Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_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: 1762280
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1294631 original size:41 final size:41
Alignment explanation
Indices: 1294573--1294650 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1294563 TTGCAGAAGA
*
1294573 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
*
1294614 GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1294651 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:1294649 original size:21 final size:21
Alignment explanation
Indices: 1294574--1294649 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1294564 TGCAGAAGAG
*
1294574 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
1294595 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
1294615 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
*
1294636 TCGCAACGATAGAA
1 TCGCAACGAGAGAA
1294650 TCGCAACGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:1294669 original size:33 final size:32
Alignment explanation
Indices: 1294629--1294692 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
1294619 AACGAGAGAA
1294629 ATGAAAATCGCAACGATAGAATCGC-AACGCGAT
1 ATGAAAATCGCAACG--AGAATCGCAAACGCGAT
1294662 ATGAAAATCGCAACGAGAATCGCAAACGCGA
1 ATGAAAATCGCAACGAGAATCGCAAACGCGA
1294693 AACCAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 8 0.27
32 7 0.23
33 15 0.50
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (32 bp):
ATGAAAATCGCAACGAGAATCGCAAACGCGAT
Found at i:1294672 original size:19 final size:19
Alignment explanation
Indices: 1294629--1294676 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
1294619 AACGAGAGAA
1294629 ATGAAAATCGCAA--CGAT
1 ATGAAAATCGCAACGCGAT
1294646 A-G--AATCGCAACGCGAT
1 ATGAAAATCGCAACGCGAT
1294662 ATGAAAATCGCAACG
1 ATGAAAATCGCAACG
1294677 AGAATCGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 8 0.31
16 6 0.23
17 2 0.08
19 10 0.38
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAACGCGAT
Found at i:1294701 original size:32 final size:32
Alignment explanation
Indices: 1294632--1294705 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
1294622 GAGAGAAATG
* **
1294632 AAAATCGCAACGATAGAATCGCAACGCGATATG
1 AAAATCGCAACGA-AGAATCGCAACGCGAAACC
1294665 AAAATCGCAACG-AGAATCGCAAACGCGAAACC
1 AAAATCGCAACGAAGAATCGC-AACGCGAAACC
1294697 AAAATCGCA
1 AAAATCGCA
1294706 TTGCGATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 8 0.22
32 17 0.46
33 12 0.32
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (32 bp):
AAAATCGCAACGAAGAATCGCAACGCGAAACC
Found at i:1294742 original size:14 final size:14
Alignment explanation
Indices: 1294723--1294811 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
1294713 TTTAATTTCG
1294723 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1294737 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
1294755 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1294769 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1294788 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1294802 CGTTGCGATT
1 CGTTGCGATT
1294812 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 30 0.48
16 9 0.15
17 3 0.05
18 10 0.16
19 10 0.16
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1294760 original size:32 final size:33
Alignment explanation
Indices: 1294706--1294819 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1294696 CAAAATCGCA
*
1294706 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1294739 TTGCGATTTTCA-TTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1294771 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1294804 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1294820 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
32 32 0.41
33 47 0.59
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1296760 original size:185 final size:184
Alignment explanation
Indices: 1296445--1296909 Score: 855
Period size: 185 Copynumber: 2.5 Consensus size: 184
1296435 TAGATTGCTT
* *
1296445 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGCATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296510 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1296575 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG-TTT-TCTTTTGGTTGAA
1296631 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296696 -TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1296760 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTCTTTTGGTTGAA
* *
1296814 AGTAACTTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296878 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
1296910 TGCAATCCAT
Statistics
Matches: 274, Mismatches: 4, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
182 25 0.09
183 81 0.30
184 3 0.01
185 102 0.37
186 63 0.23
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (184 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTCTTTTGGTTGAA
Found at i:1296761 original size:92 final size:93
Alignment explanation
Indices: 1296445--1296909 Score: 859
Period size: 93 Copynumber: 5.1 Consensus size: 93
1296435 TAGATTGCTT
* *
1296445 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGCATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296510 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1296538 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296603 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1296631 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296696 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1296723 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296788 TTTGTCTTTG-TTT-TCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
1296814 AGTAACTTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1296878 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1296905 AGTAA
1 AGTAA
1296910 TGCAATCCAT
Statistics
Matches: 365, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
90 29 0.08
91 65 0.18
92 106 0.29
93 165 0.45
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1296997 original size:19 final size:19
Alignment explanation
Indices: 1296957--1297085 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1296947 TAGTTTACTT
* *
1296957 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1296977 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1296996 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAACCAAAA
*
1297015 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1297029 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1297048 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1297062 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1297081 TCGCA
1 TCGCA
1297086 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1297031 original size:33 final size:32
Alignment explanation
Indices: 1296993--1297085 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1296983 CGCGAAACCA
**
1296993 AAATCGCAACGCGAAATAAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1297025 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1297058 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1297086 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1297083 original size:52 final size:52
Alignment explanation
Indices: 1296957--1297085 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
1296947 TAGTTTACTT
* **
1296957 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
*** *
1297009 TAAAAATCGC--AACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAA-CGCGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
1297062 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACGCGAAACACAAAATCGCA
1297086 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
51 3 0.05
52 47 0.78
53 7 0.12
54 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1297103 original size:19 final size:18
Alignment explanation
Indices: 1297081--1297198 Score: 99
Period size: 19 Copynumber: 6.8 Consensus size: 18
1297071 GAAACCAAAA
*
1297081 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
1297100 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
**
1297116 T--CGTTGCGATTTGGTT
1 TCGCGTTGCGATTTTCTT
*
1297132 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
*
1297148 T--CGTTGCGATTTTTATT
1 TCGCGTTGCGA-TTTTCTT
*
1297165 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
1297184 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1297199 AAGTTTCTTG
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
14 16 0.20
16 10 0.12
17 7 0.09
18 12 0.15
19 35 0.44
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:1297122 original size:14 final size:14
Alignment explanation
Indices: 1297103--1297158 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
1297093 TTTCATTTCG
1297103 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
1297117 CGTTGCGATTTGGTTT
1 CGTTGCGA-TT-CTTT
*
1297133 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
1297149 CGTTGCGATT
1 CGTTGCGATT
1297159 TTTATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 18 0.51
15 2 0.06
16 5 0.14
17 2 0.06
18 8 0.23
ACGTcount: A:0.07, C:0.20, G:0.29, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1297172 original size:33 final size:33
Alignment explanation
Indices: 1297086--1297177 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
1297076 CAAAATCGCA
*
1297086 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
1297119 TTGCGA-TTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1297151 TTGCGATTTTTATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1297178 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1299147 original size:14 final size:14
Alignment explanation
Indices: 1299128--1299163 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1299118 ATTGTTTAAT
1299128 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1299142 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1299156 TGATTTGT
1 TGATTTGT
1299164 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1299310 original size:18 final size:19
Alignment explanation
Indices: 1299270--1299313 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1299260 AAAAATGACT
1299270 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1299289 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
1299307 ATCGCAA
1 ATCGCAA
1299314 CGAGAGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1299376 original size:33 final size:33
Alignment explanation
Indices: 1299339--1299594 Score: 211
Period size: 33 Copynumber: 7.5 Consensus size: 33
1299329 GCGTTTTATA
1299339 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1299372 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA-TTC-TCTCG--TTGCGATT-T-TC
* * *
1299411 -TTT-GCGATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGC-A-TTGCGATTCTCTCGTTGCGATTTTC
*
1299442 ATTTCGCGTTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1299475 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
1299515 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1299546 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1299579 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
1299595 GTAATTTCCG
Statistics
Matches: 177, Mismatches: 23, Indels: 46
0.72 0.09 0.19
Matches are distributed among these distances:
31 14 0.08
32 12 0.07
33 88 0.50
34 3 0.02
35 11 0.06
36 4 0.02
37 14 0.08
38 14 0.08
39 8 0.05
40 9 0.05
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:1299385 original size:19 final size:19
Alignment explanation
Indices: 1299361--1299594 Score: 258
Period size: 19 Copynumber: 13.4 Consensus size: 19
1299351 GATTCTCTCG
1299361 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1299380 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
1299398 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
1299412 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1299431 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
1299450 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1299464 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1299483 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1299502 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1299516 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1299535 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1299554 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
1299568 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1299587 TTGCGATT
1 TTGCGATT
1299595 GTAATTTCCG
Statistics
Matches: 184, Mismatches: 11, Indels: 40
0.78 0.05 0.17
Matches are distributed among these distances:
14 27 0.15
16 24 0.13
17 24 0.13
18 18 0.10
19 91 0.49
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1299601 original size:19 final size:20
Alignment explanation
Indices: 1299566--1299613 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1299556 GCGATTCTCT
* *
1299566 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTGTAATTTCCG
1299585 CGTTGCGATTGTAATTTCCG
1 CGTTGCGATTGTAATTTCCG
*
1299605 TGTTGCGAT
1 CGTTGCGAT
1299614 AGTCAAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTAATTTCCG
Found at i:1299602 original size:52 final size:52
Alignment explanation
Indices: 1299339--1299594 Score: 478
Period size: 52 Copynumber: 4.9 Consensus size: 52
1299329 GCGTTTTATA
1299339 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1299390 ATTTCGCATTGCGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1299442 ATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1299494 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1299546 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1299595 GTAATTTCCG
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
51 46 0.23
52 153 0.77
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1301881 original size:12 final size:12
Alignment explanation
Indices: 1301864--1301888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1301854 TCTTCGGGGA
1301864 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1301876 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1301888 C
1 C
1301889 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1302815 original size:20 final size:20
Alignment explanation
Indices: 1302787--1303016 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
1302777 AAATTTCAGT
* * *
1302787 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1302807 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1302827 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1302847 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1302867 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1302887 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1302907 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1302927 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
1302947 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
1302967 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* ** *
1302987 GTTGCGATTTTCATATTTGC
1 GTTGCGATTTACGGATTCGC
1303007 GTTGCGATTT
1 GTTGCGATTT
1303017 TGGAAAATCG
Statistics
Matches: 179, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1305617 original size:14 final size:13
Alignment explanation
Indices: 1305600--1305638 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
1305590 TACAAATTTG
1305600 ATCTGAATCTGATT
1 ATCTGAAT-TGATT
1305614 ATCTGAATTGATTT
1 ATCTGAATTGA-TT
*
1305628 ATTTGAATTGA
1 ATCTGAATTGA
1305639 GACTCGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
ATCTGAATTGATT
Found at i:1308976 original size:34 final size:32
Alignment explanation
Indices: 1308914--1308983 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1308904 ACCTTACAAC
* *
1308914 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTTACGGGATAAACTAGAACCTT
*
1308946 TCCCTAGCTTTTATACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTT-TACGGGATAAACTAGAACCTT
1308980 TCCC
1 TCCC
1308984 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTTACGGGATAAACTAGAACCTT
Found at i:1309286 original size:21 final size:22
Alignment explanation
Indices: 1309252--1309293 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1309242 CTAAAAATGT
1309252 TGCACATAACATGGTGCATCGG
1 TGCACATAACATGGTGCATCGG
*
1309274 TGCAC-TATCATGGTGCATCG
1 TGCACATAACATGGTGCATCG
1309294 ATACCCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
TGCACATAACATGGTGCATCGG
Found at i:1309378 original size:20 final size:20
Alignment explanation
Indices: 1309349--1309401 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1309339 GCAGCCTTGG
* *
1309349 TGCATGGATGCACAGTAGGA
1 TGCATCGATGCACAGCAGGA
*
1309369 TGCATTGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
1309389 TGCATCGATGCAC
1 TGCATCGATGCAC
1309402 TAATTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:1309486 original size:21 final size:20
Alignment explanation
Indices: 1309421--1309496 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1309411 TCGAAATGGA
* * *
1309421 GTGCTTGGATGCACTATATG
1 GTGCATGGATGCACTACAGG
* *
1309441 GTGCATCGATGCACTACATG
1 GTGCATGGATGCACTACAGG
*
1309461 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACA-GG
1309482 GTGCATGGATGCACT
1 GTGCATGGATGCACT
1309497 TTGACGCCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 33 0.67
21 16 0.33
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (20 bp):
GTGCATGGATGCACTACAGG
Found at i:1309742 original size:21 final size:21
Alignment explanation
Indices: 1309718--1309757 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1309708 ATGTTTAATG
*
1309718 AAAAGGATACCAATTGTTAAC
1 AAAAGAATACCAATTGTTAAC
* *
1309739 AAAATAATATCAATTGTTA
1 AAAAGAATACCAATTGTTA
1309758 CCAATTGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAGAATACCAATTGTTAAC
Found at i:1310948 original size:19 final size:20
Alignment explanation
Indices: 1310905--1310952 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1310895 TCTAAATCAT
*
1310905 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1310925 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1310944 TTTTCAAAA
1 TTTTCAAAA
1310953 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1312351 original size:23 final size:20
Alignment explanation
Indices: 1312298--1312374 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
1312288 TCGAAATGGA
1312298 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACATG
*
1312318 GTGCATCGATGCACTAGTGGCA-G
1 GTGCATGGATGCACTA----CATG
* *
1312341 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACA-TG
1312362 GTGCATGGATGCA
1 GTGCATGGATGCA
1312375 TTGCAGGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 14 0.29
23 15 0.31
24 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTACATG
Found at i:1312366 original size:21 final size:21
Alignment explanation
Indices: 1312298--1312397 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
1312288 TCGAAATGGA
* *
1312298 GTGCATGGATGCACTACA-TG
1 GTGCATGGATGCACTGCAGGG
* *
1312318 GTGCATCGATGCACTAG-TGGCAG
1 GTGCATGGATGCACT-GCAGG--G
1312341 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
1312362 GTGCATGGATGCATTGCAGGG
1 GTGCATGGATGCACTGCAGGG
* *
1312383 GTGTATAGATGCACT
1 GTGCATGGATGCACT
1312398 TTGACACCCT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 14 0.22
21 33 0.51
22 1 0.02
23 17 0.26
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:1313927 original size:60 final size:61
Alignment explanation
Indices: 1313861--1314022 Score: 165
Period size: 60 Copynumber: 2.7 Consensus size: 61
1313851 CTCTTATTTC
* *
1313861 AAATTAGTCCCTAAACTTTT-AATCATTTTAATTTTATCCTTAAACTATGA-CTATTATTCT
1 AAATTAGTCCCTAAACTTTTGAATCATTTTAATTTTATCCTTAAACTATGATCT-TCATCCT
* * *
1313921 AAATTAGT-CCTCAAACTTTTGAA-CA-TTTCATTTTCATCCATAAGCTATGATCTTCATCCT
1 AAATTAGTCCCT-AAACTTTTGAATCATTTTAATTTT-ATCCTTAAACTATGATCTTCATCCT
* * *
1313981 AAATTGGTCCCCAAACCTTTTTGAAT-ATTTCAATTTTATCCT
1 AAATTAGTCCCTAAA-C-TTTTGAATCATTTTAATTTTATCCT
1314023 AAATTATTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
59 11 0.13
60 46 0.55
61 7 0.08
62 12 0.14
63 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (61 bp):
AAATTAGTCCCTAAACTTTTGAATCATTTTAATTTTATCCTTAAACTATGATCTTCATCCT
Found at i:1314250 original size:60 final size:60
Alignment explanation
Indices: 1314155--1314338 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 60
1314145 GATGAATTTG
* * * *
1314155 GGGATGAAATTGAAATATAT-AAAACTTTTAGGACTAATTTAGAATGAGATTCATAGTTTA
1 GGGATGAAATTGGAATAT-TCAAAAGTTTAAAGACTAATTTAGAATGAGATTCATAGTTTA
* * * * *
1314215 GGGATGAAATTTGAATGTTCAAAAGTTTAAAGACTAATTTAGAATGAAAGTCATAATTTA
1 GGGATGAAATTGGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAGATTCATAGTTTA
* * * * *
1314275 AGGATGAAATTGGAATATTTAAAAGTTTACAGACAAATTTAAAATGAGAGTT-ATAGTTTA
1 GGGATGAAATTGGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAGA-TTCATAGTTTA
1314335 GGGA
1 GGGA
1314339 CATATGATGC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.01
60 100 0.98
61 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (60 bp):
GGGATGAAATTGGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAGATTCATAGTTTA
Found at i:1317540 original size:4 final size:4
Alignment explanation
Indices: 1317531--1321344 Score: 7326
Period size: 4 Copynumber: 963.0 Consensus size: 4
1317521 ATTTAGTCAT
1317531 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317579 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317627 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317675 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317723 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317771 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317819 TATC TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
1317865 TATC TATC TATC TATC TCTC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317913 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1317961 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318009 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318057 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318105 --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318151 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318199 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318247 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318295 TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318341 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318389 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318437 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318485 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318533 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
1318581 TATC TATC TATC TATC TATC TAGC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318629 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318675 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318723 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318771 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318819 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
1318867 TATC TATC TATC TATC TATC TATC TATC TCTC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318915 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1318963 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319011 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319059 TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319105 TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319151 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319199 TATC TATC TATC TATC T-TC TATC TATC TATC TATC TATC TATC --TC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319244 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319290 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319338 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319386 TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319432 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319480 TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319526 TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319572 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319620 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TA-- TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319666 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319714 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319762 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319810 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319858 TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319904 TATC TATC TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319950 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1319998 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320046 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320094 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320142 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320190 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320238 TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320284 TATC TATC TATC TATC TATC TATC TATC TATC TA-C TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320331 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320379 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320427 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320475 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320523 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320571 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320619 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320667 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320715 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320763 TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320809 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320857 TATC TA-C TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320904 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1320952 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321000 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321048 TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321094 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321142 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
1321190 TATC GATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321238 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TA-C TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321285 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1321333 TATC TATC TATC
1 TATC TATC TATC
1321345 AAATTGGTCA
Statistics
Matches: 3764, Mismatches: 8, Indels: 76
0.98 0.00 0.02
Matches are distributed among these distances:
2 34 0.01
3 12 0.00
4 3718 0.99
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:1322765 original size:36 final size:38
Alignment explanation
Indices: 1322716--1322792 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
1322706 AGAATATTAC
1322716 AAATTGTAAAATATTTATAT-ATTTTCTTTAAAAAATT
1 AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
* * *
1322753 AAATT-TATAATATTTATATAATTTTTTTTACAAAATT
1 AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
1322790 AAA
1 AAA
1322793 AATATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 13 0.36
37 23 0.64
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
AAATTGTAAAATATTTATATAATTTTCTTTAAAAAATT
Found at i:1326534 original size:70 final size:66
Alignment explanation
Indices: 1326460--1326601 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 66
1326450 ATTTAAACAC
* *
1326460 ATCCAAAAAATTTATATGTAAATA-ATATCTGATGTGAGGATCTTATAGTTAAATATGTTGATTT
1 ATCCAAAAAATTTACATG--AATAGA-AT-T-ATGTGAGGATCTTATAGTTAAACATGTTGATTT
*
1326524 TATGTT
61 TATGCT
* * * * *
1326530 ATCCAAGAATTTTACATGACTAGAATTCTGTGAGGATCTTATGGTTAAACATGTTGATTTTATGC
1 ATCCAAAAAATTTACATGAATAGAATTATGTGAGGATCTTATAGTTAAACATGTTGATTTTATGC
1326595 T
66 T
1326596 ATCCAA
1 ATCCAA
1326602 GAACTTTGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
66 41 0.65
67 1 0.02
68 5 0.08
69 1 0.02
70 15 0.24
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (66 bp):
ATCCAAAAAATTTACATGAATAGAATTATGTGAGGATCTTATAGTTAAACATGTTGATTTTATGC
T
Found at i:1326568 original size:66 final size:67
Alignment explanation
Indices: 1326492--1326626 Score: 218
Period size: 66 Copynumber: 2.0 Consensus size: 67
1326482 TAATATCTGA
* * *
1326492 TGTGAGGATCTTATAGTTAAATATGTTGATTTTATGTTATCCAAGAATTTTAC-ATGACTAGAAT
1 TGTGAGGATCTTATAGTTAAACATGTTGATTTTATGCTATCCAAGAACTTTACAATGACTAGAAT
1326556 TC
66 TC
* *
1326558 TGTGAGGATCTTATGGTTAAACATGTTGATTTTATGCTATCCAAGAACTTTGCAATGACTAGAAT
1 TGTGAGGATCTTATAGTTAAACATGTTGATTTTATGCTATCCAAGAACTTTACAATGACTAGAAT
1326623 TC
66 TC
1326625 TG
1 TG
1326627 AGAATTCGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 48 0.76
67 15 0.24
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (67 bp):
TGTGAGGATCTTATAGTTAAACATGTTGATTTTATGCTATCCAAGAACTTTACAATGACTAGAAT
TC
Found at i:1327790 original size:16 final size:17
Alignment explanation
Indices: 1327762--1327793 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1327752 GTACAGTAAC
1327762 AATTTGTATGGAATTGG
1 AATTTGTATGGAATTGG
1327779 AATTTG-ATGGAATTG
1 AATTTGTATGGAATTG
1327794 ATGGAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (17 bp):
AATTTGTATGGAATTGG
Found at i:1344592 original size:18 final size:18
Alignment explanation
Indices: 1344569--1344605 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1344559 TTCTTACGTA
*
1344569 CTTTCCCATGGCAGTCAT
1 CTTTCCCATGGAAGTCAT
1344587 CTTTCCCATGGAAGTCAT
1 CTTTCCCATGGAAGTCAT
1344605 C
1 C
1344606 ATGTGAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (18 bp):
CTTTCCCATGGAAGTCAT
Found at i:1346329 original size:25 final size:24
Alignment explanation
Indices: 1346283--1346329 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
1346273 TTTTGTTTTG
*
1346283 TTTATTTTTTATTTTTTTCTTTAT
1 TTTATTTTTTATTTTTTACTTTAT
1346307 TTTATTTTTT-TGTTGTTTACTTT
1 TTTATTTTTTAT-TT-TTTACTTT
1346330 TAAGATTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.60
25 7 0.35
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTATTTTTTATTTTTTACTTTAT
Found at i:1352486 original size:16 final size:16
Alignment explanation
Indices: 1352465--1352499 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1352455 TGTTTTAGGT
1352465 TTAATGTCCCAGAGTC
1 TTAATGTCCCAGAGTC
1352481 TTAATGTCCCAGAGTC
1 TTAATGTCCCAGAGTC
1352497 TTA
1 TTA
1352500 CTTTCTGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (16 bp):
TTAATGTCCCAGAGTC
Found at i:1353349 original size:17 final size:19
Alignment explanation
Indices: 1353311--1353349 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1353301 CTCCAAAGCA
*
1353311 TATTTTTCATCATCAGTGT
1 TATTTTTCACCATCAGTGT
1353330 TATTTTTCACCA-CA-TGT
1 TATTTTTCACCATCAGTGT
1353347 TAT
1 TAT
1353350 ATGGAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (19 bp):
TATTTTTCACCATCAGTGT
Found at i:1356605 original size:21 final size:21
Alignment explanation
Indices: 1356564--1356605 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1356554 TTAAAAACCA
* *
1356564 GATTTTAAAAATCAAATTTGT
1 GATTTTAAAAATAAAAATTGT
1356585 GATTTTAAAAGA-AAAAATTGT
1 GATTTTAAAA-ATAAAAATTGT
1356606 TTCGACAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
GATTTTAAAAATAAAAATTGT
Found at i:1357397 original size:15 final size:16
Alignment explanation
Indices: 1357369--1357402 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1357359 TAGGATTGTT
1357369 TGTGAATAAAAAAGCA
1 TGTGAATAAAAAAGCA
1357385 TGTGAAT-AAAAAGCA
1 TGTGAATAAAAAAGCA
1357400 TGT
1 TGT
1357403 TTGAATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.24
Consensus pattern (16 bp):
TGTGAATAAAAAAGCA
Found at i:1359577 original size:30 final size:32
Alignment explanation
Indices: 1359516--1359587 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
1359506 AGTCGACAAC
*
1359516 AAAGAAAG-AAAAA--AATAGAAAAAAGATAT
1 AAAGAAAGAAAAAAGTAATAGAAAAAACATAT
1359545 -AA-AAAGAAAAAAGTAATAGAAAAATACA-AT
1 AAAGAAAGAAAAAAGTAATAGAAAAA-ACATAT
1359575 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
1359588 TGAAAAAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.11
28 7 0.19
30 12 0.33
31 4 0.11
32 9 0.25
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.10
Consensus pattern (32 bp):
AAAGAAAGAAAAAAGTAATAGAAAAAACATAT
Found at i:1359598 original size:14 final size:13
Alignment explanation
Indices: 1359545--1359626 Score: 53
Period size: 14 Copynumber: 6.2 Consensus size: 13
1359535 AAAAAGATAT
1359545 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
* * *
1359558 TAATAGAAAAATAC
1 AAAAAGAAAAA-AG
1359572 AATAAAG---AAAG
1 AA-AAAGAAAAAAG
1359583 AAAAATGAAAAAAG
1 AAAAA-GAAAAAAG
* *
1359597 AAGAAGAAATAAG
1 AAAAAGAAAAAAG
*
1359610 AAAGAAGAAAGAAG
1 AAA-AAGAAAAAAG
1359624 AAA
1 AAA
1359627 GAAAATAGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 2 0.04
13 18 0.35
14 22 0.42
15 3 0.06
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:1359613 original size:17 final size:17
Alignment explanation
Indices: 1359520--1359619 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 17
1359510 GACAACAAAG
1359520 AAAGAA-AAAAATAGAAA
1 AAAGAAGAAAAAT-GAAA
*
1359537 AAAGATATAAAAA-GAAA
1 AAAGA-AGAAAAATGAAA
1359554 AAAGTAATAGAAAAAT-ACAA
1 AAAG--A-AGAAAAATGA-AA
1359574 TAAAGAAAGAAAAATGAAA
1 -AAAG-AAGAAAAATGAAA
*
1359593 AAAGAAGAAGAAAT-AAG
1 AAAGAAGAA-AAATGAAA
1359610 AAAGAAGAAA
1 AAAGAAGAAA
1359620 GAAGAAAGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 19
0.77 0.02 0.20
Matches are distributed among these distances:
16 1 0.01
17 29 0.40
18 9 0.12
19 24 0.33
20 5 0.07
21 4 0.06
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (17 bp):
AAAGAAGAAAAATGAAA
Found at i:1359627 original size:7 final size:7
Alignment explanation
Indices: 1359575--1359629 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
1359565 AAAATACAAT
1359575 AAAGAAAG
1 AAAG-AAG
1359583 AAA-AATG
1 AAAGAA-G
*
1359590 AAAAAAG
1 AAAGAAG
1359597 -AAGAAG
1 AAAGAAG
*
1359603 AAATAAG
1 AAAGAAG
1359610 AAAGAAG
1 AAAGAAG
1359617 AAAGAAG
1 AAAGAAG
1359624 AAAGAA
1 AAAGAA
1359630 AATAGAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 7 0.17
7 29 0.71
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (7 bp):
AAAGAAG
Found at i:1360679 original size:43 final size:43
Alignment explanation
Indices: 1360607--1360691 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
1360597 CTGGAGCAAG
*
1360607 AAATAATAAATGTTGGGCATTTTTGAAGGCCCATATCATCCAT
1 AAATAATAAATGTTGGGCATTTTTGAAGGCACATATCATCCAT
* *
1360650 AAATGATAAATGTTGGGGTATTTTT-AAGGCACATATCATCCA
1 AAATAATAAATGTT-GGGCATTTTTGAAGGCACATATCATCCA
1360692 GGAATACAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 29 0.76
44 9 0.24
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (43 bp):
AAATAATAAATGTTGGGCATTTTTGAAGGCACATATCATCCAT
Found at i:1362027 original size:4 final size:4
Alignment explanation
Indices: 1362018--1367244 Score: 8371
Period size: 4 Copynumber: 1342.5 Consensus size: 4
1362008 GTCATTGCAT
*
1362018 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1362066 CATG CTTA CATA CATG CATA CATG TATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362114 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362162 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1362210 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362257 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362305 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362351 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1362399 CATA CATA TATA CATG CTTA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1362447 CATA CATA CATA CATA CATA CATG CATA CATG CATG CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1362495 CATG CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362543 CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362589 CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1362635 C--A CATA CATA CATG CATA CATA CATA CATA CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362680 CATA CAT- CATA CATA CATA CATA CAT- CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362726 CATA C--A CATA CATA CATA CATA CATA CATA CAT- CATA CAT- CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1362770 CATA CATA CAT- CATA CATA CATAA CATA CATA CATA CACA TCATA CATA
1 CATA CATA CATA CATA CATA CAT-A CATA CATA CATA CATA -CATA CATA
1362819 CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1362866 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATCA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT-A CATA
1362915 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1362963 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363011 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363059 CATA CATA CATA CATA CATA CATA C-TA CATA CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1363105 C--A CATA CATA CATA CATA CA-A CAT- -ATA CATA CATA CATA C-TC
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363147 CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363193 C--A CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1363237 CAT- -ATA CATA CATA TATA CATA CATA CATA CA-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363282 CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363328 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1363375 CATA C--A CATA CATA CATA CACA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363421 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1363468 -ATA CATA CATA CAAA CATG CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1363515 CATA CATA CA-A CATA CATA C--A CATA CATG CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363560 CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363606 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363654 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363701 CATA CATA CATA CATA CATA CA-A CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363747 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363795 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363841 CATA CATA CATA CATA CATA CATA CCATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA -CATA CATA CATA CATA CATA CATA
*
1363890 CATA CATA CATA CATA CATA CATA CATA C--A CATG CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363935 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1363983 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364031 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364079 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364126 CATA CATA CATA CAT- CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364173 C--A CATA CATA CATA CAT- CATA CATA CATA CA-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364217 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364265 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364313 CAT- CATA CATA CATA CATA CCATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA -CATA CATA CATA CATA CATA CATA CATA
1364361 CATA CATA CCATA CATA CATA C--A CATA CAT- -ATA CATA CATA CATA
1 CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364406 CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364453 CATA CATA CATA CATA CATA CAT- C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364499 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364545 CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1364591 CATA CATA CATA CATGC CATA CAT- CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA
* *
1364639 CATA CAT- -ATA CATG CATA CATG CA-A CATA CCATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA -CATA CATA CATA CATA
* *
1364685 CATA CATCA CAT- CATA CATA TACA CATA CATA CATA CATA CATA CATA
1 CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1364733 CATA CATA CATGC CATA CATA CCATA CATA CATA CATA CATA CAT- -ATA
1 CATA CATA CAT-A CATA CATA -CATA CATA CATA CATA CATA CATA CATA
*
1364781 TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364829 CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CAT- CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364874 CATA CATA CCATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364923 CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1364970 CCATA CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365017 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365065 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365111 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1365159 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1365206 CAT- CATA CATG CATA CATG CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365252 C--A CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365297 CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365343 CAT- CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365389 CAT- -ATA CATA CATA CA-A -ATA CATA CATA CATA CAT- CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1365431 -ATA CATA CATA CAT- -ATA CATA GATA CATA CATA CACA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365476 CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365522 CATA TCATA -ATA -ATA CATA CATA CATA CATA CATA C--A CATA CATA
1 CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1365567 CATA CATA CATA CATA CATA CATA CATA CATA CATG CATA TGCATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA --CATA CATA
1365617 CATA CATA CATA CATA CATA CATTA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CA-TA CATA CATA CATA CATA CATA CATA
* * * * *
1365666 CATG CATG CATA CAT- CATA CATG CATA CA-G CATA CATA CATG CATGCA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A
1365714 CATA C--A CATA CATA CATA CATA CA-A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365759 CTATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 C-ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1365806 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1365854 CATA CATA CA-A CATTG CATA TATG CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CA-TA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1365900 C-TA CATA CATA CATA CATG CATA CATG CATA CA-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1365946 CATA CATA CATA CAT- CATA CATA CATA CATA CAATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA CATA CATA
1365994 CATA CAT- CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1366039 CATA C-TA CATA CATA CATA CATA CATA CATA TATA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1366085 CATA GAT- -ATA CATA GATA CATA CATA GCTACA CATA CATA CATA GATA
1 CATA CATA CATA CATA CATA CATA CATA -C-ATA CATA CATA CATA CATA
* *
1366133 CATA CATA CATA CATA GATA CATA TATA CAT- CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366178 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366225 C--A CATA CATA CATA CAT- CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1366270 CATA C--A CATA CATA CATA CATA CATA CATA CATG CATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1366316 TATG CATA CATCA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1366365 CATA CATA CATA CATG CATA CATG CATA CATG CATA CATA CATG C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1366412 CATA CATA CATA CATA CATG C-TA CATG CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366459 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1366505 CCTA CATA CATA CATA CATA CATA CAGA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366553 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366600 CATA CATA CATA CATA CA-A CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366647 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366695 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366743 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366791 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366838 C-TA CATA CATA CATA CATA CATA C-T- CATA C-TA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366882 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366929 CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1366976 C-TA CATA CATA CAT- -ATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1367020 -ATA CATA CATA CATA CATA CA-A CATA CAT- -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1367064 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1367112 CATA CATA C-TA CATA CATA CATA CATA CATA CATA C-TA CAT- CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1367157 CATA CAT- -ATA CATA CATA CATA CATA CATA CACTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA-TA CATA CATA CATA
1367204 CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1367245 GACCATCAAT
Statistics
Matches: 4892, Mismatches: 137, Indels: 388
0.90 0.03 0.07
Matches are distributed among these distances:
2 95 0.02
3 212 0.04
4 4500 0.92
5 76 0.02
6 9 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1367567 original size:41 final size:40
Alignment explanation
Indices: 1367477--1367567 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 40
1367467 TCTTACTTAG
**
1367477 TAAGTCCTTCAGACATCAGTAAGTCTTTCGAGCATTATAC
1 TAAGTCCTTCAGACATCAGTAAGTCTTTCGAGCAAGATAC
* * *
1367517 TTAAATCCTTCGAGTCATCCGTAAGTCTTTCGAGCAAGATGA-
1 -TAAGTCCTTC-AGACATCAGTAAGTCTTTCGAGCAAGAT-AC
1367559 TAAGTCCTT
1 TAAGTCCTT
1367568 TGGACCATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 17 0.40
42 24 0.57
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (40 bp):
TAAGTCCTTCAGACATCAGTAAGTCTTTCGAGCAAGATAC
Found at i:1368169 original size:483 final size:483
Alignment explanation
Indices: 1367248--1368195 Score: 1255
Period size: 483 Copynumber: 2.0 Consensus size: 483
1367238 TCATACAGAC
*
1367248 CATCAATAAGTCTTTCAAGCATGATGCTTAAATCATCTGGGTCATCCATAAGTCTTTCGAGCAAG
1 CATCAATAAGTCTTTCAAGCATGATGCGTAAATCATCTGGGTCATCCATAAGTCTTTCGAGCAAG
* * *
1367313 ATGATAAGTCATTCGAGCCATCCATAAGACCTTTGGGTAGGATATTTTCACATATTTTTCAAAAA
66 ATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGAATATTTTCACATATTTTTCAAAAA
** *
1367378 AAATGAGAAAGTAATTTCCAAAGTTTCACATTTAAACATTTTCTGAAAATTGGTTTCTTTTGAAA
131 AAATGAGAAAACAATTTCCAAAGTTTCACATTTAAACATTTTCTGAAAATTGGTTTCTTTTAAAA
* * ** *
1367443 AGTAGGAAAATAATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGACATCAGTAAGTCTTTCGA
196 AGTAAGAAAACAATTTCCAAAGTTTCTTACTTAGTAAGTAATTCAGACATCAATAAGTCTTTCGA
* * *
1367508 GCATTATACTTAAATCCTTCGAGTCATCCGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGAC
261 GCATGATACTTAAATCCTTCGAGTCATCCGTAAGTCTTTAGAGAAAGATGATAAGTCCTTTGGAC
* * * * **
1367573 CATCCATAAGACCTTTGGGTAGGATGTATTCACATGTTTTTCGAAAAATGAGAAAATGATTTCCA
326 AATCCATAAGACCTTTGAGCAAGATGTATTCACATGTTTTTCGAAAAATGAGAAAACAATTTCCA
* *** * *
1367638 AAGTTTCTTATTTAAACCTTTTCTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAACAATTTCCAA
391 AAGTTTCTTATTTAAACCTTTTATGAAAATTGAAATCTTTTAAAAAGTAAGAAAACAATTTCAAA
*
1367703 AGTTTCTTACTTAGCAAGTCATTCGTGT
456 AGTTCCTTACTTAGCAAGTCATTCGTGT
* * * * ** *
1367731 CATCAGTAAGTCTTTCAAGTATGATTCGTAAATGC-TTTGGGTCATCTGTAAGTCTTTTGAGCAA
1 CATCAATAAGTCTTTCAAGCATGATGCGTAAAT-CATCTGGGTCATCCATAAGTCTTTCGAGCAA
* * * * *
1367795 GATGATAAGTCCTTTGGGCCATCCATAAGACCTTCGGGCATAATATTTTCACATGTTTTTC-AAA
65 GATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGAATATTTTCACATATTTTTCAAAA
* * * *
1367859 AAAATGAGAAAACGATTTCCAAAGTTTCTA-ATTTAAATATTTTTTTTAAAATTGGTTTCTTTTA
130 AAAATGAGAAAACAATTTCCAAAGTTTC-ACATTTAAACA-TTTTCTGAAAATTGGTTTCTTTTA
* * * * *
1367923 AAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTGGTATGTAATTCGGGCCATCAATAAGTCTT
193 AAAAGTAAGAAAACAATTTCCAAAGTTTCTTACTTAGTAAGTAATTC-AGACATCAATAAGTCTT
* *
1367988 TCGAGCATGATGA-TTAAATCCTTCGAGTCATCTGTCAGTCTTTAGAGAAAGATGATAAGTCCTT
257 TCGAGCATGAT-ACTTAAATCCTTCGAGTCATCCGTAAGTCTTTAGAGAAAGATGATAAGTCCTT
* * * *
1368052 CAT-G-CAATCTATAAGACTTTTGAGCAAGATGCT-TTTACATGTTTTTCGAAAGATGAGAAAAC
321 --TGGACAATCCATAAGACCTTTGAGCAAGATG-TATTCACATGTTTTTCGAAAAATGAGAAAAC
* *
1368114 AATTTCCAAAGTTTCTTATTTAAATCTTTTATGAAAATTGAAAT-TTTTAAAAAGTAAGAAAACG
383 AATTTCCAAAGTTTCTTATTTAAACCTTTTATGAAAATTGAAATCTTTTAAAAAGTAAGAAAACA
1368178 ATTTCAAAAGTTCCTTAC
448 ATTTCAAAAGTTCCTTAC
1368196 CTAGTAAACT
Statistics
Matches: 400, Mismatches: 57, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
482 36 0.09
483 203 0.51
484 157 0.39
485 3 0.01
486 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (483 bp):
CATCAATAAGTCTTTCAAGCATGATGCGTAAATCATCTGGGTCATCCATAAGTCTTTCGAGCAAG
ATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGAATATTTTCACATATTTTTCAAAAA
AAATGAGAAAACAATTTCCAAAGTTTCACATTTAAACATTTTCTGAAAATTGGTTTCTTTTAAAA
AGTAAGAAAACAATTTCCAAAGTTTCTTACTTAGTAAGTAATTCAGACATCAATAAGTCTTTCGA
GCATGATACTTAAATCCTTCGAGTCATCCGTAAGTCTTTAGAGAAAGATGATAAGTCCTTTGGAC
AATCCATAAGACCTTTGAGCAAGATGTATTCACATGTTTTTCGAAAAATGAGAAAACAATTTCCA
AAGTTTCTTATTTAAACCTTTTATGAAAATTGAAATCTTTTAAAAAGTAAGAAAACAATTTCAAA
AGTTCCTTACTTAGCAAGTCATTCGTGT
Found at i:1403882 original size:8 final size:8
Alignment explanation
Indices: 1403852--1403910 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
1403842 TTTATTAGTA
1403852 ACACACGC
1 ACACACGC
*
1403860 ACACGCACAC
1 ACA--CACGC
*
1403870 GCACACGC
1 ACACACGC
*
1403878 ACACACGT
1 ACACACGC
1403886 ACACACGC
1 ACACACGC
1403894 ACACACGC
1 ACACACGC
*
1403902 ACGCACGC
1 ACACACGC
1403910 A
1 A
1403911 TACATGCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 36 0.86
10 6 0.14
ACGTcount: A:0.36, C:0.47, G:0.15, T:0.02
Consensus pattern (8 bp):
ACACACGC
Found at i:1403897 original size:6 final size:6
Alignment explanation
Indices: 1403853--1403881 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1403843 TTATTAGTAA
1403853 CACACG CACACG CACACG CACACG CACAC
1 CACACG CACACG CACACG CACACG CACAC
1403882 ACGTACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.52, G:0.14, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:1403906 original size:12 final size:12
Alignment explanation
Indices: 1403852--1403907 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
1403842 TTTATTAGTA
1403852 ACACACGCACAC
1 ACACACGCACAC
*
1403864 GCACACGCACAC
1 ACACACGCACAC
* **
1403876 GCACA--CACGT
1 ACACACGCACAC
1403886 ACACACGCACAC
1 ACACACGCACAC
*
1403898 ACGCACGCAC
1 ACACACGCAC
1403908 GCATACATGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 7 0.20
12 28 0.80
ACGTcount: A:0.36, C:0.48, G:0.14, T:0.02
Consensus pattern (12 bp):
ACACACGCACAC
Found at i:1404380 original size:42 final size:42
Alignment explanation
Indices: 1404332--1404415 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
1404322 CAAATGATGA
*
1404332 TTAATTAAAAGTCATCTTTGATAAAAGAAAGTTCAACTCTCG
1 TTAATTAAAAGTCATATTTGATAAAAGAAAGTTCAACTCTCG
1404374 TTAATTAAAAGTCATATTTGATAAAAGAAAGTTCAACTCTCG
1 TTAATTAAAAGTCATATTTGATAAAAGAAAGTTCAACTCTCG
1404416 ATGATAGGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (42 bp):
TTAATTAAAAGTCATATTTGATAAAAGAAAGTTCAACTCTCG
Found at i:1406259 original size:17 final size:17
Alignment explanation
Indices: 1406237--1406282 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
1406227 ATCAGAAAAA
1406237 TAAAAAAAATATTATAC
1 TAAAAAAAATATTATAC
1406254 T-AAAAAAATATTATAC
1 TAAAAAAAATATTATAC
*
1406270 TAAAAAAATTATT
1 TAAAAAAAATATT
1406283 TTGTGGACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAAATATTATAC
Found at i:1406260 original size:16 final size:16
Alignment explanation
Indices: 1406239--1406278 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
1406229 CAGAAAAATA
1406239 AAAAAAATATTATACT
1 AAAAAAATATTATACT
1406255 AAAAAAATATTATACT
1 AAAAAAATATTATACT
1406271 AAAAAAAT
1 AAAAAAAT
1406279 TATTTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAAATATTATACT
Found at i:1407173 original size:38 final size:38
Alignment explanation
Indices: 1407106--1407178 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
1407096 AGATTGCAAC
* *
1407106 CCAGATTTTTAGGTTGCAACTCAGATTTTAGGTTGAAA
1 CCAGATTTTAAGGTTGCAACCCAGATTTTAGGTTGAAA
*
1407144 CCAGA-TTTAAGGTTGCTACCCAGATTTTTAGGTTG
1 CCAGATTTTAAGGTTGCAACCCAGA-TTTTAGGTTG
1407179 GAAGTCAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (38 bp):
CCAGATTTTAAGGTTGCAACCCAGATTTTAGGTTGAAA
Found at i:1407191 original size:20 final size:20
Alignment explanation
Indices: 1407099--1407178 Score: 103
Period size: 20 Copynumber: 4.2 Consensus size: 20
1407089 TGGTTTAAGA
1407099 TTGCAACCCAGATTTTTAGG
1 TTGCAACCCAGATTTTTAGG
*
1407119 TTGCAACTCAGA-TTTTAGG
1 TTGCAACCCAGATTTTTAGG
* *
1407138 TTG-AAACCAGA-TTTAAGG
1 TTGCAACCCAGATTTTTAGG
*
1407156 TTGCTACCCAGATTTTTAGG
1 TTGCAACCCAGATTTTTAGG
1407176 TTG
1 TTG
1407179 GAAGTCAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
18 15 0.29
19 16 0.31
20 20 0.39
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCAACCCAGATTTTTAGG
Found at i:1408064 original size:3 final size:3
Alignment explanation
Indices: 1408056--1408139 Score: 80
Period size: 3 Copynumber: 27.7 Consensus size: 3
1408046 TTAGATTAGC
* * * * * *
1408056 TAT TAT TAT CAT TTT TAT TAT TAT TAC TAT ATAA TAC TA- TGT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T
*
1408102 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1408140 AATGGTTAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
2 1 0.02
3 60 0.91
4 5 0.08
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1408965 original size:23 final size:23
Alignment explanation
Indices: 1408935--1409010 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
1408925 CATAATTATC
*
1408935 CCGAAGTACCATATAGGTTTGCA
1 CCGAAGTACCACATAGGTTTGCA
1408958 CCGAAGTACCACATAGGTTTGCA
1 CCGAAGTACCACATAGGTTTGCA
1408981 CCGAAGTACCACATAGGTTTGCA
1 CCGAAGTACCACATAGGTTTGCA
1409004 CCGAAGT
1 CCGAAGT
1409011 GCCATATATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CCGAAGTACCACATAGGTTTGCA
Found at i:1409717 original size:21 final size:21
Alignment explanation
Indices: 1409693--1409744 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1409683 TACCCTTACA
*
1409693 GTATCGATACCTCTTCAACAT
1 GTATCGATACCTCTTCAACAG
1409714 GTATCGATACCTCTTCAACAG
1 GTATCGATACCTCTTCAACAG
1409735 GTATCGATAC
1 GTATCGATAC
1409745 TACCCTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (21 bp):
GTATCGATACCTCTTCAACAG
Found at i:1410809 original size:23 final size:23
Alignment explanation
Indices: 1410783--1410830 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1410773 ATAAAGTACA
* *
1410783 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
1410806 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
1410829 AT
1 AT
1410831 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:1411240 original size:21 final size:22
Alignment explanation
Indices: 1411215--1411266 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1411205 ACACTTTACA
*
1411215 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1411238 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1411261 ATATAA
1 ATATAA
1411267 GGGCTGCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1411661 original size:37 final size:38
Alignment explanation
Indices: 1411611--1411695 Score: 136
Period size: 37 Copynumber: 2.2 Consensus size: 38
1411601 TCAAGTTGTA
*
1411611 GATTTTGATTTCCTTTTGCTTGGCATC-ATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCAATGAGATTTG
*
1411648 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCA-ATGAGATTTG
1411687 GATTTTGAT
1 GATTTTGAT
1411696 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 26 0.59
39 18 0.41
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.48
Consensus pattern (38 bp):
GATTTTGATTTCCTTTTGCTTGGCACCAATGAGATTTG
Found at i:1411974 original size:18 final size:18
Alignment explanation
Indices: 1411951--1411987 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1411941 CGAAATATAT
1411951 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1411969 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1411987 A
1 A
1411988 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1412263 original size:25 final size:25
Alignment explanation
Indices: 1412235--1412285 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1412225 TTAATCCAAA
*
1412235 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
1412260 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
1412285 T
1 T
1412286 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:1412573 original size:21 final size:22
Alignment explanation
Indices: 1412548--1412599 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1412538 ACACTTTACA
*
1412548 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1412571 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1412594 ATATAA
1 ATATAA
1412600 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1412584 original size:23 final size:23
Alignment explanation
Indices: 1412558--1412620 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1412548 ATATAACCAC
1412558 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1412581 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1412604 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1412621 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1413034 original size:23 final size:23
Alignment explanation
Indices: 1412973--1413044 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
1412963 ACACATTACA
* *
1412973 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1412996 ATA-AAACGATACCTATTTCATT
1 ATATAAACGCTACCTATTACATT
** *
1413018 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
1413041 ATAT
1 ATAT
1413045 GTTTACCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 18 0.46
23 21 0.54
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1413434 original size:23 final size:23
Alignment explanation
Indices: 1413408--1413470 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1413398 ATATAACCAC
1413408 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1413431 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1413454 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1413471 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1413487 original size:426 final size:426
Alignment explanation
Indices: 1412320--1413569 Score: 2266
Period size: 425 Copynumber: 2.9 Consensus size: 426
1412310 GAATTATTTA
* *
1412320 ATTTAATAATTTCATTTGCACAAAAAATTATTGATTGTTTTGATATTTTATAAAATAATATTTAG
1 ATTTAATAATTTCATTTGCACAAAAAATTATTGATTGTTTTTATATTTTATAAAATATTATTTAG
* *
1412385 AATTTTTAATTTAATAATA-ATATCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
66 AATTTTTAATTTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1412449 AATTAATATCTTAAAACTCACTCAAAAGATAACCTT-AATTAATGTTTTCCACAGTGAAAAAAGT
131 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAAT-TTTTCCACAGTGAAAAAAGT
1412513 ATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
195 ATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
1412578 CGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
260 CGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
1412643 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TT
325 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTT
*
1412707 TTTTAACATTGTTTCATGTTTTCCACCTACAATATTG
390 TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
1412744 ATTTAATAATTTCATTTGCACAAAAAATTATTGATTGTTTTTATATTTTATAAAATATTATTTAG
1 ATTTAATAATTTCATTTGCACAAAAAATTATTGATTGTTTTTATATTTTATAAAATATTATTTAG
1412809 AATTTTTAATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
66 AATTTTTAATTTAAT-A-ATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
* *
1412874 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATT-ATGTTTCCACATTGAAAAAAG
129 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATTTTTCCACAGTGAAAAAAG
*
1412938 TATGGACAC-TTTATAAAAAGGATAGACACATTACAATATAACCACTACCTATTACATTATA-AA
194 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
1413001 ACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
259 ACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
1413066 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAACTTATGTAATTTATGTTTCAAT
324 TGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAACTTATGTAATTTATGTTTCAAT
1413131 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
388 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
*
1413170 ATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTA-TTGATTGTTTTTATATTTTATAAAATATTATTTA
1413235 GAATTTTTAATTTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
65 GAATTTTTAATTTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
* **
1413300 AAATTAATATCTTAAAACTCACTCAAAA-TTAATATTAAATTAATATTTTCCACAGTG-AAAAAG
130 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAAT-TTTTCCACAGTGAAAAAAG
1413363 TATGGACACTTTTATAAAAAGGATAGA-ACTTTACAATATAACCACTACCTATTACATTATATAA
194 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
1413427 ACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
259 ACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
1413492 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
324 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
1413557 TTTTTAACAGTGT
389 TTTTTAACAGTGT
1413570 ACTGCGAATT
Statistics
Matches: 798, Mismatches: 17, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
424 185 0.23
425 257 0.32
426 221 0.28
427 131 0.16
428 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (426 bp):
ATTTAATAATTTCATTTGCACAAAAAATTATTGATTGTTTTTATATTTTATAAAATATTATTTAG
AATTTTTAATTTAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATTTTTCCACAGTGAAAAAAGTA
TGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAAC
GATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTG
TCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
Found at i:1416347 original size:184 final size:184
Alignment explanation
Indices: 1416038--1416537 Score: 894
Period size: 184 Copynumber: 2.7 Consensus size: 184
1416028 CTTCAATTAC
* **
1416038 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATGGGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
1416103 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
1416168 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
*
1416222 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
1416287 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
1416352 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
* * * *
1416406 CGTCACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGTACATAAAGTACCGACACACT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
* *
1416471 ATTCA-AAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
66 ATT-ATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
1416535 TAT
130 TAT
1416538 TGCAAATTTA
Statistics
Matches: 305, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
184 304 1.00
185 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
Found at i:1418031 original size:3 final size:3
Alignment explanation
Indices: 1418017--1418101 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
1418007 ACTTGTTTGG
* * **
1418017 ATC ATC ATTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC A-TC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
1418063 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1418102 GTCAGCTTCA
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1418083 original size:42 final size:42
Alignment explanation
Indices: 1418024--1418113 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
1418014 TGGATCATCA
*
1418024 TTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAGC
1 TTCATCATCATCATCATCATCATCATCATCTTCATCGCCAGC
* * *
1418066 TTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAGC
1 TTCATCATCATCATCATCATCATCATCATCTTCATCGCCAGC
1418108 TTCATC
1 TTCATC
1418114 TTCTGCGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (42 bp):
TTCATCATCATCATCATCATCATCATCATCTTCATCGCCAGC
Found at i:1418102 original size:12 final size:12
Alignment explanation
Indices: 1418067--1418113 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
1418057 ATCGCCAGCT
* *
1418067 TCATCGTCATCA
1 TCATCTTCATCG
*
1418079 TCATCATCATCG
1 TCATCTTCATCG
1418091 TCATCTTCATCG
1 TCATCTTCATCG
*
1418103 TCAGCTTCATC
1 TCATCTTCATC
1418114 TTCTGCGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:1418112 original size:18 final size:18
Alignment explanation
Indices: 1418049--1418116 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
1418039 ATCATCGTCA
*
1418049 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* *
1418067 TCATCGTCATCATCATCATCAT
1 TCATC-T--TCATCGTCAGC-T
1418089 CGTCATCTTCATCGTCAGCT
1 --TCATCTTCATCGTCAGCT
1418109 TCATCTTC
1 TCATCTTC
1418117 TGCGACCGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.19, C:0.35, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:1420545 original size:200 final size:197
Alignment explanation
Indices: 1419564--1421236 Score: 3033
Period size: 196 Copynumber: 8.5 Consensus size: 197
1419554 ATTTAATTAG
1419564 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1419629 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1419694 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTATGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1419757 AA
196 AA
1419759 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1419824 ATTGTACCGG-TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1419888 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1419952 AAA
195 AAA
1419955 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420020 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1420085 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
1420150 AAAA
194 AAAA
*
1420154 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420218 ATTGTACCGGTTAGATTG-AAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1420281 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AAA
1420346 AAAA
194 AAAA
*
1420350 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420415 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1420480 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AA
1420545 AAAAA
193 AAAAA
*
1420550 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420615 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1420680 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
1420745 AAAA
194 AAAA
1420749 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420814 ATTGTACCGGTTAGA-TG--AAA--A-A-ATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1420872 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1420937 AA
196 AA
1420939 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
*
1421004 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATCTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1421067 CGACACTTTTATATATGGATCGACACTTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAA
131 CGACACTTTTATATATGGATCGACAC-TTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1421132 AAA
195 AAA
*
1421135 TATCGACACAAACTATA-TAGTGTCG--ACATTATTTAGACATATCCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1421197 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
1421237 TGGATCGACA
Statistics
Matches: 1450, Mismatches: 9, Indels: 40
0.97 0.01 0.03
Matches are distributed among these distances:
190 87 0.06
191 55 0.04
192 42 0.03
193 80 0.06
194 61 0.04
195 172 0.12
196 271 0.19
197 201 0.14
198 60 0.04
199 167 0.12
200 254 0.18
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AA
Found at i:1421076 original size:786 final size:783
Alignment explanation
Indices: 1419564--1421236 Score: 3039
Period size: 786 Copynumber: 2.1 Consensus size: 783
1419554 ATTTAATTAG
1419564 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1419629 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1419694 CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTATGGAAAAAAA
131 CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTATGGAAAAAAA
1419759 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
196 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1419824 ATTGTACCGGTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
261 ATTGTACCGGTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
1419889 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
326 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1419954 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTAT
391 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTAT
1420019 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
456 AATTGTACCGGTTAGATTG-AAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
1420084 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
519 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
*
1420149 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTAGACATATTCTCTCATAAAACCGG
584 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTAGACATATCCTCTCATAAAACCGG
*
1420214 TATAATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATTTTGGG
649 TATAATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATCTTGGG
*
1420279 ATCGACACTTTTATATATGGATCGACAC-TTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
714 ATCGACACTTTTATATATGGATCGACACTTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG--
1420343 AAAAAAA
777 AAAAAAA
*
1420350 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1420415 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1420480 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTATGG--AA
*
1420545 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
191 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCG
1420610 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
256 GTATAATTGTACCGG-TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
1420675 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
320 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1420740 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAA
385 G--AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAA
1420805 ACCGGTATAATTGTACCGGTTAGA-TG-AAA-A-A-ATTACATTATACTTTTGGGTTCGATGATT
448 ACCGGTATAATTGTACCGGTTAGATTGAAAATACATATTACATTATACTTTTGGGTTCGATGATT
*
1420865 TTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
513 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
1420929 TGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATA
578 TGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATCCTCTCATA
1420993 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGAT
642 AAACCGGTATAATTGTACCGGTTAGATTG-AAAATTACATA-TACATTATACTTTTGGGTTCGAT
1421057 GATCTT-GGATCGACACTTTTATATATGGATCGACACTTTTATGGGTGCACCCTGTTTTCCATTA
705 GATCTTGGGATCGACACTTTTATATATGGATCGACACTTTTATGGGTGCACCCTGTTTTCCATTA
1421121 ATTCTGGAAAAAAA
770 ATTCTGGAAAAAAA
*
1421135 TATCGACACAAACTATA-TAGTGTCG--ACATTATTTAGACATATCCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1421197 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
1421237 TGGATCGACA
Statistics
Matches: 865, Mismatches: 10, Indels: 28
0.96 0.01 0.03
Matches are distributed among these distances:
782 75 0.09
784 8 0.01
785 65 0.08
786 265 0.31
787 107 0.12
788 42 0.05
789 16 0.02
791 84 0.10
792 115 0.13
793 2 0.00
794 86 0.10
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (783 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTATGGAAAAAAA
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAATACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTAGACATATCCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATCTTGGGAT
CGACACTTTTATATATGGATCGACACTTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAA
AAA
Found at i:1421431 original size:19 final size:19
Alignment explanation
Indices: 1421384--1421431 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1421374 ATTATATCAC
*
1421384 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1421403 ATAC-AAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1421421 ATACAAAATTA
1 ATACAAAATTA
1421432 ACTCGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1425619 original size:19 final size:18
Alignment explanation
Indices: 1425566--1425610 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 18
1425556 TCCGGTATCA
1425566 TTTACCGGTTTTATCATT
1 TTTACCGGTTTTATCATT
1425584 TTGATACCGGTTTTATCATAT
1 TT--TACCGGTTTTATCAT-T
1425605 TTTACC
1 TTTACC
1425611 TGTTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 4 0.17
20 15 0.62
21 3 0.12
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTACCGGTTTTATCATT
Found at i:1426236 original size:229 final size:228
Alignment explanation
Indices: 1425835--1426283 Score: 808
Period size: 229 Copynumber: 2.0 Consensus size: 228
1425825 TTTAAAAAGC
1425835 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
1425900 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
1425965 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
*
1426030 GTATGGACACTTTTATAAAAATGATATATACTTT
195 GTATGGACACTTTTATAAAAAGGATATATACTTT
*
1426064 TTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
1426129 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
1426194 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
1426259 TATGGACACTTTTATAAAAAGGATA
196 TATGGACACTTTTATAAAAAGGATA
1426284 GATAATTTAC
Statistics
Matches: 211, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
228 37 0.18
229 174 0.82
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTTT
Found at i:1428215 original size:21 final size:20
Alignment explanation
Indices: 1428176--1428215 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1428166 CACATACATT
*
1428176 TTTACATAAAATCTTAATAA
1 TTTACATAAAATCTAAATAA
*
1428196 TTTACATAGATATCTAAATA
1 TTTACATA-AAATCTAAATA
1428216 GATGAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTACATAAAATCTAAATAA
Found at i:1429537 original size:19 final size:18
Alignment explanation
Indices: 1429513--1429558 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
1429503 ATTTGGGTAC
1429513 CGATACACCCGTAGTGTA
1 CGATACACCCGTAGTGTA
*
1429531 TCGATACACCTGTAGTGTA
1 -CGATACACCCGTAGTGTA
1429550 CTGATACAC
1 C-GATACAC
1429559 TCCTAAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (18 bp):
CGATACACCCGTAGTGTA
Found at i:1430304 original size:2 final size:2
Alignment explanation
Indices: 1430297--1430351 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
1430287 TCGGGCCGGG
* * * *
1430297 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1430337 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1430352 TTAATTTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1430429 original size:12 final size:12
Alignment explanation
Indices: 1430412--1430437 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1430402 TTTTAATATT
1430412 TATCGGGTCGGG
1 TATCGGGTCGGG
1430424 TATCGGGTCGGG
1 TATCGGGTCGGG
1430436 TA
1 TA
1430438 ATCAGGGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.15, G:0.46, T:0.27
Consensus pattern (12 bp):
TATCGGGTCGGG
Found at i:1430890 original size:23 final size:23
Alignment explanation
Indices: 1430845--1430890 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1430835 GCATCTTACA
*
1430845 TGGTACTTCGGTGCAATTCTACG
1 TGGTACTTCGGTGCAATTATACG
* *
1430868 TGGTACTTTGGTGCATTTATACG
1 TGGTACTTCGGTGCAATTATACG
1430891 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (23 bp):
TGGTACTTCGGTGCAATTATACG
Found at i:1431474 original size:23 final size:23
Alignment explanation
Indices: 1431448--1431501 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1431438 GGTGTTACAG
1431448 ACCACATAGGTTTGCACCGAAGT
1 ACCACATAGGTTTGCACCGAAGT
1431471 ACCACATAGGTTTGCACCGAAGT
1 ACCACATAGGTTTGCACCGAAGT
*
1431494 GCCACATA
1 ACCACATA
1431502 TTTGTCTCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (23 bp):
ACCACATAGGTTTGCACCGAAGT
Found at i:1431537 original size:20 final size:21
Alignment explanation
Indices: 1431499--1431538 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1431489 GAAGTGCCAC
* *
1431499 ATATTTGTCTCGAAGGACCAT
1 ATATTTGTCCCGAAAGACCAT
1431520 ATATTT-TCCCGAAAGACCA
1 ATATTTGTCCCGAAAGACCA
1431539 CATAAGATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
ATATTTGTCCCGAAAGACCAT
Found at i:1439159 original size:41 final size:41
Alignment explanation
Indices: 1439104--1439244 Score: 142
Period size: 34 Copynumber: 3.6 Consensus size: 41
1439094 ATAAACAAGT
*
1439104 AATAAATAATACCATACACCATTAAGTCTCAATAAGTCTAA
1 AATAAATAACACCATACACCATTAAGTCTCAATAAGTCTAA
1439145 AATAAAT------A-ACACCATTAAGTCTCAATAAGTCTAA
1 AATAAATAACACCATACACCATTAAGTCTCAATAAGTCTAA
* *
1439179 AATAAATAACATCATAACACCATTAA-TCTCAATAAGTTTATTA
1 AATAAATAACACCAT-ACACCATTAAGTCTCAATAAGTCTA--A
1439222 AA-ATAATAACACCATA-A-CATTAA
1 AATA-AATAACACCATACACCATTAA
1439245 TAAATTTAAA
Statistics
Matches: 87, Mismatches: 2, Indels: 23
0.78 0.02 0.21
Matches are distributed among these distances:
34 33 0.38
35 1 0.01
40 7 0.08
41 21 0.24
42 12 0.14
43 13 0.15
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.28
Consensus pattern (41 bp):
AATAAATAACACCATACACCATTAAGTCTCAATAAGTCTAA
Found at i:1439239 original size:43 final size:42
Alignment explanation
Indices: 1439150--1439240 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 42
1439140 TCTAAAATAA
*
1439150 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACATC
1 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
*
1439192 ATAACACCATTAA-TCTCAATAAGTTTATTAAA-ATAATAACACC
1 ATAACACCATTAAGTCTCAATAAGTCTA--AAATA-AATAACACC
1439235 ATAACA
1 ATAACA
1439241 TTAATAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 13 0.30
42 14 0.32
43 17 0.39
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (42 bp):
ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
Found at i:1441563 original size:22 final size:23
Alignment explanation
Indices: 1441527--1441570 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1441517 TTTTATTTCA
*
1441527 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
1441550 TTTGTTTTA-ATATTATTATTA
1 TTTGTTTTATATATTATTATTA
1441571 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTGTTTTATATATTATTATTAT
Found at i:1442868 original size:12 final size:13
Alignment explanation
Indices: 1442846--1442874 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1442836 AAATTTTCAT
1442846 TTTTGACTATTTA
1 TTTTGACTATTTA
1442859 TTTT-ACTATTTA
1 TTTTGACTATTTA
1442871 TTTT
1 TTTT
1442875 TTTCCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGACTATTTA
Found at i:1449529 original size:115 final size:115
Alignment explanation
Indices: 1449369--1450055 Score: 1180
Period size: 115 Copynumber: 6.0 Consensus size: 115
1449359 AAGTGCCATG
*
1449369 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTTATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
1449434 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATG
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
1449484 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
1449549 TGATTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
1449599 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
1449664 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
*
1449714 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATA
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1449779 TGGTTTGGTATGAA-CCCAAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
*
1449828 TGCCCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
1449893 TGGTTTGGTATGAACCCCAAAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAAACCAATCATTGGATTTAAAAGATGAATT
* * * *
1449944 TGCTCATGGTAGAAATAAGGAGGCCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
1450009 TGGTTCGGTAGGAACCAC-ATAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAA
1450056 CTGCATGATC
Statistics
Matches: 544, Mismatches: 26, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
114 135 0.25
115 304 0.56
116 105 0.19
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:1451338 original size:74 final size:74
Alignment explanation
Indices: 1451182--1451350 Score: 205
Period size: 74 Copynumber: 2.3 Consensus size: 74
1451172 AACAAGAAGC
* * * *
1451182 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGATGATGTATCTGGATGTT
1 AAATGCTGGGGCATGCTG-AAACCCTTTTCAATCAGAATCAAGAATGATGATGTATCTGAACGTT
*
1451247 TATATCAGCA
65 CATATCAGCA
* * * *
1451257 AAATGCTGGGGCATGCTGAAAGCCTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGAACGTT
1 AAATGCTGGGGCATGCTGAAACCCTTTTCAATCAGAATCAAGAATGATGATGTA-TCTGAACGTT
* *
1451322 CGTATCAG-T
65 CATATCAGCA
*
1451331 AATTGCTGGGGCATGCTGAA
1 AAATGCTGGGGCATGCTGAA
1451351 GGCCCATATC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
74 51 0.63
75 30 0.37
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (74 bp):
AAATGCTGGGGCATGCTGAAACCCTTTTCAATCAGAATCAAGAATGATGATGTATCTGAACGTTC
ATATCAGCA
Found at i:1452610 original size:22 final size:22
Alignment explanation
Indices: 1452581--1452635 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1452571 ATCTACACTC
1452581 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1452603 TTTAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1452625 TTCAAAGATGA
1 TTCAAAGATGA
1452636 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1453439 original size:76 final size:76
Alignment explanation
Indices: 1453309--1453490 Score: 258
Period size: 76 Copynumber: 2.4 Consensus size: 76
1453299 CTATTTCCCA
*
1453309 CATCTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
* *
1453374 AGCCTTAGGGT
66 AACCTTAGAGT
* * * *
1453385 CATCTATAAATCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
*
1453450 AACCTTCGAGT
66 AACCTTAGAGT
* *
1453461 CAGCTGTAAGCCCTACAGTGCA-GAATGTTT
1 CATCTGTAAGTCCTACAGTGCATG-ATGTTT
1453491 TTTTATTATT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 1 0.01
76 92 0.99
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
AACCTTAGAGT
Found at i:1453709 original size:113 final size:111
Alignment explanation
Indices: 1453521--1454383 Score: 940
Period size: 113 Copynumber: 7.7 Consensus size: 111
1453511 TTCCAGGTAG
* *
1453521 AGTTCATAATG-GAAGAACTCATCTGAA-TA-AAGAAGAAGTTCATAATGAGAAGAACTTGTTC-
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCG
* *
1453582 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 ACCTTTT-GTTTGAATTCATCATT-GATGGATCAACTTTTCCAGAGAA
1453630 AGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
1453695 GACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAG-GTAG
65 GACCTTTTGTTTGAATTCATCA-TTGATGGATCAACTTTTCCAGAG-AA
*
1453743 AGTTCATAATGAGAAGAACTCGTTATCTGAAGAAGAAG-A-AA-TTCATAATGACAAGAATTTGT
1 AGTTCATAATGAGAAGAACTC---ATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * ** * *
1453805 TCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGA-AGA
63 TCGACCTTTTGTTTGAATTCATCA-TTGATGGATCAACTTTTCCAGAGA-A
1453855 AGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
1453920 GACCTTTTGTTTGAATTCATCATTTGATGGATCAA-ATTGCTAG-GTAG
65 GACCTTTTGTTTGAATTCATCA-TTGATGGATCAACTTTTCCAGAG-AA
1453967 AGTTCATAATGAGAAGAACTAGTCATCTGAAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAGAAC---TCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * ** *
1454029 TCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
63 TCGACCTTTTGTTTGAATTCATCA-TTGATGGATCAACTTTTCCAGAGAA
* * * *
1454079 AGTTCATAATGAGAAGAACTCATTTAAAGAAG--GAAGAAGTTCATAATGACAAGAATTTGTTTG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCG
1454142 ACCTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCC--AGAA
66 ACCTTTTGTTTGAATTCATCATT-GATGGATCAACTTTTCCAGAGAA
* * * *
1454187 AGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTTATAATGAGAA-AATTTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAA-TTTGTTC
* * * *
1454251 AACCTTTT-TCATG-ACTCTATCATAGAAGGAGATAGACCAGTATCAACTTTTCCAGAGAA
65 GACCTTTTGT-TTGAATTC-ATCAT------TGAT-G----G-ATCAACTTTTCCAGAGAA
** *
1454310 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1454375 GACCTTTTG
65 GACCTTTTG
1454384 CATGACTCTA
Statistics
Matches: 638, Mismatches: 67, Indels: 82
0.81 0.09 0.10
Matches are distributed among these distances:
108 33 0.05
109 42 0.07
110 113 0.18
111 55 0.09
112 133 0.21
113 140 0.22
114 12 0.02
115 19 0.03
116 11 0.02
120 1 0.00
121 12 0.02
123 31 0.05
124 35 0.05
125 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCG
ACCTTTTGTTTGAATTCATCATTGATGGATCAACTTTTCCAGAGAA
Found at i:1454084 original size:224 final size:222
Alignment explanation
Indices: 1453506--1454383 Score: 1136
Period size: 225 Copynumber: 3.9 Consensus size: 222
1453496 TTATTATTAA
* * *
1453506 AACATTTCCAGGTAGAGTTCATAATG-GAAGAAC-TCATCTGAATAAAGAAGAAGTTCATAATGA
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAA-GAAGAAAAAATTCATAATGA
* ** *
1453569 GAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAGT
65 GAAGAATTTGTTCAACCTTTT-GCTCAAATCCATCATT-GATGGATCAACTTTTCCAGAGAAAGT
1453633 TCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGAC
128 TCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGAC
1453698 CTTTTGTTTGAATTCATCATTTGATGGATC
193 CTTTTGTTTGAATTCATCATTTGATGGATC
* *
1453728 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCGTTATCTGAAGAAGAAGAAATTCATAATG
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACT--TCATCTGAAGAAGAAAAAATTCATAATG
* *
1453793 ACAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGA-AGAAG
64 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TTGATGGATCAACTTTTCCAGAGA-AAG
1453857 TTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGA
127 TTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGA
1453922 CCTTTTGTTTGAATTCATCATTTGATGGATC
192 CCTTTTGTTTGAATTCATCATTTGATGGATC
* *
1453953 AA-ATTGCTAGGTAGAGTTCATAATGAGAAGAACTAGTCATCTGAAGAAGAAAAAATTCATAATG
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACT--TCATCTGAAGAAGAAAAAATTCATAATG
1454017 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
64 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TTGATGGATCAACTTTTCCAGAGAAAGT
* * * *
1454082 TCATAATGAGAAGAACTCATTTAAAGAA-G--GAAGAAGTTCATAATGACAAGAATTTGTTTGAC
128 TCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGAC
*
1454144 CTTTTGTTTGAATTCATCATTCGATGGATC
193 CTTTTGTTTGAATTCATCATTTGATGGATC
* * * * *
1454174 AACTTTTCCA-G-AAAGTTCATAATAAGAAGAACTT-ATCTGAAGAGGAAGAAGAAGTTTATAAT
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAAGAAGAA-AA-AA-TTCATAAT
* * *
1454236 GAGAA-AATTTTGTTCAACCTTTT--TCATGACTCTATCATAGAAGGAGATAGACCAGTATCAAC
63 GAGAAGAA-TTTGTTCAACCTTTTGCTCA--AATCCATCAT------TGAT-G----G-ATCAAC
*
1454298 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAG
113 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAG
** *
1454363 AAGAGCTTGTTTGACCTTTTG
178 AAGAATTTGTTCGACCTTTTG
1454384 CATGACTCTA
Statistics
Matches: 590, Mismatches: 36, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
217 12 0.02
218 6 0.01
219 5 0.01
220 54 0.09
221 63 0.11
222 30 0.05
223 8 0.01
224 145 0.25
225 166 0.28
226 16 0.03
230 1 0.00
231 47 0.08
232 1 0.00
234 36 0.06
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (222 bp):
AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAAGAAGAAAAAATTCATAATGAG
AAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTGATGGATCAACTTTTCCAGAGAAAGTTCA
TAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGACCTT
TTGTTTGAATTCATCATTTGATGGATC
Found at i:1454388 original size:124 final size:123
Alignment explanation
Indices: 1454171--1454501 Score: 399
Period size: 124 Copynumber: 2.7 Consensus size: 123
1454161 CATTCGATGG
* * * *
1454171 ATCAACTTTTCC--AGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTTATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
** * * *
1454234 ATGAGAAAATTTTGTTCAACCTTTTTCATGACTCTATCATAGAAGGAGATAGACCAGT-
66 ATGAGAAAAGCTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGACCA-TC
1454292 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCAT
* ** * *
1454357 AATGAGAAGAGCTTGTTTGACCTTTTGCATGACTCTATAACAGAAGGAGATATATCATC
65 AATGAGAAAAGCTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGACCATC
* * * * *
1454416 ATCAGCATTTCCAGA-AGGAGTTCAGAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCAC
1 ATCAACTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCAT
1454477 AATGAGAATAA-CTTGTTCAACCTTT
65 AATGAGAA-AAGCTTGTTCAACCTTT
1454502 GCTAGATTAC
Statistics
Matches: 182, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
120 36 0.20
121 14 0.08
123 33 0.18
124 99 0.54
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (123 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
ATGAGAAAAGCTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGACCATC
Found at i:1454738 original size:3 final size:3
Alignment explanation
Indices: 1454730--1454766 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1454720 TTTGTTTTAT
*
1454730 TTA TTA TTA TT- TT- TTA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1454767 AATAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1459777 original size:77 final size:78
Alignment explanation
Indices: 1459671--1459828 Score: 221
Period size: 77 Copynumber: 2.0 Consensus size: 78
1459661 TAAATTCAAA
1459671 TTAGGTAAAAGAATAAACTACTTTATGTCATTTATCTATTGTTTATGTTCACATACGTTTACTTA
1 TTAGGTAAAAGAATAAACTACTTTATGTCATTTATCTATTGTTTATGTTCACATACGTTTACTTA
*
1459736 GTTGCCAGTAACT
66 GTTGCAAGTAACT
* * * * * *
1459749 TTAGGTAAAA-AA-AATTCTACTTTGTGTCATTTCTCTATTGTTTATGTTTATATTCGTTTACTT
1 TTAGGTAAAAGAATAA-ACTACTTTATGTCATTTATCTATTGTTTATGTTCACATACGTTTACTT
*
1459812 CGTTGCAAGTAACT
65 AGTTGCAAGTAACT
1459826 TTA
1 TTA
1459829 CAACTTGAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
76 2 0.03
77 59 0.83
78 10 0.14
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (78 bp):
TTAGGTAAAAGAATAAACTACTTTATGTCATTTATCTATTGTTTATGTTCACATACGTTTACTTA
GTTGCAAGTAACT
Found at i:1461755 original size:16 final size:16
Alignment explanation
Indices: 1461730--1461788 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
1461720 CCAACGTTTA
1461730 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1461746 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1461762 TGCTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1461778 TGTTCGTTTAT
1 TGTTCGTTTAT
1461789 TTATTAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1465954 original size:20 final size:20
Alignment explanation
Indices: 1465914--1465954 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1465904 TGGATTTCCA
* *
1465914 AAATTTATTTTTGAAACTAT
1 AAATATATTTTTAAAACTAT
*
1465934 AAATATATTTTTAAAATTAT
1 AAATATATTTTTAAAACTAT
1465954 A
1 A
1465955 TTTAGAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATATATTTTTAAAACTAT
Found at i:1480722 original size:18 final size:18
Alignment explanation
Indices: 1480598--1480714 Score: 164
Period size: 18 Copynumber: 6.5 Consensus size: 18
1480588 GTTCTTAAGG
*
1480598 AGTGGACCTT-GGGACAT
1 AGTGGTCCTTCGGGACAT
*
1480615 AGTGGTCCTTCGGGAAAT
1 AGTGGTCCTTCGGGACAT
*
1480633 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1480651 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAT
1480669 AGTGGTCCTTCGGGGACAT
1 AGTGGTCCTTC-GGGACAT
* *
1480688 AGTAGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAT
1480706 AGTGGTCCT
1 AGTGGTCCT
1480715 ACAGGACAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
17 9 0.10
18 63 0.72
19 16 0.18
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1480898 original size:14 final size:13
Alignment explanation
Indices: 1480879--1480917 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
1480869 TCGTGAAATG
1480879 GTATATGTGATAT
1 GTATATGTGATAT
1480892 GTAATATGTGATAT
1 GT-ATATGTGATAT
*
1480906 GTATAAGTGATA
1 GTATATGTGATA
1480918 AATTAGGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (13 bp):
GTATATGTGATAT
Found at i:1482535 original size:65 final size:65
Alignment explanation
Indices: 1482425--1482582 Score: 214
Period size: 65 Copynumber: 2.4 Consensus size: 65
1482415 ACTAAGAGTT
* * *
1482425 CATCGAATGCATTAAGTGCATTCGATG-TTTCAAAATAGCCATAGTGCATCGATGCATGGCT-GG
1 CATCG-ATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATGG-TAAG
1482488 TG
64 TG
* *
1482490 CATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTTAGTGCATCGATGCATGGTAAGT
1 CATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCATAGTGCATCGATGCATGGTAAGT
1482554 G
65 G
*
1482555 CATCGATGCATGAAATGCATTCGATGTT
1 CATCGATGCATCAAATGCATTCGATGTT
1482583 CAATTTAATT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
64 20 0.24
65 61 0.73
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (65 bp):
CATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATGGTAAGTG
Found at i:1483084 original size:2 final size:2
Alignment explanation
Indices: 1483077--1483111 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1483067 AATTGATTAA
1483077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1483112 GCTTAAGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1484778 original size:13 final size:13
Alignment explanation
Indices: 1484750--1484788 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1484740 TGGGCAATGT
*
1484750 TTTGAAAA-ACTA
1 TTTGAAAATAATA
1484762 TTTGAAAATAATA
1 TTTGAAAATAATA
*
1484775 TTTGTAAATAATA
1 TTTGAAAATAATA
1484788 T
1 T
1484789 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:1485533 original size:23 final size:25
Alignment explanation
Indices: 1485502--1485548 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
1485492 AAATTAATCC
*
1485502 TTAAATTTCA-TTTG-AACATAAAA
1 TTAAATTTCACTTAGCAACATAAAA
*
1485525 TTAATTTTCACTTAGCAACATAAA
1 TTAAATTTCACTTAGCAACATAAA
1485549 CTCCCCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (25 bp):
TTAAATTTCACTTAGCAACATAAAA
Found at i:1491323 original size:65 final size:65
Alignment explanation
Indices: 1491186--1491346 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
1491176 GTGCACTAAG
* * *
1491186 AGTGCATCAATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
* * * * *
1491250 GGTTCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGC
1491313 T
65 T
*
1491314 AAGTGCATCGATGCATGAAATGCATTCGATGTT
1 -AGTGCATCGATGCATCAAATGCATTCGATGTT
1491347 CAATTTAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 27 0.33
65 53 0.64
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
Found at i:1491385 original size:65 final size:63
Alignment explanation
Indices: 1491187--1491388 Score: 187
Period size: 65 Copynumber: 3.1 Consensus size: 63
1491177 TGCACTAAGA
* * * *
1491187 GTGCATCAATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
1491250 G
63 G
* * **
1491251 GTTCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTTG
* ** *
1491316 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATAGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCAT-GGT
1491379 TG
62 TG
1491381 GTGCATCG
1 GTGCATCG
1491389 GTGAATCACT
Statistics
Matches: 114, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 44 0.39
65 59 0.52
66 4 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:1494980 original size:18 final size:18
Alignment explanation
Indices: 1494957--1495071 Score: 176
Period size: 18 Copynumber: 6.4 Consensus size: 18
1494947 TCTTAAGGAA
*
1494957 TGGTCCTTCGAGACATAG
1 TGGTCCTTCGGGACATAG
1494975 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
*
1494993 TGGTCATTCGGGACATAG
1 TGGTCCTTCGGGACATAG
*
1495011 TGGTCCTTCGGGACATTG
1 TGGTCCTTCGGGACATAG
* *
1495029 TAGTCCTTCGGGACACAG
1 TGGTCCTTCGGGACATAG
1495047 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
*
1495065 TGATCCT
1 TGGTCCT
1495072 ACAGGAAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 87 1.00
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAG
Found at i:1500159 original size:170 final size:169
Alignment explanation
Indices: 1499915--1500255 Score: 584
Period size: 171 Copynumber: 2.0 Consensus size: 169
1499905 TAGCTTTAAC
1499915 CTTGTTTTCAATTTTGCTCTAAAACACCCCCTCAATAATAAGCACATGAAAATAATCTGAACATT
1 CTTGTTTTCAATTTTGCTCTAAAACACCCCCTCAATAATAAGCACATGAAAATAATCTGAACATT
1499980 GCTGCTAGCGAATC-ATAATGAAAACATCAACTCTTTTAGCATATATAGAGCACCATC-AATCCA
66 GCTGCTAGCGAATCAATAATGAAAACATCAACTCTTTTAGCATATATAGAGCACCATCAAATCCA
1500043 ATATTACTGA-TACAACAATAATCCACTGCA-TTTTTAG
131 ATATTACTGAGTACAACAATAATCCACTGCATTTTTTAG
*
1500080 CTTGTTTTCAATTTTATGCTCTAAACAACCCTCCCCTCAATAATAAAGCACATGAAAATAATCTG
1 CTTGTTTTCAA-TTT-TGCTCT-AA-AACAC-CCCCTCAATAAT-AAGCACATGAAAATAATCTG
1500145 AACA-TGCTGCTAGCGAATCAATAATGAAAACATCAACTCTTTTAGCATATATAGAGCACCATCA
60 AACATTGCTGCTAGCGAATCAATAATGAAAACATCAACTCTTTTAGCATATATAGAGCACCATCA
1500209 AATCCAATATTACTGAGTACAACAATAATCCACTGCATTTTTTAG
125 AATCCAATATTACTGAGTACAACAATAATCCACTGCATTTTTTAG
1500254 CT
1 CT
1500256 AGTTGGCATC
Statistics
Matches: 165, Mismatches: 1, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
165 11 0.07
166 3 0.02
167 6 0.04
168 2 0.01
169 4 0.02
170 27 0.16
171 67 0.41
172 16 0.10
173 20 0.12
174 9 0.05
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (169 bp):
CTTGTTTTCAATTTTGCTCTAAAACACCCCCTCAATAATAAGCACATGAAAATAATCTGAACATT
GCTGCTAGCGAATCAATAATGAAAACATCAACTCTTTTAGCATATATAGAGCACCATCAAATCCA
ATATTACTGAGTACAACAATAATCCACTGCATTTTTTAG
Found at i:1506020 original size:165 final size:167
Alignment explanation
Indices: 1505704--1506025 Score: 614
Period size: 165 Copynumber: 1.9 Consensus size: 167
1505694 TGAATATCAA
1505704 TTTTTATCGTACTCTTGTGATTGGAAATGGATTCCATTTTCTCTCAATTAAGGAATCTTATCACC
1 TTTTTATCGTACTCTTGTGATTGGAAATGGATTCCATTTTCTCTCAATTAAGGAATCTTATCACC
1505769 TTCAACTTGCCCGAGCATTCTATTGCAATGCTACTTTTTGTAGGAAATTTTGTTCTAATAAAATA
66 TTCAACTTGCCCGAGCATTCTATTGCAATGCTACTTTTTGTAGGAAATTTTGTTCTAATAAAATA
1505834 TTTGCCATTAAGTCCTTCTTATGGGTGATCAATTTAG
131 TTTGCCATTAAGTCCTTCTTATGGGTGATCAATTTAG
1505871 TTTTT-TCGTACTCTTGTGATTGGAAATGGATTCCA-TTTCTCTCAATTAAGGAATCTTATCACC
1 TTTTTATCGTACTCTTGTGATTGGAAATGGATTCCATTTTCTCTCAATTAAGGAATCTTATCACC
1505934 TTCAACTTGCCCGAGCATTCTATTGCAATGCTACTTTTTGTAGG-AATTTTGTTCTAATAAAATA
66 TTCAACTTGCCCGAGCATTCTATTGCAATGCTACTTTTTGTAGGAAATTTTGTTCTAATAAAATA
1505998 TTTGCCATTAAGTCCTTTCTTATGGGTG
131 TTTGCCATTAAGTCC-TTCTTATGGGTG
1506026 TAGAACTTGA
Statistics
Matches: 154, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
164 35 0.23
165 84 0.55
166 30 0.19
167 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (167 bp):
TTTTTATCGTACTCTTGTGATTGGAAATGGATTCCATTTTCTCTCAATTAAGGAATCTTATCACC
TTCAACTTGCCCGAGCATTCTATTGCAATGCTACTTTTTGTAGGAAATTTTGTTCTAATAAAATA
TTTGCCATTAAGTCCTTCTTATGGGTGATCAATTTAG
Found at i:1511556 original size:27 final size:27
Alignment explanation
Indices: 1511525--1511579 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1511515 GCGGACAAGT
1511525 ATCTAGCTCGAGTGTGGGACATCACTA
1 ATCTAGCTCGAGTGTGGGACATCACTA
1511552 ATCTAGCTCGAGTGTGGGACATCACTA
1 ATCTAGCTCGAGTGTGGGACATCACTA
1511579 A
1 A
1511580 ATTGCCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (27 bp):
ATCTAGCTCGAGTGTGGGACATCACTA
Found at i:1530225 original size:16 final size:16
Alignment explanation
Indices: 1530204--1530234 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1530194 ATAATTTTTC
1530204 TATTTAATATATAATA
1 TATTTAATATATAATA
*
1530220 TATTTAATATTTAAT
1 TATTTAATATATAAT
1530235 TGAATTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTAATATATAATA
Found at i:1530449 original size:15 final size:15
Alignment explanation
Indices: 1530438--1530500 Score: 99
Period size: 15 Copynumber: 4.2 Consensus size: 15
1530428 TTGAATCAGG
1530438 CAGCACTGAATCATT
1 CAGCACTGAATCATT
* *
1530453 CAACACTGGATCATT
1 CAGCACTGAATCATT
1530468 CAGCACTGAATCATT
1 CAGCACTGAATCATT
*
1530483 CAGAACTGAATCATT
1 CAGCACTGAATCATT
1530498 CAG
1 CAG
1530501 ATATGAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (15 bp):
CAGCACTGAATCATT
Done.