignment explanation
Indices: 340120--340176 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
340110 GCGAAATGAA
*
340120 AATCGCAACGACAG
1 AATCGCAACGAAAG
340134 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
340151 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
340167 AATCGCAACG
1 AATCGCAACG
340177 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:340143 original size:33 final size:33
Alignment explanation
Indices: 340065--340193 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
340055 TAGTTTACTT
* * *
340065 TCGCAACACGAAACTTAAAATCGCAACGCGAAACAAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CG--ACAGAA
340103 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
*
340136 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
340169 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
340194 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
33 62 0.71
35 2 0.02
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGACAGAA
Found at i:340216 original size:19 final size:19
Alignment explanation
Indices: 340194--340322 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
340184 AAAATCGCAA
340194 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
340213 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
340227 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
340246 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
340260 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
340279 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
340298 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
340318 TGCGA
1 TGCGA
340323 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:340236 original size:33 final size:33
Alignment explanation
Indices: 340194--340285 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
340184 AAAATCGCAA
340194 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
340227 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
340260 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
340286 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:340525 original size:93 final size:93
Alignment explanation
Indices: 340366--340745 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
340356 TTGAATGGAT
340366 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
340431 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
340459 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
340524 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
340552 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
340616 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
340644 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
340709 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
340737 AAATTTACT
1 AAATTTACT
340746 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:340679 original size:185 final size:186
Alignment explanation
Indices: 340366--340745 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
340356 TTGAATGGAT
340366 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
340431 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
340496 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
340552 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
340616 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
340681 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
340737 AAATTTACT
1 AAATTTACT
340746 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:342462 original size:19 final size:19
Alignment explanation
Indices: 342435--342537 Score: 100
Period size: 19 Copynumber: 5.9 Consensus size: 19
342425 TTTGGTTGAA
342435 ATGAAAATCGCAACGCGAG
1 ATGAAAATCGCAACGCGAG
*
342454 ATGACAATCGCAA--CGAG
1 ATGAAAATCGCAACGCGAG
*
342471 A-G--AATCGCAACGCGAA
1 ATGAAAATCGCAACGCGAG
342487 ATGAAAATCGCAA--CGAG
1 ATGAAAATCGCAACGCGAG
*
342504 A-G--AATCGCAACGCGAA
1 ATGAAAATCGCAACGCGAG
*
342520 ATGAAAATCGCAATGCGA
1 ATGAAAATCGCAACGCGA
342538 TTTTGGTTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
14 16 0.23
16 10 0.14
17 11 0.16
19 32 0.46
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
ATGAAAATCGCAACGCGAG
Found at i:342477 original size:33 final size:33
Alignment explanation
Indices: 342440--342532 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
342430 TTGAAATGAA
* *
342440 AATCGCAACGCGAGATGACAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
342473 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
342506 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
342533 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:342478 original size:14 final size:14
Alignment explanation
Indices: 342459--342515 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
342449 GCGAGATGAC
342459 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
342473 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
342492 AATCGCAACGAGAG
1 AATCGCAACGAGAG
342506 AATCGCAACG
1 AATCGCAACG
342516 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:342568 original size:14 final size:14
Alignment explanation
Indices: 342549--342603 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
342539 TTTGGTTTCG
342549 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
342563 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
342582 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
342596 CGTTGCGA
1 CGTTGCGA
342604 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:342766 original size:32 final size:32
Alignment explanation
Indices: 342727--342795 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
342717 ACTAACTTGA
*
342727 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
342759 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
342791 AAATC
1 AAATC
342796 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:342769 original size:18 final size:18
Alignment explanation
Indices: 342746--342795 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
342736 CGAGAGAATA
342746 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
342764 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
342778 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
342796 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:343025 original size:22 final size:22
Alignment explanation
Indices: 342973--343027 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
342963 TGGTTGTGAG
**
342973 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
342995 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
343017 GGATTTCTTCG
1 GGATTTCTTCG
343028 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:343198 original size:20 final size:20
Alignment explanation
Indices: 343173--343366 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
343163 CTTTAAATAT
343173 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
343193 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
343215 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
343234 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
343254 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
343274 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
343294 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
343314 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
343334 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
343354 CGCGTTGCGATTT
1 CGCGTTGCGATTT
343367 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:343360 original size:60 final size:60
Alignment explanation
Indices: 343173--343366 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
343163 CTTTAAATAT
**
343173 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
343234 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
343294 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
343354 CGCGTTGCGATTT
1 CGCGTTGCGATTT
343367 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:343383 original size:21 final size:20
Alignment explanation
Indices: 343359--343435 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
343349 ATATTCGCGT
343359 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
343380 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
343400 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
343422 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
343436 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:343446 original size:20 final size:20
Alignment explanation
Indices: 343421--343472 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
343411 AAGAATCGCG
*
343421 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
343441 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
343461 TTGCGATTCTGG
1 TTGCGATTCTGG
343473 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:344107 original size:21 final size:20
Alignment explanation
Indices: 344081--344136 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
344071 TAAATTTTGA
344081 TTTAATATAATTATATATAAT
1 TTTAATATAATTATATAT-AT
* **
344102 TTTAATTTGGTTATATATAT
1 TTTAATATAATTATATATAT
*
344122 TTTAAAAATAATTAT
1 TTT-AATATAATTAT
344137 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTAATATAATTATATATAT
Found at i:353344 original size:132 final size:132
Alignment explanation
Indices: 353107--353371 Score: 476
Period size: 132 Copynumber: 2.0 Consensus size: 132
353097 ATCTCTTATC
* *
353107 AACCCTAAGATACTGGAGATCTTGAAAAGTGGAATTTGATACATTTATGTTTCATGAAATGCACA
1 AACCCAAAGATACTGGAGATCTTGAAAAGTGGAATTTGATACATTCATGTTTCATGAAATGCACA
*
353172 CAATTTATGGATTTTTATAGACAATTGAGGGAGCGAACTAGAAACAGAAAGTTCAATCCTAGAAA
66 CAATTTATGGATTTTTATAGACAATTGAGGGAGCGAACTAGAAACAGAAAGTCCAATCCTAGAAA
353237 TT
131 TT
*
353239 AACCCAAAGATACTGGAGGTCTTGAAAAGTGGAATTTGATACATTCATGTTTCATGAAATGCACA
1 AACCCAAAGATACTGGAGATCTTGAAAAGTGGAATTTGATACATTCATGTTTCATGAAATGCACA
* *
353304 GAATTTATGGATTTTTATAGACAATTGAGGGAGTGAACTAGAAACAGAAAGTCCAATCCTAGAAA
66 CAATTTATGGATTTTTATAGACAATTGAGGGAGCGAACTAGAAACAGAAAGTCCAATCCTAGAAA
353369 TT
131 TT
353371 A
1 A
353372 TTTATACAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (132 bp):
AACCCAAAGATACTGGAGATCTTGAAAAGTGGAATTTGATACATTCATGTTTCATGAAATGCACA
CAATTTATGGATTTTTATAGACAATTGAGGGAGCGAACTAGAAACAGAAAGTCCAATCCTAGAAA
TT
Found at i:360399 original size:22 final size:21
Alignment explanation
Indices: 360371--360421 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
360361 GTTTATGTTT
*
360371 TTAATATATTAATATATCATTA
1 TTAATATATTAATATAT-AATA
**
360393 TTAATATATTTGTATATAATA
1 TTAATATATTAATATATAATA
360414 TTAATATA
1 TTAATATA
360422 AACCCAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAATATATTAATATATAATA
Found at i:360564 original size:31 final size:29
Alignment explanation
Indices: 360513--360593 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 29
360503 ATTTAAGAAC
* *
360513 CTAAAATA-TTTTT-ATTAAAATAAGTAT
1 CTAAAGTATTTTTTGATCAAAATAAGTAT
* *
360540 CTAAAGTTATCTTTTTGGTCAAAATATGTAT
1 CTAAAG-TAT-TTTTTGATCAAAATAAGTAT
360571 CTAAAGTATTTTTTGATCAAAAT
1 CTAAAGTATTTTTTGATCAAAAT
360594 CGATACATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 13 0.29
30 8 0.18
31 17 0.38
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (29 bp):
CTAAAGTATTTTTTGATCAAAATAAGTAT
Found at i:369188 original size:21 final size:21
Alignment explanation
Indices: 369150--369245 Score: 52
Period size: 21 Copynumber: 4.6 Consensus size: 21
369140 TGAGGTCTAA
* * *
369150 GGTCCGAGGTTAGGGGTTAGG
1 GGTCTGAGGTCAGTGGTTAGG
* **
369171 GGTTTGAGGTCAGTGGTTTCG
1 GGTCTGAGGTCAGTGGTTAGG
* *
369192 GGTCCGAGG-CTAGTGGTCTA-A
1 GGTCTGAGGTC-AGTGGT-TAGG
* *
369213 GGTCTGAGGTCAATGGTCAGG
1 GGTCTGAGGTCAGTGGTTAGG
* *
369234 GGTTTTAGGTCA
1 GGTCTGAGGTCA
369246 AGAGTCTAGG
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
20 2 0.04
21 51 0.93
22 2 0.04
ACGTcount: A:0.16, C:0.12, G:0.43, T:0.29
Consensus pattern (21 bp):
GGTCTGAGGTCAGTGGTTAGG
Found at i:369688 original size:21 final size:21
Alignment explanation
Indices: 369631--369690 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
369621 AGGGTCCGAT
* *
369631 GTTT-GGGTTTAAGGGTAGTG
1 GTTTAGGGTTTAAGGTTAGTA
* * **
369651 GTCTAGTGTTTGGGGTTAGTA
1 GTTTAGGGTTTAAGGTTAGTA
369672 GTTTAGGGTTTAAGGTTAG
1 GTTTAGGGTTTAAGGTTAG
369691 GGATTCAAGA
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGTTAGTA
Found at i:369864 original size:54 final size:54
Alignment explanation
Indices: 369777--369893 Score: 171
Period size: 54 Copynumber: 2.2 Consensus size: 54
369767 GGGTCAAGTA
* * * * *
369777 TCTAGGGTTTGGCTTTTGGATCTGGGGTTAAGTATCTAGGGTTTGACTTTCGAG
1 TCTAGGGTCTAGCTTTCGGATCTGGGGTCAAGTATCTAGGGTCTGACTTTCGAG
* *
369831 TCTAGGGTCTAGCTTTCGGATCTGGGGTCAAGTATCTAGGGTCTGACTTTTGGG
1 TCTAGGGTCTAGCTTTCGGATCTGGGGTCAAGTATCTAGGGTCTGACTTTCGAG
369885 TCTAGGGTC
1 TCTAGGGTC
369894 AATGGTTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.38
Consensus pattern (54 bp):
TCTAGGGTCTAGCTTTCGGATCTGGGGTCAAGTATCTAGGGTCTGACTTTCGAG
Found at i:369893 original size:34 final size:34
Alignment explanation
Indices: 369831--369895 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
369821 GACTTTCGAG
*
369831 TCTAGGGTCTAGCTTTCGGATCTGGGGTCAAGTA
1 TCTAGGGTCTAGCTTTCGGATCTAGGGTCAAGTA
* *
369865 TCTAGGGTCT-GACTTTTGGGTCTAGGGTCAA
1 TCTAGGGTCTAG-CTTTCGGATCTAGGGTCAA
369896 TGGTTTAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (34 bp):
TCTAGGGTCTAGCTTTCGGATCTAGGGTCAAGTA
Found at i:370114 original size:13 final size:13
Alignment explanation
Indices: 370098--370129 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
370088 TTGCATTGTA
370098 TTTTTTCCTAATT
1 TTTTTTCCTAATT
370111 TTTTTT-CTAATT
1 TTTTTTCCTAATT
370123 TTTTTTC
1 TTTTTTC
370130 AAAAATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTCCTAATT
Found at i:373587 original size:44 final size:44
Alignment explanation
Indices: 373536--373660 Score: 232
Period size: 44 Copynumber: 2.8 Consensus size: 44
373526 ATTTAAATTT
*
373536 TGTGCCCCTATTTTAAAAGAATATTAATGATATATTTATTGTTA
1 TGTGCCCCTATTTTAAAAGAATATTAATGATATATTTATTATTA
373580 TGTGCCCCTATTTTAAAAGAATATTAATGATATATTTATTATTA
1 TGTGCCCCTATTTTAAAAGAATATTAATGATATATTTATTATTA
*
373624 TGTGTCCCTATTTTAAAAGAATATTAATGATATATTT
1 TGTGCCCCTATTTTAAAAGAATATTAATGATATATTT
373661 TTTAAAGCAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (44 bp):
TGTGCCCCTATTTTAAAAGAATATTAATGATATATTTATTATTA
Found at i:374031 original size:2 final size:2
Alignment explanation
Indices: 374024--374071 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
374014 AAACAATTGT
374024 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
374066 AG AG AG
1 AG AG AG
374072 GTAGCTTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:376062 original size:12 final size:12
Alignment explanation
Indices: 376047--376081 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
376037 TCCTCCTCTT
*
376047 CTTCACCTTCAC
1 CTTCTCCTTCAC
*
376059 CTTCTCCTTCTC
1 CTTCTCCTTCAC
376071 CTTCTCCTTCA
1 CTTCTCCTTCA
376082 TCCTCTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.49, G:0.00, T:0.43
Consensus pattern (12 bp):
CTTCTCCTTCAC
Found at i:376068 original size:18 final size:19
Alignment explanation
Indices: 376047--376085 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
376037 TCCTCCTCTT
376047 CTTCACCTTCACCTTC-TC
1 CTTCACCTTCACCTTCATC
* *
376065 CTTCTCCTTCTCCTTCATC
1 CTTCACCTTCACCTTCATC
376084 CT
1 CT
376086 CTTCAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.08, C:0.49, G:0.00, T:0.44
Consensus pattern (19 bp):
CTTCACCTTCACCTTCATC
Found at i:379012 original size:3 final size:3
Alignment explanation
Indices: 379004--379096 Score: 123
Period size: 3 Copynumber: 30.7 Consensus size: 3
378994 TCATTTAAAT
** * * *
379004 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA GTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
379052 TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
379097 TAATAAATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
3 76 0.96
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:379807 original size:13 final size:13
Alignment explanation
Indices: 379789--379817 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
379779 ACCACCGTTA
379789 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
379802 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
379815 CGG
1 CGG
379818 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:391237 original size:21 final size:21
Alignment explanation
Indices: 391211--391273 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
391201 TTTTGGTGCA
*
391211 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCCCT
* **
391232 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCCT
*
391253 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATCCCCCCC
391274 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCCT
Found at i:391281 original size:21 final size:21
Alignment explanation
Indices: 391255--391294 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
391245 CCCCCTTTGA
*
391255 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
391276 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
391295 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:393590 original size:13 final size:13
Alignment explanation
Indices: 393572--393596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
393562 TTCTAAGTAA
393572 TTTCTAATTTCAT
1 TTTCTAATTTCAT
393585 TTTCTAATTTCA
1 TTTCTAATTTCA
393597 AAACTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCTAATTTCAT
Found at i:395255 original size:2 final size:2
Alignment explanation
Indices: 395250--395318 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
395240 TTATCCTTTA
395250 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
395291 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
395319 CCTTTGTTGT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:400649 original size:31 final size:31
Alignment explanation
Indices: 400611--400673 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
400601 TTGTTTTTCA
400611 TTCGAGATACCATCATTATCTAATCCAAATG
1 TTCGAGATACCATCATTATCTAATCCAAATG
400642 TTCGAGATACCATCATTATCTAATCCAAATG
1 TTCGAGATACCATCATTATCTAATCCAAATG
400673 T
1 T
400674 ATTGGCTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (31 bp):
TTCGAGATACCATCATTATCTAATCCAAATG
Found at i:401781 original size:21 final size:21
Alignment explanation
Indices: 401755--401794 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
401745 CAGAACCCCA
*
401755 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
401776 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
401795 TCAAAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:401829 original size:21 final size:21
Alignment explanation
Indices: 401776--401838 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
401766 ATTCCCCTGT
401776 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* * *
401799 AGGAGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
*
401820 GGGGGGAATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
401839 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.56
22 3 0.09
23 12 0.35
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:409929 original size:54 final size:54
Alignment explanation
Indices: 409793--409961 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
409783 GGCAAAGTTC
* **
409793 AATGTTTGA-GAACATCTGAGCAGAAGCCACA--AAAAAATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
* *
409844 AATGTTTTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTG-TTGTCA
* * *** *
409899 AATGTTTTACGAACATC-GAGCAGAGGCCACAGGCAAGGATGAATGCACTGTTA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
409952 AATGTTTTAC
1 AATGTTTTAC
409962 AACCCTGCTA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
51 8 0.08
52 20 0.20
53 14 0.14
54 36 0.36
55 23 0.23
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
Found at i:410371 original size:22 final size:21
Alignment explanation
Indices: 410331--410381 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
410321 TACACTCTTC
*
410331 AAAGATGACAAATTTTCTTTTT
1 AAAGATGACAAATTCTC-TTTT
* *
410353 AAAGATGATAGATTCTCTTTT
1 AAAGATGACAAATTCTCTTTT
*
410374 CAAGATGA
1 AAAGATGA
410382 AAGCTTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (21 bp):
AAAGATGACAAATTCTCTTTT
Found at i:411306 original size:75 final size:76
Alignment explanation
Indices: 411133--411764 Score: 1179
Period size: 75 Copynumber: 8.4 Consensus size: 76
411123 ATATTTCCCA
411133 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
411198 AACCTTCGGGT
66 AGCCTTCGGGT
411209 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411273 AGCCTTCGGGT
66 AGCCTTCGGGT
*
411284 CATCTGTAAGTCATTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411348 AGCCTTCGGGT
66 AGCCTTCGGGT
411359 CATCTGTAAGTCC-TCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411423 AGCCTTCGGGT
66 AGCCTTCGGGT
411434 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411497 AGCCTTCGGGT
66 AGCCTTCGGGT
411508 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411573 AGCCTTCGGGT
66 AGCCTTCGGGT
411584 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411649 AGCCTTC-GGT
66 AGCCTTCGGGT
*
411659 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
411723 AGCCTTCGGGT
66 AGCCTTCGGGT
*
411734 CATCTGTAAGCCCTTCAGTGCATGATGTTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTC
411765 AAACATTTCC
Statistics
Matches: 547, Mismatches: 4, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
74 135 0.25
75 233 0.43
76 179 0.33
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:411895 original size:3 final size:3
Alignment explanation
Indices: 411887--411986 Score: 98
Period size: 3 Copynumber: 32.7 Consensus size: 3
411877 TTCATTAAAT
**
411887 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
411933 TTA -TA TAA TTTA TTA TT- TTA TTA TTTA TTA TTTA TTA -TA TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
411978 TTA TATA TT
1 TTA T-TA TT
411987 TATATTTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.07
3 61 0.75
4 14 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:411903 original size:18 final size:18
Alignment explanation
Indices: 411880--411970 Score: 109
Period size: 18 Copynumber: 5.1 Consensus size: 18
411870 ATCATTTTTC
411880 ATTAAATTTATTATTATT
1 ATTAAATTTATTATTATT
*
411898 ATTAAAATTATTATTATT
1 ATTAAATTTATTATTATT
*
411916 ATTATATATTATTATTATT
1 ATTAAAT-TTATTATTATT
411935 A-TATAATTTATTATT-TT
1 ATTA-AATTTATTATTATT
411952 ATT--ATTTATTATTTATT
1 ATTAAATTTATTA-TTATT
411969 AT
1 AT
411971 ATTAATATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
15 8 0.12
16 2 0.03
17 7 0.11
18 33 0.52
19 14 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAAATTTATTATTATT
Found at i:411931 original size:34 final size:36
Alignment explanation
Indices: 411888--411992 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 36
411878 TCATTAAATT
411888 TATTATTATTATTA-A-AA-TTATTATTATTATTATA
1 TATTATTATTATTATATAATTTATTATT-TTATTATA
*
411922 TATTATTATTATTATATAATTTATTATTTTATTATT
1 TATTATTATTATTATATAATTTATTATTTTATTATA
411958 TATTA-T-TTATTATATTAATATTATATATTTATATT
1 TATTATTATTATTATA-TAAT-TTAT-TATTT-TATT
411993 TAATAAATAA
Statistics
Matches: 63, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
34 22 0.35
35 6 0.10
36 18 0.29
37 13 0.21
38 4 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (36 bp):
TATTATTATTATTATATAATTTATTATTTTATTATA
Found at i:413241 original size:233 final size:231
Alignment explanation
Indices: 412836--413300 Score: 864
Period size: 233 Copynumber: 2.0 Consensus size: 231
412826 CGTTTAGGTA
412836 TTTAAAACCCTCCCCAAACGACGTCGTTCTGGGGAGGGTATCTGTGTAATTTAGAAAGGGTAACC
1 TTTAAAACCCTCCCCAAACGACGTCGTTCTGGGGAGGGTATCTGTGTAATTTAGAAAGGGTAACC
412901 CTTTCCGTAACCCTTATAGTTTTGTAACTTTGCAATTTAGTCACTGAAATTGACTTTTAATCATT
66 CTTTCCGTAACCCTTATAGTTTTGTAACTTTGCAATTTAGTCACTGAAATTGACTTTTAATCATT
412966 TTAATTTAGTGTTTAAATTTAATTTATTATATTTTAACCATTAACTGTATTTATATATATTTTAG
131 TTAATTTAGTGTTTAAATTTAATTTATTATATTTTAACCATTAACTGTA-TT-TATATA-TTTAG
413031 GAAAATATCAAA-TT-GTCCCTCATAGTTTATT-ATTAT
193 GAAAATATCAAATTTAGTCCCTCATAGTTTATTAATTAT
413067 TTTAAAACCCTCCCCAAACGACGTCGTTCTGGGGAGGGTATCTGTGTAATTTAAGAAAGGGTAAA
1 TTTAAAACCCTCCCCAAACGACGTCGTTCTGGGGAGGGTATCTGTGTAATTT-AGAAAGGGT-AA
413132 CCCTTTCCGTAACCCTTATAGTTTTGTAACTTTGCAATTTAGTCACTGAAATTGACTTTTAATCA
64 CCCTTTCCGTAACCCTTATAGTTTTGTAACTTTGCAATTTAGTCACTGAAATTGACTTTTAATCA
413197 TTTTAATTTAGTGTTTAAATTTAATTTATTATATTTTAACCATTAACTGTATTTATATATTTAGG
129 TTTTAATTTAGTGTTTAAATTTAATTTATTATATTTTAACCATTAACTGTATTTATATATTTAGG
413262 AAAATATCAAATTTAGTCCCTCATAGTTTATTAATTAT
194 AAAATATCAAATTTAGTCCCTCATAGTTTATTAATTAT
413300 T
1 T
413301 ATTTTAATCA
Statistics
Matches: 229, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
230 17 0.07
231 60 0.26
232 28 0.12
233 124 0.54
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (231 bp):
TTTAAAACCCTCCCCAAACGACGTCGTTCTGGGGAGGGTATCTGTGTAATTTAGAAAGGGTAACC
CTTTCCGTAACCCTTATAGTTTTGTAACTTTGCAATTTAGTCACTGAAATTGACTTTTAATCATT
TTAATTTAGTGTTTAAATTTAATTTATTATATTTTAACCATTAACTGTATTTATATATTTAGGAA
AATATCAAATTTAGTCCCTCATAGTTTATTAATTAT
Found at i:414312 original size:45 final size:45
Alignment explanation
Indices: 414248--414340 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
414238 TACGACAATC
414248 CCCATGCATGAAGGCATTCTTAATGTCAAACTGTTGTAATTTCCA
1 CCCATGCATGAAGGCATTCTTAATGTCAAACTGTTGTAATTTCCA
*
414293 CCCATGCATGTAGGCATTCTTAATGTCAAACTGTTGTAATTTCCA
1 CCCATGCATGAAGGCATTCTTAATGTCAAACTGTTGTAATTTCCA
414338 CCC
1 CCC
414341 TTGATTGGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (45 bp):
CCCATGCATGAAGGCATTCTTAATGTCAAACTGTTGTAATTTCCA
Found at i:418422 original size:33 final size:33
Alignment explanation
Indices: 418380--418446 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
418370 ATAGCCTCAT
418380 ACCAGACAGCATCACTGCCAAATAAATAAACAG
1 ACCAGACAGCATCACTGCCAAATAAATAAACAG
418413 ACCAGACAGCATCACTGCCAAATAAATAAACAG
1 ACCAGACAGCATCACTGCCAAATAAATAAACAG
418446 A
1 A
418447 AAAATTCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.27, G:0.12, T:0.12
Consensus pattern (33 bp):
ACCAGACAGCATCACTGCCAAATAAATAAACAG
Found at i:419838 original size:52 final size:49
Alignment explanation
Indices: 419759--419865 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 49
419749 CATTTCAGTG
* *
419759 TTTAATCTAAATAAACAAAATTCATTCATTTCCACTTAAAAAAGTTGAGTT
1 TTTAATCCAAATAAACAAAATTCATTCATTCCCAC-TAAAAAA-TTGAGTT
* *
419810 TCTTAATCCAAGTAAACCAAATTCATTCATTCCCACTAAAAAATTGAGTT
1 T-TTAATCCAAATAAACAAAATTCATTCATTCCCACTAAAAAATTGAGTT
419860 TTTAAT
1 TTTAAT
419866 ATAAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 5 0.10
50 8 0.16
51 8 0.16
52 30 0.59
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (49 bp):
TTTAATCCAAATAAACAAAATTCATTCATTCCCACTAAAAAATTGAGTT
Found at i:421708 original size:13 final size:13
Alignment explanation
Indices: 421689--421722 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
421679 AGAAAAAAAC
421689 TTTTAAAAGTG-T
1 TTTTAAAAGTGAT
421701 TGTTTAAAAGTGAT
1 T-TTTAAAAGTGAT
421715 TTTTAAAA
1 TTTTAAAA
421723 TTTAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 17 0.85
14 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (13 bp):
TTTTAAAAGTGAT
Found at i:422401 original size:15 final size:15
Alignment explanation
Indices: 422383--422424 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
422373 TTAAGATAAC
422383 TTATTAAT-AATATTT
1 TTATTAATAAATA-TT
*
422398 TTATAAATGAAATATT
1 TTATTAAT-AAATATT
422414 TTATTAATAAA
1 TTATTAATAAA
422425 AATATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 9 0.39
17 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTATTAATAAATATT
Found at i:422427 original size:17 final size:17
Alignment explanation
Indices: 422407--422440 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
422397 TTTATAAATG
* *
422407 AAATATTTTATTAATAA
1 AAATATATTATCAATAA
422424 AAATATATTATCAATAA
1 AAATATATTATCAATAA
422441 TTTTTAATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATTATCAATAA
Found at i:427954 original size:27 final size:25
Alignment explanation
Indices: 427913--427967 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
427903 CAGCTTGTTG
*
427913 AATGGGTTCGGGACAGCTTGTTGAATT
1 AATGGGTTCGAGACA-CTTGTTG-ATT
*
427940 AATGGGTTCGAGACATTTGTTGATT
1 AATGGGTTCGAGACACTTGTTGATT
427965 AAT
1 AAT
427968 AATAATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 6 0.23
26 6 0.23
27 14 0.54
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.36
Consensus pattern (25 bp):
AATGGGTTCGAGACACTTGTTGATT
Found at i:428143 original size:20 final size:21
Alignment explanation
Indices: 428118--428159 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
428108 TGTTGGATTG
*
428118 TTATTTATA-TTTATTGAATT
1 TTATTTATATTTTATTAAATT
428138 TTATTTATATTTTATTAAATT
1 TTATTTATATTTTATTAAATT
428159 T
1 T
428160 CAGTTTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTATATTTTATTAAATT
Found at i:430283 original size:21 final size:20
Alignment explanation
Indices: 430248--430287 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
430238 TTAAAATTTC
*
430248 TTTGATTTAATATATATATG
1 TTTGATATAATATATATATG
430268 TTTGATATATATATATATAT
1 TTTGATATA-ATATATATAT
430288 TAATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTGATATAATATATATATG
Found at i:430942 original size:31 final size:31
Alignment explanation
Indices: 430894--430955 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
430884 ATCACCAAGA
430894 CATATATGCACTTCTACCATGTCACGAGAAAT
1 CATATATGCACTTCTACCATGTCAC-AGAAAT
430926 CATATATGC-CTTCTACCATGTCACAGAAAT
1 CATATATGCACTTCTACCATGTCACAGAAAT
430956 ACACATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 6 0.20
31 15 0.50
32 9 0.30
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (31 bp):
CATATATGCACTTCTACCATGTCACAGAAAT
Found at i:430997 original size:37 final size:37
Alignment explanation
Indices: 430956--431030 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
430946 TCACAGAAAT
430956 ACACATATCATTATATCAAATTATGTTCTCCTTTCAA
1 ACACATATCATTATATCAAATTATGTTCTCCTTTCAA
430993 ACACATATCATTATATCAAATTATGTTCTCCTTTCAA
1 ACACATATCATTATATCAAATTATGTTCTCCTTTCAA
431030 A
1 A
431031 GCCCATGTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (37 bp):
ACACATATCATTATATCAAATTATGTTCTCCTTTCAA
Found at i:431141 original size:19 final size:22
Alignment explanation
Indices: 431112--431163 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 22
431102 TATAATTGTA
431112 ACCGAAGTGCCCGTAG-A-TGC
1 ACCGAAGTGCCCGTAGAATTGC
431132 ACCG-AGTGCCCGTAGAATTGC
1 ACCGAAGTGCCCGTAGAATTGC
*
431153 ACCGTAGTGCC
1 ACCGAAGTGCC
431164 ATATATAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 7 0.24
22 6 0.21
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (22 bp):
ACCGAAGTGCCCGTAGAATTGC
Found at i:431304 original size:101 final size:103
Alignment explanation
Indices: 431187--431383 Score: 337
Period size: 101 Copynumber: 1.9 Consensus size: 103
431177 ATAGGACTAC
* *
431187 ATCATTCCTAAGAATCATATACATATACTAGGGATCAAGTATGTGTC-CACCAGACTTCACACAT
1 ATCATTCCTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACAT
431251 GTTCC-AA-AATACATATATGTCCCGAAGGAAACACAT
66 GTTCCAAAGAATACATATATGTCCCGAAGGAAACACAT
*
431287 ATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
1 ATCATTCC-TAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
431352 TGTTCCAAAGAATACATATATGTCCCGAAGGA
65 TGTTCCAAAGAATACATATATGTCCCGAAGGA
431384 CCGCGTAGAC
Statistics
Matches: 90, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
100 8 0.09
101 36 0.40
102 22 0.24
103 2 0.02
104 22 0.24
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
ATCATTCCTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACAT
GTTCCAAAGAATACATATATGTCCCGAAGGAAACACAT
Found at i:431578 original size:20 final size:20
Alignment explanation
Indices: 431553--431801 Score: 197
Period size: 20 Copynumber: 12.2 Consensus size: 20
431543 AATGACCAAC
*
431553 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
431573 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
431593 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
* ***
431613 AAAATCGCAACACGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
431634 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
431655 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
431676 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
431697 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
431719 -AAA-CGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
431737 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
*
431759 --AATCGAAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
* *
431777 AAAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTAAG
431797 AAAAT
1 AAAAT
431802 GAGTAAATTC
Statistics
Matches: 184, Mismatches: 28, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
18 7 0.04
19 3 0.02
20 126 0.68
21 16 0.09
22 32 0.17
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:431732 original size:40 final size:40
Alignment explanation
Indices: 431610--431794 Score: 271
Period size: 40 Copynumber: 4.5 Consensus size: 40
431600 CAACGGTCAA
* *
431610 AAGAAAATCGCAACACGATATTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATT
* *
431652 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATT
*
431694 AAGAAAATCGCAACGCGATTCCAAGAAACGCAACGCGATT
1 AAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT
*
431734 AAGAAAATCGCAACGCGATTCCAAGAATCGAAACGCGATT
1 AAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT
*
431774 AAGAAAATCGCAATGCGATTC
1 AAGAAAATCGCAACGCGATTC
431795 AGAAAATGAG
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
40 79 0.59
42 54 0.41
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (40 bp):
AAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT
Found at i:431916 original size:18 final size:18
Alignment explanation
Indices: 431893--431927 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
431883 CGAAGACACG
431893 TATTACCACGACCACGAC
1 TATTACCACGACCACGAC
431911 TATTACCACGACCACGA
1 TATTACCACGACCACGA
431928 GACGAGACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.37, G:0.11, T:0.17
Consensus pattern (18 bp):
TATTACCACGACCACGAC
Found at i:432453 original size:6 final size:5
Alignment explanation
Indices: 432406--432451 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
432396 CGCCGCCGTC
432406 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
432452 TGAATCGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.57
6 17 0.43
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:432730 original size:14 final size:14
Alignment explanation
Indices: 432699--432733 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
432689 AATTTAATTT
*
432699 TTTTTAAATTAGAA
1 TTTTTAAATTAAAA
432713 -TTTTAAATTAAAA
1 TTTTTAAATTAAAA
432726 TTTTTAAA
1 TTTTTAAA
432734 AATTTTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TTTTTAAATTAAAA
Found at i:446541 original size:35 final size:36
Alignment explanation
Indices: 446493--446568 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
446483 TCTAAACTCT
446493 AAATTGAAGTA-TTTTAGAATTTGAGGTTTAAAATG
1 AAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
* * * * *
446528 TAATTGAATTATTTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
446564 AAATT
1 AAATT
446569 ACAGACTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 9 0.26
36 25 0.74
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (36 bp):
AAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
Found at i:452411 original size:22 final size:23
Alignment explanation
Indices: 452371--452414 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
452361 GTAATGACGC
452371 AATGAAATACCTTTGGGAGAGGA
1 AATGAAATACCTTTGGGAGAGGA
452394 AATGAAATACC-TTGGGAGAGG
1 AATGAAATACCTTTGGGAGAGG
452415 TGATGGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.20
Consensus pattern (23 bp):
AATGAAATACCTTTGGGAGAGGA
Found at i:458713 original size:16 final size:16
Alignment explanation
Indices: 458692--458722 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
458682 TAATAAATAA
458692 ACGAACATAAACGAAT
1 ACGAACATAAACGAAT
458708 ACGAACATAAACGAA
1 ACGAACATAAACGAA
458723 CAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAT
Found at i:458843 original size:13 final size:13
Alignment explanation
Indices: 458808--458847 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
458798 TGCACGAACG
*
458808 TAAACGAACAAACA
1 TAAACGAACATA-A
458822 TAAACGAACATAA
1 TAAACGAACATAA
*
458835 TAAATGAACATAA
1 TAAACGAACATAA
458848 ACGAACAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.62, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
TAAACGAACATAA
Found at i:459382 original size:21 final size:20
Alignment explanation
Indices: 459358--459405 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
459348 GGAAATATTT
* *
459358 ATTTTAGGTAGCGAAATTAAC
1 ATTTTAGGTAG-AAAAATAAC
**
459379 ATTTCCGGTAGAAAAATAAC
1 ATTTTAGGTAGAAAAATAAC
459399 ATTTTAG
1 ATTTTAG
459406 AAAACGCTCT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (20 bp):
ATTTTAGGTAGAAAAATAAC
Found at i:464062 original size:72 final size:74
Alignment explanation
Indices: 463942--464099 Score: 221
Period size: 72 Copynumber: 2.1 Consensus size: 74
463932 TATTCGAATC
* *
463942 CTAGAATAATAAAATTCATAAACAAATCATAATATTAAAATGTCAAATCTCAAGATTCAAACCAC
1 CTAGAATAATAAAATTCATAAACAAATCA-AATATTAAAATGTCAAATCTCAAGAATAAAACCAC
464007 AATATTAACT
65 AATATTAACT
* * * *
464017 CTAGAATAATAAAATTCATAATCAAA-C-AATATTAAAGTGTCAAATCTTAAGAATAAAACCATA
1 CTAGAATAATAAAATTCATAAACAAATCAAATATTAAAATGTCAAATCTCAAGAATAAAACCACA
*
464080 ATATTAAGT
66 ATATTAACT
*
464089 CTAGAAAAATA
1 CTAGAATAATA
464100 TTAAACAACA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
72 49 0.65
74 1 0.01
75 25 0.33
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (74 bp):
CTAGAATAATAAAATTCATAAACAAATCAAATATTAAAATGTCAAATCTCAAGAATAAAACCACA
ATATTAACT
Found at i:466627 original size:828 final size:828
Alignment explanation
Indices: 465034--467229 Score: 4251
Period size: 828 Copynumber: 2.7 Consensus size: 828
465024 GTGCAACATA
* *
465034 ATCGATAGCCTCCTCAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
1 ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
** *
465099 AATCACATAAGAATGTACCCACATTTCAATGAAGTTAAAACAGCCGTTTTAATGACTCTGAACAG
66 AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACAGCAGTTTTAATGACTCTGAACAG
*
465164 TTTCTAAGACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
131 TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
465229 TTTCAAGTTCTGCAGCATGACATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTT
196 TTTCAAGTTCTGCAGCATG--ATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTT
465294 AAGGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGC
259 AAGGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGC
465359 AACCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTAT-AAATTATT
324 AACCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATT
465423 TGAGACTCGATTTC-T-TATATA-TTT-AAAGTAAAAGGACATGAATTCAAATTTCACAAACATC
389 TGAGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATC
465484 TGATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTT
454 TGATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTT
465549 ACACTTATACGCTATGTTTCAGTACAAAACTTGGAGGGAAAGAAGAGAATAAACCAAGGGTATTA
519 ACACTTATACGCTATGTTTCAGTACAAAACTTGGAGGGAAAGAAGAGAATAAACCAAGGGTATTA
465614 ATCCTCTTCTAGGTTGATGGAGTTCTTGAACTTCCCGTACAAAACCTTCTTCAACTCGGCCATTT
584 ATCCTCTTCTAGGTTGATGGAGTTCTTGAACTTCCCGTACAAAACCTTCTTCAACTCGGCCATTT
465679 GTGCTGCTACTGATTCTTTTCCTCCTCGAGTTTTTCTAAGTTCTTACTGCTCACTTCCCTCATCT
649 GTGCTGCTACTGATTCTTTTCCTCCTCGAGTTTTTCTAAGTTCTTACTGCTCACTTCCCTCATCT
465744 CTTCTATCCTGGTCTCCACATCCTGCTTGGGGACATGAGCAAAGACTTCTCCAATTTGGAACCGT
714 CTTCTATCCTGGTCTCCACATCCTGCTTGGGGACATGAGCAAAGACTTCTCCAATTTGGAACCGT
465809 ACTACTTCCTCATCGGTTAGAATCAACTCATTACTGGCATCCTCCAGGTT
779 ACTACTTCCTCATCGGTTAGAATCAACTCATTACTGGCATCCTCCAGGTT
465859 ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
1 ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
465924 AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACAGCAGTTTTAATGACTCTGAACAG
66 AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACAGCAGTTTTAATGACTCTGAACAG
465989 TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
131 TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
466054 TTTCAAGTTCTGCAGCATGATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTTAA
196 TTTCAAGTTCTGCAGCATGATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTTAA
466119 GGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGCAA
261 GGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGCAA
466184 CCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATTTG
326 CCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATTTG
466249 AGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATCTG
391 AGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATCTG
466314 ATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTTAC
456 ATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTTAC
466379 ACTTATACGCTATGTTTCAGTACAAAAC-TGGAGGGAAAGAAGAGAATAAACCAAGGGTATTAAT
521 ACTTATACGCTATGTTTCAGTACAAAACTTGGAGGGAAAGAAGAGAATAAACCAAGGGTATTAAT
466443 CCTCTTCTAGGTTGATGGAGTTCTTGAACTTCCCGTACAAAACCTTCTTCAACTCGGCCATTTGT
586 CCTCTTCTAGGTTGATGGAGTTCTTGAACTTCCCGTACAAAACCTTCTTCAACTCGGCCATTTGT
466508 GCTGCTACTGATTCTTTTTCCTCCTCGAGTTTTTCTAAGTTCTTACTGCTCACTTCCCTCATCTC
651 GCTGCTACTGATTC-TTTTCCTCCTCGAGTTTTTCTAAGTTCTTACTGCTCACTTCCCTCATCTC
466573 TTCTATCCTGGTCTCCACATCCTGCTTGGGGACATGAGCAAAGACTTCTCCAATTTGGAACCGTA
715 TTCTATCCTGGTCTCCACATCCTGCTTGGGGACATGAGCAAAGACTTCTCCAATTTGGAACCGTA
466638 CTACTTCCTCATCGGTTAGAATCAACTCATTACTGGCATCCTCCAGGTT
780 CTACTTCCTCATCGGTTAGAATCAACTCATTACTGGCATCCTCCAGGTT
466687 ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
1 ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
*
466752 AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACATCAGTTTTAATGACTCTGAACAG
66 AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACAGCAGTTTTAATGACTCTGAACAG
466817 TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
131 TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
466882 TTTCAAGTTCTGCAGCATGATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTTAA
196 TTTCAAGTTCTGCAGCATGATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTTAA
466947 GGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGCAA
261 GGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGCAA
467012 CCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATTTG
326 CCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATTTG
467077 AGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATCTG
391 AGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATCTG
467142 ATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTTAC
456 ATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTTAC
*
467207 ACTTATACGCTATGTTTCGGTAC
521 ACTTATACGCTATGTTTCAGTAC
467230 TCAAATTTGT
Statistics
Matches: 1357, Mismatches: 8, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
823 165 0.12
824 22 0.02
825 209 0.15
826 6 0.00
827 118 0.09
828 837 0.62
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (828 bp):
ATCGATAGCCTCATGAGAAAAACAAAAGAAAAGAAAGAAAACTAATGTCAGAAAATGTAATCACA
AATCACATAAGAATGTACCCACATTTCAATGGGGTTAAAACAGCAGTTTTAATGACTCTGAACAG
TTTCTAAAACGATGACAACACTTGCGGTTTGGTCAGGTGCAACAAAAATCTAACAACGTATCAAG
TTTCAAGTTCTGCAGCATGATAACCATCTAGTTTAAGAAACAGGAGAGTCGAAGTCAAAGTTTAA
GGCTAATCAATGAGAAGGGGCAGTTTCGATTTTTCTTTCAACAGATCAAATCATTCACCATGCAA
CCACAGTTTCTAGCCAATTAACTATACGCTATGTTTCAGTACTCAAATTTGTATAAAATTATTTG
AGACTCGATTTCTTATATATATTTTAAAAGTAAAAGGACATGAATTCAAATTTCACAAACATCTG
ATAGAAACATCAAGTTCACAACAAAGTTGACATCCACGAATTCAAGAGCTAATCATGAATGTTAC
ACTTATACGCTATGTTTCAGTACAAAACTTGGAGGGAAAGAAGAGAATAAACCAAGGGTATTAAT
CCTCTTCTAGGTTGATGGAGTTCTTGAACTTCCCGTACAAAACCTTCTTCAACTCGGCCATTTGT
GCTGCTACTGATTCTTTTCCTCCTCGAGTTTTTCTAAGTTCTTACTGCTCACTTCCCTCATCTCT
TCTATCCTGGTCTCCACATCCTGCTTGGGGACATGAGCAAAGACTTCTCCAATTTGGAACCGTAC
TACTTCCTCATCGGTTAGAATCAACTCATTACTGGCATCCTCCAGGTT
Found at i:468779 original size:6 final size:6
Alignment explanation
Indices: 468758--468806 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
468748 CTCGGGTCGA
* * *
468758 GTCG-G GTCATG GTCGTG ATCGTG GTCGTT GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
468805 GT
1 GT
468807 AATACGTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
5 3 0.08
6 34 0.92
ACGTcount: A:0.04, C:0.16, G:0.45, T:0.35
Consensus pattern (6 bp):
GTCGTG
Found at i:468912 original size:21 final size:21
Alignment explanation
Indices: 468886--469122 Score: 95
Period size: 21 Copynumber: 11.4 Consensus size: 21
468876 TATTTGGACT
*
468886 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* **
468907 ATCGCAACGCGAACTTCGCCT--
1 ATCGCAA--CGAACTTGGAATGA
* *
468928 ATCGCAACGAATTTGAAATGA
1 ATCGCAACGAACTTGGAATGA
* **
468949 ATCGCAACGTGAACTTCGCCT--
1 ATCGCAAC--GAACTTGGAATGA
* *
468970 ATCGTAACGAATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* **
468991 ATCGCAACGCGAACTTCGCCT--
1 ATCGCAA--CGAACTTGGAATGA
469012 ATCGCAACGAA-TTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* **
469032 ATCGCAACGCGAACTTCGCCT--
1 ATCGCAA--CGAACTTGGAATGA
*
469053 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* *
469073 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATGA
*
469094 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
*
469114 ATTGCAACG
1 ATCGCAACG
469123 CGAACTTCGC
Statistics
Matches: 153, Mismatches: 41, Indels: 45
0.64 0.17 0.19
Matches are distributed among these distances:
18 15 0.10
19 22 0.14
20 22 0.14
21 56 0.37
22 6 0.04
23 32 0.21
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATGA
Found at i:469039 original size:41 final size:42
Alignment explanation
Indices: 468884--469181 Score: 494
Period size: 42 Copynumber: 7.2 Consensus size: 42
468874 AATATTTGGA
468884 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
468926 CTATCGCAACGAATTTGAAATGAATCGCAACGTGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
468968 CTATCGTAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
469010 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
469051 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
469092 CTATCGCAACG-ATTTGGAATGAATTGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * * *
469133 CTATCGCAACGAATTTGGAATAAATCGTAATGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
469175 CTATCGC
1 CTATCGC
469182 GTTGCGAATT
Statistics
Matches: 240, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.00
41 116 0.48
42 123 0.51
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:469109 original size:82 final size:83
Alignment explanation
Indices: 468884--469181 Score: 490
Period size: 82 Copynumber: 3.6 Consensus size: 83
468874 AATATTTGGA
* *
468884 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGAAATGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACG-ATTTGGAATGA
*
468949 ATCGCAACGTGAACTTCGC
65 ATCGCAACGCGAACTTCGC
* * *
468968 CTATCGTAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATGAA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGATTTGGAATGAA
469033 TCGCAACGCGAACTTCGC
66 TCGCAACGCGAACTTCGC
469051 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGATTTGGAATGAA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGATTTGGAATGAA
*
469115 TTGCAACGCGAACTTCGC
66 TCGCAACGCGAACTTCGC
* * *
469133 CTATCGCAACGAATTTGGAATAAATCGTAATGCGAACTTCGACTATCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCGC
469182 GTTGCGAATT
Statistics
Matches: 202, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
82 79 0.39
83 71 0.35
84 52 0.26
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (83 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGATTTGGAATGAA
TCGCAACGCGAACTTCGC
Found at i:470037 original size:33 final size:33
Alignment explanation
Indices: 470000--470078 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
469990 GGCGATAGTA
*
470000 ATAGTAGCAGCAACGGTAACGACAACACCAAAG
1 ATAGTAGCAACAACGGTAACGACAACACCAAAG
*
470033 ATAGTAGCAACAACGGTAACGACAACACCGAAG
1 ATAGTAGCAACAACGGTAACGACAACACCAAAG
470066 ATAGTAGCAACAA
1 ATAGTAGCAACAA
470079 TAGTGATGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
ATAGTAGCAACAACGGTAACGACAACACCAAAG
Found at i:471780 original size:22 final size:22
Alignment explanation
Indices: 471752--471793 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
471742 TTCCGCTTTT
471752 AATTTCATTACGATACTTATAG
1 AATTTCATTACGATACTTATAG
* *
471774 AATTTCATTATGATATTTAT
1 AATTTCATTACGATACTTAT
471794 GTTTGGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (22 bp):
AATTTCATTACGATACTTATAG
Found at i:472285 original size:113 final size:114
Alignment explanation
Indices: 471949--472287 Score: 618
Period size: 113 Copynumber: 3.0 Consensus size: 114
471939 TATAATTCTC
*
471949 TATCCAAACTAAAAAAATAAA---TCATCATCTATTTGTTTCATGATTCATCAACTAATTTCATA
1 TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAATTTCATA
472011 ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGATTTTTT
66 ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGATTTTTT
472060 TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAATTTCATA
1 TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAATTTCATA
472125 ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGA-TTTTT
66 ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGATTTTTT
*
472173 TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAGTTTCATA
1 TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAATTTCATA
472238 ATTTAAACTTCATCAAAATATAT-AAA-AAATCTAAATATTGATTTTTT
66 ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGATTTTTT
472285 TAT
1 TAT
472288 TAATTTGAGT
Statistics
Matches: 222, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
111 36 0.16
112 11 0.05
113 92 0.41
114 83 0.37
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (114 bp):
TATCCAAACTAAAAAAATAAATCGTCATAATCTATTTGTTTCATGATTCATCAACTAATTTCATA
ATTTAAACTTCATCAAAATATATAAAATAAATCTAAATATTGATTTTTT
Found at i:477668 original size:2 final size:2
Alignment explanation
Indices: 477656--477686 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
477646 GATCAAGATA
477656 AT AT AT A- 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
477687 TACAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:481752 original size:31 final size:31
Alignment explanation
Indices: 481676--481736 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
481666 TATTCAGGTG
*
481676 CCTAAAGTTATAAACGTAACCACTTTAGACA
1 CCTAAAGTTAGAAACGTAACCACTTTAGACA
481707 CCTAAAGTTAGAAACGTAACCACTTTAGAC
1 CCTAAAGTTAGAAACGTAACCACTTTAGAC
481737 CCTTGACGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (31 bp):
CCTAAAGTTAGAAACGTAACCACTTTAGACA
Found at i:487623 original size:549 final size:538
Alignment explanation
Indices: 486582--487670 Score: 1918
Period size: 549 Copynumber: 2.0 Consensus size: 538
486572 AGCTAAGGGG
486582 ATTCAAAAAATTTCGATTAACATACGTTATCATATAATTAGATAATAAAATTTATTAAATTAAAT
1 ATTCAAAAAATTTCGATTAACATACGTTATCATATAATTAGATAATAAAATTTATTAAATTAAAT
*
486647 TAAAATTAATATCAAAATAATTAGATATATAATAACAATGATCATATGTAATTGATATCATTTTG
66 TAAAATTAATATC-AAATAATTAGA-ATATAATAACAAGGATCATATGTAATTGATATCATTTTG
*
486712 ATAAAAATGATTAACTGACAAAATAATAGATATGGTTAAATTAAAATGATTCAATAATTAAGTGG
129 ATAAAAATGATTAACTGACAAAATAATAGATAGGGTTAAATTAAAATGATTCAATAATTAAGTGG
*
486777 TTATGCTTACAGTTTACCTTGTTATCAGTTTTTTTCTTATTATAAAAAATTTAGATCAAGGGTGG
194 TTATGCTTACAGTTTACCTTGTTATCAGTTTTTTTCCTATTATAAAAAATTTAGATCAAGGGTGG
486842 TTCCCCTATTCTAGGGTCAGGACATACCTAAGACCATTAAGATTTATATAGAATTTACATATTCT
259 TTCCCCTATTCTAGGGTCAGGACATACCTAAGACCATTAAGATTTATATAGAATTTACATATTCT
486907 TATCAGAGTGACGGTGGTAAGATTCAAACTGACCTTAAAGCTCATATTCTTAAACTCCAACCACT
324 TATCAGAGTGACGGTGGTAAGATTCAAACTGACCTTAAAGCTCATATTCTTAAACTCCAACCACT
486972 TGTACCAACACTCTTTAGCACCTTATTATCAGTTTTTGGACAATAACCTCTAATAGTCTTTCCTA
389 TGTACCAACACTCTTTAGCACCTTATTATCAGTTTTTGGACAATAACCTCTAATAGTCTTTCCTA
487037 AGATGACAATGAGTAGGGTTGGATTGGGTTTTTGGTCAACTGACCCAATCCGAAAATATATATCC
454 AGATGACAATGAGTAGGGTTGGATTGGGTTTTTGGTCAACTGACCCAATCCGAAAATATATATCC
487102 TCCATCTTAACACGATTCGA
519 TCCATCTTAACACGATTCGA
*
487122 ATTCAAAAATTTTCGATTAACATACGTTATCATATAATTAGATAATAAAATTTATTAAA-TAAAT
1 ATTCAAAAAATTTCGATTAACATACGTTATCATATAATTAGATAATAAAATTTATTAAATTAAAT
487186 TAAAA-TAATATC-AA-AATTAG-ATATAATAACAAGGATCATATATGTAATTGATATCATTTTG
66 TAAAATTAATATCAAATAATTAGAATATAATAACAAGGATC--ATATGTAATTGATATCATTTTG
* *
487247 ATAATTAAATGATATAACTGACAAAATTAATAGATCGGGGGTTAAATTAAAATGGTTCAATAATT
129 ATAA--AAATGAT-TAACTGACAAAA-TAATAGAT--AGGGTTAAATTAAAATGATTCAATAATT
487312 AAGTGGTTATGCTTACAGTTTACCTTGTTATCAGTTTTTTTCCTATTATAAAAAATTTAGATCAA
188 AAGTGGTTATGCTTACAGTTTACCTTGTTATCAGTTTTTTTCCTATTATAAAAAATTTAGATCAA
487377 GGGTGGTTCCCCTATTCTAGGGTCAGGACATACCTAAGACCCATTTAAGATTTATATATGAATTT
253 GGGTGGTTCCCCTATTCTAGGGTCAGGACATACCTAAGA-CCA-TTAAGATTTATATA-GAATTT
487442 ACATATTGCCTTATCAAGAGTGACGGTGGTAAGATTCAAACTTGACCTTACAAGCTCATATTCTT
315 ACATATT--CTTATC-AGAGTGACGGTGGTAAGATTCAAAC-TGACCTTA-AAGCTCATATTCTT
*
487507 AAACTCCAACCACTTGTACCAACACTCTTTAGCACCTTGTTATCAGTTTTTGGACAATAACCTCT
375 AAACTCCAACCACTTGTACCAACACTCTTTAGCACCTTATTATCAGTTTTTGGACAATAACCTCT
487572 AATAGTCTTTCCTAAGATGACAATGAGTAGGGTTGGATTGGGTTTTTGGTCAACTGACCCAATCC
440 AATAGTCTTTCCTAAGATGACAATGAGTAGGGTTGGATTGGGTTTTTGGTCAACTGACCCAATCC
487637 GAAAATATATATCCTCCATCTTAACACGATTCGA
505 GAAAATATATATCCTCCATCTTAACACGATTCGA
487671 CCTGAAAAAT
Statistics
Matches: 526, Mismatches: 7, Indels: 23
0.95 0.01 0.04
Matches are distributed among these distances:
533 16 0.03
535 32 0.06
536 2 0.00
537 7 0.01
538 19 0.04
539 18 0.03
540 58 0.11
541 128 0.24
542 3 0.01
543 14 0.03
544 13 0.02
546 6 0.01
547 25 0.05
548 8 0.02
549 177 0.34
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (538 bp):
ATTCAAAAAATTTCGATTAACATACGTTATCATATAATTAGATAATAAAATTTATTAAATTAAAT
TAAAATTAATATCAAATAATTAGAATATAATAACAAGGATCATATGTAATTGATATCATTTTGAT
AAAAATGATTAACTGACAAAATAATAGATAGGGTTAAATTAAAATGATTCAATAATTAAGTGGTT
ATGCTTACAGTTTACCTTGTTATCAGTTTTTTTCCTATTATAAAAAATTTAGATCAAGGGTGGTT
CCCCTATTCTAGGGTCAGGACATACCTAAGACCATTAAGATTTATATAGAATTTACATATTCTTA
TCAGAGTGACGGTGGTAAGATTCAAACTGACCTTAAAGCTCATATTCTTAAACTCCAACCACTTG
TACCAACACTCTTTAGCACCTTATTATCAGTTTTTGGACAATAACCTCTAATAGTCTTTCCTAAG
ATGACAATGAGTAGGGTTGGATTGGGTTTTTGGTCAACTGACCCAATCCGAAAATATATATCCTC
CATCTTAACACGATTCGA
Found at i:488609 original size:21 final size:21
Alignment explanation
Indices: 488580--488632 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
488570 ATTATGACTA
488580 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
488601 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
488622 TCGCAATGCGA
1 TCGCATTGCGA
488633 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:488647 original size:20 final size:21
Alignment explanation
Indices: 488622--488708 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 21
488612 TTTTCCTAAT
488622 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
* ** *
488642 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTACGTAAA
*
488663 TCACAATGC-AATTACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
488683 TCGCAATGTGAA-TATGTAAA
1 TCGCAATGCGAATTACGTAAA
488703 TCGCAA
1 TCGCAA
488709 CGAGATTCTG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 39 0.74
21 14 0.26
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:489584 original size:22 final size:23
Alignment explanation
Indices: 489535--489586 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
489525 GTATTCGAAA
*
489535 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTC-ATACCCGGAC
* *
489559 TTTGATATTGGTC-TACTCGGAT
1 TTTGATATTGGTCATACCCGGAC
489581 TTTGAT
1 TTTGAT
489587 GATTTTTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
24 12 0.48
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (23 bp):
TTTGATATTGGTCATACCCGGAC
Found at i:491938 original size:20 final size:21
Alignment explanation
Indices: 491913--491999 Score: 119
Period size: 20 Copynumber: 4.3 Consensus size: 21
491903 TAACGCAGAA
491913 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
*
491933 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
491953 ATCGCAATGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
*
491973 ATCGCAACGC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
491993 ATCGCAA
1 ATCGCAA
492000 TGAGAGAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:491972 original size:40 final size:40
Alignment explanation
Indices: 491913--492001 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
491903 TAACGCAGAA
* *
491913 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAATGCGAATATGACTATCGCAACACGAAAATGACT
*
491953 ATCGCAATGCGGAAT-TGACTATCGCAACGCGAAAATGACT
1 ATCGCAATGC-GAATATGACTATCGCAACACGAAAATGACT
491993 ATCGCAATG
1 ATCGCAATG
492002 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
ATCGCAATGCGAATATGACTATCGCAACACGAAAATGACT
Found at i:492087 original size:34 final size:34
Alignment explanation
Indices: 492049--492144 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
492039 ATTAGTTTCG
492049 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
492083 CGTTGCGATTTTCA-TTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
492116 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
492145 AGTCTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.53
34 25 0.47
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:493654 original size:18 final size:19
Alignment explanation
Indices: 493631--493670 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
493621 GACACTGAGG
493631 GATAGGG-GCCTCTTGAAC
1 GATAGGGAGCCTCTTGAAC
*
493649 GATAGGGAGGCTCTTGAAC
1 GATAGGGAGCCTCTTGAAC
493668 GAT
1 GAT
493671 GAGAGGTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (19 bp):
GATAGGGAGCCTCTTGAAC
Found at i:494176 original size:20 final size:20
Alignment explanation
Indices: 494153--494236 Score: 129
Period size: 19 Copynumber: 4.3 Consensus size: 20
494143 GAAACTTAAA
*
494153 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
494173 ATCGC-ATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
494192 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
494212 ATCGC-ATGCG-AATTGACT
1 ATCGCAATGCGAAAATGACT
494230 ATCGCAA
1 ATCGCAA
494237 CGAGAGACGC
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.20
19 24 0.40
20 24 0.40
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:494207 original size:39 final size:38
Alignment explanation
Indices: 494153--494238 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 38
494143 GAAACTTAAA
494153 ATCGCAACGCGAAAATGACTATCGCATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCATGCG-AAATGACT
* *
494192 ATCGCAATGCGAAAATGACTATCGCATGCGAATTGACT
1 ATCGCAACGCGAAAATGACTATCGCATGCGAAATGACT
494230 ATCGCAACG
1 ATCGCAACG
494239 AGAGACGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 15 0.34
39 29 0.66
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (38 bp):
ATCGCAACGCGAAAATGACTATCGCATGCGAAATGACT
Found at i:494442 original size:20 final size:20
Alignment explanation
Indices: 494281--494443 Score: 205
Period size: 20 Copynumber: 8.5 Consensus size: 20
494271 GATTCTTTCG
**
494281 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
494301 TTGTGATATTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
494321 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
494341 TTGTGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
494361 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
494381 TTGCGATAGTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
494400 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
494414 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
494434 TTGCGATAGT
1 TTGCGATAGT
494444 AAACTATTCT
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
17 2 0.02
18 4 0.03
19 14 0.11
20 92 0.74
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:496341 original size:20 final size:20
Alignment explanation
Indices: 496318--496371 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
496308 TGAAACTTTT
496318 AATCGCAACACGAAAATGAA
1 AATCGCAACACGAAAATGAA
496338 AATCGCAACACGAAAATGAA
1 AATCGCAACACGAAAATGAA
* *
496358 TATCGCAACGCGAA
1 AATCGCAACACGAA
496372 TTTGACTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (20 bp):
AATCGCAACACGAAAATGAA
Found at i:496381 original size:20 final size:20
Alignment explanation
Indices: 496319--496388 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
496309 GAAACTTTTA
* *
496319 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGAAT
*
496339 ATCGCAACACGAAAATGAAT
1 ATCGCAACGCGAAAATGAAT
** *
496359 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGAAT
496379 ATCGCAACGC
1 ATCGCAACGC
496389 AAGAATCGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGAAT
Found at i:496476 original size:20 final size:20
Alignment explanation
Indices: 496433--496478 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
496423 ATTCTCTCGT
*
496433 TGCGATAGTCAAATTCGCAT
1 TGCGATAGTCAAATTCGCAC
** *
496453 TGCGATAGTCATTTTCGCGC
1 TGCGATAGTCAAATTCGCAC
496473 TGCGAT
1 TGCGAT
496479 TCACTCTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCAC
Found at i:497078 original size:20 final size:20
Alignment explanation
Indices: 497045--497239 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
497035 GGCATATGTA
497045 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * *
497065 ATTCACATTACGATTTACGT
1 AATCGCATTGCGATTTACGT
497085 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
497105 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * **
497125 AATCGCATTGCAATTTTCCA
1 AATCGCATTGCGATTTACGT
*
497145 AATTCGCATTACGATTTACGT
1 AA-TCGCATTGCGATTTACGT
497166 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * * **
497186 AATCACATTGCTATTTTCCA
1 AATCGCATTGCGATTTACGT
*
497206 AATTCGCGTTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
*
497227 ATTCGCATTGCGA
1 AATCGCATTGCGA
497240 ATTTGGGAAA
Statistics
Matches: 142, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
20 114 0.80
21 28 0.20
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:497172 original size:61 final size:61
Alignment explanation
Indices: 497045--497239 Score: 275
Period size: 61 Copynumber: 3.2 Consensus size: 61
497035 GGCATATGTA
* * * * **
497045 AATCGCATTGCGATTTACGTATTCACATTACGATTTACGTAA-TCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGTAATCACATTGCAATTTTCCAAATTCGCATTGCGATTTACGT
* * *
497105 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCAAATTCGCATTACGATTTACGT
1 AATCGCATTGCGATTTACGTAATCACATTGCAATTTTCCAAATTCGCATTGCGATTTACGT
* *
497166 AATCGCATTGCGATTTACGTAATCACATTGCTATTTTCCAAATTCGCGTTGCGATTTACGT
1 AATCGCATTGCGATTTACGTAATCACATTGCAATTTTCCAAATTCGCATTGCGATTTACGT
*
497227 ATTCGCATTGCGA
1 AATCGCATTGCGA
497240 ATTTGGGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 34 0.29
61 85 0.71
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (61 bp):
AATCGCATTGCGATTTACGTAATCACATTGCAATTTTCCAAATTCGCATTGCGATTTACGT
Done.