Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008286.1 Hibiscus syriacus cultivar Beakdansim tig00110949_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: 504059
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:428566 original size:103 final size:103
Alignment explanation
Indices: 428341--428558 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
428331 GTCGAGGGTC
*
428341 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
428406 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATAA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATAA
*
428444 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
428509 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATAA
428547 TATGTGGTCCTT
1 TATGTGGTCCTT
428559 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATAA
Found at i:428642 original size:23 final size:23
Alignment explanation
Indices: 428565--428641 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
428555 CCTTATGGAC
428565 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* * *
428589 ATTCTATACGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
* *
428612 ATTATATGTGGCACTTCGGTGCA
1 ATTATATATGGCACTACGGTGCA
428635 ATTATAT
1 ATTATAT
428642 GAGTTGTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (23 bp):
ATTATATATGGCACTACGGTGCA
Found at i:431341 original size:11 final size:11
Alignment explanation
Indices: 431325--431387 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
431315 AAAATTACAT
431325 TATTAAAAATA
1 TATTAAAAATA
431336 TATTAAAAATA
1 TATTAAAAATA
* * ***
431347 CACTATTGATA
1 TATTAAAAATA
431358 -ATTATAAAAT-
1 TATTA-AAAATA
431368 T-TTAAAAATA
1 TATTAAAAATA
431378 TATTAAAAAT
1 TATTAAAAAT
431388 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:431997 original size:28 final size:27
Alignment explanation
Indices: 431954--432007 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
431944 TCTCGAATCC
431954 CTAATCCATAAATACTAAACCATAAACT
1 CTAATCCATAAATACTAAACC-TAAACT
* *
431982 CTAATCCCTAAGTACTAAACCTAAAC
1 CTAATCCATAAATACTAAACCTAAAC
432008 CATAAATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (27 bp):
CTAATCCATAAATACTAAACCTAAACT
Found at i:434087 original size:11 final size:11
Alignment explanation
Indices: 434071--434182 Score: 73
Period size: 11 Copynumber: 9.7 Consensus size: 11
434061 CATTAACCCG
434071 TCGAGCTTGAA
1 TCGAGCTTGAA
**
434082 TCGAGCTCCAAA
1 TCGAGCT-TGAA
**
434094 TCGAGCTCCAAA
1 TCGAGCT-TGAA
434106 TCGAGCTTGAA
1 TCGAGCTTGAA
*
434117 TCAAGCTTGAA
1 TCGAGCTTGAA
*
434128 TCG-GTCTCTAAA
1 TCGAG-CT-TGAA
* *
434140 TCAAGCTTCAA
1 TCGAGCTTGAA
*
434151 TCGAGCTTGAGT
1 TCGAGCTTGA-A
*
434163 TCTGAGCTTCAA
1 TC-GAGCTTGAA
434175 TCGAGCTT
1 TCGAGCTT
434183 TTGAATTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
10 1 0.01
11 40 0.49
12 32 0.40
13 8 0.10
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:434097 original size:12 final size:12
Alignment explanation
Indices: 434080--434112 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
434070 GTCGAGCTTG
434080 AATCGAGCTCCA
1 AATCGAGCTCCA
434092 AATCGAGCTCCA
1 AATCGAGCTCCA
434104 AATCGAGCT
1 AATCGAGCT
434113 TGAATCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (12 bp):
AATCGAGCTCCA
Found at i:434097 original size:23 final size:23
Alignment explanation
Indices: 434074--434157 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
434064 TAACCCGTCG
* *
434074 AGCTTGAATCGAGCTCCAAATCG
1 AGCTTGAATCGAGCTCTAAATCA
** *
434097 AGCTCCAAATCGAGCT-TGAATCA
1 AGCT-TGAATCGAGCTCTAAATCA
434120 AGCTTGAATCG-GTCTCTAAATCA
1 AGCTTGAATCGAG-CTCTAAATCA
*
434143 AGCTTCAATCGAGCT
1 AGCTTGAATCGAGCT
434158 TGAGTTCTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.02
22 7 0.15
23 30 0.62
24 10 0.21
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (23 bp):
AGCTTGAATCGAGCTCTAAATCA
Found at i:437952 original size:18 final size:16
Alignment explanation
Indices: 437927--437971 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
437917 TCTCACTTCT
*
437927 ATTCTCTCTTCTAGAC
1 ATTCTCTCTCCTAGAC
437943 ATTCTCTCTCCTAGAC
1 ATTCTCTCTCCTAGAC
437959 ATTCTCTCTCCTA
1 ATTCTCTCTCCTA
437972 TGTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.36, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTCTCTCTCCTAGAC
Found at i:441852 original size:30 final size:30
Alignment explanation
Indices: 441816--441872 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
441806 CAGCCGATGG
441816 TTGGTGAGATGTAGAAGATGATGAATATGA
1 TTGGTGAGATGTAGAAGATGATGAATATGA
*
441846 TTGGTGAGTTGTAGAAGATGATGAATA
1 TTGGTGAGATGTAGAAGATGATGAATA
441873 GTGAAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (30 bp):
TTGGTGAGATGTAGAAGATGATGAATATGA
Found at i:450632 original size:18 final size:19
Alignment explanation
Indices: 450581--450633 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
450571 TTATTTAAAA
* *
450581 TAAAAAAATTAATATATTT
1 TAAAAAAAATAAAATATTT
*
450600 TAAAAAAACA-CAAAT-TTT
1 TAAAAAAA-ATAAAATATTT
450618 TAAAAAAAATAAAATA
1 TAAAAAAAATAAAATA
450634 CTCCAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 1 0.04
18 15 0.56
19 11 0.41
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAAAAATAAAATATTT
Found at i:452973 original size:104 final size:102
Alignment explanation
Indices: 452793--453090 Score: 350
Period size: 103 Copynumber: 2.9 Consensus size: 102
452783 TTTGTCTCCC
*
452793 TTGAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTTGAAGC-TCAAA
1 TTGAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTTGAAACAT-AAA
* *
452857 TTTCGAAGTTGTTTCACTTGAAACAAGAAATTGTTCTCAT
65 TTTCGAAATTGTTTCACTTGAAAC-A-AAATTGATCTCAT
** ** *
452897 TTGAGATTGTTT-TCCTAAAAACAAA-TTTCATCTCAATTGAGACAGTTTTCCCTCGAAACATAA
1 TTGAGATTGTTTCT-CTCGAAACAAAGTTTCATCTCGCTTGAGACAG-TTTCCCTTGAAACATAA
* * *
452960 ATTTTGAAATTGTTTCTCTTGAAACAAAATTGATCTTAT
64 ATTTCGAAATTGTTTCACTTGAAACAAAATTGATCTCAT
* * *
452999 TTGAGATTGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAATTTCTCTTGAAACATAAAT
1 TTGAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTTGAAACATAAAT
** * * *
453064 CTAGGAGATTGTTTCTCTCGAAACAAA
66 -TTCGAAATTGTTTCACTTGAAACAAA
453091 GTTTCATCTC
Statistics
Matches: 165, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
102 49 0.30
103 59 0.36
104 56 0.34
105 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (102 bp):
TTGAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTTGAAACATAAAT
TTCGAAATTGTTTCACTTGAAACAAAATTGATCTCAT
Found at i:453197 original size:67 final size:67
Alignment explanation
Indices: 452997--453212 Score: 310
Period size: 67 Copynumber: 3.2 Consensus size: 67
452987 AATTGATCTT
* *
452997 ATTTGAGATTGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAATTTCTCTTGAAACAT-A
1 ATTTAAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAATTTCTCTTGAAACATAA
453061 A-
66 AC
* *
453062 ATCTAGGAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAGTTTCTCTTGAAACAT
1 ATTTA--AGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAATTTCTCTTGAAACAT
453127 AAAC
64 AAAC
* * *
453131 ATTTAAGATTGTTTCTCTCGAAAAAAAGATTCATCTCCCTTGAGACAATTTCTCTTGAAACATAA
1 ATTTAAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAATTTCTCTTGAAACATAA
453196 AC
66 AC
* * *
453198 TTTTTATATTGTTTC
1 ATTTAAGATTGTTTC
453213 ATATAACTTC
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
65 3 0.02
67 126 0.93
68 2 0.01
69 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (67 bp):
ATTTAAGATTGTTTCTCTCGAAACAAAGTTTCATCTCGCTTGAGACAATTTCTCTTGAAACATAA
AC
Found at i:454296 original size:16 final size:16
Alignment explanation
Indices: 454272--454305 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
454262 ATGAAATGCT
*
454272 TTAGTTTTAGTTTAAG
1 TTAGGTTTAGTTTAAG
*
454288 TTAGGTTTAGTTTTAG
1 TTAGGTTTAGTTTAAG
454304 TT
1 TT
454306 TATTTTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (16 bp):
TTAGGTTTAGTTTAAG
Found at i:456162 original size:35 final size:35
Alignment explanation
Indices: 456089--456163 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
456079 CGTCACGTCC
* **
456089 AGTAAGGCCCTGAGCACACAGTCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
456124 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
456159 AGTAA
1 AGTAA
456164 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:456268 original size:24 final size:24
Alignment explanation
Indices: 456241--456331 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
456231 CATAATTCAA
*
456241 GTCAAGTATTATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
456265 GTCATGTATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
*
456289 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
456312 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
456332 TCAAATTTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 20 0.35
24 37 0.65
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:456303 original size:23 final size:24
Alignment explanation
Indices: 456253--456315 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 24
456243 CAAGTATTAT
* *
456253 ATCAGAATCCAGGTCATGTATCAT
1 ATCAGAATCCAGGTCATATATCAG
*
456277 ATCAGAATCCATGTCA-ATATCAG
1 ATCAGAATCCAGGTCATATATCAG
456300 ATCAGAATCCAGGTCA
1 ATCAGAATCCAGGTCA
456316 GGTATCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAGAATCCAGGTCATATATCAG
Found at i:458651 original size:8 final size:8
Alignment explanation
Indices: 458611--458665 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
458601 TCAAAGTTTT
458611 GGTCAACAG
1 GGTCAAC-G
458620 TGGTCAACG
1 -GGTCAACG
458629 TCGGTCAAC-
1 --GGTCAACG
*
458638 GGTCAACA
1 GGTCAACG
458646 GGTCAACG
1 GGTCAACG
458654 GGTCAACG
1 GGTCAACG
458662 GGTC
1 GGTC
458666 GAGTCGGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 7 0.17
8 19 0.46
9 1 0.02
10 14 0.34
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:458686 original size:13 final size:13
Alignment explanation
Indices: 458668--458713 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
458658 AACGGGTCGA
* *
458668 GTCGGGTCAACTG
1 GTCGGGTAAACGG
458681 GTCGGGTAAACGG
1 GTCGGGTAAACGG
458694 GTCGGGTAAACGG
1 GTCGGGTAAACGG
458707 GTCGGGT
1 GTCGGGT
458714 CGGGTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.46, T:0.20
Consensus pattern (13 bp):
GTCGGGTAAACGG
Found at i:460396 original size:18 final size:18
Alignment explanation
Indices: 460373--460419 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
460363 TGTTTATGAG
*
460373 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTCAA
* *
460391 GGAATTCGAATATGTCAA
1 GGAATTGGAATCTGTCAA
460409 -GAATTGGAATC
1 GGAATTGGAATC
460420 CAATTCCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTCAA
Found at i:461322 original size:232 final size:227
Alignment explanation
Indices: 460837--461337 Score: 713
Period size: 232 Copynumber: 2.2 Consensus size: 227
460827 TGAATTAGAA
*
460837 ACCCAACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAAAGACTTAATTGGAAAAAAT
1 ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAAAGACTTAATTGGAAAAAAT
460902 ATATATAAAGGGGTATTATTGTAATTATTAATAAATATATAAGGTAAAATTATATATTTTTGGGT
66 ATATATAAAGGGGTATTATTGTAATTATTAATAAATATATAAGGTAAAATTATATATTTTT--GT
460967 CGGGTCGAGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGAC
129 CGGGTCGAGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGAC
* *
461032 CCGACTCGACCAAAATAAAGTTTAACCCGACCCG
194 CCGACCCGACCAAAATAAAGTTTAACCCGACCCC
* **
461066 ACCCGACCCAAAATAATAAAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATT-GAAAA
1 ACCCGACCCGAAATAAT--AAAAAAA-TATTTTTATTCAATAAAAACAAAGACTTAATTGGAAAA
* **
461130 AATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTT
63 AA-TATATATAAAGGGGTATTATTGTAATTATTAATAAATATATAAGGTAAAATTATATAT-TTT
* * *
461195 T-T-GGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCGCACTTTAAAA
126 TGTCGGGTCGAGTATTTTTCACCCTAAACCCG-A----ACCCGACCCGAATATCACACTTAAAAA
* * * *
461258 AA-CCGATCTGACCCGGCCAAAATAAAGTTTCACCCGACCCC
186 AACCCGACCCGACCCGACCAAAATAAAGTTTAACCCGACCCC
*
461299 ACCTGACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
461338 TATGAATAAA
Statistics
Matches: 244, Mismatches: 18, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
229 42 0.17
230 17 0.07
231 21 0.09
232 85 0.35
233 52 0.21
234 27 0.11
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (227 bp):
ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAAAGACTTAATTGGAAAAAAT
ATATATAAAGGGGTATTATTGTAATTATTAATAAATATATAAGGTAAAATTATATATTTTTGTCG
GGTCGAGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGACCC
GACCCGACCAAAATAAAGTTTAACCCGACCCC
Found at i:465171 original size:9 final size:9
Alignment explanation
Indices: 465157--465181 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
465147 ATTGAATCCC
465157 GGATTTTCG
1 GGATTTTCG
465166 GGATTTTCG
1 GGATTTTCG
465175 GGATTTT
1 GGATTTT
465182 TTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:465654 original size:3 final size:3
Alignment explanation
Indices: 465646--465710 Score: 94
Period size: 3 Copynumber: 20.7 Consensus size: 3
465636 TTGTAAGTTA
465646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
465692 ATAT AAAT GAT AAT AAT AA
1 A-AT -AAT AAT AAT AAT AA
465711 AAAAGACCCG
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 49 0.86
4 7 0.12
5 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:466002 original size:40 final size:41
Alignment explanation
Indices: 465946--466352 Score: 208
Period size: 40 Copynumber: 9.5 Consensus size: 41
465936 TATCTATGGT
465946 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCAGGGG-A
* * *
465986 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC---AGGGGA
* * * * * *
466032 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA-TGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATC-AGGGGA
466075 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCAGGGG-A
* * *
466115 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC---AGGGGA
* * * * *
466161 TAACACGGTTCCTACGTGAT-AAG-GACGGCTGGTTATCTA-TGGT
1 TGACACGGCTCCTACGTGATGAAGAGA--TCTGG--ATC-AGGGGA
*
466204 TGACACGGCTCCTACGTGATGAAGAGATCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATC---AGGGGA
* * * * * * *
466250 TAACACAGTTCCTACGTGATGAGGACG-GCTGGTTATCTA-TGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATC-AGGGGA
*
466293 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCAGGGGA
* *
466333 TGACACGGTTCCTACATGAT
1 TGACACGGCTCCTACGTGAT
466353 AAGGACGGCT
Statistics
Matches: 275, Mismatches: 64, Indels: 56
0.70 0.16 0.14
Matches are distributed among these distances:
39 2 0.01
40 84 0.31
42 2 0.01
43 83 0.30
44 7 0.03
45 6 0.02
46 83 0.30
47 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGATCAGGGGA
Found at i:466088 original size:129 final size:129
Alignment explanation
Indices: 465858--466235 Score: 684
Period size: 129 Copynumber: 2.9 Consensus size: 129
465848 TGGTGGGGAC
* * * * ** *
465858 GACACTGCTCATACGTGATGAAGAGTTCTGGTCGTCTAAGGGTGATAACTTGGTTCCTACTTGAT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
465923 GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAAT
66 GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAAT
465987 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
466052 GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAAT
66 GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAAT
466116 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
*
466181 AAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGG
66 GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGG
466236 CCATCTAAAG
Statistics
Matches: 241, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 241 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (129 bp):
GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
GAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAAT
Found at i:466226 original size:89 final size:86
Alignment explanation
Indices: 465858--466364 Score: 393
Period size: 89 Copynumber: 5.9 Consensus size: 86
465848 TGGTGGGGAC
* * * * ** *
465858 GACACTGCTCATACGTGATGAAGAGTTCTGGTCGTCTAAGGGTGATAACTTGGTTCCTACTTGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGG-CATCT-A-GGTGATAACACGGTTCCTACGTGAT
*
465923 GAGGACGGCTGGTTATCTATGGTT
63 AAGGACGGCTGGTTATCTATGGTT
* * * *
465947 GACACGGCTCCTACGTGATGAAGAGATCTGG--TC--GGGGAATGACACGGCTCATACGTGATGA
1 GACACGGCTCCTACGTGATGAAGAGATCTGGCATCTAGGTG-ATAACACGGTTCCTACGTGAT-A
* ** *
466008 A-GA-GTTCTGGCCATCTAAAGGTGAT
64 AGGACG-GCTGGTTATCT-ATGGT--T
* * * * * * *
466033 AACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT--TGACACGGCTCCTACGTGAT
1 GACACGGCTCCTACGTGATGAAGA-GATCTGG-CATCTA-GGTGATAACACGGTTCCTACGTGAT
* ** *
466095 GAA-GA-GATCTGG---TC-GGGGAAT
63 -AAGGACG-GCTGGTTATCTATGG-TT
* *
466116 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGG-CATCT--AGGTGATAACACGGTTCCTACGTGAT
466181 AAGGACGGCTGGTTATCTATGGTT
63 AAGGACGGCTGGTTATCTATGGTT
*
466205 GACACGGCTCCTACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGG-CATCT--AGGTGATAACACGGTTCCTACGTGAT
*
466270 GAGGACGGCTGGTTATCTATGGTT
63 AAGGACGGCTGGTTATCTATGGTT
* * *
466294 GACACGGCTCCTACGTGATGAAGAGATCTGG--TCT-GGGGATGACACGGTTCCTACATGATAAG
1 GACACGGCTCCTACGTGATGAAGAGATCTGGCATCTAGGTGATAACACGGTTCCTACGTGATAAG
466356 GACGGCTGG
66 GACGGCTGG
466365 CCATCTTTAG
Statistics
Matches: 346, Mismatches: 47, Indels: 56
0.77 0.10 0.12
Matches are distributed among these distances:
82 5 0.01
83 86 0.25
84 10 0.03
85 3 0.01
86 57 0.16
87 2 0.01
89 179 0.52
90 2 0.01
92 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (86 bp):
GACACGGCTCCTACGTGATGAAGAGATCTGGCATCTAGGTGATAACACGGTTCCTACGTGATAAG
GACGGCTGGTTATCTATGGTT
Found at i:466423 original size:28 final size:28
Alignment explanation
Indices: 466403--466464 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
466393 AAACCAAATT
466403 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
466431 AAAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
466459 AAAGAT
1 AAAGAT
466465 GATGTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:467003 original size:31 final size:30
Alignment explanation
Indices: 466939--467013 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
466929 ATAGAAAATG
*
466939 TTTCAAGTGAAACGACTCAAAAATGGTTTTA
1 TTTCAAGTGAAACAACTCAAAAAT-GTTTTA
*
466970 TTTCAAGTGAAACAAACTCAAAGAT-TTTGTA
1 TTTCAAGTGAAAC-AACTCAAAAATGTTT-TA
* *
467001 TTTCTAGAGAAAC
1 TTTCAAGTGAAAC
467014 TGCCTCAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 26 0.68
32 9 0.24
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (30 bp):
TTTCAAGTGAAACAACTCAAAAATGTTTTA
Found at i:467106 original size:40 final size:40
Alignment explanation
Indices: 467046--467125 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
467036 GTTTTAATAA
467046 AAACAATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* * *
467086 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
467126 CGAGAGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:467180 original size:63 final size:64
Alignment explanation
Indices: 467107--467231 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
467097 AATGTGGGTA
* *
467107 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTG-TTTTAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTTTAAA-GAAACAAACTCAAAGATTT
* * * *
467170 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTTTCAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTTTAAAGAAACAAACTCAAAGAT
467232 GGATCACATC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
63 17 0.31
64 31 0.57
65 6 0.11
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (64 bp):
TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTTTAAAGAAACAAACTCAAAGATTT
Found at i:467589 original size:67 final size:68
Alignment explanation
Indices: 467453--467609 Score: 273
Period size: 68 Copynumber: 2.3 Consensus size: 68
467443 TCATTTTAAG
* *
467453 AGAAACAGATTCAAAGATTTTTTTTTCAAAAGCAAATATCTTAAGAGAGACAAAAATTTTGTTTC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGCAAATATCTTAAGAGAGACAAAAATTTTGTTTC
467518 CAA
66 CAA
467521 AGAAACAGACTCAAAGATTTTTGTTTCAAAAG-AAATTATCTTAAGAGAGAC-AAAATTTTGTTT
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGCAAA-TATCTTAAGAGAGACAAAAATTTTGTTT
467584 CCAA
65 CCAA
467588 AGAAACAGACTCAAAGATTTTT
1 AGAAACAGACTCAAAGATTTTT
467610 TCAAAAGAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
67 41 0.48
68 45 0.52
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (68 bp):
AGAAACAGACTCAAAGATTTTTGTTTCAAAAGCAAATATCTTAAGAGAGACAAAAATTTTGTTTC
CAA
Found at i:467614 original size:26 final size:27
Alignment explanation
Indices: 467581--467637 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
467571 CAAAATTTTG
*
467581 TTTCCAAAGAAACAGA-CTCAAAGATTT
1 TTTCAAAAGAAACA-ATCTCAAAGATTT
467608 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAATCTCAAAGATTT
467635 TTT
1 TTT
467638 TTTTCACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAATCTCAAAGATTT
Found at i:467802 original size:29 final size:29
Alignment explanation
Indices: 467722--467810 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
467712 GAGACAAAAC
*
467722 TTTGTTTCAAAAGAAATAGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
467751 ATTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 -TTTGTTTCAAAAGAAACAGACTCAAAGAT
*
467780 TTT-TATTCAAAAGGAACAGACTCAAAGAT
1 TTTGT-TTCAAAAGAAACAGACTCAAAGAT
467809 TT
1 TT
467811 ATCTCAAGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:467817 original size:28 final size:27
Alignment explanation
Indices: 467727--467824 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
467717 AAAACTTTGT
* *
467727 TTCAAAAGAAATAGACTCAAAGATATTTGT
1 TTCAAAAGAAACAGACTCAAAG--ATTT-A
467757 TTCAAAAGAAACA-ACTCAAAGATTTTTA
1 TTCAAAAGAAACAGACTCAAAGA--TTTA
*
467785 TTCAAAAGGAACAGACTCAAAGATTTA
1 TTCAAAAGAAACAGACTCAAAGATTTA
*
467812 TCTCAAGAGAAAC
1 T-TCAAAAGAAAC
467825 TGTCTCCAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.10
28 21 0.36
29 20 0.34
30 12 0.20
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (27 bp):
TTCAAAAGAAACAGACTCAAAGATTTA
Found at i:468284 original size:105 final size:105
Alignment explanation
Indices: 468147--468343 Score: 297
Period size: 105 Copynumber: 1.9 Consensus size: 105
468137 ACGATCTCAA
* *
468147 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAGGTCTCA
1 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCA
468212 AGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTAAG
66 AGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTAAG
* * * * *
468252 GTGAGATTAATTTTGTTTTAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTC
1 GTGAGATCAACTTTG-TTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTC
* *
468316 AAGCGAGACGAAGTTTGTTTTAAGAGAA
65 AAGCGAGACGAAATTTGTTTTAAAAGAA
468344 TTTGTCTCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 77 0.94
106 5 0.06
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (105 bp):
GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCA
AGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTAAG
Found at i:468350 original size:36 final size:36
Alignment explanation
Indices: 468310--468446 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
468300 AAAGGAAAAA
* * *
468310 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* * **
468346 TGTCTCAAACGAGACAAAATTTGTTTTTAGA-AAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
*
468381 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAGAGAAAT
468417 TGTCTCAAGCGAGACAAAAATTTGTTTTAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAA
468447 AATTCTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
35 25 0.29
36 53 0.62
37 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:468420 original size:71 final size:72
Alignment explanation
Indices: 468310--468444 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
468300 AAAGGAAAAA
* * * *
468310 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATTTGTCTCAAACGAGAC-AAAATTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
468374 AGAAAGC
66 AGAAAGC
*
468381 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTG-TTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTT
468445 AAAATTCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 40 0.70
72 17 0.30
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (72 bp):
TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
AGAAAGC
Found at i:468805 original size:4 final size:4
Alignment explanation
Indices: 468789--468838 Score: 61
Period size: 4 Copynumber: 13.2 Consensus size: 4
468779 ATGCAAATTT
* *
468789 TATG TAT- TATG TATG TA-- TATG TATA TATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
468834 TATG T
1 TATG T
468839 TTTCTCGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 34 0.87
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:470000 original size:11 final size:12
Alignment explanation
Indices: 469981--470014 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
469971 TTTGTCCACT
469981 TTTTGTTCTTTG-
1 TTTT-TTCTTTGC
469993 TTTTTTCTTTGC
1 TTTTTTCTTTGC
470005 TTTTTTCTTT
1 TTTTTTCTTT
470015 TTTCATTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTGC
Found at i:470691 original size:26 final size:26
Alignment explanation
Indices: 470613--470694 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
470603 TTTCAAAGTG
470613 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
470639 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
470660 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
470685 GATAGAATGT
1 GAAAGAATGT
470695 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.51
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:470693 original size:46 final size:45
Alignment explanation
Indices: 470601--470694 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 45
470591 ATAAATACAG
* * *
470601 TGTTTCAAAGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
* *
470646 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAAGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
470692 TGT
1 TGT
470695 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 10 0.23
46 33 0.77
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:472149 original size:31 final size:31
Alignment explanation
Indices: 472093--472185 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
472083 TGACAAAATG
472093 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAA-AAATAAGTTAGTAT
472125 ACACAAACAAAAGAGAAAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAAAATAAGTTAGTAT
472156 ACACAAACAAAAGAGAAAAATAAGTTAGTA
1 ACACAAACAAAAGAGAAAAATAAGTTAGTA
472186 CATGTAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 44 0.72
32 17 0.28
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.15
Consensus pattern (31 bp):
ACACAAACAAAAGAGAAAAATAAGTTAGTAT
Found at i:475553 original size:9 final size:9
Alignment explanation
Indices: 475539--475563 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
475529 ATTGAATCCC
475539 GGATTTTCG
1 GGATTTTCG
475548 GGATTTTCG
1 GGATTTTCG
475557 GGATTTT
1 GGATTTT
475564 TATTTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:476045 original size:3 final size:3
Alignment explanation
Indices: 476037--476089 Score: 70
Period size: 3 Copynumber: 16.7 Consensus size: 3
476027 TTGTAAGTTA
*
476037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT ATAT AAAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT -AAT AAT AAT
476085 AAT AA
1 AAT AA
476090 AAAAGACCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 37 0.82
4 7 0.16
5 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:477429 original size:40 final size:39
Alignment explanation
Indices: 477334--477430 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
477324 TTTAGTTTGC
* *
477334 AAAAAACCGGTTTTTAAAAAAAAACCGGATTTTTTCGAAT
1 AAAAAACCAGTTTTT-TAAAAAAACCGGATTTTTTCGAAT
* * * * *
477374 AAAAATCCAGTTTTTTTAAAAAACTGGATTTTTTTTGGAT
1 AAAAAACCAGTTTTTTAAAAAAACCGGA-TTTTTTCGAAT
477414 AAAAAACCAGTTTTTTA
1 AAAAAACCAGTTTTTTA
477431 TCTGGTTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 10 0.21
40 37 0.79
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (39 bp):
AAAAAACCAGTTTTTTAAAAAAACCGGATTTTTTCGAAT
Found at i:488386 original size:21 final size:21
Alignment explanation
Indices: 488335--488386 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
488325 AGTACAGAGG
*
488335 GTATCGATACTCCTAAAGGGA
1 GTATCGGTACTCCTAAAGGGA
*
488356 GT-TTGGTACTCCTAAAGGGA
1 GTATCGGTACTCCTAAAGGGA
488376 GTATCGGTACT
1 GTATCGGTACT
488387 ACCTTTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GTATCGGTACTCCTAAAGGGA
Found at i:496171 original size:12 final size:12
Alignment explanation
Indices: 496154--496178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
496144 ACATCTAGGC
496154 CGTCTGATGGTG
1 CGTCTGATGGTG
496166 CGTCTGATGGTG
1 CGTCTGATGGTG
496178 C
1 C
496179 ACCAACATAC
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:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (12 bp):
CGTCTGATGGTG
Found at i:498269 original size:18 final size:19
Alignment explanation
Indices: 498234--498270 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
498224 CACGGAATGT
498234 AAGATTACCAGTGGAATAA
1 AAGATTACCAGTGGAATAA
498253 AAGATTACCAG-GGAATAA
1 AAGATTACCAGTGGAATAA
498271 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGTGGAATAA
Found at i:498283 original size:15 final size:16
Alignment explanation
Indices: 498233--498276 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 16
498223 TCACGGAATG
498233 TAAGATTACCAGTGGAA
1 TAAGATTACCAG-GGAA
498250 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
498268 TAAGATTAC
1 TAAGATTAC
498277 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 5 0.20
19 11 0.44
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:502037 original size:17 final size:18
Alignment explanation
Indices: 501996--502037 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
501986 AGATTAAAAT
*
501996 AAATTAAAACATATTATTC
1 AAATT-AAACATATTATTA
*
502015 AGATTAAA-ATATTATTA
1 AAATTAAACATATTATTA
502032 AAATTA
1 AAATTA
502038 TAGGACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.65
18 3 0.15
19 4 0.20
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (18 bp):
AAATTAAACATATTATTA
Found at i:502975 original size:14 final size:14
Alignment explanation
Indices: 502949--503002 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 14
502939 CCTGTTTGTA
502949 ATAT-TAATAA-AT
1 ATATATAATAATAT
502961 ATATAT-ATAATA-
1 ATATATAATAATAT
502973 ATATATAATAAATAT
1 ATATATAAT-AATAT
502988 AATAATATAATAATA
1 -AT-ATATAATAATA
503003 ATTAGTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 14 0.40
13 4 0.11
14 4 0.11
16 6 0.17
17 7 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATATAATAATAT
Found at i:502989 original size:19 final size:20
Alignment explanation
Indices: 502953--503003 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
502943 TTTGTAATAT
*
502953 TAATA-AAT-ATATATATAA
1 TAATATAATAATAAATATAA
502971 TAATAT-ATAATAAATATAA
1 TAATATAATAATAAATATAA
502990 TAATATAATAATAA
1 TAATATAATAATAA
503004 TTAGTATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.24
19 15 0.52
20 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATATAATAATAAATATAA
Found at i:502994 original size:8 final size:8
Alignment explanation
Indices: 502947--503002 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 8
502937 GGCCTGTTTG
502947 TAATATTAA
1 TAATA-TAA
502956 TAA-AT-A
1 TAATATAA
502962 TATATATAA
1 TA-ATATAA
502971 TAATATATAA
1 T-A-ATATAA
502981 TAAATATAA
1 T-AATATAA
502990 TAATATAA
1 TAATATAA
502998 TAATA
1 TAATA
503003 ATTAGTATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 15 0.35
9 12 0.28
10 11 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:503004 original size:14 final size:15
Alignment explanation
Indices: 502947--503002 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
502937 GGCCTGTTTG
502947 TAATATTAATAA-ATA
1 TAATA-TAATAATATA
502962 TATATATAATAATATA
1 TA-ATATAATAATATA
502978 TAATA-AAT-ATA-A
1 TAATATAATAATATA
502990 TAATATAATAATA
1 TAATATAATAATA
503003 ATTAGTATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 6 0.16
15 11 0.30
16 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATAATAATATA
Found at i:503358 original size:17 final size:17
Alignment explanation
Indices: 503336--503391 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
503326 GTTGAACAAA
*
503336 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
503353 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
503370 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
503387 TTCTT
1 TTCTT
503392 ATTTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 19 0.61
18 3 0.10
19 3 0.10
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.52
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:503407 original size:40 final size:40
Alignment explanation
Indices: 503351--503464 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
503341 CTCATTATGA
503351 ATTTCTTCTTTCAGATGAGTTCTTCTCATTATGAACTTCTT
1 ATTTCTT-TTTCAGATGAGTTCTTCTCATTATGAACTTCTT
*
503392 ATTTCTTTTTCAGATGAATTCTTCTCATTATGAACTTCTT
1 ATTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCTT
* * *
503432 -CTTCCTTCTC--A-GAGTTCTTCTCATTATGAACTT
1 ATTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
503465 TCTCTGGAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
36 21 0.31
37 1 0.01
39 7 0.10
40 32 0.47
41 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (40 bp):
ATTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCTT
Found at i:503424 original size:16 final size:16
Alignment explanation
Indices: 503405--503461 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 16
503395 TCTTTTTCAG
503405 ATGAATTCTTCTCATT
1 ATGAATTCTTCTCATT
*
503421 ATGAACTTCTTCTTCCTT
1 ATGAA-TTCTTC-TCATT
* *
503439 CTCAGAGTTCTTCTCATT
1 AT--GAATTCTTCTCATT
503457 ATGAA
1 ATGAA
503462 CTTTCTCTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 10 0.32
19 6 0.19
20 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (16 bp):
ATGAATTCTTCTCATT
Found at i:503535 original size:182 final size:189
Alignment explanation
Indices: 503224--503576 Score: 497
Period size: 182 Copynumber: 1.9 Consensus size: 189
503214 GTTGAATAAG
* * *
503224 TTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAATTCTTCTCATTATGAATTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTTCCTTCTCAGATG-ATTCTTCTCATTATGAACTTTCTCTG
* * * * * *
503289 TAAAGGTTGATCTATTAAGTGATGAATTCAAGCAAAAGTTGAACAAATTCTTCTCATTATGAA-T
65 GAAAAGCTGATCCATCAAGTGATGAATTCAAGCAAAAGTTGAACAAATTCTTATCATTATGAATT
503353 -TTCTT-CT-TTCAGATGAGTTCTTCTCATTATGAACTTCTTATTTCTTTTTCAGATGAA
130 CTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTATTTCTTTTTCAGATGAA
503410 TTCTTCTCATTATGAACTTCTTC-TTCCTTCTCAGA-G-TTCTTCTCATTATGAACTTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTTCCTTCTCAGATGATTCTTCTCATTATGAACTTTCTCTGG
* ** *
503472 AAAAGCTGATCCA-CAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTATCATTATGAATT
66 AAAAGCTGATCCATCAAGTGATGAATTCAAGCA-AAAGTTGAACAAATTCTTATCATTATGAA-T
503536 TCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTT
129 TCTTCTTCCT-CTTCAGATGAGTTCTTCTCATTATGAACTT
503577 TCTCTGGAAA
Statistics
Matches: 147, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
181 15 0.10
182 61 0.41
184 2 0.01
185 15 0.10
186 25 0.17
188 29 0.20
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.44
Consensus pattern (189 bp):
TTCTTCTCATTATGAACTTCTTCTTTCCTTCTCAGATGATTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGAATTCAAGCAAAAGTTGAACAAATTCTTATCATTATGAATTC
TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTATTTCTTTTTCAGATGAA
Found at i:503641 original size:113 final size:112
Alignment explanation
Indices: 503408--504026 Score: 946
Period size: 113 Copynumber: 5.5 Consensus size: 112
503398 TTTTCAGATG
*
503408 AATTCTTCTCATTATGAACTTCTTCTTCCTTC-TC--A-GAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTC
503469 TGGAAAAGCTGATCCA-CAAGTGATGGATTTGAGCATAAGGTTGAACA
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
* *
503516 AATTCTTATCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTC
503581 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
* *
503629 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTTATTATGAACTTCTCT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTCT
* *
503694 GGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
66 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
** * *
503741 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTC-TC
*
503806 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
** * * *
503854 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTTCTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTC-TC
*
503919 TAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
* * *
503967 AATTCTTCTCATTAT--ATTTATTCTTCCTCCTTCAATAATGAGTTCTTCTCATTATGAACT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTC-A-GATGAGTTCTTCTCATTATGAACT
504027 CTACCTGGAA
Statistics
Matches: 480, Mismatches: 23, Indels: 11
0.93 0.04 0.02
Matches are distributed among these distances:
108 29 0.06
109 2 0.00
111 15 0.03
112 152 0.32
113 282 0.59
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (112 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTCT
GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
Found at i:503736 original size:225 final size:226
Alignment explanation
Indices: 503408--504026 Score: 977
Period size: 225 Copynumber: 2.8 Consensus size: 226
503398 TTTTCAGATG
*
503408 AATTCTTCTCATTATGAACTTCTTCTTCCTTC-TC--A-GAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTC
*
503469 TGGAAAAGCTGATCCA-CAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTATCATTATGA
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGA
503533 ATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTGGAAAAGCTGATCCA
130 ATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTGGAAAAGCTGATCCA
*
503597 TCAAGTGATGGATTTGAGCATAAGGTTGAACA
195 TCAAGTGATGGATTTGAGCAAAAGGTTGAACA
* *
503629 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTTATTATGAACTTCTCT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCT
* * **
503694 GGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA
66 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAA
* * *
503759 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTGGAAAAGCTGATCCAT
131 TTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTGGAAAAGCTGATCCAT
503823 CAAGTGATGGATTTGAGCAAAAGGTTGAACA
196 CAAGTGATGGATTTGAGCAAAAGGTTGAACA
** *
503854 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTTCTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TC
*
503919 TAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTAT--
65 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGA
* *
503982 ATTTATTCTTCCTCCTTCAATAATGAGTTCTTCTCATTATGAACT
130 ATTTCTTCTTCCTCCTTC-A-GATGAGTTCTTCTCATTATGAACT
504027 CTACCTGGAA
Statistics
Matches: 361, Mismatches: 27, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
221 30 0.08
222 2 0.01
224 40 0.11
225 208 0.58
226 81 0.22
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (226 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCT
GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAA
TTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTGGAAAAGCTGATCCAT
CAAGTGATGGATTTGAGCAAAAGGTTGAACA
Found at i:503869 original size:338 final size:333
Alignment explanation
Indices: 503411--504026 Score: 1006
Period size: 338 Copynumber: 1.8 Consensus size: 333
503401 TCAGATGAAT
503411 TCTTCTCATTATGAACTTCTTCTTCCTTCTCAGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTCAGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
* * *
503476 GCTGATCCACAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTATCATTATGAATTTCTTC
66 GCTGATCCACAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTATCATTATGAACTTCTTC
*
503541 TTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTGGAAAAGCTGATCCATCAAGTGA
131 TTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TCTAGAAAAGCTGATCCATCAAGTGA
* *
503605 TGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTC-A-GAT
195 TGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTAT--ATTTATTCTTCCTCCTTCAATAAT
*
503668 GAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAG
258 GAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAG
503733 GTTGAACAAGC
323 GTTGAACAAGC
*
503744 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTC-TC--A-GAGTTCTTCTCATTATGAACTTTC-TCTG
* *
503808 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
61 GAAAAGCTGATCCA-CAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTATCATTATGAAC
* * *
503873 TTCTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTTCTTCTAGAAAAGCTGATCCATCA
125 TTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTAGAAAAGCTGATCCATCA
503938 AGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATATTTATTCTTCCTCCTTCAAT
190 AGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATATTTATTCTTCCTCCTTCAAT
504003 AATGAGTTCTTCTCATTATGAACT
255 AATGAGTTCTTCTCATTATGAACT
504027 CTACCTGGAA
Statistics
Matches: 261, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
333 29 0.11
334 2 0.01
336 21 0.08
337 38 0.15
338 170 0.65
339 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (333 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTCAGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
GCTGATCCACAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTATCATTATGAACTTCTTC
TTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTAGAAAAGCTGATCCATCAAGTGAT
GGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATATTTATTCTTCCTCCTTCAATAATGAG
TTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTT
GAACAAGC
Done.