Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004118.1 Hibiscus syriacus cultivar Beakdansim tig00009013_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: 338822
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 2 of 2
Found at i:214490 original size:21 final size:21
Alignment explanation
Indices: 214464--214582 Score: 125
Period size: 21 Copynumber: 5.6 Consensus size: 21
214454 GTTTCCAGAT
* *
214464 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
214485 TCGCAATGCGAACTTGGAATAAA
1 TCGCAATGCGAACTTGGACT--A
* *
214508 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
* *
214529 TCGCAA--CGAATTTGGAATAAA
1 TCGCAATGCGAACTTGGACT--A
214550 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
214571 TCGCAATGCGAA
1 TCGCAATGCGAA
214583 TATGTAAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
19 9 0.11
21 44 0.54
23 28 0.35
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:214561 original size:42 final size:43
Alignment explanation
Indices: 214464--214583 Score: 188
Period size: 42 Copynumber: 2.8 Consensus size: 43
214454 GTTTCCAGAT
*
214464 TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAA-GCGAATTTGGAATAAA
214508 TCGCAACGCGAACTTCGACTATCGCAA-CGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAAGCGAATTTGGAATAAA
* *
214550 TCGCAATGCGAACTTGGACTATCGCAATGCGAAT
1 TCGCAACGCGAACTTCGACTATCGCAA-GCGAAT
214584 ATGTAAATCG
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
42 39 0.55
44 32 0.45
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (43 bp):
TCGCAACGCGAACTTCGACTATCGCAAGCGAATTTGGAATAAA
Found at i:214595 original size:20 final size:20
Alignment explanation
Indices: 214484--214601 Score: 73
Period size: 21 Copynumber: 5.6 Consensus size: 20
214474 AACTTCGACT
214484 ATCGCAATGCGAACTTGGAATAA
1 ATCGCAATGCGAACTT-G--TAA
* *
214507 ATCGCAACGCGAACTTCG-ACT
1 ATCGCAATGCGAACTT-GTA-A
*
214528 ATCGCAA--CGAATTTGGAATAA
1 ATCGCAATGCGAACTT-G--TAA
* *
214549 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGTA-A
214570 ATCGCAATGCGAA-TATGTAA
1 ATCGCAATGCGAACT-TGTAA
214590 ATCGCAATGCGA
1 ATCGCAATGCGA
214602 TAGTCGAAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
19 7 0.09
20 15 0.20
21 30 0.39
22 2 0.03
23 22 0.29
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAACTTGTAA
Found at i:216209 original size:2 final size:2
Alignment explanation
Indices: 216204--216237 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
216194 CAAAAAATTA
216204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
216238 GAGTTAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217268 original size:30 final size:30
Alignment explanation
Indices: 217234--217323 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
217224 AGCATTCATA
217234 TCATAACAACATACAGAACCATAAAACATT
1 TCATAACAACATACAGAACCATAAAACATT
* * *
217264 TCATATA-AAGA-A-A-TACACAT---ACATA
1 TCATA-ACAACATACAGAAC-CATAAAACATT
217289 TCATAACAACATACAGAACCATAAAACATT
1 TCATAACAACATACAGAACCATAAAACATT
217319 TCATA
1 TCATA
217324 TAAAGAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
24 1 0.02
25 12 0.27
26 1 0.02
27 6 0.13
28 6 0.13
29 1 0.02
30 17 0.38
31 1 0.02
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.22
Consensus pattern (30 bp):
TCATAACAACATACAGAACCATAAAACATT
Found at i:217287 original size:25 final size:25
Alignment explanation
Indices: 217259--217342 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
217249 GAACCATAAA
217259 ACATTTCATATAAAGAAATACACAT
1 ACATTTCATATAAAGAAATACACAT
* * *
217284 ACATATCATA-ACA-ACATACAGAACCAT
1 ACATTTCATATAAAGAAATAC---A-CAT
217311 AAAACATTTCATATAAAGAAATACACAT
1 ---ACATTTCATATAAAGAAATACACAT
217339 ACAT
1 ACAT
217343 ACATACATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
23 5 0.11
24 2 0.05
25 13 0.30
26 1 0.02
27 3 0.07
28 3 0.07
29 1 0.02
30 9 0.20
31 2 0.05
32 5 0.11
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.24
Consensus pattern (25 bp):
ACATTTCATATAAAGAAATACACAT
Found at i:217290 original size:55 final size:55
Alignment explanation
Indices: 217230--217357 Score: 233
Period size: 55 Copynumber: 2.3 Consensus size: 55
217220 CATAAGCATT
217230 CATATCATAACAACATACAGAACCATAAAACATTTCATATAAAGAAATACACATA
1 CATATCATAACAACATACAGAACCATAAAACATTTCATATAAAGAAATACACATA
217285 CATATCATAACAACATACAGAACCATAAAACATTTCATATAAAGAAATACACATA
1 CATATCATAACAACATACAGAACCATAAAACATTTCATATAAAGAAATACACATA
217340 CATA-CAT-ACATACATACA
1 CATATCATAACA-ACATACA
217358 TACATACATA
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
53 3 0.04
54 10 0.14
55 59 0.82
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.22
Consensus pattern (55 bp):
CATATCATAACAACATACAGAACCATAAAACATTTCATATAAAGAAATACACATA
Found at i:217344 original size:4 final size:4
Alignment explanation
Indices: 217335--217387 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
217325 AAAGAAATAC
217335 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
217383 ACAT A
1 ACAT A
217388 TACCATCATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:217758 original size:42 final size:42
Alignment explanation
Indices: 217711--217806 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
217701 AATTGTCTCT
* * * * *
217711 AAGGACCATATATATGTTTCAGATGACCAAATATATGTCCCG
1 AAGGACCACATATATGTTCCAAAAGAACAAATATATGTCCCG
* *
217753 AAGGACCGCATATATGTTCCAAAAGAACACATATATGTCCCG
1 AAGGACCACATATATGTTCCAAAAGAACAAATATATGTCCCG
*
217795 AAGGATCACATA
1 AAGGACCACATA
217807 GAACCCTCGA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (42 bp):
AAGGACCACATATATGTTCCAAAAGAACAAATATATGTCCCG
Found at i:217759 original size:21 final size:21
Alignment explanation
Indices: 217735--217806 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
217725 TGTTTCAGAT
*
217735 GACCAAATATATGTCCCGAAG
1 GACCACATATATGTCCCGAAG
* * * *
217756 GACCGCATATATGTTCCAAAA
1 GACCACATATATGTCCCGAAG
*
217777 GAACACATATATGTCCCGAAG
1 GACCACATATATGTCCCGAAG
*
217798 GATCACATA
1 GACCACATA
217807 GAACCCTCGA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (21 bp):
GACCACATATATGTCCCGAAG
Found at i:218491 original size:2 final size:2
Alignment explanation
Indices: 218484--218529 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
218474 TCTGATTCTC
218484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
218525 AT AT A
1 AT AT A
218530 AATGCTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:220645 original size:4 final size:4
Alignment explanation
Indices: 220636--220666 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
220626 ATCATGAGAT
220636 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
220667 CATCTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:220948 original size:2 final size:2
Alignment explanation
Indices: 220941--220982 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
220931 GTGAGATCGC
220941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
220982 A
1 A
220983 GGGTTACATC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:221332 original size:44 final size:44
Alignment explanation
Indices: 221282--221369 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
221272 CATGATTGTG
221282 ATACTCATAATGATCATAATAACAATCGTTGTATTCGCAATCGC
1 ATACTCATAATGATCATAATAACAATCGTTGTATTCGCAATCGC
221326 ATACTCATAATGATCATAATAACAATCGTTGTATTCGCAATCGC
1 ATACTCATAATGATCATAATAACAATCGTTGTATTCGCAATCGC
221370 GATAAACACG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (44 bp):
ATACTCATAATGATCATAATAACAATCGTTGTATTCGCAATCGC
Found at i:223704 original size:37 final size:37
Alignment explanation
Indices: 223631--223704 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
223621 GTTGGAAAAT
* *
223631 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
223668 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
223705 GAGGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 13 0.41
38 19 0.59
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:240163 original size:69 final size:68
Alignment explanation
Indices: 240010--240154 Score: 245
Period size: 69 Copynumber: 2.1 Consensus size: 68
240000 TCCGACAGTT
* **
240010 CGAGCCCGAGTAACTTGCCGGTGCCTTTTTGATCCAAGGAGAGACCATAATAGTTGGTACGCGAA
1 CGAGCCGGAGTAACTTGCCGGTGCCTTTTTGATCCAAGGAGAGACCATAATAGTTGACACGCGAA
240075 CTC
66 CTC
*
240078 CGAGCCGGAGTAACTTGCCGGTGCCTTTCTTGATCCAAGGAGAGACCATAATAGTTGACAGGCGA
1 CGAGCCGGAGTAACTTGCCGGTGCCTTT-TTGATCCAAGGAGAGACCATAATAGTTGACACGCGA
240143 ACTC
65 ACTC
240147 CGAGCCGG
1 CGAGCCGG
240155 TCGAACTTGA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
68 27 0.38
69 45 0.62
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (68 bp):
CGAGCCGGAGTAACTTGCCGGTGCCTTTTTGATCCAAGGAGAGACCATAATAGTTGACACGCGAA
CTC
Found at i:241825 original size:14 final size:14
Alignment explanation
Indices: 241808--241844 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
241798 TTTATTTTAA
*
241808 TAAATTAAATATAT
1 TAAATTAAATAAAT
241822 TAAATTAAATAAAT
1 TAAATTAAATAAAT
*
241836 TAAAATAAA
1 TAAATTAAA
241845 ATTAGTCCTC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAATTAAATAAAT
Found at i:242657 original size:40 final size:40
Alignment explanation
Indices: 242581--242657 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
242571 TTACTCAAGG
* ** *
242581 AAGTTACTCATCCATTATTTAGTGTTATGTATCTAACGAC
1 AAGTTACTCATCCATTAATTAGTGCAATGTAACTAACGAC
*
242621 AAGTTA-TTATCCATTAATTAGTGCAATGTTAACTAAC
1 AAGTTACTCATCCATTAATTAGTGCAATG-TAACTAAC
242658 AAGTATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.58
40 13 0.42
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (40 bp):
AAGTTACTCATCCATTAATTAGTGCAATGTAACTAACGAC
Found at i:243623 original size:2 final size:2
Alignment explanation
Indices: 243616--243649 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
243606 TATCTATCTT
243616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
243650 AAAAATTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:247782 original size:3 final size:3
Alignment explanation
Indices: 247774--247804 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
247764 GGTTGATCAA
247774 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
247805 CCTATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:248941 original size:6 final size:6
Alignment explanation
Indices: 248930--248965 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
248920 GAACGAGGGT
248930 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
248966 GTTCGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTTC
Found at i:249129 original size:24 final size:24
Alignment explanation
Indices: 249065--249147 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
249055 TTAAATGATA
249065 AACGAAT-TAAACGAACACAAATG
1 AACGAATATAAACGAACACAAATG
** ** *
249088 AACGAACGTAAATAAACACAAACG
1 AACGAATATAAACGAACACAAATG
* *
249112 AATGAATATAAACGAACATAAATG
1 AACGAATATAAACGAACACAAATG
* *
249136 AAGGAAGATAAA
1 AACGAATATAAA
249148 ATTAATTGGG
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
23 6 0.13
24 40 0.87
ACGTcount: A:0.59, C:0.13, G:0.14, T:0.13
Consensus pattern (24 bp):
AACGAATATAAACGAACACAAATG
Found at i:251514 original size:5 final size:5
Alignment explanation
Indices: 251499--251527 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
251489 AGAAGAAGGG
251499 GAAAA -AAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
251528 ACCTTCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:260282 original size:76 final size:76
Alignment explanation
Indices: 260193--260342 Score: 300
Period size: 76 Copynumber: 2.0 Consensus size: 76
260183 AGGGACCGGG
260193 TCCCCTTTGAACCCTAACAGAACTCCGCCCCCAGAGATAACATTAAATCTAACCTCAAAGAAAAT
1 TCCCCTTTGAACCCTAACAGAACTCCGCCCCCAGAGATAACATTAAATCTAACCTCAAAGAAAAT
260258 TTAAACTTCGA
66 TTAAACTTCGA
260269 TCCCCTTTGAACCCTAACAGAACTCCGCCCCCAGAGATAACATTAAATCTAACCTCAAAGAAAAT
1 TCCCCTTTGAACCCTAACAGAACTCCGCCCCCAGAGATAACATTAAATCTAACCTCAAAGAAAAT
260334 TTAAACTTC
66 TTAAACTTC
260343 AAACAAAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.23
Consensus pattern (76 bp):
TCCCCTTTGAACCCTAACAGAACTCCGCCCCCAGAGATAACATTAAATCTAACCTCAAAGAAAAT
TTAAACTTCGA
Found at i:260380 original size:2 final size:2
Alignment explanation
Indices: 260373--260399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
260363 AATTTTAAAT
260373 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
260400 TAAGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:263679 original size:68 final size:69
Alignment explanation
Indices: 263573--263703 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 69
263563 AACCGGTAAA
* * * *
263573 AAAAATGATCGAAAATATTATTAAGTGCTACTGATTTTGTTATTATTGGA-AGTTTTACCGAATT
1 AAAAATGACCGAAAATATTATTAAGCGCTACCGATTTTGTTATTATTGGACACTTTTACCGAATT
263637 TGGT
66 TGGT
* *
263641 AAAAATGACCGAAAATATTATT-AGACGCTACCGGTTTTGTTATTGTTGGACACTTTTACCGAA
1 AAAAATGACCGAAAATATTATTAAG-CGCTACCGATTTTGTTATTATTGGACACTTTTACCGAA
263704 AATGTTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.04
68 42 0.76
69 11 0.20
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (69 bp):
AAAAATGACCGAAAATATTATTAAGCGCTACCGATTTTGTTATTATTGGACACTTTTACCGAATT
TGGT
Found at i:265752 original size:2 final size:2
Alignment explanation
Indices: 265747--265801 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
265737 AAACTCACAC
*
265747 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
265789 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
265802 GTAGTTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:268127 original size:20 final size:20
Alignment explanation
Indices: 268102--268179 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
268092 ATCCTATTCC
*
268102 CTGGTAATCTTACATTCTCA
1 CTGGTAATCTTACATTCCCA
268122 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
268142 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
*
268162 CTGATAATCTTACATTCC
1 CTGGTAATCTTACATTCC
268180 GTGAACCAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:268865 original size:3 final size:3
Alignment explanation
Indices: 268857--268881 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
268847 GTTCCATTGT
268857 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
268882 ATATCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:272449 original size:24 final size:25
Alignment explanation
Indices: 272389--272449 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
272379 TCGGGCCTGG
272389 TATATA-TATA-TATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
*
272412 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
272436 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
272450 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:272540 original size:13 final size:13
Alignment explanation
Indices: 272483--272527 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
272473 TTTAATATTT
*
272483 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
272495 ATCGGGGGCGGGTA
1 ATC-GGGGCGGGTA
272509 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
272522 ATCGGG
1 ATCGGG
272528 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 3 0.10
13 24 0.80
14 3 0.10
ACGTcount: A:0.13, C:0.16, G:0.53, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:275300 original size:41 final size:42
Alignment explanation
Indices: 275203--275321 Score: 186
Period size: 41 Copynumber: 2.9 Consensus size: 42
275193 GATTCGCAAC
* *
275203 GCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
275245 ACGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
275286 GCGATAGTCAAAGTTCGCGTTGCGATTCATTCCAAA
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA
275322 CTCGAAACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 38 0.54
42 32 0.46
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (42 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:277480 original size:2 final size:2
Alignment explanation
Indices: 277473--277513 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
277463 ACTTTAACTA
277473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
277514 AGTTATTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:309094 original size:49 final size:50
Alignment explanation
Indices: 308885--309138 Score: 303
Period size: 50 Copynumber: 5.0 Consensus size: 50
308875 TGTACATACT
* * * * * * *
308885 TACATCGGTGTAAGTATGTGTAAAATGCTACACTTTTTTTATTTTATTTACT
1 TACACCGGTGT-AGTATGTGTTAAGTGATACAC-TTTTTTGTTTTATTCACA
* * ** * * * *
308937 TATATCTTTGTAAGTATGTGTTAAGTGTTATACTTTTTTATTTTAATCACA
1 TACACCGGTGT-AGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCACA
* *
308988 TACACCGGTGTAGTATGTGTTAAGTGACATACTTTTTTGTTTTATTCACA
1 TACACCGGTGTAGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCACA
309038 TACACCGGTGTAGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCA-A
1 TACACCGGTGTAGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCACA
* *
309087 TACACCGGTGTAGTATATGTTAAGTGATACACTCTTTTGTTTTATTCACA
1 TACACCGGTGTAGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCACA
309137 TA
1 TA
309139 ACTAAAGCTT
Statistics
Matches: 179, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 47 0.26
50 84 0.47
51 22 0.12
52 26 0.15
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (50 bp):
TACACCGGTGTAGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCACA
Found at i:309125 original size:99 final size:100
Alignment explanation
Indices: 308949--309138 Score: 301
Period size: 99 Copynumber: 1.9 Consensus size: 100
308939 TATCTTTGTA
* * *
308949 AGTATGTGTTAAGTGTTATACTTTTTTATTTTAATCACATACACCGGTGTAGTATGTGTTAAGTG
1 AGTATGTGTTAAGTGATACACTTTTTTATTTTAATCACATACACCGGTGTAGTATATGTTAAGTG
* *
309014 ACATACTTTTTTGTTTTATTCACATACACCGGTGT
66 ACACACTCTTTTGTTTTATTCACATACACCGGTGT
* *
309049 AGTATGTGTTAAGTGATACACTTTTTTGTTTTATTCA-ATACACCGGTGTAGTATATGTTAAGTG
1 AGTATGTGTTAAGTGATACACTTTTTTATTTTAATCACATACACCGGTGTAGTATATGTTAAGTG
*
309113 ATACACTCTTTTGTTTTATTCACATA
66 ACACACTCTTTTGTTTTATTCACATA
309139 ACTAAAGCTT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 49 0.60
100 33 0.40
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (100 bp):
AGTATGTGTTAAGTGATACACTTTTTTATTTTAATCACATACACCGGTGTAGTATATGTTAAGTG
ACACACTCTTTTGTTTTATTCACATACACCGGTGT
Found at i:312568 original size:20 final size:20
Alignment explanation
Indices: 312543--312582 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
312533 ATCATTAATA
* *
312543 TTAATTAGTCCTTAGGTTTT
1 TTAATTAATCCTTAGATTTT
312563 TTAATTAATCCTTAGATTTT
1 TTAATTAATCCTTAGATTTT
312583 GGGTGCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
TTAATTAATCCTTAGATTTT
Found at i:313387 original size:15 final size:17
Alignment explanation
Indices: 313367--313405 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
313357 CATTTCAAAT
313367 ATTTTCTAAA-ATT-CG
1 ATTTTCTAAATATTCCG
313382 ATTTTCTAAATTATTCCG
1 ATTTTCTAAA-TATTCCG
313400 ATTTTC
1 ATTTTC
313406 GCCACTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
17 3 0.14
18 8 0.38
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTTTCTAAATATTCCG
Found at i:316634 original size:77 final size:78
Alignment explanation
Indices: 316548--316703 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 78
316538 TATTTATCTA
* * *
316548 AATGTTTTATACACCGCATGGAGCACACTG-AGTTTTTTA-TCTCACTCTTTAATTTTTAATTTT
1 AATGTTTTATACACCGCAAGGAGCACAATGTAGTTTTTTAGT-TCACTCTTTAATTTTTAAATTT
* *
316611 TCATATACTTTCCG
65 TCAGATACTATCCG
* * ** *
316625 AATGTTTTATACACCGTAAGGAGTACAATGTTTTTTTTTAGTTTACTCTTTAATTTTTAAATTTT
1 AATGTTTTATACACCGCAAGGAGCACAATGTAGTTTTTTAGTTCACTCTTTAATTTTTAAATTTT
316690 CAGATACTATCCG
66 CAGATACTATCCG
316703 A
1 A
316704 CAGTATGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 26 0.39
78 40 0.60
79 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (78 bp):
AATGTTTTATACACCGCAAGGAGCACAATGTAGTTTTTTAGTTCACTCTTTAATTTTTAAATTTT
CAGATACTATCCG
Found at i:317337 original size:67 final size:67
Alignment explanation
Indices: 317268--317401 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 67
317258 TAATTCTTAA
* * *
317268 TTTT-TTTATTAACTATAGTTTACAATAGTTTTATATATATTTCT-ATTATTGTTAATGGAAGAA
1 TTTTATTTATTAACTATAATTTACAAT--TTTT-TATATATTTATAATTATTGTTAATGAAAGAA
317331 ATAATT
63 ATAA-T
* *
317337 TTTTATTTATTAACTATAATTTATAATTTTTTATATATTTATAATTTTTGTTAATGAAAGAAATA
1 TTTTATTTATTAACTATAATTTACAATTTTTTATATATTTATAATTATTGTTAATGAAAGAAATA
317402 GTTCTTAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
67 10 0.17
68 24 0.41
69 4 0.07
70 20 0.34
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (67 bp):
TTTTATTTATTAACTATAATTTACAATTTTTTATATATTTATAATTATTGTTAATGAAAGAAATA
AT
Found at i:317376 original size:18 final size:17
Alignment explanation
Indices: 317351--317385 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
317341 ATTTATTAAC
317351 TATAATTTATAATTTTT
1 TATAATTTATAATTTTT
317368 TATATATTTATAATTTTT
1 TATA-ATTTATAATTTTT
317386 GTTAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATAATTTATAATTTTT
Found at i:317425 original size:68 final size:66
Alignment explanation
Indices: 317296--317432 Score: 152
Period size: 68 Copynumber: 2.0 Consensus size: 66
317286 TTTACAATAG
* * * *
317296 TTTTATATATATTTCTATTATTGTTAATGGAAGAAATAATTTTTTATTTATTAACTATAATTTAT
1 TTTTATATATATTTATATTATTGTTAATGAAAGAAATAATTCTTAATTTATTAACTATAA-TTAT
317361 AA
65 AA
* * * *
317363 TTTTTTATATATTTATAATTTTTGTTAATGAAAGAAATAGTTCTTAATCTGTATTCA-T-TAATT
1 TTTTATATATATTTAT-ATTATTGTTAATGAAAGAAATAATTCTTAAT-T-TATTAACTATAATT
317426 ATAA
63 ATAA
317430 TTT
1 TTT
317433 GCAATATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
67 23 0.39
68 29 0.49
69 2 0.03
70 5 0.08
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (66 bp):
TTTTATATATATTTATATTATTGTTAATGAAAGAAATAATTCTTAATTTATTAACTATAATTATA
A
Found at i:317531 original size:36 final size:33
Alignment explanation
Indices: 317489--317576 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 33
317479 TAATTATATA
317489 TAATATTAAAT-TATAGTTAATGGAAGAAATAATTTC
1 TAATATTAAATATATA-TT--TGG-AGAAATAATTTC
* * *
317525 TAATATTATATATATATTTGGATAAGTAATTTC
1 TAATATTAAATATATATTTGGAGAAATAATTTC
* *
317558 TAATATTATATATAAATTT
1 TAATATTAAATATATATTT
317577 TAAATTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 28 0.60
34 3 0.06
36 12 0.26
37 4 0.09
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (33 bp):
TAATATTAAATATATATTTGGAGAAATAATTTC
Found at i:317588 original size:33 final size:32
Alignment explanation
Indices: 317516--317588 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
317506 TAATGGAAGA
* **
317516 AATAATTTCTAATATTATATATATATTTGGAT
1 AATAATTTCTAATATTATATATAAATTTAAAT
317548 AAGTAATTTCTAATATTATATATAAATTTTAAAT
1 AA-TAATTTCTAATATTATATATAAA-TTTAAAT
*
317582 TATAATT
1 AATAATT
317589 AATAAATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 2 0.06
33 27 0.77
34 6 0.17
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (32 bp):
AATAATTTCTAATATTATATATAAATTTAAAT
Found at i:317654 original size:71 final size:69
Alignment explanation
Indices: 317564--317726 Score: 185
Period size: 71 Copynumber: 2.3 Consensus size: 69
317554 TTTCTAATAT
* *
317564 TATATATAAAT-TT-TAAATTATAATTAATAAA-TACAATTCAA-AATTA-TTT-CATTAATAAA
1 TATATAAAAATATTGTAAATTATAATTAATAAATTAAAATT-AAGAATTATTTTCCATTAA-AAA
317623 CATTTAAAA
64 C---TAAAA
*
317632 TATATAAAAAATATTGTAAATTATAGTTAATAAATTAAAATTAAGAATTATTTTCCCATTAAAAA
1 TATAT-AAAAATATTGTAAATTATAATTAATAAATTAAAATTAAGAATTATTTT-CCATTAAAAA
317697 CTAAAA
64 CTAAAA
*
317703 TATATAAAAATGTTGTAAATTATA
1 TATATAAAAATATTGTAAATTATA
317727 TTCTAATATA
Statistics
Matches: 83, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
68 5 0.06
69 5 0.06
70 20 0.24
71 29 0.35
72 11 0.13
73 3 0.04
74 4 0.05
75 6 0.07
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (69 bp):
TATATAAAAATATTGTAAATTATAATTAATAAATTAAAATTAAGAATTATTTTCCATTAAAAACT
AAAA
Found at i:319373 original size:24 final size:25
Alignment explanation
Indices: 319346--319414 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
319336 AAAGGGAAAG
319346 AGGAAG-GGAATGAAGA-GAAGGAGA
1 AGGAAGAGGAATGAAGAGGAAGGA-A
*
319370 AGGAAGTGGAA-GAAGAGGAAGGAA
1 AGGAAGAGGAATGAAGAGGAAGGAA
319394 AGGAAGAGGAACTGAAAGAGG
1 AGGAAGAGGAA-TG-AAGAGG
319415 TGGAGGGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 22 0.56
25 10 0.26
26 1 0.03
27 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.45, T:0.04
Consensus pattern (25 bp):
AGGAAGAGGAATGAAGAGGAAGGAA
Found at i:330234 original size:52 final size:51
Alignment explanation
Indices: 330130--330236 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 51
330120 ACTTGACGCT
** * *
330130 AAATAAAGAAATAAATAGGGGCTCATTTCTTTTATTTCGTCCTGGGCCAAA
1 AAATAAAGAAATAAATAGGGGCTCATTTCTTTTATTTCACCCCGGGCAAAA
330181 AAATAAAGAACATAAATAGGGG-TCCATTTCTTTTATTTCACCCCGGGCAAAA
1 AAATAAAGAA-ATAAATAGGGGCT-CATTTCTTTTATTTCACCCCGGGCAAAA
330233 AAAT
1 AAAT
330237 TCCTAGAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
51 11 0.22
52 39 0.78
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (51 bp):
AAATAAAGAAATAAATAGGGGCTCATTTCTTTTATTTCACCCCGGGCAAAA
Found at i:331325 original size:37 final size:36
Alignment explanation
Indices: 331250--331325 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
331240 TTTTTATATT
*
331250 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* * *
331286 TTTATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
331323 TTT
1 TTT
331326 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:333749 original size:25 final size:25
Alignment explanation
Indices: 333715--333763 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
333705 ATTTGATAAA
*
333715 TTAAAGTGATTAAAGA-ATATATATG
1 TTAAAGTGATAAAAGATA-ATATATG
333740 TTAAAGTGATAAAAGATAATATAT
1 TTAAAGTGATAAAAGATAATATAT
333764 TATTCACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (25 bp):
TTAAAGTGATAAAAGATAATATATG
Found at i:334176 original size:59 final size:59
Alignment explanation
Indices: 334083--334194 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
334073 CTACCTCCTC
*
334083 TTACCCCATTACATATGGGAATAGGGTCAGCTAATTATATATATATATATATACTCCCT
1 TTACCCCATTACATATGGGAATAGGGTCAACTAATTATATATATATATATATACTCCCT
* *
334142 TTACCCCATTACATATGGTAATAGGGTCAACTAATTTTATATATATATATATA
1 TTACCCCATTACATATGGGAATAGGGTCAACTAATTATATATATATATATATA
334195 TATATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (59 bp):
TTACCCCATTACATATGGGAATAGGGTCAACTAATTATATATATATATATATACTCCCT
Found at i:334186 original size:2 final size:2
Alignment explanation
Indices: 334179--334213 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
334169 CAACTAATTT
334179 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
334214 GATTGTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:334297 original size:2 final size:2
Alignment explanation
Indices: 334286--334317 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
334276 AACATTTAAT
334286 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
334318 GATTAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.