Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_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: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:1917305 original size:14 final size:14
Alignment explanation
Indices: 1917286--1917343 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1917276 ATACGAAATG
1917286 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1917300 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1917316 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1917332 AAAATCGCAACG
1 AAAATCGCAACG
1917344 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1917328 original size:32 final size:33
Alignment explanation
Indices: 1917270--1917348 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
1917260 GGAAATGGCT
**
1917270 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1917303 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1917335 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1917349 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1917377 original size:19 final size:19
Alignment explanation
Indices: 1917355--1917459 Score: 105
Period size: 19 Copynumber: 5.8 Consensus size: 19
1917345 GAAACACAAA
1917355 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1917374 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* *
1917392 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1917408 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
1917425 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
1917444 TCCGCATTGCGATTTT
1 T-CGCATTGCGATTTT
1917460 AAGTTTCGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 4 0.06
17 4 0.06
18 21 0.30
19 22 0.31
20 11 0.15
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1917390 original size:18 final size:18
Alignment explanation
Indices: 1917355--1917436 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
1917345 GAAACACAAA
*
1917355 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
1917374 TCGCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
*
1917392 TCGCGTTGCGATTT--TG
1 TCGCGTTGCGATTTCATT
1917408 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
*
1917425 TCGCATTGCGAT
1 TCGCGTTGCGAT
1917437 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 2 0.04
17 2 0.04
18 22 0.41
19 17 0.31
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:1917436 original size:51 final size:53
Alignment explanation
Indices: 1917360--1917459 Score: 150
Period size: 51 Copynumber: 1.9 Consensus size: 53
1917350 ACAAATCGCA
* ** *
1917360 TTGCGATTTTCATTTCGCGTTGCGAT-TTCATTT-CGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCGCATTGCGATTTTGTCG
1917411 TTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCGCATTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCGCATTGCGATTTT
1917460 AAGTTTCGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 25 0.58
52 5 0.12
53 13 0.30
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (53 bp):
TTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCGCATTGCGATTTTGTCG
Found at i:1919342 original size:14 final size:14
Alignment explanation
Indices: 1919323--1919358 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1919313 ATTGTTTAAT
1919323 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1919337 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1919351 TGATTTGT
1 TGATTTGT
1919359 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1919497 original size:19 final size:19
Alignment explanation
Indices: 1919475--1919542 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
1919465 ATCGCAACGA
1919475 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
1919494 GAAAATCGCAATTCGAAAT
1 GAAAATCGCAATGCGAAAT
*
1919513 GAAAGTCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
1919527 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
1919543 TTTTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1923207 original size:19 final size:19
Alignment explanation
Indices: 1923185--1923313 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
1923175 GGAAATTACT
1923185 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1923204 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1923218 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1923237 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
1923251 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1923270 ATCGCAAT--G--A-G-GA
1 ATCGCAATGCGAAATGAAA
1923283 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
1923301 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1923314 TTTATTTCGC
Statistics
Matches: 84, Mismatches: 11, Indels: 31
0.67 0.09 0.25
Matches are distributed among these distances:
13 9 0.11
14 19 0.23
15 4 0.05
16 4 0.05
17 6 0.07
18 16 0.19
19 26 0.31
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1923227 original size:33 final size:33
Alignment explanation
Indices: 1923185--1923309 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
1923175 GGAAATTACT
1923185 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
1923218 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1923250 TTTCGCAATGCGAAATGAAAATCGCAATGAG-GA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1923283 ATCGCAATGCGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1923310 CGAATTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
31 10 0.12
32 16 0.20
33 56 0.68
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1923365 original size:19 final size:19
Alignment explanation
Indices: 1923337--1923382 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1923327 GCGATTCTCT
* *
1923337 CGTTGTGATTTTTATTTCG
1 CGTTGCGATTTTCATTTCG
1923356 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1923374 CATTGCGAT
1 CGTTGCGAT
1923383 AGTACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1923508 original size:14 final size:14
Alignment explanation
Indices: 1923489--1923525 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1923479 CATCAATTAA
1923489 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1923503 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1923517 ACAAATCAA
1 ACAAATCAA
1923526 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1926975 original size:20 final size:18
Alignment explanation
Indices: 1926943--1927119 Score: 102
Period size: 20 Copynumber: 9.8 Consensus size: 18
1926933 TCTTTTGGTT
1926943 GAAATGAAATCGCAACGA
1 GAAATGAAATCGCAACGA
*
1926961 GATAATGAGAATCGCAACGCG
1 GA-AATGA-AATCGCAACG-A
*
1926982 GAAATGACTATCGCAACGA
1 GAAATGA-AATCGCAACGA
*
1927001 G--A-G-AATCGCAACGC
1 GAAATGAAATCGCAACGA
* *
1927015 G-AATGACTATCGCGACGA
1 GAAATGA-AATCGCAACGA
* *
1927033 G--A-G-AATCACAACGC
1 GAAATGAAATCGCAACGA
*
1927047 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGA
* * *
1927066 GAAATAAAAAATCGCAAAGC
1 GAAAT--GAAATCGCAACGA
*
1927086 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGA
1927105 GAAATGAAATCGCAA
1 GAAATGAAATCGCAA
1927120 TGCGATTTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 30
0.72 0.10 0.17
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 4 0.03
17 3 0.02
18 20 0.16
19 38 0.30
20 40 0.32
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (18 bp):
GAAATGAAATCGCAACGA
Found at i:1927025 original size:32 final size:33
Alignment explanation
Indices: 1926967--1927064 Score: 144
Period size: 32 Copynumber: 3.0 Consensus size: 33
1926957 ACGAGATAAT
1926967 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
1927001 GAGAATCGCAACGCG-AATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
1927033 GAGAATCACAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1927065 CGAAATAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
32 30 0.52
33 14 0.24
34 14 0.24
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1927058 original size:19 final size:19
Alignment explanation
Indices: 1927036--1927124 Score: 126
Period size: 19 Copynumber: 4.7 Consensus size: 19
1927026 GCGACGAGAG
*
1927036 AATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1927055 AATCGCAACGCGAAATAAAA
1 AATCGCAACGCGAAAT-GAA
*
1927075 AATCGCAAAGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1927094 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
1927112 AATCGCAATGCGA
1 AATCGCAACGCGA
1927125 TTTTTGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.21
19 33 0.52
20 17 0.27
ACGTcount: A:0.49, C:0.20, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1927142 original size:19 final size:19
Alignment explanation
Indices: 1927120--1927165 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
1927110 GAAATCGCAA
*
1927120 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
1927139 TGCGTTTTTTTATTTCGCGT
1 TGCG-ATTTTTATTTCGCGT
1927159 TGCGATT
1 TGCGATT
1927166 CCTCGTTGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.07, C:0.15, G:0.24, T:0.54
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1927154 original size:20 final size:20
Alignment explanation
Indices: 1927125--1927162 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1927115 CGCAATGCGA
*
1927125 TTTTTGTTTCGCGTTGCGTT
1 TTTTTATTTCGCGTTGCGTT
1927145 TTTTTATTTCGCGTTGCG
1 TTTTTATTTCGCGTTGCG
1927163 ATTCCTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.24, T:0.58
Consensus pattern (20 bp):
TTTTTATTTCGCGTTGCGTT
Found at i:1927425 original size:12 final size:12
Alignment explanation
Indices: 1927410--1927434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1927400 GCAAAAATTT
1927410 CAAAAAAAAAAA
1 CAAAAAAAAAAA
1927422 CAAAAAAAAAAA
1 CAAAAAAAAAAA
1927434 C
1 C
1927435 TAACCCTCGG
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:1927800 original size:20 final size:20
Alignment explanation
Indices: 1927715--1927828 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
1927705 CGCTATGTAA
* * *
1927715 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1927735 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
1927755 ATCTCGTTGCGATTTTATATT
1 ATCGCATTGCGATAGT-CAGT
*
1927776 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1927796 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1927816 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1927829 TTTTCCAATT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1927813 original size:61 final size:61
Alignment explanation
Indices: 1927715--1927831 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1927705 CGCTATGTAA
* * * * *
1927715 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTATATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTATATT
* * *
1927776 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
1927832 TCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTATATT
Found at i:1927847 original size:61 final size:61
Alignment explanation
Indices: 1927715--1927849 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 61
1927705 CGCTATGTAA
* * * * * *
1927715 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTATATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTATAAT
* * *
1927776 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-TCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTAT--AAT
1927838 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1927850 TTACTTATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 1 0.02
61 59 0.95
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTATAAT
Found at i:1927939 original size:21 final size:21
Alignment explanation
Indices: 1927899--1927939 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1927889 ACTGTAGACC
**
1927899 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1927920 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1927940 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1927983 original size:19 final size:19
Alignment explanation
Indices: 1927959--1928009 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
1927949 CGATAATGGA
*
1927959 GATCGCGTTGCGAATTAGC
1 GATCGCATTGCGAATTAGC
1927978 GATCGCATTGCGAATTAGC
1 GATCGCATTGCGAATTAGC
1927997 GATCGCATTGCGA
1 GATCGCATTGCGA
1928010 TTTTGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (19 bp):
GATCGCATTGCGAATTAGC
Found at i:1929439 original size:14 final size:14
Alignment explanation
Indices: 1929420--1929460 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1929410 TAATCGAGGG
1929420 TTTTTATTTATTTA
1 TTTTTATTTATTTA
*
1929434 TTTTTATTTAATTA
1 TTTTTATTTATTTA
* *
1929448 CTTTAATTTATTT
1 TTTTTATTTATTT
1929461 TCAATACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:1929591 original size:14 final size:14
Alignment explanation
Indices: 1929566--1929605 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1929556 ACAAACTACA
*
1929566 TTTATCTTATTTATT
1 TTTAT-TTATTTACT
1929581 TTTATTTATTTACT
1 TTTATTTATTTACT
*
1929595 TTAATTTATTT
1 TTTATTTATTT
1929606 TCAATACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTATTTACT
Found at i:1929594 original size:145 final size:145
Alignment explanation
Indices: 1929422--1929720 Score: 582
Period size: 145 Copynumber: 2.1 Consensus size: 145
1929412 ATCGAGGGTT
1929422 TTTAT-TTATTTATTTTTATTTAATTACTTTAATTTATTTTCAATACAATCAAATCGTGAGACGT
1 TTTATCTTATTTATTTTTATTTAATTACTTTAATTTATTTTCAATACAATCAAATCGTGAGACGT
1929486 GTGTCCTATTGCTGAGAATGGAACGCCCAAACCGTTAAACGCAAGTGCTTCAATTGGTTCAATAA
66 GTGTCCTATTGCTGAGAATGGAACGCCCAAACCGTTAAACGCAAGTGCTTCAATTGGTTCAATAA
1929551 TTACAACAAACTACA
131 TTACAACAAACTACA
*
1929566 TTTATCTTATTTATTTTTATTTATTTACTTTAATTTATTTTCAATACAATCAAATCGTGAGACGT
1 TTTATCTTATTTATTTTTATTTAATTACTTTAATTTATTTTCAATACAATCAAATCGTGAGACGT
1929631 GTGTCCTATTGCTGAGAATGGAACGCCCAAACCGTTAAACGCAAGTGCTTCAATTGGTTCAATAA
66 GTGTCCTATTGCTGAGAATGGAACGCCCAAACCGTTAAACGCAAGTGCTTCAATTGGTTCAATAA
1929696 TTACAACAAACTACA
131 TTACAACAAACTACA
1929711 TTTATCTTAT
1 TTTATCTTAT
1929721 AATATTGTTA
Statistics
Matches: 153, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
144 5 0.03
145 148 0.97
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (145 bp):
TTTATCTTATTTATTTTTATTTAATTACTTTAATTTATTTTCAATACAATCAAATCGTGAGACGT
GTGTCCTATTGCTGAGAATGGAACGCCCAAACCGTTAAACGCAAGTGCTTCAATTGGTTCAATAA
TTACAACAAACTACA
Found at i:1937568 original size:64 final size:64
Alignment explanation
Indices: 1937495--1937718 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
1937485 TGTTTGAATG
* * * *
1937495 TGCACCGATGCATTGGTAGTGCATTGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCTC-ATTAATAATAAA-ACATCGAATGCAATTC
1937558 A
64 A
* * **
1937559 TGCATCGATGCATAAGTAGTGCATCGATGCATCTCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCTCATTAATAATAAAACATCGAATGCAATTCA
* ** * ** * ** *
1937623 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATATTACTACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCTCATTAATAATAAAACATCGAATGCAATTCA
*
1937687 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
1937719 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 122 0.92
65 10 0.08
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCTCATTAATAATAAAACATCGAATGCAATTCA
Found at i:1938044 original size:27 final size:26
Alignment explanation
Indices: 1937997--1938054 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
1937987 AATAATTATG
*
1937997 ATGATATGATATGTGATATGAG-AAC
1 ATGATATGATAAGTGATATGAGCAAC
*
1938022 ATGATATGAATTAAGTGATATGAGCTAC
1 ATGATATG-A-TAAGTGATATGAGCAAC
1938050 ATGAT
1 ATGAT
1938055 CTACGTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 1 0.04
27 12 0.43
28 7 0.25
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (26 bp):
ATGATATGATAAGTGATATGAGCAAC
Found at i:1938268 original size:31 final size:31
Alignment explanation
Indices: 1938230--1938413 Score: 273
Period size: 31 Copynumber: 5.9 Consensus size: 31
1938220 AGTCGAGGGT
*
1938230 TTACATATGTTTAAAGGAACATATGAACAGA
1 TTACATATGTTTAAAGGCACATATGAACAGA
*
1938261 TTACATATGTTTAAAGGCACATATGAACAGT
1 TTACATATGTTTAAAGGCACATATGAACAGA
1938292 TTACATATGTTTAAAGGCACATATGAACA-A
1 TTACATATGTTTAAAGGCACATATGAACAGA
* * *
1938322 TTTACATATGTTTAAAGGTATATATGAACAGT
1 -TTACATATGTTTAAAGGCACATATGAACAGA
**
1938354 TTATGTATGTTTAAAGGCACATATGAACAG-
1 TTACATATGTTTAAAGGCACATATGAACAGA
1938384 TCTACATATGTTTAAAGGCACATATGAACA
1 T-TACATATGTTTAAAGGCACATATGAACA
1938414 TTTTATATTG
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.01
31 137 0.99
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (31 bp):
TTACATATGTTTAAAGGCACATATGAACAGA
Found at i:1938284 original size:16 final size:16
Alignment explanation
Indices: 1938263--1938316 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
1938253 TGAACAGATT
1938263 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
1938279 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
1938294 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
1938310 ACATATG
1 ACATATG
1938317 AACAATTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:1938390 original size:93 final size:93
Alignment explanation
Indices: 1938229--1938418 Score: 317
Period size: 93 Copynumber: 2.0 Consensus size: 93
1938219 GAGTCGAGGG
*
1938229 TTTACATATGTTTAAAGGAACATATGAACAGATTACATATGTTTAAAGGCACATATGAACAGTTT
1 TTTACATATGTTTAAAGGAACATATGAACAGATTACATATGTTTAAAGGCACATATGAACAGTCT
1938294 ACATATGTTTAAAGGCACATATGAACAA
66 ACATATGTTTAAAGGCACATATGAACAA
* * * **
1938322 TTTACATATGTTTAAAGGTATATATGAACAGTTTATGTATGTTTAAAGGCACATATGAACAGTCT
1 TTTACATATGTTTAAAGGAACATATGAACAGATTACATATGTTTAAAGGCACATATGAACAGTCT
*
1938387 ACATATGTTTAAAGGCACATATGAACAT
66 ACATATGTTTAAAGGCACATATGAACAA
1938415 TTTA
1 TTTA
1938419 TATTGTGACC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (93 bp):
TTTACATATGTTTAAAGGAACATATGAACAGATTACATATGTTTAAAGGCACATATGAACAGTCT
ACATATGTTTAAAGGCACATATGAACAA
Found at i:1938408 original size:16 final size:16
Alignment explanation
Indices: 1938359--1938409 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1938349 ACAGTTTATG
1938359 TATGTTTAAAGGCACA
1 TATGTTTAAAGGCACA
*
1938375 TATG---AACAGTCTACA
1 TATGTTTAA-AGGC-ACA
1938390 TATGTTTAAAGGCACA
1 TATGTTTAAAGGCACA
1938406 TATG
1 TATG
1938410 AACATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
13 2 0.07
14 3 0.11
15 7 0.25
16 11 0.39
17 3 0.11
18 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (16 bp):
TATGTTTAAAGGCACA
Found at i:1939525 original size:20 final size:19
Alignment explanation
Indices: 1939489--1939548 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
1939479 GAATTAGCAC
*
1939489 AGAACCGGTAAAGAACCGGA
1 AGAACCGGTGAA-AACCGGA
*
1939509 AGAACCGGTTGAAAACCGGGG
1 AGAACCGG-TGAAAACC-GGA
*
1939530 TGAACCGGCTGAAAACCGG
1 AGAACCGG-TGAAAACCGG
1939549 CAAAACCGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.37, C:0.22, G:0.33, T:0.08
Consensus pattern (19 bp):
AGAACCGGTGAAAACCGGA
Found at i:1939820 original size:24 final size:24
Alignment explanation
Indices: 1939790--1939845 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
1939780 TAGAAGTTCG
1939790 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
1939814 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
1939838 ATTGAAGC
1 ATTGAAGC
1939846 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:1942926 original size:18 final size:18
Alignment explanation
Indices: 1942903--1942940 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1942893 AGGTGATGAC
*
1942903 GGCATCATATATGGATGT
1 GGCATCATAAATGGATGT
*
1942921 GGCATCATAAATGGCTGT
1 GGCATCATAAATGGATGT
1942939 GG
1 GG
1942941 TGGCTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (18 bp):
GGCATCATAAATGGATGT
Found at i:1944662 original size:17 final size:18
Alignment explanation
Indices: 1944619--1944659 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1944609 AAATTATATT
1944619 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
1944636 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
1944654 ATTAAA
1 AGTAAA
1944660 TACATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:1948094 original size:20 final size:20
Alignment explanation
Indices: 1948050--1948468 Score: 201
Period size: 20 Copynumber: 20.9 Consensus size: 20
1948040 AATGACCAAC
*
1948050 AAAATCGCAACGCGATATC--
1 AAAATCGCAATGCGAT-TCAG
*
1948069 AAAATCGCAATGCGATTTAG
1 AAAATCGCAATGCGATTCAG
* * **
1948089 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAATG-CGATTCAG
* *
1948109 AAAATCGCAACGGTCGA--AAG
1 AAAATCGCAA-TG-CGATTCAG
*
1948129 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAATGCGA--TT-CAG
* *
1948151 AGAATCGCAATGCGATCCA-
1 AAAATCGCAATGCGATTCAG
*
1948170 AAGAATCGCAATGCGATCCA-
1 AA-AATCGCAATGCGATTCAG
* * *
1948190 AAGA-CGCAACGCGATTTAG
1 AAAATCGCAATGCGATTCAG
* * **
1948209 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAATG-CGATTCAG
* *
1948229 AAAATCGCAACGGTCGA--AAG
1 AAAATCGCAA-TG-CGATTCAG
*
1948249 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAATGCGA--TT-CAG
* *
1948271 AGAATCGCAATGCGATCCA-
1 AAAATCGCAATGCGATTCAG
* *
1948290 AAGAATTGCAATGCGATCCA-
1 AA-AATCGCAATGCGATTCAG
*
1948310 AAGAATCGCAATGCGATCCA-
1 AA-AATCGCAATGCGATTCAG
*
1948330 AAGAATCGCAATGCGATCCA-
1 AA-AATCGCAATGCGATTCAG
**
1948350 AAGAATCGCAATGCGAGCCA-
1 AA-AATCGCAATGCGATTCAG
1948370 AAGAATCGCAATGCGATTC-G
1 AA-AATCGCAATGCGATTCAG
* *
1948390 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAATGCGATTCAG
* *
1948411 AAAATCGCAACGCGATTGAG
1 AAAATCGCAATGCGATTCAG
* *
1948431 AAAATCGCAACGCGATTGAG
1 AAAATCGCAATGCGATTCAG
1948451 AAAATCGCAATGCGATTC
1 AAAATCGCAATGCGATTC
1948469 CAAGAATCGC
Statistics
Matches: 339, Mismatches: 39, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
18 18 0.05
19 27 0.08
20 251 0.74
21 15 0.04
22 26 0.08
23 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (20 bp):
AAAATCGCAATGCGATTCAG
Found at i:1948203 original size:18 final size:20
Alignment explanation
Indices: 1948131--1948480 Score: 281
Period size: 20 Copynumber: 17.4 Consensus size: 20
1948121 GTCGAAAGAA
* *
1948131 AATCGCAACGCGATCTTCCAAG
1 AATCGCAATGCGATC--CAAAG
1948153 AATCGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
1948173 AATCGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
* **
1948193 -A-CGCAACGCGATTTAGAA-
1 AATCGCAATGCGATCCA-AAG
* **
1948211 AATCGCAA--CGTTGAAAAG
1 AATCGCAATGCGATCCAAAG
* *
1948229 AAAATCGCAA--CGGTCGAAAG
1 --AATCGCAATGCGATCCAAAG
* *
1948249 AAAATCGCAACGCGATCTTCCAAG
1 --AATCGCAATGCGATC--CAAAG
1948273 AATCGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
*
1948293 AATTGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
1948313 AATCGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
1948333 AATCGCAATGCGATCCAAAG
1 AATCGCAATGCGATCCAAAG
*
1948353 AATCGCAATGCGAGCCAAAG
1 AATCGCAATGCGATCCAAAG
* *
1948373 AATCGCAATGCGATTCGAAG
1 AATCGCAATGCGATCCAAAG
* **
1948393 AATCGCAACGCGATTGAGAA-
1 AATCGCAATGCGATCCA-AAG
* **
1948413 AATCGCAACGCGATTGAGAA-
1 AATCGCAATGCGATCCA-AAG
* **
1948433 AATCGCAACGCGATTGAGAA-
1 AATCGCAATGCGATCCA-AAG
1948453 AATCGCAATGCGATTCC-AAG
1 AATCGCAATGCGA-TCCAAAG
1948473 AATCGCAA
1 AATCGCAA
1948481 AACGGCAAAA
Statistics
Matches: 287, Mismatches: 28, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.01
18 15 0.05
19 6 0.02
20 226 0.79
21 3 0.01
22 32 0.11
24 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (20 bp):
AATCGCAATGCGATCCAAAG
Found at i:1948287 original size:120 final size:121
Alignment explanation
Indices: 1948052--1948326 Score: 473
Period size: 120 Copynumber: 2.3 Consensus size: 121
1948042 TGACCAACAA
* * *
1948052 AATCGCAACGCGATATCAAA-ATCGCAATGCGATTTAGAAAATCGCAACGTTGAAAAGAAAATCG
1 AATCGCAATGCGAT-CCAAAGATCGCAACGCGATTTAGAAAATCGCAACGTTGAAAAGAAAATCG
1948116 CAACGGTCGAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
65 CAACGGTCGAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
1948173 AATCGCAATGCGATCCAAAGA-CGCAACGCGATTTAGAAAATCGCAACGTTGAAAAGAAAATCGC
1 AATCGCAATGCGATCCAAAGATCGCAACGCGATTTAGAAAATCGCAACGTTGAAAAGAAAATCGC
1948237 AACGGTCGAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
66 AACGGTCGAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
* *
1948293 AATTGCAATGCGATCCAAAGAATCGCAATGCGAT
1 AATCGCAATGCGATCCAAAG-ATCGCAACGCGAT
1948327 CCAAAGAATC
Statistics
Matches: 146, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
120 121 0.83
121 15 0.10
122 10 0.07
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (121 bp):
AATCGCAATGCGATCCAAAGATCGCAACGCGATTTAGAAAATCGCAACGTTGAAAAGAAAATCGC
AACGGTCGAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
Found at i:1948602 original size:6 final size:6
Alignment explanation
Indices: 1948591--1948617 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1948581 GACACGTATT
1948591 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
1948618 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1949383 original size:6 final size:6
Alignment explanation
Indices: 1949372--1949482 Score: 222
Period size: 6 Copynumber: 18.5 Consensus size: 6
1949362 TCTCGTCTCG
1949372 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1949420 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1949468 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
1949483 AATACGTGTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 105 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1949618 original size:20 final size:20
Alignment explanation
Indices: 1949593--1949722 Score: 129
Period size: 20 Copynumber: 6.4 Consensus size: 20
1949583 TTTTGCCGTT
1949593 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
1949613 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
1949633 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
1949653 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* * *
1949673 TTGCAATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
1949693 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
1949715 TTGCGATT
1 TTGCGATT
1949723 TTCTTTTGAC
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.03
20 68 0.77
21 4 0.05
22 13 0.15
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:1949640 original size:40 final size:40
Alignment explanation
Indices: 1949593--1949700 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
1949583 TTTTGCCGTT
1949593 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
1949633 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* * *
1949673 TTGCAATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
1949701 CTTGGAAGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:1949690 original size:60 final size:62
Alignment explanation
Indices: 1949606--1949726 Score: 185
Period size: 60 Copynumber: 2.0 Consensus size: 62
1949596 CGATTCTTGG
*
1949606 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCAATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
* *
1949666 AATCGCGTTGCAATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 AATCGCGTTGCAATT-TTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCT
1949727 TTTGACCGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
60 34 0.62
61 3 0.05
62 18 0.33
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCAATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
Found at i:1949762 original size:20 final size:20
Alignment explanation
Indices: 1949715--1949766 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1949705 GAAGATCGCG
* * *
1949715 TTGCGATTTTCTTTTGACCG
1 TTGCGATTTTCTTTTCAACA
*
1949735 TTGTGATTTTCTTTTCAACA
1 TTGCGATTTTCTTTTCAACA
1949755 TTGCGATTTTCT
1 TTGCGATTTTCT
1949767 AAATCGCGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.54
Consensus pattern (20 bp):
TTGCGATTTTCTTTTCAACA
Found at i:1958424 original size:12 final size:12
Alignment explanation
Indices: 1958407--1958448 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
1958397 TTCTTGTTCT
1958407 TTCTCCTTCTTC
1 TTCTCCTTCTTC
1958419 TTCTCCTT-TTC
1 TTCTCCTTCTTC
1958430 TTCTACCTTTACTTC
1 TTCT-CC-TT-CTTC
1958445 TTCT
1 TTCT
1958449 TCATAACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 10 0.38
13 2 0.08
15 7 0.27
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCTCCTTCTTC
Found at i:1958437 original size:96 final size:96
Alignment explanation
Indices: 1958273--1958466 Score: 309
Period size: 96 Copynumber: 2.0 Consensus size: 96
1958263 CCACTAGCTC
** * *
1958273 CGGTCCCTATAGAGTGAAAAGTCCTGGCTTCTTGTTCTTTCTTCTTCTTTTCCTTCTTTTCTTCT
1 CGGTCCCTATAGAGTGAAAAGTCCTCACTTCTTGTTCTTTCTCCTTCTTTTCCTCCTTTTCTTCT
1958338 ACCTTTACCTCTTCATCAAAACTGTTAGTGT
66 ACCTTTACCTCTTCATCAAAACTGTTAGTGT
1958369 CGGTCCCTATAGAGTGAAAAGTCCTCACTTCTTGTTCTTTCTCCTTCTTCTT-CTCCTTTTCTTC
1 CGGTCCCTATAGAGTGAAAAGTCCTCACTTCTTGTTCTTTCTCCTTCTT-TTCCTCCTTTTCTTC
* * *
1958433 TACCTTTACTTCTTCTTCATAACTGTTAGTGT
65 TACCTTTACCTCTTCATCAAAACTGTTAGTGT
1958465 CG
1 CG
1958467 ATCTCCTCAA
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 88 0.98
97 2 0.02
ACGTcount: A:0.15, C:0.27, G:0.12, T:0.46
Consensus pattern (96 bp):
CGGTCCCTATAGAGTGAAAAGTCCTCACTTCTTGTTCTTTCTCCTTCTTTTCCTCCTTTTCTTCT
ACCTTTACCTCTTCATCAAAACTGTTAGTGT
Found at i:1964202 original size:25 final size:27
Alignment explanation
Indices: 1964173--1964229 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
1964163 CTAAGAGTTT
1964173 ATTTAATT-ATAAT-TTTTTAAATAAG
1 ATTTAATTAATAATATTTTTAAATAAG
*
1964198 ATTTAATTGAAATATTATTTTTAAATAAG
1 ATTTAATT--AATAATATTTTTAAATAAG
1964227 ATT
1 ATT
1964230 ATCGTATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (27 bp):
ATTTAATTAATAATATTTTTAAATAAG
Found at i:1965361 original size:2 final size:2
Alignment explanation
Indices: 1965350--1966281 Score: 218
Period size: 2 Copynumber: 462.0 Consensus size: 2
1965340 TTGAAACAAT
* *
1965350 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
1965392 TA -A TA -A TA TA -A AA AA TA TA TA TA GTT TA TA CA TA GTA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA -TA
* * * *
1965432 TA TA -A GTA TA AA CTA TA TGG TT TA TA TA TA GTT TA TA TA TA -A
1 TA TA TA -TA TA TA -TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA
* *
1965474 T- TCA TA TA TA GTT TA TA TA TA TA GTA TA TA TA T- TT TA TA TA
1 TA T-A TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
1965515 TA GTA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA TA CTA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * * * *
1965556 TA GA GA CTA TA TA GTT TA TA TA TA TA TA -A TA CA TA TA -A TT TG
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * * * *
1965598 TA TA TA -A GG TA AA TA GTT TA TA TT TA TA TA TA TA CTA TG TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
1965641 -A T- TA TA AA T- TA -A TA TA TA GTT TA TA TT TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
1965680 GTT TA TA TT TA TA TT TA TA TA -A T- TA TA TA GTT TA TA TT TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
1965722 TA TA TA -A TT TA TA TA TA GTT TA TA TT TA TA TA TA TA -A T- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1965762 TA AA T- TA TA TA TA CTA TA TA TA AA T- TA TA TA GTT TA T- TA -A
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
1965802 TA TA AA CTA TA TA TA GA CTA TA TA GTT TA TA CT- TA TA TA CTA CTA
1 TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA -TA -TA
* * * *
1965847 TA TA TA AA CTA TA TA GTT TA TA TA TA TA TA TA GTA TA TA TGG TT
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA T-A TA
** * * * *
1965891 TA GGG T- TA -A TT TA TA TA -A T- TA TA TA TA GTT TA TA CA TA GTT
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * * *
1965932 TA TA TA TA AA CTA TA TA GTT TA TA CA CA GTA GTA TA TA -A AA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA -TA TA TA TA TA TA
* * * * *
1965975 TA TA TA AA CCA TA TA TA T- TA TA TA TA AA CTA AA TA AA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
1966017 TA GTT TA CA TA TGA -A CTA TA TA TA TA TA TA AA CTA T- TA AA CCA
1 TA -TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * * *
1966060 TA TA AA T- TA TA TA TA AA CTA TA TA TGA -A CTA TA TA TA AA CTG
1 TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA -TA TA TA TA TA -TA
* * * * *
1966102 TA TA GTT TA TA TT TA TA TA -A TA TA TA TA CA TA TA TG TA AA CT-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
1966144 TA TA TA TA CT- TA TA TA TA TA TA TA T- TA TA TA TA -A TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1966183 GTA TA TA AA TA TA AA TA TA -A GTA TA TA AA TA TA AA TA TA AA TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
1966226 TA TA TA TA TA TA -A TA TG TA TA CA T- TA TA CT- TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
1966266 TA -A TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA
1966282 AGTATAAAGT
Statistics
Matches: 671, Mismatches: 154, Indels: 210
0.65 0.15 0.20
Matches are distributed among these distances:
1 50 0.07
2 552 0.82
3 69 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1965421 original size:11 final size:11
Alignment explanation
Indices: 1965407--1965746 Score: 96
Period size: 11 Copynumber: 31.5 Consensus size: 11
1965397 ATATAAAAAA
1965407 TATATATAGTT
1 TATATATAGTT
* *
1965418 TATACATAGTAG
1 TATATATAGT-T
1965430 TATATA-AGTAT
1 TATATATAGT-T
* *
1965441 AAACTATATGGTT
1 -TA-TATATAGTT
1965454 TATATATAGTT
1 TATATATAGTT
*
1965465 TATATATAATT
1 TATATATAGTT
*
1965476 CATATATAGTT
1 TATATATAGTT
*
1965487 TATATATA-TAG
1 TATATATAGT-T
*
1965498 TATATATATTT
1 TATATATAGTT
*
1965509 TATATATAGTA
1 TATATATAGTT
* *
1965520 TATA-ATAATA
1 TATATATAGTT
* ***
1965530 TAAATATAAAC
1 TATATATAGTT
*
1965541 TATATATA--C
1 TATATATAGTT
*
1965550 TATATATAG-A
1 TATATATAGTT
*
1965560 GACTATATAGTT
1 TA-TATATAGTT
1965572 TATATATA-TAT
1 TATATATAGT-T
* *
1965583 AATACATATAATT
1 --TATATATAGTT
* *
1965596 TGTATATAAG-G
1 TATATAT-AGTT
1965607 TA-A-ATAGTT
1 TATATATAGTT
* *
1965616 TATATTTA-TA
1 TATATATAGTT
*
1965626 TATATACTA-TG
1 TATATA-TAGTT
*
1965637 TATAATTATAAATT
1 TAT-A-TAT-AGTT
*
1965651 AATATATAGTT
1 TATATATAGTT
*
1965662 TATAT-T-TTT
1 TATATATAGTT
1965671 ATATATATAGTT
1 -TATATATAGTT
1965683 TATATTTATA-TT
1 TATA--TATAGTT
1965695 TATATA-A---
1 TATATATAGTT
1965702 T-TATATAGTT
1 TATATATAGTT
*
1965712 TATAT-T--TA
1 TATATATAGTT
*
1965720 TATATATAATT
1 TATATATAGTT
1965731 TATATATAGTT
1 TATATATAGTT
1965742 TATAT
1 TATAT
1965747 TTATATATAT
Statistics
Matches: 248, Mismatches: 45, Indels: 72
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.02
7 2 0.01
8 8 0.03
9 17 0.07
10 29 0.12
11 138 0.56
12 23 0.09
13 21 0.08
14 6 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (11 bp):
TATATATAGTT
Found at i:1965488 original size:33 final size:33
Alignment explanation
Indices: 1965408--1965883 Score: 127
Period size: 33 Copynumber: 14.9 Consensus size: 33
1965398 TATAAAAAAT
* **
1965408 ATATATAGTTTATACATAGTAGTATATA-AGTATAA
1 ATATATAGTTTATATATA-TAGTATATATA--ATTC
* *
1965443 ACTATATGGTTTATATATAGT-TTATATATAATTC
1 A-TATATAGTTTATATATA-TAGTATATATAATTC
* *
1965477 ATATATAGTTTATATATATAGTATATATATTTT
1 ATATATAGTTTATATATATAGTATATATAATTC
* * *
1965510 ATATATAGTATATA-ATAATA-TAAATATAA-AC
1 ATATATAGTTTATATAT-ATAGTATATATAATTC
* * * *
1965541 -TATATA-TACTATATATAGAG-ACTATATAGTTT
1 ATATATAGT-TTATATATATAGTA-TATATAATTC
* * *
1965573 ATATATA-TATAATACATATAATTTGTATATAAGGTAAAT-
1 ATATATAGT-T--TATATAT-A-TAGTATAT-A--TAATTC
* * *
1965612 AGTTTATA-TTTATATATATACTATGTATAATT-
1 A-TATATAGTTTATATATATAGTATATATAATTC
* ** *
1965644 ATA-A-A--TTA-ATATATAGTTTATATTTTTAT
1 ATATATAGTTTATATATATAGTATATATAATT-C
* *
1965673 ATATATAGTTTATATTTATA-TTTATATAA-T-
1 ATATATAGTTTATATATATAGTATATATAATTC
*
1965703 -TATATAGTTTATAT-T-TA-TATATATAATTT
1 ATATATAGTTTATATATATAGTATATATAATTC
1965732 ATATATAGTTTATAT-T-TA-TATATATAATT-
1 ATATATAGTTTATATATATAGTATATATAATTC
1965761 ATA-A-A--TTATATATACTA-TATATA-AA-T-
1 ATATATAGTTTATATATA-TAGTATATATAATTC
* *
1965787 -TATATAGTTTATTAATATAAACTATATATAGA--C
1 ATATATAGTTTA-T-ATATATAGTATATATA-ATTC
* **
1965820 -TATATAGTTTATACTTATATACTACTATAT-ATAA
1 ATATATAGTTTATA--TATATAGTA-TATATAATTC
1965854 ACTATATAGTTTATATATATA-TATAGTATA
1 A-TATATAGTTTATATATATAGTATA-TATA
1965884 TATGGTTTAG
Statistics
Matches: 345, Mismatches: 45, Indels: 103
0.70 0.09 0.21
Matches are distributed among these distances:
25 8 0.02
26 3 0.01
27 28 0.08
28 14 0.04
29 25 0.07
30 45 0.13
31 21 0.06
32 21 0.06
33 85 0.25
34 21 0.06
35 18 0.05
36 33 0.10
37 10 0.03
38 2 0.01
39 2 0.01
40 9 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (33 bp):
ATATATAGTTTATATATATAGTATATATAATTC
Found at i:1965664 original size:19 final size:19
Alignment explanation
Indices: 1965616--1965816 Score: 106
Period size: 19 Copynumber: 10.1 Consensus size: 19
1965606 GTAAATAGTT
* *
1965616 TATATTTATATATATACTATG
1 TATATTTATAAAT-TA-TATA
*
1965637 TATAATTATAAATTA-ATA
1 TATATTTATAAATTATATA
**
1965655 TATAGTTTATATTTTTATATA
1 TATA-TTTATA-AATTATATA
*
1965676 TATAGTTTAT-ATTTATATTTA
1 TATA-TTTATAAATTATA--TA
* *
1965697 TATAATTATATAGTT-TATA
1 TATATTTATA-AATTATATA
* *
1965716 TTTATATATATAATT-TATA
1 TATATTTATA-AATTATATA
*
1965735 TATAGTTTAT-ATTTATATA
1 TATA-TTTATAAATTATATA
*
1965754 TATAATTATAAATTATATA
1 TATATTTATAAATTATATA
*
1965773 TACTATATATAAATTATATA
1 TA-TATTTATAAATTATATA
* *
1965793 GTTTATTAATATAAACTATATA
1 -TATATT--TATAAATTATATA
1965815 TA
1 TA
1965817 GACTATATAG
Statistics
Matches: 142, Mismatches: 24, Indels: 28
0.73 0.12 0.14
Matches are distributed among these distances:
18 13 0.09
19 49 0.35
20 31 0.22
21 34 0.24
22 15 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (19 bp):
TATATTTATAAATTATATA
Found at i:1965781 original size:11 final size:11
Alignment explanation
Indices: 1965767--1965886 Score: 77
Period size: 11 Copynumber: 10.6 Consensus size: 11
1965757 AATTATAAAT
1965767 TATATATACTA
1 TATATATACTA
* *
1965778 TATATAAATTA
1 TATATATACTA
* *
1965789 TATAGTTTATTA
1 TATA-TATACTA
*
1965801 -ATATAAACTA
1 TATATATACTA
*
1965811 TATATAGACTA
1 TATATATACTA
1965822 TATAGTTTATACT-
1 TATA---TATACTA
1965835 TATATACTACTA
1 TATATA-TACTA
*
1965847 TATATAAACTA
1 TATATATACTA
*
1965858 TATAGTTTA-TA
1 TATA-TATACTA
1965869 TATATATA-TA
1 TATATATACTA
1965879 GTATATAT
1 -TATATAT
1965887 GGTTTAGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
10 11 0.13
11 54 0.62
12 13 0.15
13 4 0.05
14 5 0.06
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (11 bp):
TATATATACTA
Found at i:1965950 original size:31 final size:30
Alignment explanation
Indices: 1965902--1965978 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
1965892 AGGGTTAATT
* *
1965902 TATATAATTATATATAGTTTATACATAGTTTA-
1 TATATAA-AATATATAGTTTATACACAG--TAG
*
1965934 TATATAAACTATATAGTTTATACACAGTAG
1 TATATAAAATATATAGTTTATACACAGTAG
1965964 TATATAAAATATATA
1 TATATAAAATATATA
1965979 TAAACCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 14 0.35
31 17 0.43
32 7 0.17
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (30 bp):
TATATAAAATATATAGTTTATACACAGTAG
Found at i:1966292 original size:7 final size:7
Alignment explanation
Indices: 1966155--1966287 Score: 109
Period size: 7 Copynumber: 18.7 Consensus size: 7
1966145 ATATATACTT
1966155 ATATATA
1 ATATATA
*
1966162 TATATATT
1 -ATATATA
1966170 ATATATA
1 ATATATA
1966177 ATATA-A
1 ATATATA
*
1966183 GTATATA
1 ATATATA
1966190 A-ATATA
1 ATATATA
1966196 A-ATATA
1 ATATATA
1966202 AGTATATA
1 A-TATATA
1966210 A-ATATA
1 ATATATA
1966216 A-ATATAA
1 ATATAT-A
1966223 ATATATA
1 ATATATA
1966230 TATATATA
1 -ATATATA
1966238 ATATGTATA
1 ATA--TATA
1966247 CAT-TATA
1 -ATATATA
*
1966254 CT-TATAA
1 ATATAT-A
1966261 ATATATA
1 ATATATA
1966268 ATATATA
1 ATATATA
1966275 ATATATA
1 ATATATA
1966282 AGTATA
1 A-TATA
1966288 AAGTACATAT
Statistics
Matches: 107, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
6 31 0.29
7 40 0.37
8 30 0.28
9 4 0.04
10 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (7 bp):
ATATATA
Found at i:1967002 original size:16 final size:16
Alignment explanation
Indices: 1966977--1967013 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1966967 GAATCCTTCA
*
1966977 CTTCTCGACTTCTCAT
1 CTTCTCGACTCCTCAT
*
1966993 CTTCTTGACTCCTCAT
1 CTTCTCGACTCCTCAT
1967009 CTTCT
1 CTTCT
1967014 ATAGTTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.38, G:0.05, T:0.46
Consensus pattern (16 bp):
CTTCTCGACTCCTCAT
Found at i:1967430 original size:12 final size:12
Alignment explanation
Indices: 1967415--1967483 Score: 62
Period size: 11 Copynumber: 6.3 Consensus size: 12
1967405 ATATTTTATA
1967415 TTTTATTATTTG
1 TTTTATTATTTG
*
1967427 TTTTA-T-GTT-
1 TTTTATTATTTG
1967436 TTTTATTATTTG
1 TTTTATTATTTG
*
1967448 TTTTA-T-GTT-
1 TTTTATTATTTG
1967457 TTTTATTATTTG
1 TTTTATTATTTG
*
1967469 TTTT-TTATTTC
1 TTTTATTATTTG
1967480 TTTT
1 TTTT
1967484 CGTTTTCTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
9 10 0.22
10 6 0.13
11 16 0.35
12 14 0.30
ACGTcount: A:0.13, C:0.01, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTATTATTTG
Found at i:1967439 original size:21 final size:21
Alignment explanation
Indices: 1967415--1967472 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
1967405 ATATTTTATA
1967415 TTTTATTATTTGTTTTATGTT
1 TTTTATTATTTGTTTTATGTT
1967436 TTTTATTATTTGTTTTATGTT
1 TTTTATTATTTGTTTTATGTT
1967457 TTTTATTATTTGTTTT
1 TTTTATTATTTGTTTT
1967473 TTATTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTATTATTTGTTTTATGTT
Found at i:1967470 original size:14 final size:14
Alignment explanation
Indices: 1967415--1967477 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
1967405 ATATTTTATA
1967415 TTTTATTATTTGTT
1 TTTTATTATTTGTT
* * * *
1967429 TTATGTTTTTTATT
1 TTTTATTATTTGTT
* *
1967443 ATTTGTT-TTATGTT
1 TTTTATTATT-TGTT
1967457 TTTTATTATTTGTT
1 TTTTATTATTTGTT
1967471 TTTTATT
1 TTTTATT
1967478 TCTTTTCGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
13 2 0.05
14 34 0.89
15 2 0.05
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (14 bp):
TTTTATTATTTGTT
Found at i:1968402 original size:30 final size:30
Alignment explanation
Indices: 1968336--1968404 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1968326 CTAATTATTT
*
1968336 TTTGTTTTTTATTTTTTATTTTTTATTTTA
1 TTTGTTTTTAATTTTTTATTTTTTATTTTA
* *
1968366 TATGTTTTTAATTTTTT-TGTTTTCT-TTTTC
1 TTTGTTTTTAATTTTTTAT-TTTT-TATTTTA
1968396 TTTGTTTTT
1 TTTGTTTTT
1968405 GTATAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.94
31 1 0.03
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (30 bp):
TTTGTTTTTAATTTTTTATTTTTTATTTTA
Found at i:1968535 original size:7 final size:7
Alignment explanation
Indices: 1968525--1968595 Score: 83
Period size: 8 Copynumber: 9.7 Consensus size: 7
1968515 CTGTTTTTTT
1968525 TTTTTCA
1 TTTTTCA
1968532 TTTTTTCA
1 -TTTTTCA
1968540 TTTTTTCA
1 -TTTTTCA
1968548 TTTTTTCA
1 -TTTTTCA
1968556 TTTTTTCA
1 -TTTTTCA
1968564 TTTTTCA
1 TTTTTCA
1968571 TTTTTCA
1 TTTTTCA
1968578 TTTTT--
1 TTTTTCA
1968583 TTGTTTCA
1 TT-TTTCA
1968591 TTTTT
1 TTTTT
1968596 TTGTTTTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 22 0.37
8 33 0.55
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:1968535 original size:8 final size:8
Alignment explanation
Indices: 1968524--1968583 Score: 106
Period size: 8 Copynumber: 7.8 Consensus size: 8
1968514 TCTGTTTTTT
1968524 TTTTTTCA
1 TTTTTTCA
1968532 TTTTTTCA
1 TTTTTTCA
1968540 TTTTTTCA
1 TTTTTTCA
1968548 TTTTTTCA
1 TTTTTTCA
1968556 TTTTTTCA
1 TTTTTTCA
1968564 -TTTTTCA
1 TTTTTTCA
1968571 -TTTTTCA
1 TTTTTTCA
1968578 TTTTTT
1 TTTTTT
1968584 TGTTTCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 14 0.27
8 37 0.73
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1968597 original size:16 final size:15
Alignment explanation
Indices: 1968518--1968614 Score: 78
Period size: 16 Copynumber: 6.6 Consensus size: 15
1968508 TATTTTTCTG
1968518 TTTTTTTTTTTTCAT
1 TTTTTTTTTTTTCAT
*
1968533 TTTTTCATTTTTTCAT
1 TTTTT-TTTTTTTCAT
*
1968549 TTTTTCATTTTTTCA-
1 TTTTT-TTTTTTTCAT
**
1968564 TTTTTCATTTTTCA-
1 TTTTTTTTTTTTCAT
*
1968578 -TTTTTTTGTTTCA-
1 TTTTTTTTTTTTCAT
*
1968591 TTTTTTTGTTTT-AT
1 TTTTTTTTTTTTCAT
1968605 TTTTTGTTTT
1 TTTTT-TTTT
1968615 ATTTGTTGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
13 11 0.16
14 21 0.30
15 13 0.19
16 24 0.35
ACGTcount: A:0.09, C:0.08, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTTTTCAT
Found at i:1968607 original size:11 final size:12
Alignment explanation
Indices: 1968579--1968618 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
1968569 CATTTTTCAT
*
1968579 TTTTTTGTTTCA
1 TTTTTTGTTTTA
1968591 TTTTTTTGTTTTA
1 -TTTTTTGTTTTA
1968604 TTTTTTGTTTTA
1 TTTTTTGTTTTA
1968616 TTT
1 TTT
1968619 GTTGATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.82
Consensus pattern (12 bp):
TTTTTTGTTTTA
Found at i:1968609 original size:7 final size:7
Alignment explanation
Indices: 1968330--1968614 Score: 109
Period size: 7 Copynumber: 39.0 Consensus size: 7
1968320 TATTTGCTAA
1968330 TTATTTT
1 TTATTTT
*
1968337 TTGTTTT
1 TTATTTT
1968344 TTATTTT
1 TTATTTT
1968351 TTATTTT
1 TTATTTT
1968358 TTATTTT
1 TTATTTT
*
1968365 ATATGTTT
1 TTAT-TTT
1968373 TTAATTTT
1 TT-ATTTT
1968381 TT-TGTTT
1 TTAT-TTT
*
1968388 TCTTTTTCT
1 T-TATTT-T
*
1968397 TTGTTTT
1 TTATTTT
*
1968404 TGTATAAATT
1 T-TAT--TTT
*
1968414 ATATGTTT
1 TTAT-TTT
1968422 TTATTTT
1 TTATTTT
* *
1968429 CTGTTTT
1 TTATTTT
*
1968436 CTATTTT
1 TTATTTT
1968443 TCTA--TT
1 T-TATTTT
1968449 TTATTTT
1 TTATTTT
1968456 TCTATTTTCT
1 T-TA-TTT-T
1968466 TTATTTGT
1 TTATTT-T
*
1968474 TT-TTAT
1 TTATTTT
*
1968480 TTGTTTT
1 TTATTTT
*
1968487 CTA-TTT
1 TTATTTT
***
1968493 TTATAAG
1 TTATTTT
** *
1968500 TTAAATC
1 TTATTTT
1968507 TTATTTT
1 TTATTTT
*
1968514 TCTGTTTT
1 T-TATTTT
1968522 TT-TTTT
1 TTATTTT
1968528 TTCATTTT
1 TT-ATTTT
1968536 TTCATTTT
1 TT-ATTTT
1968544 TTCATTTT
1 TT-ATTTT
1968552 TTCATTTT
1 TT-ATTTT
1968560 TTCATTTT
1 TT-ATTTT
*
1968568 TCATTTT
1 TTATTTT
*
1968575 TCATTTT
1 TTATTTT
*
1968582 TT-TGTT
1 TTATTTT
*
1968588 TCATTTT
1 TTATTTT
*
1968595 TT-TGTT
1 TTATTTT
1968601 TTATTTT
1 TTATTTT
*
1968608 TTGTTTT
1 TTATTTT
1968615 ATTTGTTGAT
Statistics
Matches: 216, Mismatches: 40, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
5 2 0.01
6 27 0.12
7 94 0.44
8 76 0.35
9 13 0.06
10 4 0.02
ACGTcount: A:0.13, C:0.06, G:0.05, T:0.75
Consensus pattern (7 bp):
TTATTTT
Found at i:1968691 original size:17 final size:17
Alignment explanation
Indices: 1968659--1968709 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
1968649 GAATTAGCTA
*
1968659 ATTTTTATATTATTTTCT
1 ATTTTTAT-TTGTTTTCT
1968677 ATTTTTATTTGTTTTCT
1 ATTTTTATTTGTTTTCT
*
1968694 GTTTTCTATTTGTTTT
1 ATTTT-TATTTGTTTT
1968710 GTGTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTGTTTTCT
Found at i:1968721 original size:23 final size:24
Alignment explanation
Indices: 1968666--1968727 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
1968656 CTAATTTTTA
* *
1968666 TATTATTTTCTATTTTTATTTGTTT
1 TATT-TTTTCTATTTGTATTTGTGT
* *
1968691 TCTGTTTTCTATTTGT-TTTGTGT
1 TATTTTTTCTATTTGTATTTGTGT
*
1968714 TATTTTTTTTATTT
1 TATTTTTTCTATTT
1968728 TTTGTTTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 17 0.57
24 11 0.37
25 2 0.07
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (24 bp):
TATTTTTTCTATTTGTATTTGTGT
Found at i:1970177 original size:2 final size:2
Alignment explanation
Indices: 1970170--1970202 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1970160 TTTGTTAATT
1970170 TA TA TA TA TA TA T- 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
1970203 AAATTCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1970686 original size:64 final size:63
Alignment explanation
Indices: 1970559--1970710 Score: 227
Period size: 64 Copynumber: 2.4 Consensus size: 63
1970549 CACTCACCAT
* *
1970559 ATCGAATGCATTTCATGCATCGATGCACTACCATGCATCGATGCACTCAAGTTTTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATGCACTCAAGTTTTATGAAAAC
* *
1970622 ATCGAATGTATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-TG-AAA
1 ATCGAATGCATTTTATGCATCGATGCAC-GACCATGCATCGATGCACTCAAG-TT-TTATGAAAA
1970685 C
63 C
1970686 ATCGAATGCATTTTATGCATCGATG
1 ATCGAATGCATTTTATGCATCGATG
1970711 TACTCTTAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
63 26 0.32
64 49 0.60
65 4 0.05
66 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATGCACTCAAGTTTTATGAAAAC
Found at i:1976547 original size:44 final size:44
Alignment explanation
Indices: 1976465--1976558 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 44
1976455 TGCTTAATGT
*
1976465 ATCGATACACTGAATAGTGCATCGATGCATCCCTTTGAATGTGC
1 ATCGATACACTGAAGAGTGCATCGATGCATCCCTTTGAATGTGC
1976509 ATCGATACATCATGAAGA-TGCATCGATGCA-CTCC-TTGAATGTGC
1 ATCGATACA-C-TGAAGAGTGCATCGATGCATC-CCTTTGAATGTGC
1976553 ATCGAT
1 ATCGAT
1976559 GCACAGGGCC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
44 26 0.57
45 15 0.33
46 5 0.11
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
ATCGATACACTGAAGAGTGCATCGATGCATCCCTTTGAATGTGC
Found at i:1976562 original size:23 final size:22
Alignment explanation
Indices: 1976475--1976561 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 22
1976465 ATCGATACAC
1976475 TGAATAGTGCATCGATGCATCCCTT
1 TGAAT-GTGCATCGATGCAT-CC-T
* *
1976500 TGAATGTGCATCGATACAT-CA
1 TGAATGTGCATCGATGCATCCT
1976521 TGAA-GATGCATCGATGCACTCCT
1 TGAATG-TGCATCGATGCA-TCCT
1976544 TGAATGTGCATCGATGCA
1 TGAATGTGCATCGATGCA
1976562 CAGGGCCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.02
21 15 0.28
22 2 0.04
23 17 0.31
24 14 0.26
25 5 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATGTGCATCGATGCATCCT
Found at i:1978243 original size:63 final size:64
Alignment explanation
Indices: 1978173--1978329 Score: 239
Period size: 64 Copynumber: 2.5 Consensus size: 64
1978163 GCACTCACCA
*
1978173 TATCGAATGCATTTCATGCATCGATGCACTACCATGCATCGATGCACTCAAG-TT-TTATGAAAC
1 TATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAAGCTTGTT-TGAAAC
* *
1978236 TATCGAATGCATTTTATGCATCGATGCACAAACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
1 TATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCAAGCTTGTTTGAAAC
*
1978301 -ATCAAATGCATTTTATGCATCGATGCACT
1 TATCGAATGCATTTTATGCATCGATGCACT
1978330 CTGTAATATC
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
63 28 0.33
64 48 0.56
65 8 0.09
66 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (64 bp):
TATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAAGCTTGTTTGAAAC
Found at i:1979053 original size:18 final size:18
Alignment explanation
Indices: 1979030--1979102 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
1979020 AGGGATTATC
*
1979030 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1979048 AGTGGTTCTTCGGAATAAT
1 AGTGGTCCTTCGGGA-CAT
1979067 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
1979086 AGTTGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1979103 AATATTCAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 28 0.62
19 4 0.09
20 13 0.29
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1985194 original size:18 final size:18
Alignment explanation
Indices: 1985171--1985244 Score: 94
Period size: 18 Copynumber: 4.0 Consensus size: 18
1985161 GAGGGATTAT
*
1985171 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCAGGACA
* *
1985189 TAGTGGTTCTTCAGAACAA
1 TAGTGGTCCTTCAGGAC-A
1985208 TCAGTGGTCCTTCAGGACA
1 T-AGTGGTCCTTCAGGACA
*
1985227 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCAGGACA
1985245 AATATTCAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 30 0.62
19 4 0.08
20 14 0.29
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (18 bp):
TAGTGGTCCTTCAGGACA
Found at i:1994438 original size:45 final size:45
Alignment explanation
Indices: 1994387--1994505 Score: 179
Period size: 45 Copynumber: 2.6 Consensus size: 45
1994377 CACTCACCAT
*
1994387 ATCGAATGCATTTCATGCATCGATGCACTCAAG-TT-TTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACTCAAGCTTGTT-TG-AAAC
* *
1994432 ATCGAATGCATTTTATACATCGATGCACTCAGGCTTGTTTGAAAC
1 ATCGAATGCATTTTATGCATCGATGCACTCAAGCTTGTTTGAAAC
1994477 ATCGAATGCATTTTATGCATCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACT
1994506 AAGGGTCCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
45 62 0.91
46 4 0.06
47 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
ATCGAATGCATTTTATGCATCGATGCACTCAAGCTTGTTTGAAAC
Found at i:1996153 original size:22 final size:22
Alignment explanation
Indices: 1996094--1996161 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
1996084 GACTTTACCA
*
1996094 TTGATTGG-ATTGGTATGAATG
1 TTGATTGGAATTGGTCTGAATG
* * *
1996115 CTGACTGGACTTGGTCTGAATG
1 TTGATTGGAATTGGTCTGAATG
*
1996137 TTGATTGGAATTTGTCTGAATG
1 TTGATTGGAATTGGTCTGAATG
1996159 TTG
1 TTG
1996162 TTAGAAGTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 6 0.16
22 32 0.84
ACGTcount: A:0.21, C:0.07, G:0.31, T:0.41
Consensus pattern (22 bp):
TTGATTGGAATTGGTCTGAATG
Found at i:1997050 original size:16 final size:16
Alignment explanation
Indices: 1997029--1997060 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1997019 TTATAACTTA
*
1997029 CAAGTCAGGTAAATAT
1 CAAGTCAGATAAATAT
1997045 CAAGTCAGATAAATAT
1 CAAGTCAGATAAATAT
1997061 TAGTTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (16 bp):
CAAGTCAGATAAATAT
Found at i:1997966 original size:16 final size:17
Alignment explanation
Indices: 1997945--1997979 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1997935 CTAATATTTA
1997945 TTATTAAAATT-TATAT
1 TTATTAAAATTATATAT
*
1997961 TTATTAAGATTATATAT
1 TTATTAAAATTATATAT
1997978 TT
1 TT
1997980 TTGATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTATTAAAATTATATAT
Found at i:1998695 original size:2 final size:2
Alignment explanation
Indices: 1998688--1998735 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1998678 TTTCTTCCAC
1998688 TA TA TA TA 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 TA TA TA TA
1998730 TA TA TA
1 TA TA TA
1998736 AATGATATTA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1999917 original size:7 final size:7
Alignment explanation
Indices: 1999905--1999945 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
1999895 AATATGAAAA
1999905 AGTAAAT
1 AGTAAAT
1999912 AGTAAAT
1 AGTAAAT
1999919 AGTAAAT
1 AGTAAAT
*
1999926 AATAAAT
1 AGTAAAT
1999933 AGTAAAT
1 AGTAAAT
1999940 AGTAAA
1 AGTAAA
1999946 AAGATGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AGTAAAT
Found at i:2000329 original size:24 final size:24
Alignment explanation
Indices: 2000282--2000330 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2000272 ATTTTAGATA
* *
2000282 TTTAATGTTATATTCAAATTAAAT
1 TTTAATGTTATAATCAAATAAAAT
* *
2000306 TTTAATGTTTTAATCGAATAAAAT
1 TTTAATGTTATAATCAAATAAAAT
2000330 T
1 T
2000331 CTGGATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
TTTAATGTTATAATCAAATAAAAT
Found at i:2001632 original size:15 final size:15
Alignment explanation
Indices: 2001612--2001650 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2001602 CTGTGTCGGC
2001612 TCATCGTCAGGAAAT
1 TCATCGTCAGGAAAT
*
2001627 TCATCGTCAGGAACT
1 TCATCGTCAGGAAAT
2001642 TCATCGTCA
1 TCATCGTCA
2001651 ATATCTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (15 bp):
TCATCGTCAGGAAAT
Found at i:2002742 original size:13 final size:13
Alignment explanation
Indices: 2002724--2002757 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2002714 TGAGCAAATT
*
2002724 TTTGAAAACTATG
1 TTTGAAAACAATG
2002737 TTTGAAAACAATG
1 TTTGAAAACAATG
2002750 TTTGAAAA
1 TTTGAAAA
2002758 TCAAGGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:2003261 original size:23 final size:23
Alignment explanation
Indices: 2003227--2003282 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
2003217 CCGAAGGGGT
* *
2003227 TATCGATGCCCATTCAAAGATGG
1 TATCGATACCCATTCAAAGAGGG
* *
2003250 TATCGGTACCCATTCAAAGGGGG
1 TATCGATACCCATTCAAAGAGGG
2003273 TATCGATACC
1 TATCGATACC
2003283 TAGCGCGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
TATCGATACCCATTCAAAGAGGG
Found at i:2009677 original size:19 final size:19
Alignment explanation
Indices: 2009632--2009691 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 19
2009622 TAAGTAAATT
2009632 TTTTAATATTTTTATTATAAAA
1 TTTTAATATTTTTA-T-T-AAA
*
2009654 GTTTAATATTTTTATTAAA
1 TTTTAATATTTTTATTAAA
*
2009673 TTTTAA-CTTTTT-TTAAA
1 TTTTAATATTTTTATTAAA
2009690 TT
1 TT
2009692 AATTTATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 7 0.20
18 5 0.14
19 8 0.23
20 1 0.03
21 1 0.03
22 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAATATTTTTATTAAA
Found at i:2009685 original size:20 final size:19
Alignment explanation
Indices: 2009639--2009687 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2009629 ATTTTTTAAT
2009639 ATTTTTATTATAAAAGTTTA
1 ATTTTT-TTATAAAAGTTTA
* * *
2009659 ATATTTTTATTAAATTTTA
1 ATTTTTTTATAAAAGTTTA
2009678 ACTTTTTTTA
1 A-TTTTTTTA
2009688 AATTAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTTTATAAAAGTTTA
Found at i:2010261 original size:10 final size:10
Alignment explanation
Indices: 2010246--2010320 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
2010236 CATTTAATAA
2010246 ATAAACGAAC
1 ATAAACGAAC
2010256 ATAAACGAAC
1 ATAAACGAAC
2010266 ----ACGAAC
1 ATAAACGAAC
2010272 ATAAACGAAC
1 ATAAACGAAC
** *
2010282 ACGAAC-ATAA
1 ATAAACGA-AC
2010292 ATGAACACGAAC
1 AT-AA-ACGAAC
2010304 ATAAACGAAC
1 ATAAACGAAC
2010314 ATAAACG
1 ATAAACG
2010321 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:2010271 original size:16 final size:16
Alignment explanation
Indices: 2010250--2010314 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
2010240 TAATAAATAA
2010250 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2010266 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
2010282 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
2010298 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2010314 A
1 A
2010315 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2011082 original size:14 final size:14
Alignment explanation
Indices: 2011065--2011119 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
2011055 AATGAACATA
*
2011065 AACGAACATTACCG
1 AACGAACATAACCG
2011079 AACGAACAT-A---
1 AACGAACATAACCG
*
2011089 AACAAACATAACCG
1 AACGAACATAACCG
2011103 AACGAACATAACCG
1 AACGAACATAACCG
2011117 AAC
1 AAC
2011120 ATTCATGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2011130 original size:24 final size:24
Alignment explanation
Indices: 2011058--2011122 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
2011048 ATAAATGAAT
2011058 GAACATAAACGAACATTACCGAAC
1 GAACATAAACGAACATTACCGAAC
* *
2011082 GAACATAAACAAACATAACCGAAC
1 GAACATAAACGAACATTACCGAAC
*
2011106 GAACATAACCGAACATT
1 GAACATAAACGAACATT
2011123 CATGAACGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.52, C:0.25, G:0.11, T:0.12
Consensus pattern (24 bp):
GAACATAAACGAACATTACCGAAC
Found at i:2012680 original size:21 final size:21
Alignment explanation
Indices: 2012654--2012914 Score: 157
Period size: 21 Copynumber: 12.3 Consensus size: 21
2012644 CATATTCGCA
*
2012654 TTGCGA-TAGTCCAAGTTTGCG
1 TTGCGATTATTCCAAGTTT-CG
2012675 TTGCGATTTATTCCAAG-TTCG
1 TTGCGA-TTATTCCAAGTTTCG
* * *
2012696 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT-TCG
*
2012717 TTGCGATTTATTCCAA-ATTCG
1 TTGCGA-TTATTCCAAGTTTCG
*
2012738 TTGCGATTTATTCCAAGTTCGCG
1 TTGCGA-TTATTCCAAGTT-TCG
*
2012761 TTGCGATTTATTCCAA-ATTCG
1 TTGCGA-TTATTCCAAGTTTCG
* * *
2012782 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT-TCG
*
2012803 TTGCGATTTATTCCAA-ATTCG
1 TTGCGA-TTATTCCAAGTTTCG
* * * *
2012824 TTGCGA-CAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT-TCG
*
2012845 TTGCGATTTATTCCAA-ATTCG
1 TTGCGA-TTATTCCAAGTTTCG
* * *
2012866 TTGTGA-TAGTCCAAGTTCGCG
1 TTGCGATTATTCCAAGTT-TCG
2012887 TTGCGATTTATTCCAAG-TTCG
1 TTGCGA-TTATTCCAAGTTTCG
2012908 TTGCGAT
1 TTGCGAT
2012915 AGTCCAAAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 41
0.70 0.14 0.16
Matches are distributed among these distances:
19 25 0.14
20 5 0.03
21 94 0.51
22 8 0.04
23 51 0.28
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (21 bp):
TTGCGATTATTCCAAGTTTCG
Found at i:2012705 original size:42 final size:42
Alignment explanation
Indices: 2012654--2012921 Score: 437
Period size: 42 Copynumber: 6.3 Consensus size: 42
2012644 CATATTCGCA
* *
2012654 TTGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
2012696 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
2012738 TTGCGATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
2012782 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
2012824 TTGCGACAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
2012866 TTGTGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
2012908 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
2012922 AATCGCAATA
Statistics
Matches: 211, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
42 171 0.81
44 40 0.19
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:2012804 original size:128 final size:126
Alignment explanation
Indices: 2012654--2012921 Score: 455
Period size: 128 Copynumber: 2.1 Consensus size: 126
2012644 CATATTCGCA
* * *
2012654 TTGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGACAGTCGAAGTTCGCGTT
*
2012719 GCGATTTATTCCAAATTCGTTGCGATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
66 GCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
2012782 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGACAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGACAGTCGAAGTTCGCGTT
* *
2012847 GCGATTTATTCCAAATTCGTTGTGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
66 GCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
2012908 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
2012922 AATCGCAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
126 47 0.36
128 85 0.64
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (126 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGACAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:2013484 original size:6 final size:6
Alignment explanation
Indices: 2013473--2013535 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
2013463 TCTCGTCTCG
* *
2013473 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTTGT GGTGGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2013521 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
2013536 AATACGTGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.00, C:0.13, G:0.52, T:0.35
Consensus pattern (6 bp):
GGTCGT
Found at i:2013675 original size:21 final size:21
Alignment explanation
Indices: 2013651--2013746 Score: 165
Period size: 21 Copynumber: 4.6 Consensus size: 21
2013641 AATTTGGAAA
*
2013651 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
2013672 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
2013693 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
2013714 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
2013735 ATCGCATTGCGA
1 ATCGCAATGCGA
2013747 TTTACATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:2013698 original size:42 final size:42
Alignment explanation
Indices: 2013628--2013740 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
2013618 TGCGATTTTG
* **
2013628 GACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
*
2013668 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
*
2013710 GACTATCGCAATGCGAACTTCGACTATCGCA
1 GACTATCGCAATGCGAACTTGGACTATCGCA
2013741 TTGCGATTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 11 0.17
42 55 0.83
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTC
Found at i:2013733 original size:63 final size:61
Alignment explanation
Indices: 2013625--2013746 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 61
2013615 CGTTGCGATT
* *
2013625 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAACGAACTTCGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAAC
** * *
2013686 TTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCATTGCGA
1 TTGGACTATCGCAA--CGAACTTCGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGA
2013747 TTTACATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 14 0.26
63 39 0.74
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (61 bp):
TTGGACTATCGCAACGAACTTCGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAAC
Found at i:2013781 original size:21 final size:21
Alignment explanation
Indices: 2013755--2013926 Score: 224
Period size: 21 Copynumber: 8.2 Consensus size: 21
2013745 GATTTACATA
2013755 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2013776 TTCGCATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCCAAG
*
2013797 TTTGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
2013818 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
2013838 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
2013859 TTCGCATTGCAATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2013880 TTCACATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2013901 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
2013922 TTCGC
1 TTCGC
2013927 GTTACGAATC
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.12
21 114 0.87
22 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:2013823 original size:83 final size:83
Alignment explanation
Indices: 2013756--2013919 Score: 249
Period size: 83 Copynumber: 2.0 Consensus size: 83
2013746 ATTTACATAT
* * **
2013756 TCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCAAAGTTTGCATTGCGATAGTCCAAGTT
1 TCGCATTGCGAT-GTACATA-TTCGCATTGCAATAGTCAAAGTTCACATTGCGATAGTCCAAGTT
2013820 CGCATTGCGATAGTCGACTA
64 CGCATTGCGATAGTCGACTA
* *
2013840 TCGCATTGCGATTTACATATTCGCATTGCAATAGTCCAAGTTCACATTGCGATAGTCCAAGTTCG
1 TCGCATTGCGATGTACATATTCGCATTGCAATAGTCAAAGTTCACATTGCGATAGTCCAAGTTCG
2013905 CATTGCGATAGTCGA
66 CATTGCGATAGTCGA
2013920 AGTTCGCGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
83 60 0.82
84 13 0.18
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (83 bp):
TCGCATTGCGATGTACATATTCGCATTGCAATAGTCAAAGTTCACATTGCGATAGTCCAAGTTCG
CATTGCGATAGTCGACTA
Found at i:2013837 original size:104 final size:104
Alignment explanation
Indices: 2013729--2013926 Score: 351
Period size: 104 Copynumber: 1.9 Consensus size: 104
2013719 AATGCGAACT
* *
2013729 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCA
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCAATAGTCCAAGTTCACATTGCGATAGTCA
*
2013794 AAGTTTGCATTGCGATAGTCCAAGTTCGCATTGCGATAG
66 AAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAG
*
2013833 TCGACTATCGCATTGCGATTTACATATTCGCATTGCAATAGTCCAAGTTCACATTGCGATAGTCC
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCAATAGTCCAAGTTCACATTGCGATAGTCA
*
2013898 AAGTTCGCATTGCGATAGTCGAAGTTCGC
66 AAGTTCGCATTGCGATAGTCCAAGTTCGC
2013927 GTTACGAATC
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 89 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (104 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCAATAGTCCAAGTTCACATTGCGATAGTCA
AAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAG
Found at i:2015131 original size:30 final size:30
Alignment explanation
Indices: 2015095--2015227 Score: 160
Period size: 30 Copynumber: 4.2 Consensus size: 30
2015085 TAATAAGGTT
2015095 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
2015125 ATTTATTTTAAAAAAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* *
2015155 AATTATTTTAAAATAAATTATTATAAAATATGGA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A
*
2015189 TTGATTTATTTTAAAATAATTTATT-TTAAATA
1 ---ATTTATTTTAAAATAATTTATTATAAAATA
2015221 ATTTATT
1 ATTTATT
2015228 AGTATGGATT
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
29 7 0.08
30 50 0.56
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 20 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:2015221 original size:14 final size:15
Alignment explanation
Indices: 2015095--2015227 Score: 142
Period size: 15 Copynumber: 8.5 Consensus size: 15
2015085 TAATAAGGTT
2015095 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2015110 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2015125 ATTTATTTTAAAAAA
1 ATTTATTTTAAAATA
*
2015140 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2015155 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
2015170 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
2015189 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
2015207 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2015221 ATTTATT
1 ATTTATT
2015228 AGTATGGATT
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
14 12 0.12
15 69 0.68
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2015246 original size:22 final size:22
Alignment explanation
Indices: 2015230--2015272 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015220 AATTTATTAG
2015230 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
2015252 TATGGTTTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015273 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015272 original size:54 final size:54
Alignment explanation
Indices: 2015207--2016461 Score: 579
Period size: 54 Copynumber: 23.4 Consensus size: 54
2015197 TTTTAAAATA
*
2015207 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGTTTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2015261 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2015315 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGTTTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2015369 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATGTGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2015423 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2015477 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
2015525 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *
2015574 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATGTATTAG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* * ** * * * * ***
2015628 TATGTA-TTGATTTATTTTA-AAATATGAATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
2015685 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2015739 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
** ** * ** * * *
2015797 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
** ** * ** * * *
2015851 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
** ** * ** * * *
2015905 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* ** * *
2015959 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTTTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTT--AT--TTTA-AAATATGGATTG
* * * * ***
2016012 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
2016060 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
2016114 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * ***
2016158 A-TTAGTATGAATTGATTTATTTTAAAATATGGATTAATTTATTATTGTAGTTGTATGTG-TTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATG-GATTG
* * * * *
2016220 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
2016274 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
2016328 ATTTA--TT--AT--TGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* *
2016386 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2016440 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
2016462 TTGTAGTTAT
Statistics
Matches: 1005, Mismatches: 97, Indels: 198
0.77 0.07 0.15
Matches are distributed among these distances:
43 3 0.00
44 4 0.00
46 1 0.00
47 9 0.01
48 162 0.16
49 19 0.02
50 26 0.03
51 4 0.00
52 26 0.03
53 51 0.05
54 516 0.51
55 27 0.03
56 12 0.01
57 18 0.02
58 46 0.05
59 12 0.01
60 14 0.01
61 1 0.00
62 15 0.01
63 13 0.01
64 26 0.03
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:2015309 original size:22 final size:22
Alignment explanation
Indices: 2015284--2015326 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015274 AATTTATTAG
2015284 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015306 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015327 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015363 original size:22 final size:22
Alignment explanation
Indices: 2015338--2015380 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015328 AATTTATTAG
2015338 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
2015360 TATGGTTTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015381 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015471 original size:22 final size:22
Alignment explanation
Indices: 2015446--2015531 Score: 100
Period size: 22 Copynumber: 3.7 Consensus size: 22
2015436 AATTTATTAG
2015446 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
2015468 TATGAATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
2015494 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015516 TATGGATTGATTTATT
1 TATGGATTGATTTATT
2015532 ATTGTAGTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
22 29 0.56
23 3 0.06
24 4 0.08
25 3 0.06
26 13 0.25
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015549 original size:22 final size:22
Alignment explanation
Indices: 2015476--2015549 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
2015466 AATATGAATT
2015476 GATTTATTATTGTAGTTGTATG
1 GATTTATTATTGTAGTTGTATG
* * * * *
2015498 GATTGATTTATTTTAAAATATGGATT
1 GATTTA-TTATTGT--AGT-TGTATG
2015524 GATTTATTATTGTAGTTGTATG
1 GATTTATTATTGTAGTTGTATG
2015546 GATT
1 GATT
2015550 GATTTATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 13 0.34
23 8 0.21
25 8 0.21
26 9 0.24
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (22 bp):
GATTTATTATTGTAGTTGTATG
Found at i:2015577 original size:80 final size:79
Alignment explanation
Indices: 2015306--2016397 Score: 489
Period size: 80 Copynumber: 13.6 Consensus size: 79
2015296 TATTTTAAAA
*
2015306 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGTTTGAT
1 TATGGATTGATTTATTTT-AATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGAT
2015371 TTATTTTAAATAATTTATTAG
64 TTA-TTT-AAT--TTTATT-G
*
2015392 TATGGATTGATTTATTTT-A-AA---A-TG--TGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
* * ***
2015449 GGATTGATTT-ATTTTAAAA
60 TGATTTATTTAATTTTATTG
* *
2015468 TATGAATTGATTTA--TT-AT--TGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATGGATTGATTTATTTTAATAATTTA-TTGTATGGATTGATTTATTTTAAAATATGGATTGATT
*
2015528 TA-TT-ATTGTAGTTG
65 TATTTAATTTTA-TTG
2015542 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTT-AATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGAT
*
2015607 TTATTTTAAATAATGTATTAG
64 TTA-TTT-AAT--TTTATT-G
* * * * * ***
2015628 TATGTATTGATTTATTTTAA-AA--TA-TGAATTGATTTA-TTATTGTAGTTGTATGGATTGATT
1 TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTTA-AAATATGGATTGATT
2015688 TATTTTAAATAATTTATTAG
65 TA-TTT-AAT--TTTATT-G
* * * * ***
2015708 TATGGATTGATTTATTTTAA-AA--TA-TGAATTGATTTA-TTATTGTAGTTGTATGGATTGATT
1 TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTTA-AAATATGGATTGATT
2015768 TATTTTAAATAATTTATTAG
65 TA-TTT-AAT--TTTATT-G
*
2015788 TATGGATTGATTTATTTT-A-AA---A---TATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
* * ***
2015845 GGATTGATTT-ATTTTAAAA
60 TGATTTATTTAATTTTATTG
2015864 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTT-AATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGAT
2015929 TTATTTTAAATAATTTATTAG
64 TTA-TTT-AAT--TTTATT-G
*
2015950 TATGGATTGATTTATTTTAA-AA--TA---TA--GATTGATTT-TTTTAAATAATTTATTAGTAT
1 TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
* * ***
2016006 GGATTGATTT-ATTTTAAAA
60 TGATTTATTTAATTTTATTG
* *
2016025 TATGGATTGATTTA--TT-AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTA
1 TATGGATTGATTTATTTTAATAATTTA-TTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGA
* * ***
2016085 TGGATTGATTT-ATTTTAAAA
59 TTGATTTATTTAATTTTATTG
* *
2016105 TATGGATTGATTTA--TT-AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTAT-TAGT
1 TATGGATTGATTTATTTTAATAATTTA-TTGTATGGATTGATTTATTTT-AA-AA--TATGGA-T
* ***
2016164 ATGAATTGATTT-ATTTTAAAA
60 -TG-ATTTATTTAATTTTATTG
* * *
2016185 TATGGATTAATTTA--TT-AT--TGTAGTTGTATGTG-TTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAATAATTTA-TTGTATG-GATTGATTTATTTTAAAATATGGATTGAT
2016244 TTATTTTAAATAATTTATTAG
64 TTA-TTT-AAT--TTTATT-G
*
2016265 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTT-AATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGAT
*
2016330 TTA-TT-ATTGTATTTG
64 TTATTTAATTTTA-TTG
*
2016345 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTT-AATAATTTATT-GTATGGATTGATTTATTTTAAA
2016398 TAATTTATTA
Statistics
Matches: 851, Mismatches: 66, Indels: 184
0.77 0.06 0.17
Matches are distributed among these distances:
72 1 0.00
73 11 0.01
74 28 0.03
75 24 0.03
76 78 0.09
77 25 0.03
78 19 0.02
79 40 0.05
80 428 0.50
81 24 0.03
82 28 0.03
83 4 0.00
84 13 0.02
85 15 0.02
86 113 0.13
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAATAATTTATTGTATGGATTGATTTATTTTAAAATATGGATTGATTT
ATTTAATTTTATTG
Found at i:2015577 original size:182 final size:182
Alignment explanation
Indices: 2015360--2016071 Score: 732
Period size: 182 Copynumber: 3.9 Consensus size: 182
2015350 TATTTTAAAA
* *
2015360 TATGGTTTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATGTGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
2015425 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
66 TTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
2015490 GTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
131 GTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
2015542 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
2015607 TTATTTTAAATAATGTATTAGTATGTATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
66 TTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
* * * * ***
2015672 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
131 GTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTG
* * **
2015730 TATGAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-
** * ** * * * * * *
2015787 GTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
63 G-ATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GAATTGATT
* * *** * * * *
2015850 GATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
121 TA-TTATTGTAGTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGT
***
2015914 A-AAA
178 AGTTG
*
2015918 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
2015983 TT-TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
2016047 GTTGTATGGATTGATTTATTTTAAA
131 GTTGTATGGATTGATTTATTTTAAA
2016072 TAATTTATTA
Statistics
Matches: 450, Mismatches: 51, Indels: 55
0.81 0.09 0.10
Matches are distributed among these distances:
181 4 0.01
182 193 0.43
183 15 0.03
184 9 0.02
185 1 0.00
186 15 0.03
187 28 0.06
188 97 0.22
189 16 0.04
190 2 0.00
191 2 0.00
192 15 0.03
193 22 0.05
194 27 0.06
195 4 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (182 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTA
GTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:2015599 original size:22 final size:22
Alignment explanation
Indices: 2015574--2015616 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015564 AATTTATTAG
2015574 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015596 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015617 TAATGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015813 original size:22 final size:22
Alignment explanation
Indices: 2015788--2015830 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015778 AATTTATTAG
2015788 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015810 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015831 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015867 original size:22 final size:22
Alignment explanation
Indices: 2015842--2015884 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015832 AATTTATTAG
2015842 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015864 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015885 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2015921 original size:22 final size:22
Alignment explanation
Indices: 2015896--2015938 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2015886 AATTTATTAG
2015896 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2015918 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2015939 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2016017 original size:18 final size:18
Alignment explanation
Indices: 2015994--2016041 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
2015984 TTTTTAAATA
*
2015994 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
2016012 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
2016034 ATTTATTA
1 ATTTATTA
2016042 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:2016097 original size:18 final size:18
Alignment explanation
Indices: 2016074--2016121 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
2016064 ATTTTAAATA
*
2016074 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
2016092 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
2016114 ATTTATTA
1 ATTTATTA
2016122 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:2016172 original size:32 final size:32
Alignment explanation
Indices: 2016130--2016317 Score: 161
Period size: 32 Copynumber: 5.7 Consensus size: 32
2016120 TATTGTAGTT
*
2016130 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
2016162 GTATGAATTGATTTATTTTAAAATATGGATTAATT-
1 GTATGAATTGATTTATTTT-AAATA---ATTTATTA
* * * * *
2016197 -TAT-TATTGTAGTTGTATGTGTTGATTTATTT-TAAA
1 GTATGAATTG-A-TT-TAT-T-TTAAATAATTTAT-TA
*
2016232 ATAT-AGATTGATTTATTTTAAATAATTTATTA
1 GTATGA-ATTGATTTATTTTAAATAATTTATTA
2016264 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
2016296 GTATGGATTGATTTATTTTAAA
1 GTATGAATTGATTTATTTTAAA
2016318 ATATGGATTG
Statistics
Matches: 126, Mismatches: 15, Indels: 30
0.74 0.09 0.18
Matches are distributed among these distances:
32 77 0.61
33 13 0.10
34 10 0.08
35 4 0.03
36 13 0.10
37 7 0.06
38 2 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:2016188 original size:22 final size:22
Alignment explanation
Indices: 2016163--2016253 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
2016153 AATTTATTAG
2016163 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
* * ***
2016185 TATGGATTAATTTATTATTGTAGTTG
1 TATGAATTGATTTA-T-TT-TA-AAA
**
2016211 TATGTGTTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2016233 TAT-AGATTGATTTATTTTAAA
1 TATGA-ATTGATTTATTTTAAA
2016254 TAATTTATTA
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
22 30 0.59
23 3 0.06
24 4 0.08
25 3 0.06
26 11 0.22
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2016261 original size:14 final size:14
Alignment explanation
Indices: 2016242--2016294 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
2016232 ATATAGATTG
2016242 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2016256 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
2016274 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2016288 ATTTATT
1 ATTTATT
2016295 AGTATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2016279 original size:18 final size:18
Alignment explanation
Indices: 2016256--2016312 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2016246 ATTTTAAATA
2016256 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
2016274 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
2016288 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
2016306 ATTTATT
1 ATTTATT
2016313 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:2016371 original size:14 final size:14
Alignment explanation
Indices: 2016354--2016406 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
2016344 GTATGGATTG
2016354 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2016368 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
2016386 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2016400 ATTTATT
1 ATTTATT
2016407 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Done.