Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_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: 3817888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 19
Found at i:1326333 original size:19 final size:19
Alignment explanation
Indices: 1326242--1326387 Score: 151
Period size: 19 Copynumber: 8.4 Consensus size: 19
1326232 GCAACGAGAG
1326242 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1326261 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1326275 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1326295 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1326309 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1326328 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1326342 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1326361 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1326380 AATCGCAA
1 AATCGCAA
1326388 CGAGAGAATC
Statistics
Matches: 105, Mismatches: 6, Indels: 32
0.73 0.04 0.22
Matches are distributed among these distances:
14 32 0.30
15 2 0.02
16 5 0.05
17 4 0.04
18 3 0.03
19 46 0.44
20 13 0.12
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1326425 original size:52 final size:52
Alignment explanation
Indices: 1326228--1326409 Score: 220
Period size: 52 Copynumber: 3.6 Consensus size: 52
1326218 CGGAAATTAC
*
1326228 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
1326275 AATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
1326328 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1326380 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
1326410 TATAAACGCA
Statistics
Matches: 114, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
46 7 0.06
47 15 0.13
48 9 0.08
49 2 0.02
50 1 0.01
51 2 0.02
52 51 0.45
53 20 0.18
54 7 0.06
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1326475 original size:19 final size:19
Alignment explanation
Indices: 1326434--1326531 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
1326424 GATTCTCTCG
1326434 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
1326454 TTGCGATTTTCATTTGGCA
1 TTGCGATTTTCATTTCGCA
*
1326473 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
1326487 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1326506 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1326525 TTGCGAT
1 TTGCGAT
1326532 AGTCATTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
14 5 0.07
16 6 0.09
17 7 0.10
19 34 0.51
20 15 0.22
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1326528 original size:52 final size:53
Alignment explanation
Indices: 1326416--1326531 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
1326406 AAATTATAAA
1326416 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
* *
1326469 GGCATTGCGATTCTCTCGTTGTGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1326521 CGCATTGCGAT
1 CGCATTGCGAT
1326532 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 29 0.48
53 31 0.52
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:1326537 original size:19 final size:19
Alignment explanation
Indices: 1326496--1326539 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1326486 GTTGTGATTT
**
1326496 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
1326515 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
1326534 TCATTT
1 TCATTT
1326540 TTGCCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:1326657 original size:14 final size:14
Alignment explanation
Indices: 1326638--1326674 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1326628 TATCAATTAC
1326638 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1326652 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1326666 ACAAATCAA
1 ACAAATCAA
1326675 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:1328674 original size:14 final size:14
Alignment explanation
Indices: 1328655--1328711 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1328645 GCGAAATGAA
*
1328655 AATCGCAACGACAG
1 AATCGCAACGAAAG
1328669 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1328686 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1328702 AATCGCAACG
1 AATCGCAACG
1328712 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:1328682 original size:33 final size:33
Alignment explanation
Indices: 1328636--1328728 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1328626 GCGAAACCAA
*
1328636 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1328669 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1328702 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1328729 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1328693 original size:19 final size:19
Alignment explanation
Indices: 1328599--1328733 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1328589 TAGTTTACTT
* *
1328599 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1328619 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1328638 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1328657 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1328671 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1328690 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1328704 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1328723 TCGCAATGCGA
1 TCGCAACGCGA
1328734 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1328745 original size:19 final size:19
Alignment explanation
Indices: 1328729--1328876 Score: 163
Period size: 19 Copynumber: 8.3 Consensus size: 19
1328719 AAAATCGCAA
1328729 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1328748 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1328762 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1328781 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1328795 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1328814 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1328833 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1328852 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1328872 TGCGA
1 TGCGA
1328877 AAGTAAACTA
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
14 22 0.20
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 67 0.61
20 13 0.12
ACGTcount: A:0.08, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1328771 original size:33 final size:32
Alignment explanation
Indices: 1328729--1328859 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 32
1328719 AAAATCGCAA
1328729 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TTGTCGT
1328762 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
**
1328795 TGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGA-TTT-G--T--CGT
1328833 TGCGATTTTGGTTTCGCGTTGCGATTT
1 TGCGATTTTGGTTTCGCGTTGCGATTT
1328860 TAAGTTTCGT
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
32 1 0.01
33 54 0.62
34 3 0.03
36 1 0.01
37 3 0.03
38 25 0.29
ACGTcount: A:0.07, C:0.18, G:0.29, T:0.47
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTGTCGT
Found at i:1329040 original size:93 final size:93
Alignment explanation
Indices: 1328924--1329299 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
1328914 ATGGATTGCA
1328924 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1328988 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1329016 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1329081 TAGCAGAATTGGCAGCAACCAAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1329109 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1329174 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1329202 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1329267 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1329295 TTACT
1 TTACT
1329300 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1331031 original size:20 final size:20
Alignment explanation
Indices: 1331000--1331096 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
1330990 TTTTGGTTGA
1331000 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*** *
1331020 AATGACTGTCGCAACGAGATA
1 AATGAAAATCGCAACGAGA-G
1331041 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
1331059 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1331074 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1331094 AAT
1 AAT
1331097 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:1331066 original size:14 final size:14
Alignment explanation
Indices: 1331047--1331103 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1331037 GATAAATGAA
1331047 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1331061 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1331080 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1331094 AATCGCAACG
1 AATCGCAACG
1331104 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:1331080 original size:33 final size:33
Alignment explanation
Indices: 1330998--1331120 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1330988 TCTTTTGGTT
*
1330998 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
1331037 GATAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 G--AAATGAAAATCGCAACGAGAGAATCGCAACGC
1331072 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1331105 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1331121 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:1331156 original size:14 final size:14
Alignment explanation
Indices: 1331137--1331193 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1331127 TTTGGTTTCG
1331137 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1331151 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1331170 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1331184 CGTTGCGATT
1 CGTTGCGATT
1331194 TTCATTTCTC
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:1331169 original size:33 final size:33
Alignment explanation
Indices: 1331121--1331201 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1331111 AAAATCGCAA
**
1331121 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1331154 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1331187 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1331202 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1331204 original size:21 final size:21
Alignment explanation
Indices: 1331178--1331253 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1331168 CGCGTTGCGA
1331178 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1331199 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1331219 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1331240 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1331254 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1331234 original size:41 final size:41
Alignment explanation
Indices: 1331177--1331254 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1331167 TCGCGTTGCG
*
1331177 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1331218 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1331255 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1331375 original size:33 final size:33
Alignment explanation
Indices: 1331333--1331403 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1331323 AATACTAACT
*
1331333 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1331366 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1331399 TGAAA
1 TGAAA
1331404 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1331637 original size:22 final size:22
Alignment explanation
Indices: 1331585--1331639 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1331575 TGGTTGTGAG
**
1331585 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1331607 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1331629 GGATTTCTTCG
1 GGATTTCTTCG
1331640 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1331951 original size:60 final size:60
Alignment explanation
Indices: 1331793--1331952 Score: 212
Period size: 60 Copynumber: 2.6 Consensus size: 60
1331783 TATCGCGTAA
* ** *
1331793 CGATTTACGGATACGCGTTGCGATTTTATTTATTATCGTTGCGATTTACGGATACGCGTTG
1 CGATTTACGGATACGCGTTGCGA-TTTATCTATTCGCGTTGCGATTTACGGATACACGTTG
* * * * *
1331854 CGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACGTTG
1 CGATTTACGGATACGCGTTGCGATTTATCTATTCGCGTTGCGATTTACGGATACACGTTG
* *
1331914 CGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTT
1 CGATTTACGGATACGCGTTGCGATTTATCTATTCGCGTT
1331953 ATTTTCATAT
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 62 0.75
61 21 0.25
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
CGATTTACGGATACGCGTTGCGATTTATCTATTCGCGTTGCGATTTACGGATACACGTTG
Found at i:1331952 original size:20 final size:20
Alignment explanation
Indices: 1331793--1331940 Score: 190
Period size: 20 Copynumber: 7.3 Consensus size: 20
1331783 TATCGCGTAA
1331793 CGATTTACGGATACGCGTTG
1 CGATTTACGGATACGCGTTG
*** *
1331813 CGATTTTATTTATTA-TCGTTG
1 CGA-TTTACGGA-TACGCGTTG
1331834 CGATTTACGGATACGCGTTG
1 CGATTTACGGATACGCGTTG
* *
1331854 CGATATACGGATACGCATTG
1 CGATTTACGGATACGCGTTG
**
1331874 CGATTTACCCATACGCGTTG
1 CGATTTACGGATACGCGTTG
*
1331894 CGATTTACGGATACACGTTG
1 CGATTTACGGATACGCGTTG
1331914 CGATTTACGGATACGCGTTG
1 CGATTTACGGATACGCGTTG
1331934 CGATTTA
1 CGATTTA
1331941 TGTGTTCGCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
19 2 0.02
20 90 0.84
21 13 0.12
22 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
CGATTTACGGATACGCGTTG
Found at i:1331993 original size:21 final size:21
Alignment explanation
Indices: 1331969--1332019 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1331959 ATATTCGCGT
1331969 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
1331990 TGCGAATTTGTACTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
1332011 TGCGATTTT
1 TGCGATTTT
1332020 CAAGAATCGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:1337774 original size:17 final size:17
Alignment explanation
Indices: 1337752--1337785 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1337742 TAACAGTATT
1337752 ACTAGAAGACAACTTTG
1 ACTAGAAGACAACTTTG
*
1337769 ACTAGAAGACAGCTTTG
1 ACTAGAAGACAACTTTG
1337786 GCAAGAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (17 bp):
ACTAGAAGACAACTTTG
Found at i:1343079 original size:49 final size:49
Alignment explanation
Indices: 1342983--1343079 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
1342973 TTAATTATAC
* * * *
1342983 TAAATTAATTAATTAAGGCTTCCCTCTAACGTAAAGTGTCAAATTATGT
1 TAAATGAATCAATTAAGGATTCCCTATAACGTAAAGTGTCAAATTATGT
*
1343032 TAAATGAATCAATTAAGGATTCTCTATAA-GTTAAAGTGTCAAATTATG
1 TAAATGAATCAATTAAGGATTCCCTATAACG-TAAAGTGTCAAATTATG
1343080 AAATTTAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (49 bp):
TAAATGAATCAATTAAGGATTCCCTATAACGTAAAGTGTCAAATTATGT
Found at i:1343406 original size:137 final size:139
Alignment explanation
Indices: 1343155--1343504 Score: 444
Period size: 138 Copynumber: 2.5 Consensus size: 139
1343145 TTTAATAAAT
* * *
1343155 TATTGAGTCGAAAAATCAAAATAGAACCTCGAGCATAAAAGCAAGGACCAAATCAAAA-TT-TAC
1 TATTGAATCGAAAAATTAAAATAGAACCTCGAGC--AAAAGCAAGGACCAAATAAAAAGTTCT-C
* **
1343218 ATAAATTAGGGGACTAGATATGAAATTAAGCCTAGAATGGAGGCTCTAATTATTAACCTAGTT-A
63 CTAAATTAAAGGACTAGATATGAAATTAAGCCTAGAATGGAGGCTCTAATTATTAACCTA-TTCA
*
1343282 CTTTTAACCAA-A
127 ATTTTAACCAATA
* *
1343294 TATTGAATCGAACAATTAAAAT-GAATCCTCGAGCAAAAGCGAGGACCAAATAAAAAGTTCTCCT
1 TATTGAATCGAAAAATTAAAATAGAA-CCTCGAGCAAAAGCAAGGACCAAATAAAAAGTTCTCCT
*
1343358 AAATTAAAGGACTA-AGTATGAAATTAAGCCTA-AGTGGAGGCTCTAATTATTAACCTATTCAAT
65 AAATTAAAGGACTAGA-TATGAAATTAAGCCTAGAATGGAGGCTCTAATTATTAACCTATTCAAT
*
1343421 TTTAACCAATT
129 TTTAACCAATA
** * * * *
1343432 TATTGAATTTAATAATTAAAATGGAACCTCGAGCAAAAGCAAAGACCAAATTAAAAGTTCTCCTA
1 TATTGAATCGAAAAATTAAAATAGAACCTCGAGCAAAAGCAAGGACCAAATAAAAAGTTCTCCTA
1343497 AATTAAAG
66 AATTAAAG
1343505 AGAAAGTAAT
Statistics
Matches: 187, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
136 2 0.01
137 56 0.30
138 98 0.52
139 31 0.17
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (139 bp):
TATTGAATCGAAAAATTAAAATAGAACCTCGAGCAAAAGCAAGGACCAAATAAAAAGTTCTCCTA
AATTAAAGGACTAGATATGAAATTAAGCCTAGAATGGAGGCTCTAATTATTAACCTATTCAATTT
TAACCAATA
Found at i:1343805 original size:43 final size:44
Alignment explanation
Indices: 1343753--1343849 Score: 99
Period size: 43 Copynumber: 2.2 Consensus size: 44
1343743 ATACAATGCA
* * * * *
1343753 GAAAATTAAAAGCTGGAATTTAAAGTAC-TGAAATATAAA-TGTT
1 GAAATTTAAAAGCTGAAATTAAAAGTACATAAAAT-TAAAGGGTT
* *
1343796 GAAATTTAAAGGTTGAAATTAAAAGTACATAAAATTAAAGGGTT
1 GAAATTTAAAAGCTGAAATTAAAAGTACATAAAATTAAAGGGTT
*
1343840 GAAATGTAAA
1 GAAATTTAAA
1343850 TAAAAAAGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 27 0.61
44 17 0.39
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.29
Consensus pattern (44 bp):
GAAATTTAAAAGCTGAAATTAAAAGTACATAAAATTAAAGGGTT
Found at i:1343975 original size:22 final size:22
Alignment explanation
Indices: 1343950--1343992 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1343940 AATAAAAAAG
1343950 GTTAGTGGTTAGAAA-TTAGAAA
1 GTTAGTGGTTA-AAAGTTAGAAA
1343972 GTTAGTGGTTAAAAGTTAGAA
1 GTTAGTGGTTAAAAGTTAGAA
1343993 TTTTACCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (22 bp):
GTTAGTGGTTAAAAGTTAGAAA
Found at i:1354065 original size:47 final size:44
Alignment explanation
Indices: 1353996--1354113 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 44
1353986 GAGAATGTTA
* * * *
1353996 ATCCACCTCATTTTGTGATGGAATCAAGTAAAGTGGCAACGGTGCTG
1 ATCCACCTCATTCTGTGATGGAATCAAGCAAAATGACAA---TGCTG
* *
1354043 ATCCAACTCATTCTGTGATGGAATCAAGCAAAATGACAATGTTG
1 ATCCACCTCATTCTGTGATGGAATCAAGCAAAATGACAATGCTG
* *
1354087 ATTCACCTCTTTCTGTGATGGAATCAA
1 ATCCACCTCATTCTGTGATGGAATCAA
1354114 AAAAAAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 28 0.45
47 34 0.55
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCCACCTCATTCTGTGATGGAATCAAGCAAAATGACAATGCTG
Found at i:1354111 original size:44 final size:44
Alignment explanation
Indices: 1353984--1354154 Score: 139
Period size: 44 Copynumber: 3.8 Consensus size: 44
1353974 TCTTCTTCCT
* * *
1353984 ATGAGAATGTTAATCCACCTCATTT-TGTGATGGAATCAAGTAAA
1 ATGACAATGTTGATCCACCTC-TTTCTGTGATGGAATCAAGCAAA
* * * * *
1354028 GTGGCAACGGTGCTGATCCAACTCATTCTGTGATGGAATCAAGCAAA
1 ATGACAA---TGTTGATCCACCTCTTTCTGTGATGGAATCAAGCAAA
* **
1354075 ATGACAATGTTGATTCACCTCTTTCTGTGATGGAATCAAAAAAAA
1 ATGACAATGTTGATCCACCTCTTTCTGTGATGGAATC-AAGCAAA
*** * *
1354120 AT-TTGATGTTGATCTACCTCTTTCTGTGATAGAAT
1 ATGACAATGTTGATCCACCTCTTTCTGTGATGGAAT
1354155 TGAGTAAAAG
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
44 57 0.57
45 7 0.07
46 2 0.02
47 34 0.34
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (44 bp):
ATGACAATGTTGATCCACCTCTTTCTGTGATGGAATCAAGCAAA
Found at i:1354171 original size:44 final size:45
Alignment explanation
Indices: 1354081--1354177 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
1354071 CAAAATGACA
* *
1354081 ATGTTGAT-TCACCTCTTTCTGTGATGGAATCAAAAAAAAATTTG
1 ATGTTGATCTCACCTCTTTCTGTGATAGAATCAAAAAAAAATGTG
** ** *
1354125 ATGTTGATCT-ACCTCTTTCTGTGATAGAATTGAGTAAAAGTGTG
1 ATGTTGATCTCACCTCTTTCTGTGATAGAATCAAAAAAAAATGTG
1354169 ATGTTGATC
1 ATGTTGATC
1354178 CAACTCCTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (45 bp):
ATGTTGATCTCACCTCTTTCTGTGATAGAATCAAAAAAAAATGTG
Found at i:1354374 original size:41 final size:41
Alignment explanation
Indices: 1354329--1354418 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
1354319 TTGCCCGGTG
**
1354329 GACTTATAAAATG-CCCGAAGGACTT-ATCATCTTGCTCGAAA
1 GACTTAT--AATGACCCGAAGGACTTAATCATCACGCTCGAAA
*
1354370 GACTTACTAATGACCCGAAGGATTTAATCATCACGCTCGAAA
1 GACTTA-TAATGACCCGAAGGACTTAATCATCACGCTCGAAA
1354412 GACTTAT
1 GACTTAT
1354419 TTGTAACATC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 4 0.09
41 18 0.42
42 21 0.49
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (41 bp):
GACTTATAATGACCCGAAGGACTTAATCATCACGCTCGAAA
Found at i:1354412 original size:42 final size:40
Alignment explanation
Indices: 1354338--1354417 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 40
1354328 GGACTTATAA
**
1354338 AATGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACT
1 AATGCCCGAAGGACTTATCATCACGCTCGAAAGACTTACT
*
1354378 AATGACCCGAAGGATTTAATCATCACGCTCGAAAGACTTA
1 AATG-CCCGAAGGACTT-ATCATCACGCTCGAAAGACTTA
1354418 TTTGTAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 4 0.11
41 11 0.31
42 20 0.57
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
AATGCCCGAAGGACTTATCATCACGCTCGAAAGACTTACT
Found at i:1356429 original size:21 final size:21
Alignment explanation
Indices: 1356403--1356446 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1356393 TACCGAAATT
*
1356403 ACTGTAGTAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGATAC
*
1356424 ACTGTAGCAGTGCATTGATAC
1 ACTGTAGCAGTGCATCGATAC
1356445 AC
1 AC
1356447 AATTTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATAC
Found at i:1360259 original size:21 final size:21
Alignment explanation
Indices: 1360235--1360299 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
1360225 TACTGAAATT
1360235 ACTATAGCAGTGCATCGGTAC
1 ACTATAGCAGTGCATCGGTAC
*
1360256 ACTATAGCAGTGTATCGGTAC
1 ACTATAGCAGTGCATCGGTAC
*
1360277 ACTGTAGCAGTGCATCGGTAC
1 ACTATAGCAGTGCATCGGTAC
1360298 AC
1 AC
1360300 AATTTATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ACTATAGCAGTGCATCGGTAC
Found at i:1360602 original size:20 final size:20
Alignment explanation
Indices: 1360577--1360617 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1360567 GTTACATTAC
1360577 TGATGGCTCGAAAGACTTAT
1 TGATGGCTCGAAAGACTTAT
*
1360597 TGATGGCTCGAAGGACTTAT
1 TGATGGCTCGAAAGACTTAT
1360617 T
1 T
1360618 AATTTTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (20 bp):
TGATGGCTCGAAAGACTTAT
Found at i:1360693 original size:16 final size:16
Alignment explanation
Indices: 1360663--1360695 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1360653 GAAAACGCTT
1360663 TTTTACTTTTCAAAAA
1 TTTTACTTTTCAAAAA
1360679 TTTTA-TTTTCTAAAAA
1 TTTTACTTTTC-AAAAA
1360695 T
1 T
1360696 CTTAAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTACTTTTCAAAAA
Found at i:1361570 original size:17 final size:17
Alignment explanation
Indices: 1361548--1361580 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1361538 TTACCGGATT
1361548 AAAAACCGGTTTTTTTA
1 AAAAACCGGTTTTTTTA
*
1361565 AAAAACTGGTTTTTTT
1 AAAAACCGGTTTTTTT
1361581 TCAAACCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAACCGGTTTTTTTA
Found at i:1367387 original size:17 final size:15
Alignment explanation
Indices: 1367361--1367394 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
1367351 TGGCGACTCC
1367361 AAAACATTTTTTAACA
1 AAAACATTTTTT-ACA
1367377 AAAACCATTTTTTACA
1 AAAA-CATTTTTTACA
1367393 AA
1 AA
1367395 TAGTCGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAACATTTTTTACA
Found at i:1369223 original size:19 final size:18
Alignment explanation
Indices: 1369201--1369247 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1369191 AGTGAATAAT
1369201 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
1369220 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
1369239 AATA-AAGAA
1 AATATAAGAA
1369248 AAGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:1369699 original size:19 final size:20
Alignment explanation
Indices: 1369658--1369708 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1369648 GAAACCCCTT
*
1369658 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1369678 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1369697 TGAAGATACATG
1 TGAAAATACATG
1369709 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1377102 original size:21 final size:21
Alignment explanation
Indices: 1377065--1377150 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
1377055 TTTTGGTGCA
*
1377065 GAGGGAATCGA-TCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
**
1377085 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCCT
*
1377106 GAAGGGGAACCGATTCCCCCCACA
1 G-A-GGGAACCGATTCCCCCC-CT
* *
1377130 G-GGGAATCGATACCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
1377150 G
1 G
1377151 GGGTTCTGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.23
21 23 0.43
22 1 0.02
23 16 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:1382627 original size:19 final size:18
Alignment explanation
Indices: 1382603--1382657 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 18
1382593 TTTGAATTTC
1382603 TTTTTCTTTTCTTCTTTT
1 TTTTTCTTTTCTTCTTTT
1382621 GTTTTTCTGAATTTTCTTCTTTT
1 -TTTTTC----TTTTCTTCTTTT
1382644 TTTTGTCTTTTCTT
1 TTTT-TCTTTTCTT
1382658 TGTTTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 13 0.42
22 4 0.13
23 14 0.45
ACGTcount: A:0.04, C:0.15, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTTCTTCTTTT
Found at i:1382637 original size:20 final size:19
Alignment explanation
Indices: 1382614--1382664 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
1382604 TTTTCTTTTC
1382614 TTCTTTTGTTTTTCTGAATT
1 TTCTTTTGTTTTT-TGAATT
**
1382634 TTCTTCTT-TTTTTTGTCTT
1 TTCTT-TTGTTTTTTGAATT
1382653 TTC-TTTGTTTTT
1 TTCTTTTGTTTTT
1382665 GTACTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 2 0.07
18 6 0.22
19 7 0.26
20 10 0.37
21 2 0.07
ACGTcount: A:0.04, C:0.12, G:0.08, T:0.76
Consensus pattern (19 bp):
TTCTTTTGTTTTTTGAATT
Found at i:1382663 original size:19 final size:19
Alignment explanation
Indices: 1382618--1382664 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
1382608 CTTTTCTTCT
1382618 TTTGTTTTTCTGAATTTTC
1 TTTGTTTTTCTGAATTTTC
* **
1382637 TTCT-TTTTTTTGTCTTTTC
1 TT-TGTTTTTCTGAATTTTC
1382656 TTTGTTTTT
1 TTTGTTTTT
1382665 GTACTTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.04, C:0.11, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTGTTTTTCTGAATTTTC
Found at i:1383380 original size:22 final size:22
Alignment explanation
Indices: 1383339--1383419 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
1383329 CTCGTATAAA
1383339 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1383362 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1383384 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1383406 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
1383420 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1383415 original size:13 final size:13
Alignment explanation
Indices: 1383353--1383415 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
1383343 CCGAAGTGCC
1383353 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1383366 CC---GAAGTGC-
1 CCGTAGAATTGCA
1383375 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1383388 CC---GAAGTGC-
1 CCGTAGAATTGCA
1383397 CCGTAGAATTGCA
1 CCGTAGAATTGCA
1383410 CCGTAG
1 CCGTAG
1383416 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:1383665 original size:30 final size:30
Alignment explanation
Indices: 1383630--1383706 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
1383620 CCGTAGTTCA
* * *
1383630 TATCACGTAGTCATATTATTTCCATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1383660 TATCACATAGTCATATCATTTACATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1383690 TATCACATAGCTCATAT
1 TATCACATAG-TCATAT
1383707 AACTTTTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 37 0.86
31 6 0.14
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
TATCACATAGTCATATCATTTACATACCTT
Found at i:1383790 original size:29 final size:29
Alignment explanation
Indices: 1383720--1383791 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1383710 TTTTCTGCAT
* * *
1383720 ATTCATGTCATGCAATACATATCATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
1383749 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
1383778 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1383792 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:1384205 original size:67 final size:67
Alignment explanation
Indices: 1384093--1384243 Score: 232
Period size: 67 Copynumber: 2.3 Consensus size: 67
1384083 TTTTTCTCAT
* *
1384093 GGGGGAATCGGTTCCCCCTCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGA
1 GGGGGTATCGGTTCCCCCTCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAA-ATCATATACGA
1384158 TGA
65 TGA
* * *
1384161 GGGGGTATCGGTTCCCCC-CTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCCTCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGAT
1384225 GA
66 GA
*
1384227 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1384244 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 27 0.35
67 33 0.43
68 17 0.22
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCTCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGAT
GA
Found at i:1384253 original size:21 final size:21
Alignment explanation
Indices: 1384223--1384265 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1384213 ATCATATTCG
* *
1384223 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1384244 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1384265 T
1 T
1384266 AGCCTGAAAA
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:1390346 original size:22 final size:22
Alignment explanation
Indices: 1390305--1390385 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
1390295 CTCGTATAAA
1390305 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1390328 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1390350 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1390372 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
1390386 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1390381 original size:13 final size:13
Alignment explanation
Indices: 1390319--1390381 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
1390309 CCGAAGTGCC
1390319 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1390332 CC---GAAGTGC-
1 CCGTAGAATTGCA
1390341 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1390354 CC---GAAGTGC-
1 CCGTAGAATTGCA
1390363 CCGTAGAATTGCA
1 CCGTAGAATTGCA
1390376 CCGTAG
1 CCGTAG
1390382 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:1390631 original size:30 final size:30
Alignment explanation
Indices: 1390596--1390672 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
1390586 CCGTAGTTCA
* * *
1390596 TATCACGTAGTCATATTATTTCCATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1390626 TATCACATAGTCATATCATTTACATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1390656 TATCACATAGCTCATAT
1 TATCACATAG-TCATAT
1390673 AACTTTTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 37 0.86
31 6 0.14
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
TATCACATAGTCATATCATTTACATACCTT
Found at i:1390756 original size:29 final size:29
Alignment explanation
Indices: 1390686--1390757 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1390676 TTTTCTGCAT
* * *
1390686 ATTCATGTCATGCAATACATATCATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
1390715 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
1390744 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1390758 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:1391171 original size:66 final size:65
Alignment explanation
Indices: 1391075--1391209 Score: 198
Period size: 66 Copynumber: 2.1 Consensus size: 65
1391065 AATCGGTTCC
* * **
1391075 CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGATGAGGGGGTATTGGT
1 CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAA-ATCATATACGATGAAGGGGTATCAGT
1391140 T
65 T
* * *
1391141 CCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTGAAGGGGTATCAGTT
1 CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGATGAAGGGGTATCAGTT
1391206 CCCC
1 CCCC
1391210 TTGAATGGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 25 0.40
66 37 0.60
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (65 bp):
CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGATGAAGGGGTATCAGTT
Found at i:1391234 original size:65 final size:64
Alignment explanation
Indices: 1391075--1391234 Score: 178
Period size: 66 Copynumber: 2.4 Consensus size: 64
1391065 AATCGGTTCC
* * **
1391075 CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGATGAGGGGGTATTGGT
1 CCCCCTGGGGGTATCGATTCCCCT--AGCATTCTGGAATATCATATACGATGAAGGGGTATCAGT
1391140 T
64 T
* *
1391141 CCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTTGAAGGGGTATCAGT
1 CCCCCTGGGGGTATCGATT-CCC-CTAGCATTCTGGAATATCATATACGATGAAGGGGTATCAGT
1391205 T
64 T
* * *
1391206 CCCCTTGAATGGGTACCGATTCCCCTAGC
1 CCCCCTG--GGGGTATCGATTCCCCTAGC
1391235 CCGAAAATCC
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
65 32 0.40
66 34 0.42
67 13 0.16
68 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.29
Consensus pattern (64 bp):
CCCCCTGGGGGTATCGATTCCCCTAGCATTCTGGAATATCATATACGATGAAGGGGTATCAGTT
Found at i:1392128 original size:19 final size:18
Alignment explanation
Indices: 1392106--1392152 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1392096 AGTGAATAAT
1392106 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
1392125 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
1392144 AATA-AAGAA
1 AATATAAGAA
1392153 AGGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:1392603 original size:19 final size:20
Alignment explanation
Indices: 1392562--1392612 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1392552 GAAACCCCTT
*
1392562 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1392582 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1392601 TGAAGATACATG
1 TGAAAATACATG
1392613 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1399070 original size:79 final size:79
Alignment explanation
Indices: 1398939--1399095 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
1398929 TATAAGTTTT
1398939 AAAGATCTTTCCTCAACGAATTTAAATAGACAAACATTTCTTTTTCTCTCATTCCCAAATTTTAG
1 AAAGATCTTTCCTCAACGAATTTAAATAGACAAACATTTCTTTTTCTCTCATTCCCAAATTTTAG
1399004 GCGTGGTCATTGTC
66 GCGTGGTCATTGTC
1399018 AAAGATCTTTCCTCAACGAATTTAAATAGACAAACATTTCTTTTTCTCTCATTCCCAAATTTTAG
1 AAAGATCTTTCCTCAACGAATTTAAATAGACAAACATTTCTTTTTCTCTCATTCCCAAATTTTAG
*
1399083 GTGTGGTCATTGT
66 GCGTGGTCATTGT
1399096 TTAGGTTGTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (79 bp):
AAAGATCTTTCCTCAACGAATTTAAATAGACAAACATTTCTTTTTCTCTCATTCCCAAATTTTAG
GCGTGGTCATTGTC
Found at i:1412606 original size:46 final size:46
Alignment explanation
Indices: 1412539--1413057 Score: 790
Period size: 46 Copynumber: 11.3 Consensus size: 46
1412529 TAAAACGAAT
1412539 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
*
1412585 CCATAAGTAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* * *
1412631 ACATAAATGAAATGCATGAAAAGATGCATTAAGGAATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* * *
1412677 ACATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* * *
1412723 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* *
1412769 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* * * *
1412815 CCATAAATAAAATTCATGATATGATACATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
*
1412861 CCATAAATGAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
* *
1412907 CCATAAATAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
1412953 CCATAAATAAAATGCAT-AAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAA-GATGCATTAAGGCATGAAAGGATG
* * * *
1412999 CCATATATAAAATGCATGAAAGGATGCATTAAGGCCA-CAAAGAATG
1 CCATAAATAAAATGCATGAAAAGATGCATTAAGG-CATGAAAGGATG
*
1413045 CCATAAATGAAAT
1 CCATAAATAAAAT
1413058 TAACGAATAA
Statistics
Matches: 439, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
45 3 0.01
46 431 0.98
47 5 0.01
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAATAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
Found at i:1413532 original size:81 final size:81
Alignment explanation
Indices: 1413389--1413561 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 81
1413379 TGTTCTAAAA
* *
1413389 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTCAAATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATCATGCAAGTCAAATGAAAG
**
1413454 GTTAAATACCTTTGAG
66 ACTAAATACCTTTGAG
* * * * * *
1413470 TAAATGATTAATGGCCTAGTTGTGCATTTGGCAGAAAA-GTGTTAATCATTCAAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCA-AAAATGTGTCAATCATGCAAGTCAAATGAAA
* *
1413534 GACTAAATGCCTTTGGG
65 GACTAAATACCTTTGAG
1413551 TAAAAGATTAA
1 TAAAAGATTAA
1413562 AGGAATTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 74 0.95
82 4 0.05
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATCATGCAAGTCAAATGAAAG
ACTAAATACCTTTGAG
Found at i:1418343 original size:46 final size:46
Alignment explanation
Indices: 1418276--1418662 Score: 578
Period size: 46 Copynumber: 8.3 Consensus size: 46
1418266 TAAAACGAAT
* *
1418276 CCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
1418322 CCATAAATAAAATGCATGAAAGGA-GACATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG-CATTAAGGCATGAAAGGATG
1418368 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
1418414 ACATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
1418460 CCATAAATGAAATGGATGAAAGGATACATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* **
1418506 CCATAAATGAAATACATGAAAGGATGCCATAAATGAAATACATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
* *
1418558 CCATAAATAAAATGCTTGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
1418604 CCATAAATAAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1418650 CCATAAATGAAAT
1 CCATAAATGAAAT
1418663 TAACGTATAA
Statistics
Matches: 312, Mismatches: 21, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
45 1 0.00
46 265 0.85
47 4 0.01
48 1 0.00
50 1 0.00
51 3 0.01
52 37 0.12
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:1418345 original size:26 final size:25
Alignment explanation
Indices: 1418276--1418662 Score: 286
Period size: 26 Copynumber: 16.5 Consensus size: 25
1418266 TAAAACGAAT
1418276 CCATAAATAAAATGCATGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
* *
1418302 -CAT---T-AAGGCATGAAAGGATA
1 CCATAAATAAATGCATGAAAGGATG
1418322 CCATAAATAAAATGCATGAAAGGA-G
1 CCATAAAT-AAATGCATGAAAGGATG
* *
1418347 ACAT---T-AAGGCATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
1418368 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
*
1418394 -CAT---T-AAGGCATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
* *
1418414 ACATAAATGAAATGCATGAAATGATG
1 CCATAAAT-AAATGCATGAAAGGATG
*
1418440 -CAT---T-AAGGCATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
*
1418460 CCATAAATGAAATGGATGAAAGGAT-
1 CCATAAAT-AAATGCATGAAAGGATG
* *
1418485 ACAT---T-AAGGCATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
*
1418506 CCATAAATGAAATACATGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
*
1418532 CCATAAATGAAATACATGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
*
1418558 CCATAAATAAAATGCTTGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
*
1418584 -CAT---T-AAGGCATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
1418604 CCATAAATAAAATGCATGAAAGGATG
1 CCATAAAT-AAATGCATGAAAGGATG
* *
1418630 -CAT---T-AAGGAATGAAAGGATG
1 CCATAAATAAATGCATGAAAGGATG
1418650 CCATAAATGAAAT
1 CCATAAAT-AAAT
1418663 TAACGTATAA
Statistics
Matches: 289, Mismatches: 30, Indels: 84
0.72 0.07 0.21
Matches are distributed among these distances:
20 97 0.34
21 22 0.08
22 7 0.02
24 7 0.02
25 21 0.07
26 135 0.47
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (25 bp):
CCATAAATAAATGCATGAAAGGATG
Found at i:1418599 original size:20 final size:20
Alignment explanation
Indices: 1418574--1418650 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 20
1418564 ATAAAATGCT
1418574 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
1418594 TGAAAGGATGCCATAAATAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
1418620 TGAAAGGATGCATTAAGGAA
1 TGAAAGGATGCATTAAGGCA
1418640 TGAAAGGATGC
1 TGAAAGGATGC
1418651 CATAAATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
20 25 0.52
21 3 0.06
22 1 0.02
24 1 0.02
25 3 0.06
26 15 0.31
ACGTcount: A:0.44, C:0.09, G:0.27, T:0.19
Consensus pattern (20 bp):
TGAAAGGATGCATTAAGGCA
Found at i:1419134 original size:81 final size:80
Alignment explanation
Indices: 1418997--1419164 Score: 255
Period size: 81 Copynumber: 2.1 Consensus size: 80
1418987 TGTTCTAAAA
* ** * *
1418997 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTTTTCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
*
1419062 GTTAAATACCTTTGAG
66 GCTAAATACCTTTG-G
*
1419078 TAAAAGATTAATGGCCTATCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
*
1419143 GCTAAATGCCTTTGG
66 GCTAAATACCTTTGG
1419158 TAAAAGA
1 TAAAAGA
1419165 CTAAAGAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 8 0.10
81 71 0.90
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (80 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
GCTAAATACCTTTGG
Found at i:1423657 original size:41 final size:41
Alignment explanation
Indices: 1423511--1423912 Score: 215
Period size: 41 Copynumber: 9.8 Consensus size: 41
1423501 AATGGTAACG
* *
1423511 TTAGCGGCGTTTTTATACAAAACGCCGCAATATAGTAATACT
1 TTAGCGGCGTTTTTATAC-AAACGCCGCAATAGAGTAGTACT
* * ** *
1423553 TTAGCGGCGTTTGTATAAAAATACCGCAATAGGGT--TCATCT
1 TTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTAGT-A-CT
* * * *
1423594 ATAGTGGCATTTTT-TCAACAAACGCCGCAACAGAGTAGTACT
1 TTAGCGGCGTTTTTAT--ACAAACGCCGCAATAGAGTAGTACT
*
1423636 TTAGCGGCGTTTTTATACAAACG-CGACAATAG-GT--TCATCC
1 TTAGCGGCGTTTTTATACAAACGCCG-CAATAGAGTAGT-A-CT
* * ** **
1423676 ATAGTGGCGTTTCTTA-ACAAACGTTGTTATAGAGTAGTACT
1 TTAGCGGCGTTT-TTATACAAACGCCGCAATAGAGTAGTACT
* *
1423717 TTAGCGGCGTTTTT-TACAAACGCCGTAATAG-GT-TTAATCT
1 TTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTAGT-A-CT
* * * *
1423757 ATAGTGGCGTTTATTCA-ACAAACGCCGCAAAATAGTAGTACTT
1 TTAGCGGCGTTT-TT-ATACAAACGCCGCAATAGAGTAGTAC-T
*
1423800 TTAGCGGCGTTTTT-TACAAACGCCGCAATAG-GT-TTCATCT
1 TTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTAGT-A-CT
** * * * * *
1423840 ACAGTGACGTTTTT-TAACAAACGCCGCAACATAATAGTACT
1 TTAGCGGCGTTTTTAT-ACAAACGCCGCAATAGAGTAGTACT
* * * *
1423881 GTAGAGGCATTTTTTTACAAACGCCGCAATAG
1 TTAGCGGCGTTTTTATACAAACGCCGCAATAG
1423913 TTTGGTATAT
Statistics
Matches: 271, Mismatches: 58, Indels: 63
0.69 0.15 0.16
Matches are distributed among these distances:
38 2 0.01
39 6 0.02
40 70 0.26
41 110 0.41
42 63 0.23
43 18 0.07
44 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTAGTACT
Found at i:1423780 original size:163 final size:165
Alignment explanation
Indices: 1423544--1423862 Score: 448
Period size: 163 Copynumber: 1.9 Consensus size: 165
1423534 GCCGCAATAT
* * *
1423544 AGTAATACTTTAGCGGCGTTTGTATAAAAATACCGCAATAGGGTTCATCTATAGTGGCATTTTTT
1 AGTAATACTTTAGCGGCGTTTGTATAAAAACACCGCAATAGGGTTAATCTATAGTGGCATTTATT
*
1423609 CAACAAACGCCGCAACAGAGTAGTAC-TTTAGCGGCGTTTTTATACAAACG-CGACAATAGG-TT
66 CAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTT-TACAAACGCCG-CAATAGGTTT
* *
1423671 CATCCATAGTGGCGTTTCTTAACAAACGTTGTTATAG
129 CATCCACAGTGACGTTTCTTAACAAACGTTGTTATAG
* * * * * * *
1423708 AGTAGTACTTTAGCGGCGTTT-TTTACAAACGCCGTAATAGGTTTAATCTATAGTGGCGTTTATT
1 AGTAATACTTTAGCGGCGTTTGTATAAAAACACCGCAATAGGGTTAATCTATAGTGGCATTTATT
*
1423772 CAACAAACGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGGTTTCA
66 CAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGGTTTCA
* *
1423837 TCTACAGTGACGTTTTTTAACAAACG
131 TCCACAGTGACGTTTCTTAACAAACG
1423863 CCGCAACATA
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
163 73 0.54
164 63 0.46
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (165 bp):
AGTAATACTTTAGCGGCGTTTGTATAAAAACACCGCAATAGGGTTAATCTATAGTGGCATTTATT
CAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGGTTTCA
TCCACAGTGACGTTTCTTAACAAACGTTGTTATAG
Found at i:1423813 original size:82 final size:81
Alignment explanation
Indices: 1423516--1423912 Score: 442
Period size: 83 Copynumber: 4.8 Consensus size: 81
1423506 TAACGTTAGC
* * * * **
1423516 GGCGTTTTT-ATACAAAACGCCGCAATATAGTAATACTTTAGCGGCGTTTGTATAAAAATACCGC
1 GGCGTTTTTCA-AC-AAACGCCGCAACATAGTAGTACTTTAGCGGCGTTT-TTTACAAACGCCGC
*
1423580 AATAGGGTTCATCTATAGT
63 AATAGGTTTCATCTATAGT
* *
1423599 GGCATTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACG-CGAC
1 GGC-GTTTTTCAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTT-TACAAACGCCG-C
*
1423663 AATAGG-TTCATCCATAGT
63 AATAGGTTTCATCTATAGT
** ** * * *
1423681 GGCGTTTCTT-AACAAACGTTGTTATAGAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGTAA
1 GGCGTTT-TTCAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGCAA
*
1423745 TAGGTTTAATCTATAGT
65 TAGGTTTCATCTATAGT
*
1423762 GGCGTTTATTCAACAAACGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCA
1 GGCGTTT-TTCAACAAACGCCGCAACATAGTAGTAC-TTTAGCGGCGTTTTTTACAAACGCCGCA
*
1423827 ATAGGTTTCATCTACAGT
64 ATAGGTTTCATCTATAGT
* * * * * *
1423845 GACGTTTTTTAACAAACGCCGCAACATAATAGTACTGTAGAGGCATTTTTTTACAAACGCCGCAA
1 GGCGTTTTTCAACAAACGCCGCAACATAGTAGTACTTTAGCGGC-GTTTTTTACAAACGCCGCAA
1423910 TAG
65 TAG
1423913 TTTGGTATAT
Statistics
Matches: 269, Mismatches: 35, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
80 14 0.05
81 66 0.25
82 85 0.32
83 96 0.36
84 7 0.03
85 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (81 bp):
GGCGTTTTTCAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGCAAT
AGGTTTCATCTATAGT
Found at i:1423933 original size:82 final size:80
Alignment explanation
Indices: 1423516--1423955 Score: 402
Period size: 82 Copynumber: 5.3 Consensus size: 80
1423506 TAACGTTAGC
* * * * **
1423516 GGCG-TTTTTATACAAAACGCCGCAATATAGTAATACTTTAGCGGCGTTTGTATAAAAATACCGC
1 GGCGTTTTTTA-AC-AAACGCCGCAACATAGTAGTACTTTAGCGGCGTTT-TTTACAAACGCCGC
* *
1423580 AATAGGGTTCATCTATAGT
63 AATA-GGTTTATATATAGT
* *
1423599 GGCATTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACG-CGAC
1 GGCGTTTTTT-AACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTT-TACAAACGCCG-C
* **
1423663 AATAGGTTCATCCATAGT
63 AATAGGTTTATATATAGT
* ** ** * * *
1423681 GGCGTTTCTTAACAAACGTTGTTATAGAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGTAAT
1 GGCGTTTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGCAAT
*
1423746 AGGTTTAATCTATAGT
66 AGGTTT-ATATATAGT
* *
1423762 GGCGTTTATTCAACAAACGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCA
1 GGCGTTT-TTTAACAAACGCCGCAACATAGTAGTAC-TTTAGCGGCGTTTTTTACAAACGCCGCA
* *
1423827 ATAGGTTTCATCTACAGT
64 ATAGGTTT-ATATATAGT
* * * * *
1423845 GACGTTTTTTAACAAACGCCGCAACATAATAGTACTGTAGAGGCATTTTTTTACAAACGCCGCAA
1 GGCGTTTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGC-GTTTTTTACAAACGCCGCAA
* *
1423910 TA-GTTTGGTATATTCGT
65 TAGGTTT-ATATA-TAGT
1423927 GGCGTTTGGCTTTAA-AAACGCCGCAACAT
1 GGCGTTT---TTTAACAAACGCCGCAACAT
1423956 TTTCTGCTTC
Statistics
Matches: 301, Mismatches: 43, Indels: 25
0.82 0.12 0.07
Matches are distributed among these distances:
80 16 0.05
81 66 0.22
82 98 0.33
83 94 0.31
84 21 0.07
85 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (80 bp):
GGCGTTTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTTTACAAACGCCGCAAT
AGGTTTATATATAGT
Found at i:1426816 original size:21 final size:21
Alignment explanation
Indices: 1426792--1426832 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1426782 TTCATTTTTC
* *
1426792 TTGTTATGGATTTTAAGTTTG
1 TTGTTATGGATGTCAAGTTTG
1426813 TTGTTATGGATGTCAAGTTT
1 TTGTTATGGATGTCAAGTTT
1426833 ATTGGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (21 bp):
TTGTTATGGATGTCAAGTTTG
Found at i:1427048 original size:43 final size:43
Alignment explanation
Indices: 1427001--1427271 Score: 287
Period size: 43 Copynumber: 6.3 Consensus size: 43
1426991 CGTTTGTTCT
* * * *
1427001 AAAAAACGCCGCTATATAC-C-AGATCTTTTACGGTGTTTGTGG
1 AAAAAACGCCGCTAAAT-CTCAAGACCTATTACGGCGTTTGTGG
* * *
1427043 GAAAAACACCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGG
1 AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGG
* * *
1427086 AAAAAACGCCACTAAATCTCAACACCTATTGCGGCGTTTGTGG
1 AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGG
* * * *
1427129 GAAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTGG
1 AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGG
* * * *
1427172 GAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
1 AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTG-TGG
* * * **
1427216 -AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCC
1 AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGG
*
1427258 AACAAACGCCGCTA
1 AAAAAACGCCGCTA
1427272 TATATCGTTA
Statistics
Matches: 206, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.00
42 16 0.08
43 186 0.90
44 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGG
Found at i:1427178 original size:129 final size:129
Alignment explanation
Indices: 1427036--1427296 Score: 382
Period size: 129 Copynumber: 2.0 Consensus size: 129
1427026 TTTTACGGTG
* *
1427036 TTTGTGGGAAAAACACCGCTAAATCTCAAGACCTATTGCGGCGTTTG-TGGAAAAAACGCCACTA
1 TTTGTGGGAAAAACACCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG-AAAAACGCCACTA
* ** *
1427100 AATCTCAACACCTATTGCGGCGTTTGTGGGAA-AAACGCCGCTAAATCTCAACACCTATTGCGGC
65 AATATCAACACCTATTGCGGCGTTTGT-CCAACAAACGCCGCTAAATATCAACACCTATTGCGGC
1427164 A
129 A
* *
1427165 TTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAA
1 TTTGTGGGAAAAACACCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGAAAAACGCCACTAA
* ***
1427230 ATATCAACACCTATTGCGGCGTTTGTCCAACAAACGCCGCTATATATCGTTACCTATTGCGGCA
66 ATATCAACACCTATTGCGGCGTTTGTCCAACAAACGCCGCTAAATATCAACACCTATTGCGGCA
1427294 TTT
1 TTT
1427297 TTTGTTACCA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
128 2 0.02
129 113 0.96
130 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (129 bp):
TTTGTGGGAAAAACACCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGAAAAACGCCACTAA
ATATCAACACCTATTGCGGCGTTTGTCCAACAAACGCCGCTAAATATCAACACCTATTGCGGCA
Found at i:1427277 original size:43 final size:42
Alignment explanation
Indices: 1427035--1427292 Score: 345
Period size: 43 Copynumber: 6.0 Consensus size: 42
1427025 CTTTTACGGT
* * *
1427035 GTTTGTGGGAAAAACACCGCTAAATCTCAAGACCTATTGCGGC
1 GTTTGT-GGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
* *
1427078 GTTTGTGGAAAAAACGCCACTAAATCTCAACACCTATTGCGGC
1 GTTTGTGG-AAAAACGCCGCTAAATATCAACACCTATTGCGGC
*
1427121 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
1 GTTTGT-GGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
*
1427164 ATTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1 GTTTGT-GGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1427207 GTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1 GTTTG-TGGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
** * ***
1427250 GTTTGTCCAACAAACGCCGCTATATATCGTTACCTATTGCGGC
1 GTTTGTGGAA-AAACGCCGCTAAATATCAACACCTATTGCGGC
1427293 ATTTTTTGTT
Statistics
Matches: 198, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
42 5 0.03
43 190 0.96
44 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
GTTTGTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
Found at i:1427277 original size:86 final size:86
Alignment explanation
Indices: 1426980--1427292 Score: 385
Period size: 86 Copynumber: 3.6 Consensus size: 86
1426970 TATAGATATG
* * * * * * * * *
1426980 ACCTTTTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAGATCTTTTACGGTGTTTGTGGG
1 ACCTATTGCGGCGTTTG-TCGAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGG
* *
1427044 AAAAACACCGCTAAATCTCAAG
65 AAAAACGCCGCTAAATCTCAAC
* * *
1427066 ACCTATTGCGGCGTTTGTGGAAAAAACGCCACTAAATCTCAACACCTATTGCGGCGTTTGTGGGA
1 ACCTATTGCGGCGTTTGTCGAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGA
1427131 AAAACGCCGCTAAATCTCAAC
66 AAAACGCCGCTAAATCTCAAC
* * * *
1427152 ACCTATTGCGGCATTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGA
1 ACCTATTGCGGCGTTTGTCGAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGA
*
1427217 AAAACGCCGCTAAATATCAAC
66 AAAACGCCGCTAAATCTCAAC
* * * ***
1427238 ACCTATTGCGGCGTTTGTCCAACAAACGCCGCTATATATCGTTACCTATTGCGGC
1 ACCTATTGCGGCGTTTGTCGAAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1427293 ATTTTTTGTT
Statistics
Matches: 197, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 16 0.08
86 181 0.92
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (86 bp):
ACCTATTGCGGCGTTTGTCGAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGA
AAAACGCCGCTAAATCTCAAC
Found at i:1427669 original size:32 final size:32
Alignment explanation
Indices: 1427633--1427695 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1427623 TTGAATTACA
1427633 TAGTCCAACATCCAAACATAATTAAAAAATGT
1 TAGTCCAACATCCAAACATAATTAAAAAATGT
*
1427665 TAGTCCAACATTCAAACATAATTAAAAAATG
1 TAGTCCAACATCCAAACATAATTAAAAAATG
1427696 GCATGTTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.25
Consensus pattern (32 bp):
TAGTCCAACATCCAAACATAATTAAAAAATGT
Found at i:1427930 original size:36 final size:36
Alignment explanation
Indices: 1427819--1428000 Score: 118
Period size: 31 Copynumber: 5.3 Consensus size: 36
1427809 ATAATATATA
1427819 AGTGACCAAATAGGTAGTTTATCCTAAATAATAATCG
1 AGTGACCAAATAGGTAGTTTA-CCTAAATAATAATCG
* * ** *
1427856 AGTGACCAAA-A--CA--TAAATTAAATAATATAT-A
1 AGTGACCAAATAGGTAGTTTACCTAAATAATA-ATCG
1427887 AGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
1 AGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
* * * ** * *
1427923 AGCGACCAAA-A--CA--TAAATTAGATAATACAT-A
1 AGTGACCAAATAGGTAGTTTACCTAAATAATA-ATCG
* *
1427954 AGTGGCCAAATAGGTAGTTTATCCTAAATAATAATTG
1 AGTGACCAAATAGGTAGTTTA-CCTAAATAATAATCG
1427991 AGTGACCAAA
1 AGTGACCAAA
1428001 ACATAAATTA
Statistics
Matches: 104, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
31 37 0.36
32 8 0.08
33 1 0.01
34 3 0.03
35 3 0.03
36 25 0.24
37 27 0.26
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.26
Consensus pattern (36 bp):
AGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
Found at i:1427948 original size:67 final size:68
Alignment explanation
Indices: 1427777--1428049 Score: 444
Period size: 68 Copynumber: 4.0 Consensus size: 68
1427767 ATTTTGAAAA
* *
1427777 AAATAAT-ATCTAGTGTCCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
1427841 CCT
66 CCT
*
1427844 AAATAATAATCGAGTGACCAAAACATAAATTAAATAATATATAAGTGACCAAATAGGTAGTTTA-
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
1427908 CCT
66 CCT
* * *
1427911 AAATAATAATCGAGCGACCAAAACATAAATTAGATAATACATAAGTGGCCAAATAGGTAGTTTAT
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
1427976 CCT
66 CCT
* *
1427979 AAATAATAATTGAGTGACCAAAACATAAATTAGATAATATATAATTGACCAAATAGGTAGTTT-T
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
1428043 CCCT
66 -CCT
1428047 AAA
1 AAA
1428050 AATCCATAAC
Statistics
Matches: 191, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
67 71 0.37
68 120 0.63
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (68 bp):
AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAT
CCT
Found at i:1427965 original size:135 final size:135
Alignment explanation
Indices: 1427793--1428041 Score: 453
Period size: 135 Copynumber: 1.8 Consensus size: 135
1427783 TATCTAGTGT
*
1427793 CCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTATCCTAAATAATAATCGAG
1 CCAAAACATAAATTAGATAATACATAAGTGACCAAATAGGTAGTTTATCCTAAATAATAATCGAG
1427858 TGACCAAAACATAAATTAAATAATATATAAGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
66 TGACCAAAACATAAATTAAATAATATATAAGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
1427923 AGCGA
131 AGCGA
* *
1427928 CCAAAACATAAATTAGATAATACATAAGTGGCCAAATAGGTAGTTTATCCTAAATAATAATTGAG
1 CCAAAACATAAATTAGATAATACATAAGTGACCAAATAGGTAGTTTATCCTAAATAATAATCGAG
* *
1427993 TGACCAAAACATAAATTAGATAATATATAATTGACCAAATAGGTAGTTT
66 TGACCAAAACATAAATTAAATAATATATAAGTGACCAAATAGGTAGTTT
1428042 TCCCTAAAAA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 109 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (135 bp):
CCAAAACATAAATTAGATAATACATAAGTGACCAAATAGGTAGTTTATCCTAAATAATAATCGAG
TGACCAAAACATAAATTAAATAATATATAAGTGACCAAATAGGTAGTTTACCTAAATAATAATCG
AGCGA
Found at i:1440411 original size:31 final size:31
Alignment explanation
Indices: 1440375--1440434 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1440365 AAACTTAAAA
* *
1440375 TAGTTTTGCAATACTGATATTTAAATAATTT
1 TAGTTTTACAATACTGAAATTTAAATAATTT
1440406 TAGTTTTACAATACTGAAATTTAAATAAT
1 TAGTTTTACAATACTGAAATTTAAATAAT
1440435 CAATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
TAGTTTTACAATACTGAAATTTAAATAATTT
Found at i:1440485 original size:22 final size:22
Alignment explanation
Indices: 1440459--1440501 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1440449 TAATAAATTA
1440459 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1440481 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1440502 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:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1440509 original size:18 final size:20
Alignment explanation
Indices: 1440463--1440510 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
1440453 AAATTATTTA
*
1440463 AAATAAATCAATCCATATTTT
1 AAATAAATCAATCCATA-TCT
1440484 AAAGTAAATCAATCCATA-CT
1 AAA-TAAATCAATCCATATCT
1440504 -AATAAAT
1 AAATAAAT
1440511 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 1 0.04
21 3 0.12
22 14 0.56
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATAAATCAATCCATATCT
Found at i:1440512 original size:54 final size:54
Alignment explanation
Indices: 1440449--1442354 Score: 810
Period size: 54 Copynumber: 35.3 Consensus size: 54
1440439 ATAACTACAA
*
1440449 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
1440503 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAACAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * *
1440563 TAAAATAAATCAGTTTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1440615 TAATAAATTATTTAAAATAAATCAATCCATA----CAAATACAAT-AATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-AATCAATCCATAC
* *
1440664 -AATCAA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* * *** * * *
1440727 TAATAAATTATTTAAAATAAATCAGTTCATACAACTACAAT-AATAAAT-CATTC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* ** * *
1440780 -CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * * * *
1440834 -CATACA--A-CTACAAT-AATAAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1440883 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATTAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1440937 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** * ** * **
1440991 TAATAAATTATTTAGAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * ** * **
1441046 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * ** * ** * *
1441100 -AATCCA-TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT--AAAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
* ** ** * ** * *
1441153 CAATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--AAAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
* **
1441207 CAATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * *
1441261 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * *
1441320 T-ATACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCATTCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1441373 TAATAAA-TATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1441426 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1441483 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
1441538 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1441586 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1441640 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** * ** * **
1441694 TAATAAATTATTTAGAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * ** * **
1441749 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * ** * ** * *
1441803 -AATCCA-TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT--AAAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
* **
1441856 CAATCCA-TATTTTAAAATAAATCAATCCATACTAATAATTATTTAAATAAATCAATCCATA-
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-T--T--TTA---AAATAAATCAATCCATAC
** ** * * * *
1441917 TTTTAAAAAAATCAATCCATACTAATAAAT---TA-TTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAA--AATA--AATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** **
1441970 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* ** * * *
1442025 TAATAAATTATTTAAAAT-AATCAATCTAATACTACTACAAT-AATAAAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATC-CATA-TTTTAAAATAAAT-CAATCCATA--C
* * * * *
1442082 TAAAATAAATCATTCCATACT-AAT-AA---ATA-TTTAAAATAAATCAATACATA-
1 T--AATAAATTATT-TAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** **
1442132 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAAT-AATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
1442186 -AACTACA--A--T--AAT-AATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1442233 TAATAAATTATTTAAAAT-AATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1442286 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1442339 TAATAAATTATTTAAA
1 TAATAAATTATTTAAA
1442355 TAATTATTTT
Statistics
Matches: 1506, Mismatches: 200, Indels: 293
0.75 0.10 0.15
Matches are distributed among these distances:
46 15 0.01
47 22 0.01
48 96 0.06
49 19 0.01
50 45 0.03
51 6 0.00
52 24 0.02
53 225 0.15
54 748 0.50
55 73 0.05
56 26 0.02
57 26 0.02
58 60 0.04
59 20 0.01
60 21 0.01
61 13 0.01
62 29 0.02
63 10 0.01
64 20 0.01
65 8 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1440600 original size:32 final size:32
Alignment explanation
Indices: 1440561--1440651 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
1440551 CAATCCATAT
* **
1440561 TTTAAAATAAATCAGTTTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1440593 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1440625 TTTAAAATAAATCAATCCATACAAATA
1 TTTAAAATAAATCAATCCATACTAATA
1440652 CAATAATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1440702 original size:22 final size:23
Alignment explanation
Indices: 1440627--1440701 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 23
1440617 ATAAATTATT
*
1440627 TAAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATACTAA
* **
1440650 TACAATAATAAATCAATCAATA-TTT
1 T--AA-AATAAATCAATCCATACTAA
1440675 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1440698 TAAA
1 TAAA
1440702 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1440709 original size:32 final size:32
Alignment explanation
Indices: 1440673--1442316 Score: 786
Period size: 32 Copynumber: 58.7 Consensus size: 32
1440663 CAATCAATAT
1440673 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1440705 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
1440737 TTTAAAATAAATCAGTTCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
*
1440767 --T--AATAAATCATTCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1440785 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1440817 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
** * *
1440847 --T--AATAAATCCATAT-TTTA-AAATAAATCAA
1 TTTAAAATAAAT-CA-ATCCATACTAATAAAT-TA
* * * ** * * *
1440876 TCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACT-AATAAAT---TA
*
1440914 TTTTAAAATTAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
1440947 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1440969 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441001 TTTAGAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441033 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441055 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441087 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441109 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441141 TTTAAAATAAACCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441163 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441195 TTTAAAATAAACCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441217 TTTAAAATAAATCAATCCATA-T---------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441239 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441271 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1441303 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1441333 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441351 TTTAAAATAAATCATTCCATACTAATAAA-TA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441382 TTTAAAATAAATC-A---ATAC--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441404 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441436 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1441466 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441484 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441516 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1441546 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441564 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441596 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441618 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441650 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441672 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441704 TTTAGAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441736 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441758 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441790 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441812 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1441844 TTTAAAATAAACCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441866 TTTAAAATAAATCAATCCATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441897 TTT-AAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441918 TTTAAAA-AAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441949 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1441971 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1442003 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1442035 TTTAAAAT-AATCAATCTAATACTACTACAA-TA
1 TTTAAAATAAATCAATC-CATACTAATA-AATTA
* ** ** * *
1442067 -ATAAAATCCAT--AT-TTTA-AAATAAATCA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* ** * * *
1442094 TTCCATACTAATAAAT--ATTTAAAATAAATCAATACATA
1 TT---TA-AAATAAATCAATCCATACT-AAT-AA-A-TTA
1442132 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
*
1442165 TTTAAAAT-AATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1442194 --T--AAT-AATCAATCCATA-T---------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1442211 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1442243 TTTAAAAT-AATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1442264 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1442296 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1442317 TTTTAAATAA
Statistics
Matches: 1277, Mismatches: 69, Indels: 532
0.68 0.04 0.28
Matches are distributed among these distances:
19 1 0.00
20 4 0.00
21 22 0.02
22 283 0.22
23 34 0.03
24 21 0.02
25 24 0.02
26 110 0.09
27 21 0.02
28 44 0.03
29 5 0.00
30 35 0.03
31 91 0.07
32 506 0.40
33 11 0.01
34 3 0.00
35 12 0.01
36 32 0.03
37 13 0.01
38 2 0.00
39 3 0.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1440715 original size:14 final size:14
Alignment explanation
Indices: 1440696--1440748 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1440686 AATCCATACT
1440696 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1440710 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
1440728 AATAAATTATTTAA
1 AATAAATTATTTAA
1440742 AATAAAT
1 AATAAAT
1440749 CAGTTCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1440731 original size:18 final size:18
Alignment explanation
Indices: 1440678--1440734 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1440668 AATATTTTAA
*
1440678 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
1440696 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
1440710 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
1440728 AATAAAT
1 AATAAAT
1440735 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
17 4 0.13
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1440877 original size:22 final size:23
Alignment explanation
Indices: 1440816--1440882 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
1440806 CTAATAAATT
1440816 ATTTAAAATAAATCAATCCATAC
1 ATTTAAAATAAATCAATCCATAC
** * *
1440839 AACTACAAT-AATAAATCCATA-
1 ATTTAAAATAAATCAATCCATAC
*
1440860 TTTTAAAATAAATCAATCCATAC
1 ATTTAAAATAAATCAATCCATAC
1440883 TAATAAATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 5 0.15
22 22 0.67
23 6 0.18
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTTAAAATAAATCAATCCATAC
Found at i:1440890 original size:22 final size:22
Alignment explanation
Indices: 1440821--1440890 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
1440811 AAATTATTTA
1440821 AAATAAATCAATCCATAC-AACT
1 AAATAAATCAATCCATACTAA-T
* **
1440843 ACAAT-AATAAATCCATA-TTTT
1 A-AATAAATCAATCCATACTAAT
1440864 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
1440887 AAAT
1 AAAT
1440891 TATTTAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 4 0.11
22 28 0.76
23 5 0.14
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:1440919 original size:22 final size:22
Alignment explanation
Indices: 1440893--1440935 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1440883 TAATAAATTA
1440893 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1440915 TTTAAAATTAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1440936 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:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1440932 original size:76 final size:76
Alignment explanation
Indices: 1440705--1442354 Score: 869
Period size: 86 Copynumber: 20.5 Consensus size: 76
1440695 TAATAAATTA
* * * * **
1440705 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAGTTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
*
1440770 TAAATCATTCCATAT
62 TAAATCAATCCATAT
*** *
1440785 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAA
*
1440849 ATAAATCCATAT
65 ATCAATCCATAT
*
1440861 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATTAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1440926 TCAATCCATACT
66 TCAATCCATA-T
** * ** * ** **
1440938 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA-T--T---TT
1441000 ATTTAGAATAAATCAATCCATACT
58 A---A-AATAAATCAATCCATA-T
** * ** * ** **
1441024 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T
1441086 ATTTAAAATAAATCAATCCATAT
55 -TTTAAAATAAATCAATCCATAT
* *
1441109 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1441174 TCAATCCATACT
66 TCAATCCATA-T
** * ** * * * **
1441186 AATAAATTATTTAAAAT--AAACCAATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATA
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATA
1441248 AATCAATCCATACTAATAAATT
64 AATCAAT-C---C--AT--A-T
* * **
1441270 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-A
1441335 ATAAATCAATCCATAT
61 ATAAATCAATCCATAT
* *
1441351 TTTAAAATAAATCATTCCATACTAATAAA-TATTTAAAATAAATCAATACATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1441415 TCAATCCATACTAATAAATT
66 TCAAT-C---C--AT--A-T
*
1441435 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
1441493 AATCAATCCATACTAATAAATT
64 AATCAAT-C---C--AT--A-T
*
1441515 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
1441573 AATCAATCCATACT
64 AATCAATCCATA-T
** * ** * ** **
1441587 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T
1441649 ATTTAAAATAAATCAATCCATAT
55 -TTTAAAATAAATCAATCCATAT
*
1441672 TTTAAAATAAATCAATCCATACTAATAAATTATTTAGAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-T
1441737 TTAAAATAAATCAATCCATAT
56 TTAAAATAAATCAATCCATAT
1441758 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
1441823 TCAATTCATACT
66 TCAATCCATA-T
** * ** * * * **
1441835 AATAAATTATTTAAAAT--AAACCAATCCA-TATTTTAAAATAAATCAATCCATACTAATAATTA
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA-T--T--TTA
1441897 TTTAAATAAATCAATCCATAT
59 ---AAATAAATCAATCCATAT
1441918 TTTAAAA-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1441982 TCAATCCATACTAATAAATT
66 TCAAT-C---C--AT--A-T
* ** *
1442002 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AATCAATCTAATACTACTACAAT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC-CATA-TTTTAAAAT
*
1442066 -AATAAAATCCATAT
63 AAAT-CAATCCATAT
* *
1442080 TTTAAAATAAATCATTCCATACTAATAAA-TATTTAAAATAAATCAATACATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1442144 TCAATCCATACT
66 TCAATCCATA-T
** * * * *
1442156 AATAAATTATTTAAAAT-AATCAAT-C-CATACAACTA--CAATAAT-AATCAATCCATATTTTA
1 TTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA-AATAAATCAATCCATATTTTA
1442215 AAATAAATCAATCCATACT
59 AAATAAATCAATCCATA-T
** *
1442234 AATAAATTATTTAAAAT-AATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAATAA
1 TTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--
1442292 ATTATTTAAAATAAATCAATCCATAT
53 A-T-TTTAAAATAAATCAATCCATAT
1442318 TTT-AAATAAATCAATCCATACTAATAAATTATTTAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1442355 TAATTATTTT
Statistics
Matches: 1294, Mismatches: 140, Indels: 267
0.76 0.08 0.16
Matches are distributed among these distances:
70 3 0.00
71 11 0.01
72 7 0.01
74 7 0.01
75 58 0.04
76 253 0.20
77 70 0.05
78 90 0.07
79 40 0.03
80 206 0.16
81 22 0.02
82 14 0.01
83 40 0.03
84 45 0.03
85 95 0.07
86 290 0.22
87 17 0.01
89 5 0.00
90 15 0.01
92 2 0.00
93 2 0.00
94 2 0.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATAT
Found at i:1440946 original size:22 final size:22
Alignment explanation
Indices: 1440895--1440943 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1440885 ATAAATTATT
* **
1440895 TAAAATAAATCAATCCATATTT
1 TAAAATTAATCAATCCATATAA
1440917 TAAAATTAATCAATCCATACTAA
1 TAAAATTAATCAATCCATA-TAA
1440940 TAAA
1 TAAA
1440944 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:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTAATCAATCCATATAA
Found at i:1440973 original size:22 final size:22
Alignment explanation
Indices: 1440947--1440989 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1440937 TAATAAATTA
1440947 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1440969 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1440990 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:1440998 original size:22 final size:22
Alignment explanation
Indices: 1440949--1440997 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1440939 ATAAATTATT
**
1440949 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1440971 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1440994 TAAA
1 TAAA
1440998 TTATTTAGAA
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:1441059 original size:22 final size:22
Alignment explanation
Indices: 1441033--1441075 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441023 TAATAAATTA
1441033 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441055 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441076 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:1441084 original size:22 final size:22
Alignment explanation
Indices: 1441035--1441083 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441025 ATAAATTATT
**
1441035 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1441057 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441080 TAAA
1 TAAA
1441084 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:1441113 original size:22 final size:22
Alignment explanation
Indices: 1441087--1441129 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441077 TAATAAATTA
1441087 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1441109 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1441130 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:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1441138 original size:22 final size:22
Alignment explanation
Indices: 1441089--1441137 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441079 ATAAATTATT
**
1441089 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1441111 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441134 TAAA
1 TAAA
1441138 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:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1441167 original size:22 final size:22
Alignment explanation
Indices: 1441141--1441183 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441131 TAATAAATTA
*
1441141 TTTAAAATAAACCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441163 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441184 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:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1441192 original size:22 final size:22
Alignment explanation
Indices: 1441143--1441267 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 22
1441133 ATAAATTATT
**
1441143 TAAAATAAACCAATCCATATTT
1 TAAAATAAACCAATCCATATAA
*
1441165 TAAAATAAATCAATCCATACTAA
1 TAAAATAAACCAATCCATA-TAA
**
1441188 TAAATTATTTAAAATAAACCAATCCATATTT
1 TAAA--A--T-----AAACCAATCCATATAA
* **
1441219 TAAAATAAATCAATCCATATTT
1 TAAAATAAACCAATCCATATAA
*
1441241 TAAAATAAATCAATCCATACTAA
1 TAAAATAAACCAATCCATA-TAA
1441264 TAAA
1 TAAA
1441268 TTATTTAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
22 52 0.63
23 10 0.12
25 1 0.01
27 2 0.02
29 1 0.01
31 5 0.06
32 12 0.14
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAACCAATCCATATAA
Found at i:1441268 original size:22 final size:22
Alignment explanation
Indices: 1441195--1441259 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
1441185 TAATAAATTA
*
1441195 TTTAAAATAAACCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441217 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441239 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441260 CTAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1441410 original size:22 final size:21
Alignment explanation
Indices: 1441374--1441424 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
1441364 ATTCCATACT
*
1441374 AATAAATATTTAAAATAAATC
1 AATACATATTTAAAATAAATC
1441395 AATACATATTTTAAAATAAATC
1 AATACATA-TTTAAAATAAATC
*
1441417 AATCCATA
1 AATACATA
1441425 CTAATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
AATACATATTTAAAATAAATC
Found at i:1441433 original size:22 final size:22
Alignment explanation
Indices: 1441384--1441432 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441374 AATAAATATT
**
1441384 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
1441406 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATACATA-TAA
1441429 TAAA
1 TAAA
1441433 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:1441513 original size:22 final size:23
Alignment explanation
Indices: 1441438--1441512 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1441428 ATAAATTATT
1441438 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1441460 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1441486 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1441509 TAAA
1 TAAA
1441513 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:1441593 original size:22 final size:23
Alignment explanation
Indices: 1441518--1441592 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1441508 ATAAATTATT
1441518 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1441540 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1441566 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1441589 TAAA
1 TAAA
1441593 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:1441622 original size:22 final size:22
Alignment explanation
Indices: 1441596--1441638 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441586 TAATAAATTA
1441596 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441618 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441639 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:1441647 original size:22 final size:22
Alignment explanation
Indices: 1441598--1441646 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441588 ATAAATTATT
**
1441598 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1441620 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441643 TAAA
1 TAAA
1441647 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:1441676 original size:22 final size:22
Alignment explanation
Indices: 1441650--1441692 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441640 TAATAAATTA
1441650 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441672 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441693 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:1441701 original size:22 final size:22
Alignment explanation
Indices: 1441652--1441700 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441642 ATAAATTATT
**
1441652 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1441674 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441697 TAAA
1 TAAA
1441701 TTATTTAGAA
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:1441762 original size:22 final size:22
Alignment explanation
Indices: 1441736--1441778 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441726 TAATAAATTA
1441736 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441758 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441779 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:1441787 original size:22 final size:22
Alignment explanation
Indices: 1441738--1441786 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441728 ATAAATTATT
**
1441738 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1441760 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441783 TAAA
1 TAAA
1441787 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:1441816 original size:22 final size:22
Alignment explanation
Indices: 1441790--1441832 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441780 TAATAAATTA
1441790 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1441812 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1441833 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:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1441841 original size:22 final size:22
Alignment explanation
Indices: 1441792--1441840 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441782 ATAAATTATT
**
1441792 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1441814 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441837 TAAA
1 TAAA
1441841 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:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1441870 original size:22 final size:22
Alignment explanation
Indices: 1441844--1441886 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441834 TAATAAATTA
1441844 TTTAAAATAAACCAATCCATAT
1 TTTAAAATAAACCAATCCATAT
*
1441866 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAACCAATCCATA
1441887 CTAATAATTA
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:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAACCAATCCATAT
Found at i:1441922 original size:21 final size:21
Alignment explanation
Indices: 1441897--1441937 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1441887 CTAATAATTA
*
1441897 TTTAAATAAATCAATCCATAT
1 TTTAAAAAAATCAATCCATAT
1441918 TTTAAAAAAATCAATCCATA
1 TTTAAAAAAATCAATCCATA
1441938 CTAATAAATT
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:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAAAATCAATCCATAT
Found at i:1441975 original size:22 final size:22
Alignment explanation
Indices: 1441949--1441991 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1441939 TAATAAATTA
1441949 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1441971 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1441992 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:1442000 original size:22 final size:22
Alignment explanation
Indices: 1441951--1441999 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441941 ATAAATTATT
**
1441951 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1441973 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1441996 TAAA
1 TAAA
1442000 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:1442139 original size:22 final size:21
Alignment explanation
Indices: 1442103--1442153 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
1442093 ATTCCATACT
*
1442103 AATAAATATTTAAAATAAATC
1 AATACATATTTAAAATAAATC
1442124 AATACATATTTTAAAATAAATC
1 AATACATA-TTTAAAATAAATC
*
1442146 AATCCATA
1 AATACATA
1442154 CTAATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
AATACATATTTAAAATAAATC
Done.