Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_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: 1991651
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1291429 original size:72 final size:70
Alignment explanation
Indices: 1291248--1291464 Score: 232
Period size: 72 Copynumber: 3.1 Consensus size: 70
1291238 GCAACGAGAG
* * *
1291248 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAACGAGAAATGAAAAT-CGAA-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1291313 AAATGAA
64 AAATGAA
* * * *
1291320 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAACGAGAAATGAAAATCGAAATGA-A-AATCGCAATGCGGAAATGAAAATCGCAATGCG
1291385 AAATGAA
64 AAATGAA
* *
1291392 AATCGCAACGAGAGAATCG-CAATGCGAAATGAAAATCGCAA--C-G--A-GAGAATCGCAATGC
1 AATCGCAACGAGA-AAT-GAAAAT-CGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
*
1291450 GAAATTAA
63 GAAATGAA
1291458 AATCGCA
1 AATCGCA
1291465 TTGCGATTCT
Statistics
Matches: 130, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
66 27 0.21
67 1 0.01
69 1 0.01
70 4 0.03
71 3 0.02
72 80 0.62
73 7 0.05
74 7 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (70 bp):
AATCGCAACGAGAAATGAAAATCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAA
ATGAA
Found at i:1291573 original size:52 final size:53
Alignment explanation
Indices: 1291460--1291576 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1291450 GAAATTAAAA
1291460 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1291513 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1291565 TCGCATTGCGAT
1 TCGCATTGCGAT
1291577 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:1291584 original size:19 final size:19
Alignment explanation
Indices: 1291479--1291576 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1291469 GATTCTCTCG
1291479 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1291499 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1291518 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1291532 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1291551 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1291570 TTGCGAT
1 TTGCGAT
1291577 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1291702 original size:14 final size:14
Alignment explanation
Indices: 1291683--1291719 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1291673 CATCAATTAC
1291683 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1291697 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1291711 ACAAATCAA
1 ACAAATCAA
1291720 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1293226 original size:19 final size:19
Alignment explanation
Indices: 1293184--1293337 Score: 148
Period size: 19 Copynumber: 8.6 Consensus size: 19
1293174 TAGTTTACTT
* *
1293184 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
1293204 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
1293223 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1293242 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1293261 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1293275 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1293294 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1293308 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1293327 TCGCAATGCGA
1 TCGCAACGCGA
1293338 TTTTGGTTTC
Statistics
Matches: 111, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
14 16 0.14
16 11 0.10
17 11 0.10
19 61 0.55
20 12 0.11
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1293278 original size:14 final size:14
Alignment explanation
Indices: 1293259--1293315 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1293249 GCGAAATGAA
*
1293259 AATCGCAACGACAG
1 AATCGCAACGAAAG
1293273 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1293290 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1293306 AATCGCAACG
1 AATCGCAACG
1293316 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1293286 original size:33 final size:33
Alignment explanation
Indices: 1293202--1293332 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
1293192 CGAAACTTAA
* *
1293202 AATCGCAACGCGAAATGATAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
1293240 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
1293273 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1293306 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1293333 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:1293368 original size:14 final size:14
Alignment explanation
Indices: 1293349--1293375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1293339 TTTGGTTTCG
1293349 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
1293363 CGTTGCGATTTTG
1 CGTTGCGATTTTG
1293376 GTTTCGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1293375 original size:33 final size:33
Alignment explanation
Indices: 1293333--1293427 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 33
1293323 AAAATCGCAA
1293333 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
* *
1293366 TGCGATTTTGGTTTCGCGTTACGATTCTT-TTGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTGTCGT
**
1293399 TGCGATTTTCATTTCGCGTTGCGATTTTG
1 TGCGATTTTGGTTTCGCGTTGCGATTTTG
1293428 GTTTCGCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.04
33 51 0.93
34 2 0.04
ACGTcount: A:0.08, C:0.16, G:0.26, T:0.49
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:1293390 original size:19 final size:19
Alignment explanation
Indices: 1293333--1293461 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1293323 AAAATCGCAA
1293333 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1293352 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1293366 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1293385 TACGATTCT--TTT---GT
1 TGCGATTTTGGTTTCGCGT
**
1293399 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1293418 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1293437 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1293457 TGCGA
1 TGCGA
1293462 AAGTAAACTA
Statistics
Matches: 91, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 21 0.23
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 47 0.52
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1293642 original size:93 final size:93
Alignment explanation
Indices: 1293506--1293881 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
1293496 ATGGATTGCA
1293506 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1293570 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1293598 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1293663 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1293691 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1293756 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1293784 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1293849 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1293877 TTACT
1 TTACT
1293882 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 278 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1295613 original size:20 final size:20
Alignment explanation
Indices: 1295582--1295678 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
1295572 TTTTGGTTGA
1295582 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*** *
1295602 AATGACTGTCGCAACGAGATA
1 AATGAAAATCGCAACGAGA-G
1295623 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
1295641 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1295656 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1295676 AAT
1 AAT
1295679 CGCAACGCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.07
17 2 0.03
19 14 0.23
20 19 0.32
21 12 0.20
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:1295648 original size:14 final size:14
Alignment explanation
Indices: 1295629--1295685 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1295619 GATAAATGAA
1295629 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1295643 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1295662 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1295676 AATCGCAACG
1 AATCGCAACG
1295686 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1295662 original size:33 final size:33
Alignment explanation
Indices: 1295580--1295702 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1295570 TCTTTTGGTT
*
1295580 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
1295619 GATAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 G--AAATGAAAATCGCAACGAGAGAATCGCAACGC
1295654 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1295687 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1295703 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 48 0.59
35 9 0.11
38 1 0.01
39 1 0.01
40 1 0.01
41 21 0.26
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1295738 original size:14 final size:14
Alignment explanation
Indices: 1295719--1295775 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1295709 TTTGGTTTCG
1295719 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1295733 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1295752 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1295766 CGTTGCGATT
1 CGTTGCGATT
1295776 TTCATTTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1295751 original size:33 final size:33
Alignment explanation
Indices: 1295703--1295823 Score: 143
Period size: 33 Copynumber: 3.4 Consensus size: 33
1295693 AAAATCGCAA
**
1295703 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1295736 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
1295769 TGCGATTTTCATTTATCTCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCGT
1295810 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1295824 ATCTCGTTGC
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 42 0.55
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 2 0.03
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1295789 original size:21 final size:21
Alignment explanation
Indices: 1295763--1295835 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
1295753 GTTGCGATTC
1295763 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTA
*** *
1295784 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTA
1295804 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTA
1295825 TCTCGTTGCGA
1 TCTCGTTGCGA
1295836 CTCTTCTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTA
Found at i:1295816 original size:41 final size:41
Alignment explanation
Indices: 1295759--1295836 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
1295749 TCGCGTTGCG
1295759 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1295800 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1295837 TCTTCTGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1295956 original size:33 final size:33
Alignment explanation
Indices: 1295914--1295984 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1295904 AATACTAACT
1295914 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1295947 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1295980 TGAAA
1 TGAAA
1295985 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1296389 original size:20 final size:20
Alignment explanation
Indices: 1296364--1296556 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
1296354 CTTTAAATAT
1296364 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1296384 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1296406 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1296425 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1296445 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1296465 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1296485 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1296505 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1296525 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1296545 CGCGTTGCGATT
1 CGCGTTGCGATT
1296557 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.01
20 131 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1296886 original size:31 final size:31
Alignment explanation
Indices: 1296845--1296917 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
1296835 AAAATATAAT
* * *
1296845 ATTTGATCACTTTTGTTTTTATTTAGTTAAG
1 ATTTGGTCACTTTCGTTTTTATTTAATTAAG
1296876 ATTTGGTCACTTTCGTTTTTATTTAATTAAG
1 ATTTGGTCACTTTCGTTTTTATTTAATTAAG
* *
1296907 ATGTGGCCACT
1 ATTTGGTCACT
1296918 GAGAAGTAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTTGGTCACTTTCGTTTTTATTTAATTAAG
Found at i:1308655 original size:23 final size:23
Alignment explanation
Indices: 1308620--1308676 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1308610 TTAATTTTGT
*
1308620 CTTTGTGACATGTTTACCTCTAC
1 CTTTGTGGCATGTTTACCTCTAC
* * *
1308643 CTTTGTGGTATGTTTATCTCTAG
1 CTTTGTGGCATGTTTACCTCTAC
1308666 CTTTGTGGCAT
1 CTTTGTGGCAT
1308677 ATTTTTCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.47
Consensus pattern (23 bp):
CTTTGTGGCATGTTTACCTCTAC
Found at i:1308685 original size:23 final size:23
Alignment explanation
Indices: 1308620--1308687 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
1308610 TTAATTTTGT
* * *
1308620 CTTTGTGACATGTTTACCTCTAC
1 CTTTGTGGCATATTTATCTCTAC
* * *
1308643 CTTTGTGGTATGTTTATCTCTAG
1 CTTTGTGGCATATTTATCTCTAC
*
1308666 CTTTGTGGCATATTTTTCTCTA
1 CTTTGTGGCATATTTATCTCTA
1308688 TTTTTTGGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.15, C:0.19, G:0.16, T:0.50
Consensus pattern (23 bp):
CTTTGTGGCATATTTATCTCTAC
Found at i:1315072 original size:27 final size:27
Alignment explanation
Indices: 1315037--1315089 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1315027 TTAAACTAAA
*
1315037 GATTGAATTATAAATTTTAAAAGATGG
1 GATTCAATTATAAATTTTAAAAGATGG
*
1315064 GATTCAATTATAAGTTTTAAAAGATG
1 GATTCAATTATAAATTTTAAAAGATG
1315090 AGAGGGAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (27 bp):
GATTCAATTATAAATTTTAAAAGATGG
Found at i:1315382 original size:16 final size:16
Alignment explanation
Indices: 1315355--1315388 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1315345 TAACTCTACT
1315355 TTATTCATAATATTTAA
1 TTATTCATAATA-TTAA
1315372 TTATT-ATAATATTAA
1 TTATTCATAATATTAA
1315387 TT
1 TT
1315389 TTGTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTCATAATATTAA
Found at i:1322448 original size:15 final size:17
Alignment explanation
Indices: 1322415--1322448 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1322405 CGTATCCAAT
1322415 AGTTCCAGATTATTAGA
1 AGTTCCAGATTATTAGA
1322432 AGTTCCA-ATTA-TAGA
1 AGTTCCAGATTATTAGA
1322447 AG
1 AG
1322449 CTTCTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
AGTTCCAGATTATTAGA
Found at i:1330162 original size:64 final size:65
Alignment explanation
Indices: 1330067--1330192 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 65
1330057 AATGCAGTTT
* *
1330067 ATGCATCGATGCACTCAGGTTTTAATGAAAACATCGAATGCATTTTATGCATCGATGCACACACC
1 ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACACACC
* * * *
1330132 ATGCTTCGATGCACTTAGG-CTTATTCAAAACATCGAATGCATTTTATGCATCGGTGCACAC
1 ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACAC
1330193 TTAGTGCACT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
64 38 0.69
65 17 0.31
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACACACC
Found at i:1330477 original size:14 final size:12
Alignment explanation
Indices: 1330434--1330469 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1330424 AAGAAACTAG
*
1330434 AATC-AAGAGAG
1 AATCAAAGAGAA
1330445 AATCAAAGAGAA
1 AATCAAAGAGAA
1330457 AATCAAAGAGAA
1 AATCAAAGAGAA
1330469 A
1 A
1330470 GCATCAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.64, C:0.08, G:0.19, T:0.08
Consensus pattern (12 bp):
AATCAAAGAGAA
Found at i:1336113 original size:20 final size:20
Alignment explanation
Indices: 1336088--1336139 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1336078 TCCTTGAATG
1336088 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
1336108 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
1336128 TGCATCGATGCA
1 TGCATCGATGCA
1336140 TCCGTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAAGGCCA
Found at i:1337500 original size:22 final size:22
Alignment explanation
Indices: 1337483--1337549 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1337473 CTCGTATAAA
1337483 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1337505 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1337527 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1337549 T
1 T
1337550 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1338187 original size:19 final size:20
Alignment explanation
Indices: 1338150--1338187 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1338140 CTTTTTCTCA
*
1338150 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1338170 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1338188 TCAAGCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1338295 original size:67 final size:69
Alignment explanation
Indices: 1338152--1338301 Score: 209
Period size: 69 Copynumber: 2.2 Consensus size: 69
1338142 TTTTCTCATG
* * *
1338152 GGGGAATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
*
1338215 TGAG
66 TGAA
* * *
1338219 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATAT-CGT
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
1338282 TGAA
66 TGAA
1338286 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
1338302 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 32 0.43
68 6 0.08
69 36 0.49
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
TGAA
Found at i:1338311 original size:21 final size:21
Alignment explanation
Indices: 1338281--1338323 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1338271 AATCATATCG
* *
1338281 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1338302 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1338323 T
1 T
1338324 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1344352 original size:22 final size:22
Alignment explanation
Indices: 1344335--1344401 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1344325 CTCGTATAAA
1344335 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1344357 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1344379 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1344401 T
1 T
1344402 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1345141 original size:68 final size:69
Alignment explanation
Indices: 1344995--1345147 Score: 227
Period size: 69 Copynumber: 2.2 Consensus size: 69
1344985 TTTTCTCATG
* * *
1344995 GGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
*
1345060 TGAG
66 TGAA
* * * *
1345064 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGT
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
1345128 TGAA
66 TGAA
1345132 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
1345148 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
68 27 0.36
69 49 0.64
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
TGAA
Found at i:1345157 original size:21 final size:21
Alignment explanation
Indices: 1345127--1345169 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1345117 ATCATATTCG
* *
1345127 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1345148 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1345169 T
1 T
1345170 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1347913 original size:64 final size:65
Alignment explanation
Indices: 1347759--1347920 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
1347749 GAATAAATTG
* * * * * * * *
1347759 AACATCGAATGTAGTTTATGCATCAATGCACTCTCCATGCATTGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
* * * *
1347824 AACATTGAATGCATTTTATGTATCGATGCACACACCATGCATCGATGCACTTAGG-CTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
*
1347888 AACATCAAATGCATTTTATGCATCGATGCACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
1347921 TTAGTGCACC
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 36 0.44
65 46 0.56
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
Found at i:1348539 original size:3 final size:3
Alignment explanation
Indices: 1348528--1348569 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
1348518 TTTTTTTCCG
** *
1348528 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1348570 AAATTAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1361807 original size:11 final size:10
Alignment explanation
Indices: 1361786--1361861 Score: 66
Period size: 10 Copynumber: 7.3 Consensus size: 10
1361776 TATTACACTT
1361786 AAAAAAAA-A
1 AAAAAAAAGA
*
1361795 AAAAAAAGGA
1 AAAAAAAAGA
*
1361805 AAAAAAATGA
1 AAAAAAAAGA
*
1361815 AAATATGATGAA-A
1 AAA-A--A-AAAGA
1361828 AAAAAAAAGA
1 AAAAAAAAGA
1361838 AAAAAAAAGA
1 AAAAAAAAGA
1361848 AAGAAAAAAGA
1 AA-AAAAAAGA
1361859 AAA
1 AAA
1361862 GTTAAATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 9 0.16
10 28 0.51
11 11 0.20
12 1 0.02
13 5 0.09
14 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:1362954 original size:46 final size:49
Alignment explanation
Indices: 1362849--1363060 Score: 138
Period size: 51 Copynumber: 4.4 Consensus size: 49
1362839 CCAGCCGTCC
* * *
1362849 TCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGGTGGCCAGAGTTTT
1 TCATCACGTAGGAACCGTGTTATCACCCTT-CT-AAGATGGCCAGAGTTCT
1362900 TCATCACGTAGGAACCGTGTTATCA-CCTT-T-AGATGGCCAGA-TCTCT
1 TCATCACGTAGGAACCGTGTTATCACCCTTCTAAGATGGCCAGAGT-TCT
* * * * * ** * *
1362946 TCATCACGTAAGAGCCGTG---TCA-ACAT-TAGGATAACCAGCCG-TCC
1 TCATCACGTAGGAACCGTGTTATCACCCTTCTAAGATGGCCAG-AGTTCT
* * * * *
1362990 TCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAAATGACCAGATTTCC
1 TCATCACGTAGGAACCGTGTTATCACCCTT-CT-AAGATGGCCAGAGTTCT
*
1363041 TCATCACGTAGGAGCCGTGT
1 TCATCACGTAGGAACCGTGT
1363061 CACCCTTAGA
Statistics
Matches: 125, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
43 6 0.05
44 25 0.20
45 1 0.01
46 29 0.23
47 3 0.02
48 3 0.02
50 5 0.04
51 53 0.42
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TCATCACGTAGGAACCGTGTTATCACCCTTCTAAGATGGCCAGAGTTCT
Found at i:1363274 original size:3 final size:3
Alignment explanation
Indices: 1363263--1363304 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
1363253 TTTTTTTCCG
** *
1363263 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1363305 AAATTAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1363765 original size:30 final size:30
Alignment explanation
Indices: 1363709--1363764 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1363699 AAATCCGAGG
*
1363709 AAGCAAAGATAAAAGAACAGAAAAAAAGAA
1 AAGCAAAGAAAAAAGAACAGAAAAAAAGAA
1363739 AAGCAAAGAAAAAAGAAC-GAAAAAAA
1 AAGCAAAGAAAAAAGAACAGAAAAAAA
1363765 AACAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (30 bp):
AAGCAAAGAAAAAAGAACAGAAAAAAAGAA
Found at i:1366849 original size:2 final size:2
Alignment explanation
Indices: 1366842--1366871 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1366832 ATTCTAAAAG
1366842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1366872 TTATTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1369754 original size:131 final size:131
Alignment explanation
Indices: 1369502--1369889 Score: 699
Period size: 131 Copynumber: 3.0 Consensus size: 131
1369492 CCCTCCCTCT
*
1369502 AATTGCCCTTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
1 AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
*
1369567 CAAACAAAATCACACTC-TT-TCTCCCATTTTGTTCCTTTTGCCTTTACTTCCCCCCCCCCCTTC
66 CAAACAAAATCACACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTT-CCCCCCCCCC-TC
1369630 TTA
129 TTA
1369633 AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
1 AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
*
1369698 CAAACAAAATCACACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTTGCCCCCCCCCTCTT
66 CAAACAAAATCACACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTTCCCCCCCCCCTCTT
1369763 A
131 A
*
1369764 AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAACTTGTTTCT
1 AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
*
1369829 CAAACAAAATCCCACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTTCCCCCCCCCC
66 CAAACAAAATCACACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTTCCCCCCCCCC
1369890 CTTTAATCAT
Statistics
Matches: 249, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
131 209 0.84
132 11 0.04
133 29 0.12
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.33
Consensus pattern (131 bp):
AATTGCCATTTTAGATTGAGACCAAAGCAGCCAACCAGGTTACAGAATACACTTAGCTTGTTTCT
CAAACAAAATCACACTCTTTCTCTCCCATTTTGTTCCTTTTGCCTTTGCTTCCCCCCCCCCTCTT
A
Found at i:1379709 original size:55 final size:55
Alignment explanation
Indices: 1379645--1379748 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
1379635 TTTTATTGTA
* *
1379645 TTAACCTATTATTATTTGTGTTAGATTTAACAAATCAAAACCCTAATCCTTTTTC
1 TTAACCTATTATTATTTGTCTTAGATTCAACAAATCAAAACCCTAATCCTTTTTC
* * *
1379700 TTAACCTATTCTTATTTGTCTTATATTCAATAAATCAAAACCCTAATCC
1 TTAACCTATTATTATTTGTCTTAGATTCAACAAATCAAAACCCTAATCC
1379749 AAGTACCTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (55 bp):
TTAACCTATTATTATTTGTCTTAGATTCAACAAATCAAAACCCTAATCCTTTTTC
Found at i:1381090 original size:35 final size:35
Alignment explanation
Indices: 1381051--1381155 Score: 126
Period size: 35 Copynumber: 3.0 Consensus size: 35
1381041 TTAATCTAAG
*
1381051 TCTGATAACTGTAAAA-CATTTGATAACTATAAACA
1 TCTGATAACTG-AAAATCATTTGATAACTGTAAACA
* *
1381086 TCTGA-AACTGAAAATCATTTGATAAATGTAAATA
1 TCTGATAACTGAAAATCATTTGATAACTGTAAACA
* *
1381120 TAC-GATAACTAAAAATCATCTGATAACTGTAAACA
1 T-CTGATAACTGAAAATCATTTGATAACTGTAAACA
1381155 T
1 T
1381156 TTAGAATTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 4 0.07
34 24 0.40
35 32 0.53
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (35 bp):
TCTGATAACTGAAAATCATTTGATAACTGTAAACA
Found at i:1386869 original size:15 final size:15
Alignment explanation
Indices: 1386845--1386891 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1386835 ATATAAAATA
1386845 ATATTAAATTATTAT
1 ATATTAAATTATTAT
*
1386860 ATATTTAATTATTA-
1 ATATTAAATTATTAT
* * *
1386874 ATAATATATTTTTAT
1 ATATTAAATTATTAT
1386889 ATA
1 ATA
1386892 CTTTTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTAAATTATTAT
Found at i:1386876 original size:29 final size:28
Alignment explanation
Indices: 1386843--1386950 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 28
1386833 ATATATAAAA
*
1386843 TAATATTAAATTATTATATATTTAATTAT
1 TAATA-TATATTATTATATATTTAATTAT
*
1386872 TAATAATATATTTTTATATACTTT--TTAT
1 TAAT-ATATATTATTATATA-TTTAATTAT
1386900 ATAA-A-ATATTATTATAT-TATTAATTAT
1 -TAATATATATTATTATATAT-TTAATTAT
*
1386927 TAATA-ATATTATATATAAATTTAA
1 TAATATATATTAT-TATATATTTAA
1386951 ATTTGTGTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
24 1 0.02
25 2 0.03
26 14 0.21
27 13 0.20
28 12 0.18
29 20 0.30
30 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATATATATTATTATATATTTAATTAT
Found at i:1396253 original size:185 final size:185
Alignment explanation
Indices: 1395941--1396310 Score: 740
Period size: 185 Copynumber: 2.0 Consensus size: 185
1395931 CAAAAAAACC
1395941 CTAGAGAATAAGTGAATCGGATTCTCTATAAGATGATGAATACCTTGTTTTATCCTTCGTACCAT
1 CTAGAGAATAAGTGAATCGGATTCTCTATAAGATGATGAATACCTTGTTTTATCCTTCGTACCAT
1396006 GTAGAAATGACTGAATGTATATATAAAAATAACTGCTTTAGCAAGTACTTATTTTAATGTACAAA
66 GTAGAAATGACTGAATGTATATATAAAAATAACTGCTTTAGCAAGTACTTATTTTAATGTACAAA
1396071 ACTTTGGTAGTTAATTGTGGATCGGAGGCTTCCTTGTTGCCGGACTGTAGTCCAT
131 ACTTTGGTAGTTAATTGTGGATCGGAGGCTTCCTTGTTGCCGGACTGTAGTCCAT
1396126 CTAGAGAATAAGTGAATCGGATTCTCTATAAGATGATGAATACCTTGTTTTATCCTTCGTACCAT
1 CTAGAGAATAAGTGAATCGGATTCTCTATAAGATGATGAATACCTTGTTTTATCCTTCGTACCAT
1396191 GTAGAAATGACTGAATGTATATATAAAAATAACTGCTTTAGCAAGTACTTATTTTAATGTACAAA
66 GTAGAAATGACTGAATGTATATATAAAAATAACTGCTTTAGCAAGTACTTATTTTAATGTACAAA
1396256 ACTTTGGTAGTTAATTGTGGATCGGAGGCTTCCTTGTTGCCGGACTGTAGTCCAT
131 ACTTTGGTAGTTAATTGTGGATCGGAGGCTTCCTTGTTGCCGGACTGTAGTCCAT
1396311 AGCTACTAAT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 185 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (185 bp):
CTAGAGAATAAGTGAATCGGATTCTCTATAAGATGATGAATACCTTGTTTTATCCTTCGTACCAT
GTAGAAATGACTGAATGTATATATAAAAATAACTGCTTTAGCAAGTACTTATTTTAATGTACAAA
ACTTTGGTAGTTAATTGTGGATCGGAGGCTTCCTTGTTGCCGGACTGTAGTCCAT
Found at i:1397499 original size:37 final size:40
Alignment explanation
Indices: 1397448--1397521 Score: 118
Period size: 37 Copynumber: 1.9 Consensus size: 40
1397438 CTAAAAATGA
1397448 ATTATCCGTTGTAATCCAAA-A-TATAATCAATAATATTT
1 ATTATCCGTTGTAATCCAAATATTATAATCAATAATATTT
*
1397486 ATTAT-CGTTGTAATCCAAATATTATCATCAATAATA
1 ATTATCCGTTGTAATCCAAATATTATAATCAATAATA
1397522 ATAGATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 14 0.42
38 6 0.18
39 13 0.39
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (40 bp):
ATTATCCGTTGTAATCCAAATATTATAATCAATAATATTT
Found at i:1399314 original size:21 final size:21
Alignment explanation
Indices: 1399284--1399324 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1399274 AAATGTTAAA
*
1399284 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
1399305 AAATAATAATGTTTTAGGTA
1 AAATAATAATGTTTTAGGTA
1399325 ATTTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:1406074 original size:21 final size:20
Alignment explanation
Indices: 1406037--1406079 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1406027 TAAATAATTT
1406037 AATATTTTTTAAAAAATAGAG
1 AATATTTTTTAAAAAATA-AG
*
1406058 AATATTCTTTT-ACAAATAAG
1 AATATT-TTTTAAAAAATAAG
1406078 AA
1 AA
1406080 ATAGGTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
AATATTTTTTAAAAAATAAG
Found at i:1411717 original size:12 final size:12
Alignment explanation
Indices: 1411687--1411718 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1411677 CCGGTTTTTT
*
1411687 AACCGGATAAAA
1 AACCGGTTAAAA
1411699 AACCGGTTAAAA
1 AACCGGTTAAAA
1411711 AACCGGTT
1 AACCGGTT
1411719 TTTATCCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (12 bp):
AACCGGTTAAAA
Found at i:1412062 original size:8 final size:8
Alignment explanation
Indices: 1412049--1412078 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
1412039 TATGTGAGAT
1412049 GTATTTAA
1 GTATTTAA
1412057 GTATTTAA
1 GTATTTAA
1412065 GTATTTAA
1 GTATTTAA
1412073 GTATTT
1 GTATTT
1412079 CAATTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (8 bp):
GTATTTAA
Found at i:1412112 original size:13 final size:13
Alignment explanation
Indices: 1412069--1412123 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1412059 ATTTAAGTAT
1412069 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
1412082 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
1412096 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
1412109 TTAAGTATTTGAA
1 TTAAGTATTTCAA
1412122 TT
1 TT
1412124 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:1412569 original size:17 final size:17
Alignment explanation
Indices: 1412526--1412569 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1412516 TTAAAATCGG
*
1412526 TTTTTTT-ATAACCGGT
1 TTTTTTTAAAAACCGGT
**
1412542 TTTTTAAAAAAACCGGT
1 TTTTTTTAAAAACCGGT
1412559 TTTTTTTAAAA
1 TTTTTTTAAAA
1412570 CCGAAACCGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
TTTTTTTAAAAACCGGT
Found at i:1412689 original size:15 final size:17
Alignment explanation
Indices: 1412663--1412694 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1412653 TTCTATGGGA
1412663 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
1412679 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
1412695 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:1415395 original size:65 final size:65
Alignment explanation
Indices: 1415235--1415395 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
1415225 TTGTTTAAGG
* * * **
1415235 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
1415298 A
65 A
*
1415299 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
1415363 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1415396 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:1417004 original size:149 final size:149
Alignment explanation
Indices: 1416831--1417145 Score: 553
Period size: 149 Copynumber: 2.1 Consensus size: 149
1416821 GAGTCGAGGG
* **
1416831 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
1416896 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1416960 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
*
1416980 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
1417045 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1417110 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1417129 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1417146 TGCAATTATA
Statistics
Matches: 159, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
148 1 0.01
149 157 0.99
150 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1417146 original size:23 final size:23
Alignment explanation
Indices: 1417113--1417157 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1417103 ATTATTATAT
*
1417113 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1417136 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1417158 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1420640 original size:65 final size:65
Alignment explanation
Indices: 1420480--1420640 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
1420470 TTGTTTAAGG
* * * **
1420480 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
1420543 A
65 A
*
1420544 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
1420608 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1420641 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:1422243 original size:147 final size:148
Alignment explanation
Indices: 1422072--1422384 Score: 533
Period size: 149 Copynumber: 2.1 Consensus size: 148
1422062 GAGTCGAGGG
* **
1422072 TCTACGCGGTCCTTCGGG-ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
1422136 -TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 CT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1422200 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
*
1422219 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
1422284 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1422349 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
1422368 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1422385 TGCAATTATA
Statistics
Matches: 157, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
147 18 0.11
148 1 0.01
149 137 0.87
150 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:1422385 original size:23 final size:23
Alignment explanation
Indices: 1422352--1422396 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1422342 ATTATTATAT
*
1422352 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1422375 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1422397 AGTTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1425987 original size:6 final size:6
Alignment explanation
Indices: 1425976--1426001 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1425966 TCATTTGTTC
1425976 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
1426002 CCTGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:1426212 original size:54 final size:54
Alignment explanation
Indices: 1426110--1426215 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
1426100 TTTTTTCTTC
**
1426110 CATTGAAATTTTAATAGTAACAAAATGATTATTAATGTTACATTAAATAAAAAA
1 CATTGAAATTTTAATAGTAACAAAATGATTATTAATGTTACAGAAAATAAAAAA
* * *
1426164 CATTGAAATTTTATTAGTTACAAAATGATTATTAATGTTATAGAAAATAAAA
1 CATTGAAATTTTAATAGTAACAAAATGATTATTAATGTTACAGAAAATAAAA
1426216 TAAAAAACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (54 bp):
CATTGAAATTTTAATAGTAACAAAATGATTATTAATGTTACAGAAAATAAAAAA
Found at i:1430603 original size:182 final size:181
Alignment explanation
Indices: 1430202--1430861 Score: 952
Period size: 182 Copynumber: 3.6 Consensus size: 181
1430192 GATACAAATG
* * * * * *
1430202 AAAAATGTATCGCTCCATAGCAATATTACAAGTAAAAATATGACAAAACCGATCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGATCTCAAAATGACA
* *
1430267 AAACCGGTAAA-ATGATACTGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTT
66 AAACCGGTAAAGA-AATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTT
* *
1430331 TTGGAATTTAAAAAAGAAGAAGTTATTGCGCCTATAAAGTGTCGATACTTTA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
* * *
1430383 AAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGATCTC-AAAATGAC
* *
1430448 AAAACCGGTAAA-AAATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
65 AAAACCGGTAAAGAAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTT
* *
1430512 TCT-GAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTA
130 T-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
* * *
1430564 TGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGATCTCAAAATGAC
1 -AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGATCTCAAAATGAC
* * * *
1430629 AAAACCGATAAAGAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGATAA-T
65 AAAACCGGTAAAGAAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA-AACT
1430693 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAA
129 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATAC-TTT-A
*
1430748 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACTAG-TCTCAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-AGATCTCAAAATGAC
*** *
1430812 AAAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATA
65 AAAACCGGTAAAGAAATACCGAATATGTTGAAAGTGTCGATAATTTAATA
1430862 AGTACGCGTA
Statistics
Matches: 433, Mismatches: 37, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
181 161 0.37
182 162 0.37
183 108 0.25
184 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGATCTCAAAATGACA
AAACCGGTAAAGAAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
Found at i:1430865 original size:363 final size:362
Alignment explanation
Indices: 1430203--1430861 Score: 1040
Period size: 363 Copynumber: 1.8 Consensus size: 362
1430193 ATACAAATGA
* * * *
1430203 AAAATGTATCGCTCCATAGCAATATTACAAGTAAAAATATGACAAAACCGATCTCGAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGATCTCAAAATGACAA
* *
1430268 AACCGGTAAAATGATACTGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTT
66 AACCGATAAAA-GATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTT
* *
1430333 GGAATTTAAAAAAGAAGAAGTTATTGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATT
130 GGAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATC
*
1430398 CATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGTAAAAAA
195 CATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGACAAAACCGGTAAAAAA
*
1430463 TACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAG
260 TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAG
1430528 AAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATG
325 AAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATG
1430566 AAAATGTATCGATCCATAACAATATAAC-AGCTAAAAATATGACAAAACCGATCTCAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAAG-TAAAAATATGACAAAACCGATCTCAAAATGACA
* *
1430630 AAACCGAT-AAAGAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGATAA-T
65 AAACCGATAAAAG-A-TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA-AACT
*
1430693 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAAATGTAT
127 TTTGGAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATAC-TTT-AAAAAATGTAT
*
1430758 CGATCCATAACAATATAATAGGTAAAAATATGACAAAACTA-GTCTC-AAAATGACAAAACCGGT
190 CGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-AGGTCTCAAAAATGACAAAACCGGT
*** *
1430821 AAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATA
254 AAA-AAATACCGAATATGTTGAAAGTGTCGATAATTTAATA
1430862 AGTACGCGTA
Statistics
Matches: 270, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
361 1 0.00
362 6 0.02
363 153 0.57
364 25 0.09
365 84 0.31
366 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (362 bp):
AAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGATCTCAAAATGACAA
AACCGATAAAAGATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTTG
GAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGTATCGATCC
ATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGACAAAACCGGTAAAAAAT
ACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGA
AGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATG
Found at i:1430966 original size:21 final size:21
Alignment explanation
Indices: 1430940--1430983 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1430930 TATCGACAAT
1430940 TAGGTAGTTGTATCGATTAAA
1 TAGGTAGTTGTATCGATTAAA
1430961 TAGGTAGTTGTATCGATTAAA
1 TAGGTAGTTGTATCGATTAAA
1430982 TA
1 TA
1430984 TAAATAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (21 bp):
TAGGTAGTTGTATCGATTAAA
Found at i:1433151 original size:12 final size:12
Alignment explanation
Indices: 1433126--1433168 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1433116 TCATTTATAA
1433126 TTAAAGTTTGAAT
1 TTAAA-TTTGAAT
*
1433139 TTAAATTTCAAT
1 TTAAATTTGAAT
*
1433151 TTAAGTTTGAAT
1 TTAAATTTGAAT
1433163 TTAAAT
1 TTAAAT
1433169 ATAAATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAAATTTGAAT
Found at i:1433175 original size:24 final size:24
Alignment explanation
Indices: 1433124--1433176 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1433114 TTTCATTTAT
* * *
1433124 AATTAAAGTTTGAATTTAAATTTC
1 AATTTAAGTTTGAATTTAAATATA
1433148 AATTTAAGTTTGAATTTAAATATA
1 AATTTAAGTTTGAATTTAAATATA
1433172 AATTT
1 AATTT
1433177 CAGCTCCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (24 bp):
AATTTAAGTTTGAATTTAAATATA
Found at i:1433903 original size:200 final size:200
Alignment explanation
Indices: 1433348--1435261 Score: 2018
Period size: 200 Copynumber: 9.7 Consensus size: 200
1433338 TAATTTATTC
* * * *
1433348 GTGTCGATA-TATGTTGTCCATAATATA-TTTCCAAACCAAGTGCACGAGAAAAGTTTCGATACA
1 GTGTCGATACT-TTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGA-CAAAGTGTCGATACA
* * * * * *
1433411 TTTATAACAAGTATTGATCCCAAAAACATCGAAA-CATATAATTATAATGTAATAAGTAAATTAA
64 TTTATAACAAGTGTCGATACCAAAAACATCGAAACCATA-GA-TATAATGTAATAGGTAAATTTA
* * * *
1433475 CAATGTAACCAGTCTAAATAAACC-GATTTT-TGAGAAAACATGTATACATATAGTAT----ACA
127 CAATGTAACCGGTCTAAATATACCAG-TTTTATGAGAAAACAGGTATACATAAAGTATCGACACA
1433534 AATCCAACAA
191 AATCCAACAA
*
1433544 GTGTCGATACTTTTTGTCCAGAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * * * *
1433609 TATAACAAGTGTCGATACTAAAATCATCGAAACACATAGATATAATGTAATATGTAAAATAACAA
66 TATAACAAGTGTCGATACCAAAAACATCGAAAC-CATAGATATAATGTAATAGGTAAATTTACAA
* ** * * * *
1433674 TGTAACTGACCTAAATACA-CTGGTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATC
130 TGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATC
1433738 CAACAA
195 CAACAA
* * * *
1433744 GTGTCGATATTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTGTCGACACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * * * *
1433808 TATAACATGTGTCGATCCCAAATACATCGAAACCTATA-ATTATAATGTAATAGGTCACTTTACA
66 TATAACAAGTGTCGATACCAAAAACATCGAAACC-ATAGA-TATAATGTAATAGGTAAATTTACA
* * * *
1433872 ATGTAACCGGTTTAAATTTACCAGTTTTATGAGAAAATAGGTATACATGAAGTATCGACACAAAT
129 ATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAAT
1433937 CCAACAA
194 CCAACAA
1433944 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACA--
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
** * * *
1434007 -A-AA-AA---T--AT----TGAA-A-C---A-CATAGATATAATGTAATAAGTAAAATAACAAT
66 TATAACAAGTGTCGATACCAAAAACATCGAAACCATAGATATAATGTAATAGGTAAATTTACAAT
** * * * * * *
1434054 GTAACCGACCTAAATACA-CTGATTTAAGAGAAAACAGATATACATAAAGTATCGACCCAAATCC
131 GTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1434118 AACAA
196 AACAA
*
1434123 GTGTTGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* *
1434188 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATTACAA
66 TATAACAAGTGTCGATACCAAAAACATCGAAAC-CATAGATATAATGTAATAGGTAAATTTACAA
* * * *
1434253 TGTAACCGGCCTAAATACACTAG-TTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATT
130 TGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATC
1434317 CAACAA
195 CAACAA
1434323 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * *
1434388 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACCAAAAACATCGAAAC-CATAGATATAATGTAATAGGTAAATTTACAA
* * * * *
1434453 TGTAACCGGCCTAAATACACTAG-TTTATGAGAAAACATGTATACATAAAGTATCGACACAAATT
130 TGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATC
1434517 CAACAA
195 CAACAA
1434523 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * *
1434588 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACCAAAAACATCGAAAC-CATAGATATAATGTAATAGGTAAATTTACAA
* * * * * *
1434653 TGTAACCGGCCTAAATACATC-GGTTTATGAGAAAACATGTATACATAAAGTATCAACACAAATC
130 TGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATC
1434717 CAACAA
195 CAACAA
1434723 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * * * *
1434788 TATAACAAGTGTCGAAACTAAAAACATCGAAATACATAGATATAATGTAATAGGTCACTTTACAA
66 TATAACAAGTGTCGATACCAAAAACATCGAAA-CCATAGATATAATGTAATAGGTAAATTTACAA
* * * * * * **
1434853 TGTAAAC--TTTACAATATAACCGGTTTTATGAAAAAATAGGTATACATAAAGTATCAACACTTT
130 TGTAACCGGTCTA-AATAT-ACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACAC-AA
** ***
1434916 AT-TTATTT
192 ATCCAACAA
* * * * * *
1434924 GTGTCGATACTTTTTATCCATAATG-AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACG-ACAAAGTGTCGATACAT
* ** * * *
1434988 TTATTAA-AAGTATCGACCCCAAATACATCGAAACCTATA-ATTATAATGTAATAGGTCACTTTA
65 TTA-TAACAAGTGTCGATACCAAAAACATCGAAACC-ATAGA-TATAATGTAATAGGTAAATTTA
* * * * * * * * * * *
1435051 TAATGTAACCGGTTTAAATTTACCGGTTTTATGAGCAAATAGGTCTACGTAATGTATCGATACTT
127 CAATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACAC-A
** * ***
1435116 TTTGC-ATTT
191 AATCCAACAA
* * * * *
1435125 GTGTCGATA-TTTTATGTCCATAATG-A-ATGCCAAACGATGTCCAC-ACATAAAGTGTCGATAC
1 GTGTCGATACTTTT-TGTCCATAATGTATTTTCCAAACCAAGTGCACGAC--AAAGTGTCGATAC
* * * * ** * *
1435186 ATTTATAAAAAGTATCG--ACCACAATTACATCGAGACCGGAAATTATAATGTAATAGGTCAATT
63 ATTTATAACAAGTGTCGATACCA-AA-AACATCGAAACCATAGA-TATAATGTAATAGGTAAATT
1435249 TACAATGTAACCG
125 TACAATGTAACCG
1435262 ATTGAAATTT
Statistics
Matches: 1512, Mismatches: 149, Indels: 110
0.85 0.08 0.06
Matches are distributed among these distances:
179 106 0.07
180 37 0.02
181 2 0.00
182 2 0.00
183 2 0.00
184 2 0.00
185 1 0.00
186 1 0.00
187 2 0.00
189 2 0.00
191 2 0.00
193 3 0.00
194 1 0.00
195 5 0.00
196 127 0.08
197 24 0.02
198 14 0.01
199 96 0.06
200 855 0.57
201 215 0.14
202 9 0.01
203 4 0.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
TATAACAAGTGTCGATACCAAAAACATCGAAACCATAGATATAATGTAATAGGTAAATTTACAAT
GTAACCGGTCTAAATATACCAGTTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
AACAA
Found at i:1439163 original size:87 final size:87
Alignment explanation
Indices: 1439058--1439220 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
1439048 AAATAGGTCA
*
1439058 ATATAAACGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTATACTTTG-TAATATT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATAC-TTGATAATATT
*
1439122 TCCGGTTAAATGCCTATTTTATT
65 TCCAGTTAAATGCCTATTTTATT
* * *
1439145 ATATAAGCGCTACTTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
1439210 CCAGTTAAATG
66 CCAGTTAAATG
1439221 ATATAACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
86 3 0.04
87 67 0.96
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
CCAGTTAAATGCCTATTTTATT
Found at i:1439192 original size:23 final size:23
Alignment explanation
Indices: 1439142--1439186 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1439132 TGCCTATTTT
* *
1439142 ATTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTAATAC
1439165 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1439187 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1439250 original size:16 final size:17
Alignment explanation
Indices: 1439229--1439269 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1439219 TGATATAACA
1439229 TAACCGATCTAAAT-TT
1 TAACCGATCTAAATCTT
**
1439245 TAACCGA-CTACTTCTT
1 TAACCGATCTAAATCTT
1439261 TAACCGATC
1 TAACCGATC
1439270 ACGTCGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 16 0.76
17 1 0.05
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (17 bp):
TAACCGATCTAAATCTT
Found at i:1457502 original size:31 final size:31
Alignment explanation
Indices: 1457467--1457525 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1457457 AACTTAAAAG
* *
1457467 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1457498 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1457526 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1457626 original size:32 final size:32
Alignment explanation
Indices: 1457580--1457849 Score: 227
Period size: 32 Copynumber: 9.6 Consensus size: 32
1457570 ATTTTAAAAT
* *
1457580 AAATCAATCAATCCATACAAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
1457612 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
1457644 AAATAAATCAAT-C---C--AT--A-T-TTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
*
1457666 AAATAAATCAATACATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
*
1457698 AAATAAATCAATCCATAC-AACTACA--A--T-
1 AAATAAATCAATCCATACTAA-TAAATTATTTA
1457725 -AATAAATCAATCC--A-T-AT------TTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
1457746 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
1457778 AAATAAATCAAT-C---C--AT--A-T-TTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
1457800 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAATTATTTA
*
1457832 AAATAAATCAATTCATAC
1 AAATAAATCAATCCATAC
1457850 AACTACAATA
Statistics
Matches: 197, Mismatches: 5, Indels: 72
0.72 0.02 0.26
Matches are distributed among these distances:
20 1 0.01
22 46 0.23
23 5 0.03
24 4 0.02
25 1 0.01
26 21 0.11
28 7 0.04
30 3 0.02
31 6 0.03
32 103 0.52
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
AAATAAATCAATCCATACTAATAAATTATTTA
Found at i:1457666 original size:22 final size:22
Alignment explanation
Indices: 1457640--1457682 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1457630 TAATAAATTA
*
1457640 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
1457662 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
1457683 CTAATAAATT
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:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:1457670 original size:54 final size:54
Alignment explanation
Indices: 1457608--1458025 Score: 273
Period size: 54 Copynumber: 7.8 Consensus size: 54
1457598 AAATAAATTA
1457608 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
1457662 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** ** * ** * ** **
1457719 TACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-T
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT
** * ** * ** **
1457773 ATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-T
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT
* * *
1457827 ATTTAAAATAAATCAATTCATAC-AACTACA--A--T--AATAAATCAATCTATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
* * *
1457876 TTCAAAATAAATCAATTCATACTAATAAGTTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1457930 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT---TAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
1457977 TTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
1 TTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAAATAAAT
1458026 TATTTTAAAA
Statistics
Matches: 305, Mismatches: 34, Indels: 49
0.79 0.09 0.13
Matches are distributed among these distances:
47 24 0.08
48 28 0.09
49 4 0.01
50 9 0.03
51 11 0.04
52 10 0.03
53 1 0.00
54 174 0.57
55 6 0.02
56 5 0.02
57 13 0.04
58 20 0.07
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:1457691 original size:22 final size:22
Alignment explanation
Indices: 1457642--1457690 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1457632 ATAAATTATT
* **
1457642 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
1457664 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
1457687 TAAA
1 TAAA
1457691 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:1457756 original size:134 final size:134
Alignment explanation
Indices: 1457608--1457973 Score: 678
Period size: 134 Copynumber: 2.7 Consensus size: 134
1457598 AAATAAATTA
1457608 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
1457673 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1457738 ATAT
131 ATAT
1457742 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
1457807 TCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1457872 ATAT
131 ATAT
* * *
1457876 TTCAAAATAAATCAATTCATACTAATAAGTTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1457941 TCAATCCATACTAATAAATTATTTAAAATAAAT
66 TCAATCCATACTAATAAATTATTTAAAATAAAT
1457974 TATTTTAAAA
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 226 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATAT
Found at i:1457763 original size:80 final size:83
Alignment explanation
Indices: 1457540--1457794 Score: 347
Period size: 80 Copynumber: 3.0 Consensus size: 83
1457530 ACAACTACAA
* *
1457540 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCAATCCATACAAATAAA
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATACTAATAAA
1457605 TTATTTAAAATAAATCAATCCATAC
59 TTATTTAAAATAAATCAATCCATAC
*
1457630 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1457695 TTAAAATAAATCAATCCATAC
63 TTAAAATAAATCAATCCATAC
*
1457716 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1457777 AAAATAAATCAATCCATA
65 AAAATAAATCAATCCATA
1457795 TTTTAAAATA
Statistics
Matches: 159, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
80 69 0.43
82 1 0.01
84 1 0.01
85 2 0.01
86 46 0.29
88 1 0.01
90 39 0.25
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (83 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AAATAAATCAATCCATAC
Found at i:1457771 original size:22 final size:23
Alignment explanation
Indices: 1457696--1457770 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1457686 ATAAATTATT
1457696 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1457718 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1457744 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1457767 TAAA
1 TAAA
1457771 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1457800 original size:22 final size:22
Alignment explanation
Indices: 1457774--1457816 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1457764 TAATAAATTA
1457774 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1457796 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1457817 CTAATAAATT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1457825 original size:22 final size:22
Alignment explanation
Indices: 1457776--1457824 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1457766 ATAAATTATT
**
1457776 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1457798 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1457821 TAAA
1 TAAA
1457825 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1457863 original size:80 final size:80
Alignment explanation
Indices: 1457779--1457928 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
1457769 AATTATTTAA
*
1457779 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTCAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1457844 TCATACAACTACAAT
66 CCATACAACTACAAT
* * *
1457859 AATAAATCAATCTATATTTCAAAATAAATCAATTCATACTAATAAGTTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTCAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1457924 CCATA
66 CCATA
1457929 TTTTAAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTCAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:1457866 original size:26 final size:25
Alignment explanation
Indices: 1457831--1457897 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 25
1457821 TAAATTATTT
1457831 AAAATAAATCAATTCATACAACTAC
1 AAAATAAATCAATTCATACAACTAC
* * *
1457856 AATAATAAATCAA-TC-TA-TATTTC
1 AA-AATAAATCAATTCATACAACTAC
1457879 AAAATAAATCAATTCATAC
1 AAAATAAATCAATTCATAC
1457898 TAATAAGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 10 0.29
23 7 0.20
24 4 0.11
25 4 0.11
26 10 0.29
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAATAAATCAATTCATACAACTAC
Found at i:1457915 original size:32 final size:31
Alignment explanation
Indices: 1457873--1457973 Score: 103
Period size: 32 Copynumber: 3.5 Consensus size: 31
1457863 AATCAATCTA
1457873 TATTTCAAAATAAATCAATTCATACTAATAAGT
1 TATTT-AAAATAAATCAATTCATACTAATAA-T
1457906 TATTTAAAATAAATCAA-TC---C--AT-A-
1 TATTTAAAATAAATCAATTCATACTAATAAT
*
1457929 T-TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATTCATACTAAT-AAT
1457960 TATTTAAAATAAAT
1 TATTTAAAATAAAT
1457974 TATTTTAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
22 15 0.26
23 2 0.04
25 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 3 0.05
32 24 0.42
33 5 0.09
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (31 bp):
TATTTAAAATAAATCAATTCATACTAATAAT
Found at i:1457934 original size:22 final size:22
Alignment explanation
Indices: 1457908--1458010 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 22
1457898 TAATAAGTTA
1457908 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1457930 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
1457953 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
1457977 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1457999 TTTATAATAAAT
1 TTTAAAATAAAT
1458011 TATTTTAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 35 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1457982 original size:15 final size:15
Alignment explanation
Indices: 1457953--1458040 Score: 97
Period size: 15 Copynumber: 5.5 Consensus size: 15
1457943 AATCCATACT
1457953 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1457967 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1457982 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
1458004 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1458019 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1458034 AATAAAT
1 AATAAAT
1458041 AATCTTATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 15
0.79 0.02 0.19
Matches are distributed among these distances:
14 9 0.14
15 37 0.58
17 1 0.02
18 3 0.05
19 3 0.05
20 1 0.02
22 10 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1467358 original size:15 final size:15
Alignment explanation
Indices: 1467338--1467371 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1467328 TTAAGTTATT
1467338 ATATAAAAA-TAAATA
1 ATATAAAAATTAAA-A
1467353 ATATAAAAATTAAAA
1 ATATAAAAATTAAAA
1467368 ATAT
1 ATAT
1467372 TCTGACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAAAAATTAAAA
Found at i:1470865 original size:20 final size:20
Alignment explanation
Indices: 1470840--1470877 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1470830 TTTGGTTCAC
1470840 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTATCAGTG
1470860 GGAATGTAAGATTATCAG
1 GGAATGTAAGATTATCAG
1470878 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (20 bp):
GGAATGTAAGATTATCAGTG
Found at i:1471022 original size:18 final size:18
Alignment explanation
Indices: 1470999--1471046 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1470989 AAATTGTCCT
* *
1470999 TATTATATATTTGTATAA
1 TATTATATATTTGAAAAA
*
1471017 TATTATA-AATTGAAAAA
1 TATTATATATTTGAAAAA
1471034 TATTTATATATTT
1 TA-TTATATATTT
1471047 TCTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGAAAAA
Found at i:1472014 original size:14 final size:14
Alignment explanation
Indices: 1471997--1472039 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1471987 GGTAAAACAT
1471997 ATTAAATAAATATA
1 ATTAAATAAATATA
* *
1472011 ATTATATAACTATA
1 ATTAAATAAATATA
1472025 ATTAAA-AAATA-A
1 ATTAAATAAATATA
1472037 ATT
1 ATT
1472040 TGGGGTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 4 0.16
13 4 0.16
14 17 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTAAATAAATATA
Found at i:1475978 original size:22 final size:21
Alignment explanation
Indices: 1475927--1475987 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1475917 GAGGTGAGAT
*
1475927 TTGAAGAAGAAGAAGAAATAA
1 TTGAAGAAGAAGAAGGAATAA
*
1475948 TCTGGAGAAGAAGAAGGAATAA
1 T-TGAAGAAGAAGAAGGAATAA
* *
1475970 CTTGAAGAAAAAGGAGGA
1 -TTGAAGAAGAAGAAGGA
1475988 GGAGGAGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.30, T:0.13
Consensus pattern (21 bp):
TTGAAGAAGAAGAAGGAATAA
Found at i:1480977 original size:150 final size:150
Alignment explanation
Indices: 1480706--1481004 Score: 589
Period size: 150 Copynumber: 2.0 Consensus size: 150
1480696 TCTTTCTTAT
1480706 ATTTGATTGAGAAGCGAGAACTTACCATCTTGTTCCTTGGGCGTGGGCGTATCTTCACTATCTGC
1 ATTTGATTGAGAAGCGAGAACTTACCATCTTGTTCCTTGGGCGTGGGCGTATCTTCACTATCTGC
*
1480771 GGAGTCTGATGAAGATAAGTTGGATTGAGTTGGTGTAAGATTAGTGTCTTGCAGCTCTGAAACTT
66 GGAGTCTGATGAAGATAAGTTGGATTGAGTTGGTGTAAGATTAGTGGCTTGCAGCTCTGAAACTT
1480836 GTAAAGAATCAGAGTTGCAC
131 GTAAAGAATCAGAGTTGCAC
1480856 ATTTGATTGAGAAGCGAGAACTTACCATCTTGTTCCTTGGGCGTGGGCGTATCTTCACTATCTGC
1 ATTTGATTGAGAAGCGAGAACTTACCATCTTGTTCCTTGGGCGTGGGCGTATCTTCACTATCTGC
1480921 GGAGTCTGATGAAGATAAGTTGGATTGAGTTGGTGTAAGATTAGTGGCTTGCAGCTCTGAAACTT
66 GGAGTCTGATGAAGATAAGTTGGATTGAGTTGGTGTAAGATTAGTGGCTTGCAGCTCTGAAACTT
1480986 GTAAAGAATCAGAGTTGCA
131 GTAAAGAATCAGAGTTGCA
1481005 TTTGTGCCTT
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (150 bp):
ATTTGATTGAGAAGCGAGAACTTACCATCTTGTTCCTTGGGCGTGGGCGTATCTTCACTATCTGC
GGAGTCTGATGAAGATAAGTTGGATTGAGTTGGTGTAAGATTAGTGGCTTGCAGCTCTGAAACTT
GTAAAGAATCAGAGTTGCAC
Found at i:1481979 original size:108 final size:105
Alignment explanation
Indices: 1481763--1481969 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 105
1481753 CACTCATTTT
*
1481763 CCACTTGGGACTTTCCATCTTGACACTCCATTTGGTTGTTAGAATTCACATTTTCTTCTGGTTTC
1 CCACTTGGGACTTTCCATCTTGACACTCCATTTGGGTGTTAGAATTCACATTTTCTTCTGGTTTC
*
1481828 GAGCTCTGCAAATGTTCCTCAATCAGTGGTACCTCAGTCA
66 GAGCTCTGCAAATGTTCCTCAACCAGTGGTACCTCAGTCA
*
1481868 CCACTTGTGG-CTTTCCATCTTGACACTCCATTTCGGCGGTGTTAGAATTCACATTTTCTTCTTG
1 CCACTTG-GGACTTTCCATCTTGACACTCCATTT--G-GGTGTTAGAATTCACATTTTCTTCTGG
* *
1481932 TTTTGAGCTCTGCAAATGTT-CTACAACCGGTGGTACCT
62 TTTCGAGCTCTGCAAATGTTCCT-CAACCAGTGGTACCT
1481970 TGGTTACCAC
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
105 30 0.33
106 2 0.02
107 3 0.03
108 57 0.62
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.38
Consensus pattern (105 bp):
CCACTTGGGACTTTCCATCTTGACACTCCATTTGGGTGTTAGAATTCACATTTTCTTCTGGTTTC
GAGCTCTGCAAATGTTCCTCAACCAGTGGTACCTCAGTCA
Found at i:1482389 original size:121 final size:121
Alignment explanation
Indices: 1482175--1482419 Score: 490
Period size: 121 Copynumber: 2.0 Consensus size: 121
1482165 CCGGATCATC
1482175 ACTCTCTGCCTCAAGCTTTCGATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTT
1 ACTCTCTGCCTCAAGCTTTCGATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTT
1482240 GTTTCGAGCTCTGCAAATGTTGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCA
66 GTTTCGAGCTCTGCAAATGTTGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCA
1482296 ACTCTCTGCCTCAAGCTTTCGATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTT
1 ACTCTCTGCCTCAAGCTTTCGATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTT
1482361 GTTTCGAGCTCTGCAAATGTTGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCA
66 GTTTCGAGCTCTGCAAATGTTGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCA
1482417 ACT
1 ACT
1482420 TCAAGGGCCT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (121 bp):
ACTCTCTGCCTCAAGCTTTCGATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTT
GTTTCGAGCTCTGCAAATGTTGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCA
Found at i:1483092 original size:411 final size:413
Alignment explanation
Indices: 1482316--1484129 Score: 1567
Period size: 411 Copynumber: 4.4 Consensus size: 413
1482306 TCAAGCTTTC
* * * *
1482316 GATCTTGACTCTCGATTTGCATGTTGGAATTCACATTCTCTTCTTGTTTCGAGCTCTGCAAATGT
1 GATCTTGACACTCCATTTGCATGTTGGAATTCACATTCTCTTCTAGTTTCGAGCTCTGCAAACGT
* * * * * *
1482381 TGTCCAATCAGTGGTACCTCGGGTATCATAGTGTCAACTTCAAGGGCCTGAATAACAGGCTTAGC
66 TGTCCAATCAATGATACCTCGGGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCATC
* * * *
1482446 TTCCACCAACATGCCCCTTTCTTCAACAACTCCATGACCTGAACCATTG-GATGAATATGGTTCC
131 TTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAAACCATTGACATGAACATGGTTCC
* * * * * * *
1482510 ACCATCTCCGACTTAACATTATTATTAACTATATTATCCTTCAGTACAGACTCTTCAGT-AATTG
196 ACCATCTCCGACTTAACATTATCATCAACTATATTATCCTTTAGTACAGTCTTTTCAGTCATTTA
* * * * * * *
1482574 GTATAGGATCAGTAGAAATTGAATCAGATTTCACTTGAAACCCCGAAATGGGGTTGATTTCATAT
261 GCACAGGATCAGTAGAAATAGAATCAGATTTCACTTGAAACCCTGAAATAGGGCTGATTTCAGAT
* * *
1482639 ACCTGATTGTTCATAGCAGAAGAGCCATACATGTCCTCCTCATTCTCCAACAGAGCCTTGGGACC
326 ACCTGATTGTTCATAGCAGAAGAGCCATGCATGTCATCCTCATTCTCCAACTGAGCCTTGGGACC
*
1482704 CTCATTCTCAACTTGGGGCATTG
391 CTCATTCTCAACTCGGGGCATTG
* * * *
1482727 GATCTTGAC-CTTCCATTTGCATGTTAGAATTCACATTCTCTTGTAGTTTCGAGATCTGAAAACG
1 GATCTTGACAC-TCCATTTGCATGTTGGAATTCACATTCTCTTCTAGTTTCGAGCTCTGCAAACG
* *
1482791 ATGTCCAATCAATGACACCTCGGGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCAT
65 TTGTCCAATCAATGATACCTCGGGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCAT
* *
1482856 CTTCCACCAACACGTCCCTTACTTCAACAACTCCATGACCTAAACCATTGA-ATGAACATGGTTC
130 CTTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAAACCATTGACATGAACATGGTTC
* *
1482920 CACCATCTCGGACTTAACATTATCATCAACTATATTATCCTTTAGTACAGTCTTTTGAGT-ATTT
195 CACCATCTCCGACTTAACATTATCATCAACTATATTATCCTTTAGTACAGTCTTTTCAGTCATTT
* **
1482984 AGCACAGGACCAGTAGAAATAGAATCAGATTTCACTTGAAGTCCTGAAATAGGGCTGATTTCAGA
260 AGCACAGGATCAGTAGAAATAGAATCAGATTTCACTTGAAACCCTGAAATAGGGCTGATTTCAGA
* * * * * *
1483049 TACCTGATTGTTTAAAGCATAAGAGTCATGCATCTCATCCTCATTCTCCAACTGAACCTTGGGAC
325 TACCTGATTGTTCATAGCAGAAGAGCCATGCATGTCATCCTCATTCTCCAACTGAGCCTTGGGAC
1483114 CCTCATTCTCAACTCGGGGCATTG
390 CCTCATTCTCAACTCGGGGCATTG
* *
1483138 GATCTTGACACTCTATTTGCATGTTGGAATTCACATTCTCTTC-ATGTCTCGAG--CT-----C-
1 GATCTTGACACTCCATTTGCATGTTGGAATTCACATTCTCTTCTA-GTTTCGAGCTCTGCAAACG
* * * * * *
1483194 -TG--C-ATCAATGGTACCT-GCAGTATCATGGTTTTAACTTCAGTAGCCTGAATAACAGGCTCA
65 TTGTCCAATCAATGATACCTCG-GGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCA
* * * * * * * *
1483254 TCTTCGAACAACATGTCCCTTTCGTCAA-TA-GCC-TGA-ATAACAGGCTCATCTTCCACCATGT
129 TCTTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAA-A--C-CA--TT-GA-CATGA
* * * * * * ** * * * *
1483315 CCCT--TTCTTCAACAACTCCTTGTCCTGAAACATT-GGATGAA-TATGGTTCCTCCATCTCCGA
186 ACATGGTTC--CACCATCTCC--G-ACT-TAACATTATCATCAACTAT-ATT-ATCC-T-T--TA
* * * * ** ** * *
1483376 CTTAACATTATCATCAACTATATTA-TCCTTTAGTTCAGTTTTTTTAGTAATTGACATATG-ATC
239 -GT-ACA--GTC-T----T-T-TCAGTCATTTAGCACAG---GATCAGT-A--GAAATA-GAATC
* * * *
1483439 AGTTTTCACTTGACACCCTGAAATAAGGCTGATTTCAGATACCTGATTGTTCATAGAAGAAGAGC
286 AGATTTCACTTGAAACCCTGAAATAGGGCTGATTTCAGATACCTGATTGTTCATAGCAGAAGAGC
* * *
1483504 CATGTATGTCA---TC---CTCCAACTGAGCCTTGGGACCCTTATTCTCAACTTGGGGCATTG
351 CATGCATGTCATCCTCATTCTCCAACTGAGCCTTGGGACCCTCATTCTCAACTCGGGGCATTG
* * * * **
1483561 GATCTTGGCACTCCATTTCCATGTTGGAATTCATATTCTCTTCTTGTTTCGAGCTCTGCAAATTT
1 GATCTTGACACTCCATTTGCATGTTGGAATTCACATTCTCTTCTAGTTTCGAGCTCTGCAAACGT
* * * * * *
1483626 TGTACAATCAATGGA-ACCTCGGGTATCATAGTTTTAACCTCAGTGGCCTGAATAAAAGTCTCAT
66 TGTCCAATCAAT-GATACCTCGGGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCAT
* * * * *
1483690 CTTCCACCAAAATGTCCCTTCCTTCAACAACTCCATGACCTGAACCATT-AGATGAATATGGTTC
130 CTTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAAACCATTGACATGAACATGGTTC
* *
1483754 CACCATCTCCGACTTAACATTATCATCAACTATATTATACTTTAGCT-CAGTCTTTTCAGTGATT
195 CACCATCTCCGACTTAACATTATCATCAACTATATTATCCTTTAG-TACAGTCTTTTCAGTCATT
* * * * *
1483818 GA-CATAGGATCAGTGGAAATAGAATCAGGTTTCACTTGAAACCCTGAAATAGGGCTAATTTCAG
259 TAGCACAGGATCAGTAGAAATAGAATCAGATTTCACTTGAAACCCTGAAATAGGGCTGATTTCAG
* *
1483882 ATACCTGATTGTTCATAGCAGAAGAGCCATGCATGTCTTCCTCATTCTCCAACTGAGCCTTGAGA
324 ATACCTGATTGTTCATAGCAGAAGAGCCATGCATGTCATCCTCATTCTCCAACTGAGCCTTGGGA
*
1483947 CCCTCATTCTCAACTCGGAGCATTG
389 CCCTCATTCTCAACTCGGGGCATTG
* * * *
1483972 GATCTCGACACT-C---T--A-----G--TTC-CAGT-TC--C-A---TCGAGCTATGCAAA-TT
1 GATCTTGACACTCCATTTGCATGTTGGAATTCACATTCTCTTCTAGTTTCGAGCTCTGCAAACGT
* * * *
1484015 CTGTCCATTCAGTGGA-ACCTCGGGTATCGA-AGTTTTAACTTCAGTGGCCTGAATAACAGGCTC
66 -TGTCCAATCAAT-GATACCTCGGGTATC-ATAGTTTCAACTTCAATGGCCTGAATAACAGGCTC
* * *
1484078 ATCTTCCACCACCATGTCCCTTTCTTCAGCAACTCCATGACCTGAACCATTG
128 ATCTTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAAACCATTG
1484130 GATGAATCCA
Statistics
Matches: 1134, Mismatches: 189, Indels: 180
0.75 0.13 0.12
Matches are distributed among these distances:
389 2 0.00
390 114 0.10
391 1 0.00
394 1 0.00
395 3 0.00
396 6 0.01
397 4 0.00
398 6 0.01
399 73 0.06
400 2 0.00
401 2 0.00
402 6 0.01
404 14 0.01
405 78 0.07
406 4 0.00
407 9 0.01
408 15 0.01
409 3 0.00
410 4 0.00
411 458 0.40
412 7 0.01
413 2 0.00
414 3 0.00
416 2 0.00
417 2 0.00
418 2 0.00
420 2 0.00
421 1 0.00
422 4 0.00
423 97 0.09
424 1 0.00
425 3 0.00
426 13 0.01
427 9 0.01
428 4 0.00
429 72 0.06
430 13 0.01
431 1 0.00
432 5 0.00
433 2 0.00
434 1 0.00
435 71 0.06
436 4 0.00
437 2 0.00
438 4 0.00
439 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (413 bp):
GATCTTGACACTCCATTTGCATGTTGGAATTCACATTCTCTTCTAGTTTCGAGCTCTGCAAACGT
TGTCCAATCAATGATACCTCGGGTATCATAGTTTCAACTTCAATGGCCTGAATAACAGGCTCATC
TTCCACCAACATGTCCCTTTCTTCAACAACTCCATGACCTAAACCATTGACATGAACATGGTTCC
ACCATCTCCGACTTAACATTATCATCAACTATATTATCCTTTAGTACAGTCTTTTCAGTCATTTA
GCACAGGATCAGTAGAAATAGAATCAGATTTCACTTGAAACCCTGAAATAGGGCTGATTTCAGAT
ACCTGATTGTTCATAGCAGAAGAGCCATGCATGTCATCCTCATTCTCCAACTGAGCCTTGGGACC
CTCATTCTCAACTCGGGGCATTG
Found at i:1483305 original size:48 final size:45
Alignment explanation
Indices: 1483234--1483326 Score: 141
Period size: 48 Copynumber: 2.0 Consensus size: 45
1483224 TTAACTTCAG
1483234 TAGCCTGAATAACAGGCTCATCTTCGAACAACATGTCCCTTTCGTCAA
1 TAGCCTGAATAACAGGCTCATCTTC---CAACATGTCCCTTTCGTCAA
* *
1483282 TAGCCTGAATAACAGGCTCATCTTCCACCATGTCCCTTTCTTCAA
1 TAGCCTGAATAACAGGCTCATCTTCCAACATGTCCCTTTCGTCAA
1483327 CAACTCCTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 18 0.42
48 25 0.58
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (45 bp):
TAGCCTGAATAACAGGCTCATCTTCCAACATGTCCCTTTCGTCAA
Found at i:1485212 original size:2 final size:2
Alignment explanation
Indices: 1485205--1485230 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1485195 TACTATATGC
1485205 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1485231 TGACAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1486397 original size:29 final size:29
Alignment explanation
Indices: 1486355--1486412 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1486345 TGGATGAGGT
1486355 GGTGGAAAGGATTCATGTAACAATTTCTC
1 GGTGGAAAGGATTCATGTAACAATTTCTC
* *
1486384 GGTGGAAATGATTCATGTAATAATTTCTC
1 GGTGGAAAGGATTCATGTAACAATTTCTC
1486413 TCTCATAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (29 bp):
GGTGGAAAGGATTCATGTAACAATTTCTC
Found at i:1486779 original size:87 final size:84
Alignment explanation
Indices: 1486688--1486956 Score: 281
Period size: 87 Copynumber: 3.1 Consensus size: 84
1486678 GTAACATATT
** * * *
1486688 TGATATTTAGCGACATTTTTTGTATAAATGTCGCAATAGATTATGACATTTAACGATGTTTTTTT
1 TGATATTTAGCG-CATTTTTTGTATAAATACCGCAATAGGTTATGATATTTAGCG-TG-TTTTTT
1486753 GTATAAACGCTGCAATAGGTTA
63 GTATAAACGCTGCAATAGGTTA
* ** * * *
1486775 TGATATTTGGCGGTTTTTTTGTATAAACACCGCAATAGGTTATGATATTTGGCG-GAATTTTTGT
1 TGATATTTAGCGCATTTTTTGTATAAATACCGCAATAGGTTATGATATTTAGCGTG-TTTTTTGT
* *
1486839 ATAAATGCTGCAATAGGCTA
65 ATAAACGCTGCAATAGGTTA
* * *
1486859 TGATATTTGGCGGCATTTTTTTTGTATAAATACCGAAATAGGTTATAATATTTAGCGGTGTTTTT
1 TGATATTTAGC-GCA--TTTTTTGTATAAATACCGCAATAGGTTATGATATTTAGC-GTGTTTTT
* *
1486924 TGTATAAACG-TCGCAACATGTTA
62 TGTATAAACGCT-GCAATAGGTTA
1486947 TGATATTTAG
1 TGATATTTAG
1486957 TGGTGTTTTT
Statistics
Matches: 150, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
84 37 0.25
85 1 0.01
86 33 0.22
87 47 0.31
88 31 0.21
89 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (84 bp):
TGATATTTAGCGCATTTTTTGTATAAATACCGCAATAGGTTATGATATTTAGCGTGTTTTTTGTA
TAAACGCTGCAATAGGTTA
Found at i:1486904 original size:129 final size:130
Alignment explanation
Indices: 1486651--1486956 Score: 363
Period size: 129 Copynumber: 2.4 Consensus size: 130
1486641 TGTTCGTACT
* *
1486651 TTTAGCGGTATTTTTTGTATAAACATCGTAACATATT-TGATATTTAGCGACATTTTTTGTATAA
1 TTTAGCGGTATTTTTTGTATAAACATCGCAACATGTTATGATATTTAGCGACATTTTTTGTATAA
* * * * *
1486715 ATGTCGCAATAGATTATGACATTTAACGATGTTTTTTTGTATAAACGCTGCAATAGGTTATGATA
66 ATGTCGCAATAGACTATGACATTTAACGATGTTTTTTTGTATAAACACCGAAATAGGTTATAATA
* * * * *
1486780 TTTGGCGGT-TTTTTTGTATAAACACCGCAATAGGTTATGATATTTGGCGGA-A-TTTTTGTATA
1 TTTAGCGGTATTTTTTGTATAAACATCGCAACATGTTATGATATTTAGC-GACATTTTTTGTATA
* * ** *
1486842 AATG-CTGCAATAGGCTATGATATTTGGCGGCAT-TTTTTTTGTATAAATACCGAAATAGGTTAT
65 AATGTC-GCAATAGACTATGACATTTAAC-G-ATGTTTTTTTGTATAAACACCGAAATAGGTTAT
1486905 AATA
127 AATA
* *
1486909 TTTAGCGGTGTTTTTTGTATAAACGTCGCAACATGTTATGATATTTAG
1 TTTAGCGGTATTTTTTGTATAAACATCGCAACATGTTATGATATTTAG
1486957 TGGTGTTTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
127 1 0.01
128 53 0.36
129 57 0.39
130 37 0.25
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (130 bp):
TTTAGCGGTATTTTTTGTATAAACATCGCAACATGTTATGATATTTAGCGACATTTTTTGTATAA
ATGTCGCAATAGACTATGACATTTAACGATGTTTTTTTGTATAAACACCGAAATAGGTTATAATA
Found at i:1486966 original size:87 final size:86
Alignment explanation
Indices: 1486651--1486966 Score: 270
Period size: 86 Copynumber: 3.7 Consensus size: 86
1486641 TGTTCGTACT
* * ** * ***
1486651 TTTAGCGGTATTTTTTGTATAAAC-ATCGTAACATATT-TGATATTTAGCGACATTTTTTGTATA
1 TTTAGCGGTATTTTTTGTATAAACGCT-GCAACAGGTTATGATATTTAGGGTGTTTTTTTGTATA
** * *
1486714 AATGTCGCAATAGATTATGACA
65 AATACCGCAATAGGTTATGATA
* *
1486736 TTTAACGATGT-TTTTTTGTATAAACGCTGCAATAGGTTATGATATTT-GGCG-GTTTTTTTGTA
1 TTTAGCG--GTATTTTTTGTATAAACGCTGCAACAGGTTATGATATTTAGG-GTGTTTTTTTGTA
*
1486798 TAAACACCGCAATAGGTTATGATA
63 TAAATACCGCAATAGGTTATGATA
* * * * * *
1486822 TTTGGCGG-AATTTTTGTATAAATGCTGCAATAGGCTATGATATTTGGCGGCAT-TTTTTTTGTA
1 TTTAGCGGTATTTTTTGTATAAACGCTGCAACAGGTTATGATATTTAG-GG--TGTTTTTTTGTA
* *
1486885 TAAATACCGAAATAGGTTATAATA
63 TAAATACCGCAATAGGTTATGATA
* *
1486909 TTTAGCGGTGTTTTTTGTATAAACG-TCGCAACATGTTATGATATTTAGTGGTGTTTTT
1 TTTAGCGGTATTTTTTGTATAAACGCT-GCAACAGGTTATGATATTTAG-GGTGTTTTT
1486967 ATATAAACGC
Statistics
Matches: 186, Mismatches: 31, Indels: 26
0.77 0.13 0.11
Matches are distributed among these distances:
84 34 0.18
85 8 0.04
86 56 0.30
87 56 0.30
88 32 0.17
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (86 bp):
TTTAGCGGTATTTTTTGTATAAACGCTGCAACAGGTTATGATATTTAGGGTGTTTTTTTGTATAA
ATACCGCAATAGGTTATGATA
Found at i:1486982 original size:42 final size:42
Alignment explanation
Indices: 1486704--1486981 Score: 259
Period size: 42 Copynumber: 6.5 Consensus size: 42
1486694 TTAGCGACAT
* * * * ** *
1486704 TTTTTGTATAAATGTCGCAATAGATTATGACATTTAACGATGTT
1 TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCG--GTG
* *
1486748 TTTTTGTATAAACGCTGCAATAGGTTATGATATTTGGCGGTT
1 TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGGTG
* **
1486790 TTTTTGTATAAACACCGCAATAGGTTATGATATTTGGCGGAA
1 TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGGTG
* * * *
1486832 TTTTTGTATAAATGCTGCAATAGGCTATGATATTTGGCGGCATTT
1 TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGG---TG
** * * *
1486877 TTTTTGTATAAATACCGAAATAGGTTATAATATTTAGCGGTG
1 TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGGTG
* * * * *
1486919 TTTTTTGTATAAACGTCGCAACATGTTATGATATTTAGTGGTG
1 -TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGGTG
*
1486962 TTTTTATATAAACGCCGCAA
1 TTTTTGTATAAACGCCGCAA
1486982 CTGTGTACTC
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
42 96 0.49
43 34 0.17
44 32 0.16
45 34 0.17
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (42 bp):
TTTTTGTATAAACGCCGCAATAGGTTATGATATTTGGCGGTG
Found at i:1487205 original size:28 final size:26
Alignment explanation
Indices: 1487174--1487242 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
1487164 AACCATTCAA
1487174 GTAATGTAGTTCTAACATTAAGTCAAAT
1 GTAAT-TAGTTC-AACATTAAGTCAAAT
* * *
1487202 GTAATATAATTCATCATTAAGTGAAAT
1 GTAAT-TAGTTCAACATTAAGTCAAAT
1487229 GT-ATTAGTTCAACA
1 GTAATTAGTTCAACA
1487243 ACTATAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 8 0.23
26 2 0.06
27 15 0.43
28 10 0.29
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (26 bp):
GTAATTAGTTCAACATTAAGTCAAAT
Found at i:1488258 original size:127 final size:129
Alignment explanation
Indices: 1488117--1488369 Score: 474
Period size: 127 Copynumber: 2.0 Consensus size: 129
1488107 TCATACCTCT
1488117 CATTTCTTTAAACTCTAAAACCTACTTGCATCTTCCCACTGATACTTGAGCATTCCAGGTGGGAC
1 CATTTCTTTAAACTCTAAAACCTACTTGCATCTTCCCACTGATACTTGAGCATTCCAGGTGGGAC
*
1488182 ATTTTGTAACTTTTTTTCTAGGCCGATATCATTTTTAAGTA-TT-TTTTTTGAGGAACTCTGTG
66 ATTTTGTAACTTTTTTTCTAGGCCGAGATCATTTTTAAGTATTTATTTTTTGAGGAACTCTGTG
*
1488244 CATTTCTTTGAACTCTAAAACCTACTTGCATCTTCCCACTGATACTTGAGCATTCCAGGTGGGAC
1 CATTTCTTTAAACTCTAAAACCTACTTGCATCTTCCCACTGATACTTGAGCATTCCAGGTGGGAC
1488309 ATTTTGTAACTTTTTTTCTAGGCCGAGATCATTTTTAAGTATTTATTTTTTGAGGAACTCT
66 ATTTTGTAACTTTTTTTCTAGGCCGAGATCATTTTTAAGTATTTATTTTTTGAGGAACTCT
1488370 TGTGGTCTCT
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
127 104 0.85
128 2 0.02
129 16 0.13
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (129 bp):
CATTTCTTTAAACTCTAAAACCTACTTGCATCTTCCCACTGATACTTGAGCATTCCAGGTGGGAC
ATTTTGTAACTTTTTTTCTAGGCCGAGATCATTTTTAAGTATTTATTTTTTGAGGAACTCTGTG
Found at i:1494645 original size:2 final size:2
Alignment explanation
Indices: 1494638--1494667 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1494628 CTTTTTCTTG
1494638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1494668 TGTATAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1496289 original size:182 final size:182
Alignment explanation
Indices: 1495976--1496345 Score: 731
Period size: 182 Copynumber: 2.0 Consensus size: 182
1495966 AGTCGTACAA
*
1495976 TAATTGAAGCCTAGGCTGTAAGTTAATTAATAATTATAACAATTATCGATCATTTCTTTTCTTTT
1 TAATTTAAGCCTAGGCTGTAAGTTAATTAATAATTATAACAATTATCGATCATTTCTTTTCTTTT
1496041 ATTTTTCTCACAATTTATCCCAATTTTCATACATTCTTCTTATGATACTAATTTTAAGTTAATTA
66 ATTTTTCTCACAATTTATCCCAATTTTCATACATTCTTCTTATGATACTAATTTTAAGTTAATTA
1496106 TCGATCACTTCTTTTCCTTTCTTCCTCGTCTCGTTCTTTCAGATATTTTTCT
131 TCGATCACTTCTTTTCCTTTCTTCCTCGTCTCGTTCTTTCAGATATTTTTCT
1496158 TAATTTAAGCCTAGGCTGTAAGTTAATTAATAATTATAACAATTATCGATCATTTCTTTTCTTTT
1 TAATTTAAGCCTAGGCTGTAAGTTAATTAATAATTATAACAATTATCGATCATTTCTTTTCTTTT
1496223 ATTTTTCTCACAATTTATCCCAATTTTCATACATTCTTCTTATGATACTAATTTTAAGTTAATTA
66 ATTTTTCTCACAATTTATCCCAATTTTCATACATTCTTCTTATGATACTAATTTTAAGTTAATTA
1496288 TCGATCACTTCTTTTCCTTTCTTCCTCGTCTCGTTCTTTCAGATATTTTTCT
131 TCGATCACTTCTTTTCCTTTCTTCCTCGTCTCGTTCTTTCAGATATTTTTCT
1496340 TAATTT
1 TAATTT
1496346 TTTATATTTT
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 187 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.49
Consensus pattern (182 bp):
TAATTTAAGCCTAGGCTGTAAGTTAATTAATAATTATAACAATTATCGATCATTTCTTTTCTTTT
ATTTTTCTCACAATTTATCCCAATTTTCATACATTCTTCTTATGATACTAATTTTAAGTTAATTA
TCGATCACTTCTTTTCCTTTCTTCCTCGTCTCGTTCTTTCAGATATTTTTCT
Found at i:1496582 original size:29 final size:29
Alignment explanation
Indices: 1496544--1496613 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
1496534 TAAACTTATT
1496544 AAATATATTTTATT-TTATC-TTAACTTTAA
1 AAATATATTTTATTCTT-TCATTAA-TTTAA
*
1496573 AAATAAATTTTATTCTTTCATTAATTTAA
1 AAATATATTTTATTCTTTCATTAATTTAA
1496602 AGAATATATTTT
1 A-AATATATTTT
1496614 GTTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTCTTTCATTAATTTAA
Found at i:1496798 original size:2 final size:2
Alignment explanation
Indices: 1496787--1496820 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1496777 AAACAATAAG
1496787 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1496821 TATTTGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1497042 original size:20 final size:20
Alignment explanation
Indices: 1497017--1497056 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1497007 ATTTAAATGA
* *
1497017 TAAACGAACATAAACTAACG
1 TAAACGAACACAAACGAACG
1497037 TAAACGAACACAAACGAACG
1 TAAACGAACACAAACGAACG
1497057 AACATAAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.23, G:0.12, T:0.10
Consensus pattern (20 bp):
TAAACGAACACAAACGAACG
Found at i:1497058 original size:14 final size:14
Alignment explanation
Indices: 1497039--1497078 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
1497029 AACTAACGTA
1497039 AACGAACACAAACG
1 AACGAACACAAACG
*
1497053 AACGAACATAAACG
1 AACGAACACAAACG
1497067 AAC-AACACAAAC
1 AACGAACACAAAC
1497079 ACAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.60, C:0.28, G:0.10, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:1497070 original size:10 final size:10
Alignment explanation
Indices: 1497016--1497055 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1497006 CATTTAAATG
1497016 ATAAACGAAC
1 ATAAACGAAC
*
1497026 ATAAACTAAC
1 ATAAACGAAC
*
1497036 GTAAACGAAC
1 ATAAACGAAC
*
1497046 ACAAACGAAC
1 ATAAACGAAC
1497056 GAACATAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.57, C:0.23, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1497393 original size:24 final size:24
Alignment explanation
Indices: 1497344--1497393 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
1497334 ATTGTCTTCT
* * *
1497344 CTTTTCTCTCCGTCTCCCGCTTCA
1 CTTTTCTCTCAGTCTCCAGCTCCA
1497368 CTTTTCTCTCAG-CTCTCAGCTCCA
1 CTTTTCTCTCAGTCTC-CAGCTCCA
1497392 CT
1 CT
1497394 ATCACCAACG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.08, C:0.44, G:0.08, T:0.40
Consensus pattern (24 bp):
CTTTTCTCTCAGTCTCCAGCTCCA
Found at i:1497598 original size:33 final size:33
Alignment explanation
Indices: 1497556--1497625 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1497546 AACGAAATAG
*
1497556 CCACCGCTGCTCCTTCACTCTACGGTGAATCCA
1 CCACAGCTGCTCCTTCACTCTACGGTGAATCCA
* *
1497589 CCACAGCTGCTCTTTCACTCTACGGTGAATCCG
1 CCACAGCTGCTCCTTCACTCTACGGTGAATCCA
1497622 CCAC
1 CCAC
1497626 CACTTGGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (33 bp):
CCACAGCTGCTCCTTCACTCTACGGTGAATCCA
Found at i:1503387 original size:21 final size:21
Alignment explanation
Indices: 1503361--1503400 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1503351 CCGAAATACC
*
1503361 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
1503382 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
1503401 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:1504163 original size:22 final size:22
Alignment explanation
Indices: 1504135--1504176 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1504125 AAAGAAAAGA
*
1504135 CCATAA-TACCCTTTCAATCCTT
1 CCATAATTACCATTT-AATCCTT
1504157 CCATAATTACCATTTAATCC
1 CCATAATTACCATTTAATCC
1504177 AATACCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (22 bp):
CCATAATTACCATTTAATCCTT
Found at i:1504919 original size:63 final size:64
Alignment explanation
Indices: 1504795--1504972 Score: 225
Period size: 63 Copynumber: 2.8 Consensus size: 64
1504785 AATGGCGACA
* * * * * * * *
1504795 ACGACTGATTCGACGTTGGGTGGTGAAGATCAGAGTCATCATACACCGA-TGGTGTCTGGAGCG
1 ACGAGTGATTCGATGTTAGGTGGTGAAGATCAGAGTCATCAGACGCCAACAGGTGTCAGGAGCG
* *
1504858 ACGAGTGATTCGATGTTAGGTGCTGAAGATCAGAGTCATCAGATGCCAACAGG-GTCAGGAGCG
1 ACGAGTGATTCGATGTTAGGTGGTGAAGATCAGAGTCATCAGACGCCAACAGGTGTCAGGAGCG
* * *
1504921 ATGAGTGATTCGATATTAAGTGGTGAAGATCAGAGTCATCAGACGCCAACAG
1 ACGAGTGATTCGATGTTAGGTGGTGAAGATCAGAGTCATCAGACGCCAACAG
1504973 TGCCGGGAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 97 0.98
64 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (64 bp):
ACGAGTGATTCGATGTTAGGTGGTGAAGATCAGAGTCATCAGACGCCAACAGGTGTCAGGAGCG
Found at i:1506129 original size:51 final size:51
Alignment explanation
Indices: 1506069--1506171 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1506059 TTGAAATCCA
1506069 GCCTGTATATCCCATTGCTGGAAGTTGCGTTTTTATTCGGTTGGACGATGC
1 GCCTGTATATCCCATTGCTGGAAGTTGCGTTTTTATTCGGTTGGACGATGC
1506120 GCCTGTATATCCCATTGCTGGAAGTTGCGTTTTTATTCGGTTGGACGATGC
1 GCCTGTATATCCCATTGCTGGAAGTTGCGTTTTTATTCGGTTGGACGATGC
1506171 G
1 G
1506172 TATATCATAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (51 bp):
GCCTGTATATCCCATTGCTGGAAGTTGCGTTTTTATTCGGTTGGACGATGC
Done.