Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006526.1 Hibiscus syriacus cultivar Beakdansim tig00015905_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: 502317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:142039 original size:60 final size:60
Alignment explanation
Indices: 141944--142089 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 60
141934 ATAAGGGATT
* * * ** * *
141944 AAAATAGAACAATAA-AAAAATTTAAATGACCAAAATAGGATTAATAGAAACTT-GAGGACC
1 AAAATAGAA-AA-AACAAAAACTTAAAGGACAAAAATAGGAAAAATAGAAACTTAAAAGACC
* *
142004 AAAATAGAAAAAACAAAAACTTAAAGGACTAAAAATAGTAAAAATAGAAACTTAAAAGACT
1 AAAATAGAAAAAACAAAAACTTAAAGGAC-AAAAATAGGAAAAATAGAAACTTAAAAGACC
* *
142065 AAAATAGCAAAAACATAAACTTAAA
1 AAAATAGAAAAAACAAAAACTTAAA
142090 AATAGCACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 2 0.03
59 15 0.21
60 28 0.39
61 27 0.38
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (60 bp):
AAAATAGAAAAAACAAAAACTTAAAGGACAAAAATAGGAAAAATAGAAACTTAAAAGACC
Found at i:142040 original size:31 final size:31
Alignment explanation
Indices: 142004--142177 Score: 138
Period size: 30 Copynumber: 6.0 Consensus size: 31
141994 CTTGAGGACC
*
142004 AAAATAGAAAAAACAAAAACTTAAAGGACTA
1 AAAATAGCAAAAACAAAAACTTAAAGGACTA
* * * *
142035 AAAATAGTAAAAATAGAAACTTAAAAGACT-
1 AAAATAGCAAAAACAAAAACTTAAAGGACTA
*
142065 AAAATAGCAAAAACATAAAC-T-------TA
1 AAAATAGCAAAAACAAAAACTTAAAGGACTA
* *
142088 AAAATAGCACAAACAAAAATTTAAAGGACTA
1 AAAATAGCAAAAACAAAAACTTAAAGGACTA
*
142119 AAACA-A-CAAAAACAAAAACTTAAAGGGCT-
1 AAA-ATAGCAAAAACAAAAACTTAAAGGACTA
** * *
142148 AAAATAATAAAAACAAAAAATTGAAGGACT
1 AAAATAGCAAAAACAAAAACTTAAAGGACT
142178 GAACAATATT
Statistics
Matches: 114, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.01
23 17 0.15
24 1 0.01
28 1 0.01
29 5 0.04
30 56 0.49
31 32 0.28
32 1 0.01
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (31 bp):
AAAATAGCAAAAACAAAAACTTAAAGGACTA
Found at i:142071 original size:30 final size:30
Alignment explanation
Indices: 142004--142090 Score: 111
Period size: 31 Copynumber: 2.9 Consensus size: 30
141994 CTTGAGGACC
* *
142004 AAAATAGAAAAAACAAAAACTTAAAGGACT
1 AAAATAGAAAAAACAGAAACTTAAAAGACT
* *
142034 AAAAATAGTAAAAATAGAAACTTAAAAGACT
1 -AAAATAGAAAAAACAGAAACTTAAAAGACT
* *
142065 AAAATAGCAAAAACATAAACTTAAAA
1 AAAATAGAAAAAACAGAAACTTAAAA
142091 ATAGCACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 23 0.47
31 26 0.53
ACGTcount: A:0.67, C:0.09, G:0.08, T:0.16
Consensus pattern (30 bp):
AAAATAGAAAAAACAGAAACTTAAAAGACT
Found at i:142095 original size:23 final size:23
Alignment explanation
Indices: 142065--142112 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
142055 TTAAAAGACT
*
142065 AAAATAGCAAAAACATAAACTTA
1 AAAATAGCAAAAACAAAAACTTA
* *
142088 AAAATAGCACAAACAAAAATTTA
1 AAAATAGCAAAAACAAAAACTTA
142111 AA
1 AA
142113 GGACTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATAGCAAAAACAAAAACTTA
Found at i:142981 original size:14 final size:15
Alignment explanation
Indices: 142943--142982 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
142933 CTCGGTAAGA
*
142943 TTCTCATTTTCTCTC
1 TTCTTATTTTCTCTC
142958 TTCTTATTTTCTCT-
1 TTCTTATTTTCTCTC
*
142972 TTCTTTTTTTC
1 TTCTTATTTTC
142983 ATTTGGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTATTTTCTCTC
Found at i:143708 original size:3 final size:3
Alignment explanation
Indices: 143700--143793 Score: 174
Period size: 3 Copynumber: 32.0 Consensus size: 3
143690 TAAATAAATA
143700 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
143748 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
143794 GTAGACACAG
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.04
3 85 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:147938 original size:28 final size:28
Alignment explanation
Indices: 147903--147957 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
147893 CTCCGTTTAT
* *
147903 ATTATGTTGTCGAGC-TATTGCTTGAAAC
1 ATTATGTTGCCGA-CTTAGTGCTTGAAAC
147931 ATTATGTTGCCGACTTAGTGCTTGAAA
1 ATTATGTTGCCGACTTAGTGCTTGAAA
147958 GCAATGATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (28 bp):
ATTATGTTGCCGACTTAGTGCTTGAAAC
Found at i:148205 original size:60 final size:60
Alignment explanation
Indices: 148092--148205 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
148082 ATAATCGAGT
*
148092 GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATTATCATATAACTGAAA
1 GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATCATCATATAACTGAAA
*
148152 GATCATTTTGTAACTTTTAATAGTTGAGAGACTCAA-GAAAGTATCACTC-TATAA
1 GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAA-TATCA-TCATATAA
148206 TTGGGAGACC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
59 4 0.08
60 44 0.88
61 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATCATCATATAACTGAAA
Found at i:148219 original size:60 final size:60
Alignment explanation
Indices: 148095--148219 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
148085 ATCGAGTGAT
* *
148095 CATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATTATCATATAACTGAAAGAT
1 CATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATCATCATATAACTGAAAGAC
* * **
148155 CATTTTGTAACTTTTAATAGTTGAGAGACTCAA-GAAAGTATCACTC-TATAATTGGGAGAC
1 CATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAA-TATCA-TCATATAACTGAAAGAC
148215 CATTT
1 CATTT
148220 ATATACTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 4 0.07
60 51 0.89
61 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTCGAGAGACTCAATGAAATATCATCATATAACTGAAAGAC
Found at i:148273 original size:18 final size:16
Alignment explanation
Indices: 148239--148278 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
148229 ACCCTAAATG
*
148239 TAATTATAATATTTAT
1 TAATTATAATATATAT
148255 TAATATATAGATATATAT
1 TAAT-TATA-ATATATAT
148273 TAATTA
1 TAATTA
148279 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAATTATAATATATAT
Found at i:149621 original size:12 final size:12
Alignment explanation
Indices: 149600--149633 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
149590 ACCACATTTT
*
149600 CAATACCAAACA
1 CAATATCAAACA
149612 CAATATCAAACA
1 CAATATCAAACA
*
149624 CAATCTCAAA
1 CAATATCAAA
149634 ACCCACATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:149995 original size:3 final size:3
Alignment explanation
Indices: 149987--150023 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
149977 ATATAACCCT
* *
149987 GAA GAA GAA AAA GAA GAA GAA AAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
150024 TCCCCGAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:150004 original size:12 final size:12
Alignment explanation
Indices: 149987--150019 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
149977 ATATAACCCT
149987 GAAGAAGAAAAA
1 GAAGAAGAAAAA
149999 GAAGAAGAAAAA
1 GAAGAAGAAAAA
150011 GAAGAAGAA
1 GAAGAAGAA
150020 GAAGTCCCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:152107 original size:18 final size:18
Alignment explanation
Indices: 152084--152118 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
152074 AGCAAAAGGA
*
152084 AATCAAAATCGCAATCAG
1 AATCAAAATCCCAATCAG
152102 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
152119 CAACCAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAG
Found at i:152429 original size:20 final size:20
Alignment explanation
Indices: 152404--152453 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
152394 ATGTTGCGAT
152404 CAACGCGAAAGTCAAATTCA
1 CAACGCGAAAGTCAAATTCA
**
152424 CAACGCGAAAGTCAAATTTG
1 CAACGCGAAAGTCAAATTCA
152444 CAACGCGAAA
1 CAACGCGAAA
152454 TCGCAAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCA
Found at i:152486 original size:20 final size:20
Alignment explanation
Indices: 152463--152512 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
152453 ATCGCAAACT
152463 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
152483 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
152503 GAATTTGACT
1 GAATTTGACT
152513 ATTGCAACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:152646 original size:25 final size:25
Alignment explanation
Indices: 152608--152657 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
152598 AAATCAATTA
*
152608 AACATTGTTGTGGGGACATTATTTG
1 AACATTGTTATGGGGACATTATTTG
*
152633 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGGACATTATTTG
152658 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGGACATTATTTG
Found at i:153087 original size:24 final size:24
Alignment explanation
Indices: 153036--153088 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
153026 TTTCATATGT
* * *
153036 AATTGGAGTTTGAATTTAAATTTT
1 AATTTGAGTTTGAATTTAAATATA
*
153060 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
153084 AATTT
1 AATTT
153089 CGGCTCTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:153435 original size:39 final size:39
Alignment explanation
Indices: 153392--153480 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
153382 TCCGATGCTC
153392 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
153431 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
153470 ATCAAAATCTA
1 ATCAAAATCTA
153481 CAACTTGAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (39 bp):
ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:153716 original size:20 final size:20
Alignment explanation
Indices: 153693--153750 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
153683 ATAAGCGTTG
153693 CGATAGTCAAATTGGCAACA
1 CGATAGTCAAATTGGCAACA
*
153713 CGATAGTCAAATTGGCAACG
1 CGATAGTCAAATTGGCAACA
* *
153733 CGAAAGTCAAATTCGCAA
1 CGATAGTCAAATTGGCAA
153751 ACCAAAAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
CGATAGTCAAATTGGCAACA
Found at i:153913 original size:66 final size:60
Alignment explanation
Indices: 153833--153972 Score: 172
Period size: 66 Copynumber: 2.2 Consensus size: 60
153823 TTTTAGAAAC
* *
153833 AACAAATTAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT----AAGC-AAAAAATAAATCTTATTTACAAATC-AATT
153898 A
60 A
* * **
153899 AACAAATCAACTTTTACAAATCAATTAATCAAAAAATAAATCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
153959 AACAAATCAACTTT
1 AACAAATCAACTTT
153973 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
60 19 0.28
61 21 0.31
62 3 0.04
66 25 0.37
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.31
Consensus pattern (60 bp):
AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
Found at i:155448 original size:21 final size:21
Alignment explanation
Indices: 155343--155441 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
155333 GCGGGCAGGA
*
155343 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
155364 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
155385 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
* * *
155406 CCTCTTGAACGATAAGATGTG
1 CCTCTTGAACGATGAGAGGGG
*
155427 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
155442 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:155604 original size:12 final size:12
Alignment explanation
Indices: 155585--155626 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
155575 GGGCCGCTGA
155585 AAATAAATTAAT
1 AAATAAATTAAT
* *
155597 ACATAAATTAGT
1 AAATAAATTAAT
*
155609 AAATAAATAAAT
1 AAATAAATTAAT
155621 AAATAA
1 AAATAA
155627 TGCCGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:155825 original size:21 final size:20
Alignment explanation
Indices: 155793--155832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
155783 TCATCGCGTA
*
155793 AAAAATCCACCTCACCACGT
1 AAAAATCAACCTCACCACGT
*
155813 AAAAATCGAACCTCATCACG
1 AAAAATC-AACCTCACCACG
155833 CCATGCACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAAATCAACCTCACCACGT
Found at i:157678 original size:13 final size:13
Alignment explanation
Indices: 157660--157691 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
157650 GAGTTTCTTC
157660 AACAAAAAGACAA
1 AACAAAAAGACAA
157673 AACAAAAAGACAA
1 AACAAAAAGACAA
157686 AACAAA
1 AACAAA
157692 GACAAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:157694 original size:11 final size:12
Alignment explanation
Indices: 157664--157697 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
157654 TTCTTCAACA
157664 AAAAGACAAAAC
1 AAAAGACAAAAC
157676 AAAAAGACAAAAC
1 -AAAAGACAAAAC
157689 -AAAGACAAA
1 AAAAGACAAA
157698 TACTAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
13 12 0.57
ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAGACAAAAC
Found at i:158110 original size:20 final size:20
Alignment explanation
Indices: 158056--158120 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
158046 GCGTAAAAAC
*
158056 ATTTGACTATCGCGTTGCG-
1 ATTTGACTTTCGCGTTGCGA
158075 ATTT-ACAAATTT-GCGTTGCGA
1 ATTTGAC---TTTCGCGTTGCGA
*
158096 ATTTGACTTTCGCGTTACGA
1 ATTTGACTTTCGCGTTGCGA
158116 ATTTG
1 ATTTG
158121 GAAAATCGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 21 0.55
21 6 0.16
22 2 0.05
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:158193 original size:20 final size:20
Alignment explanation
Indices: 158144--158197 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
158134 TGATTTACAT
*
158144 ATTCACGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
158164 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
158184 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
158198 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:162572 original size:14 final size:14
Alignment explanation
Indices: 162553--162579 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
162543 GAATTAGCCG
162553 CCCATTTGCCATTC
1 CCCATTTGCCATTC
162567 CCCATTTGCCATT
1 CCCATTTGCCATT
162580 TTTTGACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (14 bp):
CCCATTTGCCATTC
Found at i:171730 original size:23 final size:23
Alignment explanation
Indices: 171696--171744 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
171686 CCCGGTACAT
*
171696 TTATGAGCCATATCTATCACAAA
1 TTATGAGCCATACCTATCACAAA
*
171719 TTATGAGTCATACCTATCACAAA
1 TTATGAGCCATACCTATCACAAA
171742 TTA
1 TTA
171745 ATTAAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (23 bp):
TTATGAGCCATACCTATCACAAA
Found at i:176477 original size:3 final size:3
Alignment explanation
Indices: 176469--176499 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
176459 TGTAAATTAA
176469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
176500 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:176504 original size:3 final size:3
Alignment explanation
Indices: 176498--176532 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
176488 ATAATAATAA
176498 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
176533 ATAAGACCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:177189 original size:138 final size:136
Alignment explanation
Indices: 176724--177263 Score: 588
Period size: 134 Copynumber: 4.0 Consensus size: 136
176714 TAAATTCGGA
* * * * ** * * * *
176724 GATAACATGGTTCCTACGTAATGAGGAAGTATGGTTATCTACGAG-TGATACGACTCCTACCTGA
1 GATAACAAGGTTCCTACGTGATAAGGATGGCTGGTTATCTAAG-GTTGACACGGCTCCTACGTGA
* * * * *
176788 TGAGGAGATCTGGTCGGTGGATGAAACGATTCCTAGGTGATGAGGATGACTCACCATCTTTAGGG
65 CGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGACTGACCATCTTTAGGG
176853 ATAA--T
130 ATAATGT
* * * *
176858 GATAACACGGTTCCTACGTGATAAGGATGACTGTTTATCTAAGGTTGACACAGCTCCTACGTGAC
1 GATAACAAGGTTCCTACGTGATAAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGAC
* * * * *
176923 GAGGAGATCTAGTCGGTGGATAACACGGTTCCTACGTGATGAAGATGGCTGACCATCTTTAAGGA
66 GAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGACTGACCATCTTTAGGGA
*
176988 TGA--T
131 TAATGT
* * * ** *
176992 GATAACATGGTTCCTACGTGATGAGGATGGCTGGTCATCTAAGGTTGATGCGGCTCCTACGTGAT
1 GATAACAAGGTTCCTACGTGATAAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGAC
*** * ** *
177057 GAGGAGATCTGGTTAATGGATGACACAGTTCCTACGTGATGAGGATGGTTAACCATCTTTAGGGA
66 GAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGACTGACCATCTTTAGGGA
177122 TAAATGGT
131 T-AAT-GT
* *
177130 GATAACAAGGTTCCTACGCT-ATTAGAATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGA
1 GATAACAAGGTTCCTACG-TGATAAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGA
* * * * * *
177194 CGATGAGATCTGATCGGTGGATGACATGGTTCCTACATGATGAGGACGACTGGCCATCTTTAGGG
65 CGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGACTGACCATCTTTAGGG
177259 ATAAT
130 ATAAT
177264 TTATTTCAAG
Statistics
Matches: 337, Mismatches: 63, Indels: 9
0.82 0.15 0.02
Matches are distributed among these distances:
133 1 0.00
134 221 0.66
135 1 0.00
137 3 0.01
138 110 0.33
139 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (136 bp):
GATAACAAGGTTCCTACGTGATAAGGATGGCTGGTTATCTAAGGTTGACACGGCTCCTACGTGAC
GAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGACTGACCATCTTTAGGGA
TAATGT
Found at i:177308 original size:36 final size:35
Alignment explanation
Indices: 177261--177560 Score: 125
Period size: 36 Copynumber: 8.8 Consensus size: 35
177251 CTTTAGGGAT
* *
177261 AATTTATTTCAAGAGAAATGGTCTCAAGTGAGACAA
1 AATTTGTTTCAAGAGAAATAGTCTCAAG-GAGACAA
* *
177297 AATTTGTTTCAAGGGAAATAGACTCAA--AGAC--
1 AATTTGTTTCAAGAGAAATAGTCTCAAGGAGACAA
* * *
177328 -TTTTGTTTCAAAAGAAACAGTCTCAAGAGAGACAA
1 AATTTGTTTCAAGAGAAATAGTCTCAAG-GAGACAA
* *
177363 AACTTTGTTTCAAGGGAAACA-TACTCAA--AG---A
1 AA-TTTGTTTCAAGAGAAATAGT-CTCAAGGAGACAA
** *
177394 TTTTTGTTTCATGAGAAACT-GTCTCAAGGGAGACAA
1 AATTTGTTTCAAGAGAAA-TAGTCTCAA-GGAGACAA
** * * * *
177430 AACCTGTTTCAAGGGAAACATTCTCAA--AG---G
1 AATTTGTTTCAAGAGAAATAGTCTCAAGGAGACAA
**
177460 TTTTATGTTTCAAGAGAAACT-GTCTCAAGGGAGACAA
1 AATT-TGTTTCAAGAGAAA-TAGTCTCAA-GGAGACAA
* * *
177497 AACCTTGTTTCAAGAGAAACT-GCCTCAAGAGAGCCAA
1 AA-TTTGTTTCAAGAGAAA-TAGTCTCAAG-GAGACAA
* * *
177534 AATTTGTTCCAAGAGAAACAATCTCAA
1 AATTTGTTTCAAGAGAAATAGTCTCAA
177561 AGTTTATATT
Statistics
Matches: 192, Mismatches: 44, Indels: 56
0.66 0.15 0.19
Matches are distributed among these distances:
30 40 0.21
31 21 0.11
33 12 0.06
34 4 0.02
36 63 0.33
37 51 0.27
38 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (35 bp):
AATTTGTTTCAAGAGAAATAGTCTCAAGGAGACAA
Found at i:177382 original size:37 final size:37
Alignment explanation
Indices: 177329--177560 Score: 147
Period size: 37 Copynumber: 6.7 Consensus size: 37
177319 CTCAAAGACT
*
177329 TTTGTTTCAAAAGAAACAGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
* **
177366 TTTGTTTCAAGGGAAACA-TACTC-A-A-AG----ATT
1 TTTGTTTCAAGAGAAACAGT-CTCAAGAGAGACAAAAC
* * *
177396 TTTGTTTCATGAGAAACTGTCTCAAGGGAGACAAAAC
1 TTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
* * * **
177433 -CTGTTTCAAGGGAAACATTCTCAA-AG-G-----TT
1 TTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
* *
177462 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAC
1 TT-TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
* * * *
177500 CTTGTTTCAAGAGAAACTGCCTCAAGAGAGCCAAAA-
1 TTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
* *
177536 TTTGTTCCAAGAGAAACAATCTCAA
1 TTTGTTTCAAGAGAAACAGTCTCAA
177561 AGTTTATATT
Statistics
Matches: 143, Mismatches: 34, Indels: 37
0.67 0.16 0.17
Matches are distributed among these distances:
30 19 0.13
31 22 0.15
32 1 0.01
33 3 0.02
34 3 0.02
35 2 0.01
36 41 0.29
37 51 0.36
38 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (37 bp):
TTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAAC
Found at i:177399 original size:67 final size:67
Alignment explanation
Indices: 177267--177516 Score: 344
Period size: 67 Copynumber: 3.7 Consensus size: 67
177257 GGATAATTTA
* * * *
177267 TTTCAAGAGAAA-TGGTCTCAAGTGAGACAAAA-TTTGTTTCAAGGGAAATAGACTCAAAGACTT
1 TTTCAAGAGAAACT-GTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
177330 TTG
65 TTG
* * *
177333 TTTCAAAAGAAACAGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTTT
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTTT
177398 TG
66 TG
* * * *
177400 TTTCATGAGAAACTGTCTCAAGGGAGACAAAAC-CTGTTTCAAGGGAAACATTCTCAAAGGTTTT
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTTT
177464 ATG
66 -TG
* *
177467 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACCTTGTTTCAAGAGAAAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAAC
177517 TGCCTCAAGA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
66 56 0.34
67 94 0.57
68 14 0.09
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (67 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTTT
TG
Found at i:177524 original size:134 final size:133
Alignment explanation
Indices: 177267--177516 Score: 349
Period size: 133 Copynumber: 1.9 Consensus size: 133
177257 GGATAATTTA
* ** *
177267 TTTCAAGAGAAATGGTCTCAAGTGAGACAAAATTTGTTTCAAGGGAAATAGACTCAAAGACTTTT
1 TTTCAAGAGAAATGGTCTCAAGGGAGACAAAACCTGTTTCAAGGGAAACAGACTCAAAGACTTTT
* *
177332 GTTTCAAAAGAAACAGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
66 GTTTCAAAAGAAACAGTCTCAAGAGAGACAAAACCTTGTTTCAAGAGAAACATACTCAAAGATTT
177397 TTG
131 TTG
* ** **
177400 TTTCATGAGAAACT-GTCTCAAGGGAGACAAAACCTGTTTCAAGGGAAACATTCTCAAAGGTTTT
1 TTTCAAGAGAAA-TGGTCTCAAGGGAGACAAAACCTGTTTCAAGGGAAACAGACTCAAAGACTTT
* * *
177464 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACCTTGTTTCAAGAGAAAC
65 -TGTTTCAAAAGAAACAGTCTCAAGAGAGACAAAACCTTGTTTCAAGAGAAAC
177517 TGCCTCAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
133 53 0.52
134 48 0.48
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (133 bp):
TTTCAAGAGAAATGGTCTCAAGGGAGACAAAACCTGTTTCAAGGGAAACAGACTCAAAGACTTTT
GTTTCAAAAGAAACAGTCTCAAGAGAGACAAAACCTTGTTTCAAGAGAAACATACTCAAAGATTT
TTG
Found at i:177919 original size:35 final size:36
Alignment explanation
Indices: 177878--177984 Score: 128
Period size: 35 Copynumber: 2.9 Consensus size: 36
177868 CAAGGAAAAA
*
177878 TGTCTCAAGCGAGATGAAATTT-TTTTGAGAGAAA-T
1 TGTCTCAAGCGAGA-AAAATTTATTTTGAGAGAAACT
* * *
177913 TGTCTCAAGCGAGACAAATTTGTTTTTAGAGAAACT
1 TGTCTCAAGCGAGAAAAATTTATTTTGAGAGAAACT
*
177949 TTTCTCAAGCGAGAAAAAATTTATTTTGAGAAGAAA
1 TGTCTCAAGCGAG-AAAAATTTATTTTGAG-AGAAA
177985 AATCTCAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
34 6 0.10
35 25 0.40
36 13 0.21
37 13 0.21
38 5 0.08
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGAAAAATTTATTTTGAGAGAAACT
Found at i:179229 original size:24 final size:25
Alignment explanation
Indices: 179193--179239 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
179183 ATATTAAAAT
179193 AAAATAAATAATA-TAAAAAAATGA
1 AAAATAAATAATATTAAAAAAATGA
*
179217 AAAAT-AATAAATATTAATAAAAT
1 AAAATAAAT-AATATTAAAAAAAT
179240 TTCAGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 9 0.45
25 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (25 bp):
AAAATAAATAATATTAAAAAAATGA
Found at i:179978 original size:85 final size:85
Alignment explanation
Indices: 179832--179987 Score: 235
Period size: 85 Copynumber: 1.8 Consensus size: 85
179822 AAGATATTTC
*
179832 TAAAATAATATCTTAAATCCTAACTAAATCACTTAAAACTATTTAAACTAAAATACATAAAACAA
1 TAAAATAATATCCTAAATCCTAACTAAATCACTTAAAACTATTTAAACTAAAATACATAAAACAA
179897 AGATAAAATAAAATAAAATT
66 AGATAAAATAAAATAAAATT
* * *
179917 TAAAATAATATCCTAGATCCTAATTGAAAT-AC-TAAAACTTATTTAAACTAAAATACTTAAAAC
1 TAAAATAATATCCTAAATCCTAACT-AAATCACTTAAAAC-TATTTAAACTAAAATACATAAAAC
*
179980 AAATATAA
64 AAAGATAA
179988 TGTTTAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
84 6 0.09
85 54 0.84
86 4 0.06
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (85 bp):
TAAAATAATATCCTAAATCCTAACTAAATCACTTAAAACTATTTAAACTAAAATACATAAAACAA
AGATAAAATAAAATAAAATT
Found at i:187332 original size:8 final size:8
Alignment explanation
Indices: 187294--187339 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
187284 GATATATTAA
187294 AATAAAAT
1 AATAAAAT
187302 AAATAAAAT
1 -AATAAAAT
187311 -ATAAAA-
1 AATAAAAT
*
187317 AAGGAAAAT
1 AA-TAAAAT
187326 AATAAAAT
1 AATAAAAT
187334 AATAAA
1 AATAAA
187340 TAGTAATAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 7 0.22
8 15 0.47
9 10 0.31
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (8 bp):
AATAAAAT
Found at i:187927 original size:14 final size:14
Alignment explanation
Indices: 187904--187934 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
187894 GAAGTATGTG
*
187904 AAATATAGAGAGAA
1 AAATAGAGAGAGAA
187918 AAATAGAGAGAGAA
1 AAATAGAGAGAGAA
187932 AAA
1 AAA
187935 GATTTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (14 bp):
AAATAGAGAGAGAA
Found at i:190223 original size:13 final size:13
Alignment explanation
Indices: 190205--190237 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
190195 TGGGTCGATC
*
190205 CTTCATCTCGGAT
1 CTTCATCTCGAAT
190218 CTTCATCTCGAAT
1 CTTCATCTCGAAT
190231 CTTCATC
1 CTTCATC
190238 CTTGAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.33, G:0.09, T:0.39
Consensus pattern (13 bp):
CTTCATCTCGAAT
Found at i:192445 original size:2 final size:2
Alignment explanation
Indices: 192438--192462 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
192428 TCTTATTTAC
192438 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 A
192463 CTTGTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:195919 original size:16 final size:16
Alignment explanation
Indices: 195898--195940 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
195888 GGGATGGGAT
*
195898 TTGAGAGAATTGAGAG
1 TTGAGAGAATAGAGAG
**
195914 TTGAGAGAGCAGAGAG
1 TTGAGAGAATAGAGAG
195930 TTGAGAGAATA
1 TTGAGAGAATA
195941 AAAGAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.37, T:0.21
Consensus pattern (16 bp):
TTGAGAGAATAGAGAG
Found at i:196161 original size:19 final size:19
Alignment explanation
Indices: 196137--196186 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
196127 TCTTTTAAAT
196137 TTTATAATTTAATCTTTAA
1 TTTATAATTTAATCTTTAA
* *
196156 TTTATAATGTAAACTTTAA
1 TTTATAATTTAATCTTTAA
*
196175 TTT-TTATTTAAT
1 TTTATAATTTAAT
196187 TTAGTCCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTATAATTTAATCTTTAA
Found at i:202223 original size:183 final size:183
Alignment explanation
Indices: 202000--202691 Score: 915
Period size: 183 Copynumber: 3.7 Consensus size: 183
201990 ATTAAACTAA
*
202000 AAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * *
202065 ACATGTCTCAAAAATGAAAAAACCGGAAAAAAGATATCGGATATGTTGAAAGTGTCGATAATTTA
66 ACAGGTCTCAAAAATGAAAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTA
*
202130 ATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGTCTA-
131 ATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGCCTAT
* * * *
202182 AAAGGTGTCGACCCTTTATGAAAATGTATCGATCTATAACAATATAACAGCTAAAAATATGATAA
1 AAA-GTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAA
* * * * *
202247 AACCGGTCTCAACAATGAAAAAACCGGTAAAACGATATCGAATATGTTGGAAGTGTCGATACTTT
65 AACAGGTCTCAAAAATGAAAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCG-------
*
202312 AATATAACTTTAATATAACTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
123 ---ATAA-TTTAATATAAGTATCGACACTTTAT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTA
202376 T
183 T
* * *
202377 AAAGTGTCGATACTTTAAAAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * *
202442 ACAGGTCTCAAAATTGACAAAACCAGTAAAACGCTACCAGATATGTTGAAAGTGTCGATAATTTA
66 ACAGGTCTCAAAAATGAAAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTA
*
202507 ATATAAGTATCGACACTTTATGAATTTAAAAGAAAAGAAGTTATAGCGCCTAT
131 ATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGCCTAT
* *
202560 AAAGTGTCGATACTTT-TAAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGATAA
1 AAAGTGTCGACACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAA
* * *** * * *
202624 AACTGGTCTC-AAAATGACAAAGTAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTT
65 AACAGGTCTCAAAAATGAAAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTT
202688 AATA
130 AATA
202692 AGTACGCGTA
Statistics
Matches: 451, Mismatches: 43, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
182 53 0.12
183 231 0.51
184 5 0.01
193 5 0.01
194 154 0.34
195 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (183 bp):
AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACAGGTCTCAAAAATGAAAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTA
ATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGCCTAT
Found at i:202323 original size:11 final size:11
Alignment explanation
Indices: 202307--202331 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
202297 AAGTGTCGAT
202307 ACTTTAATATA
1 ACTTTAATATA
202318 ACTTTAATATA
1 ACTTTAATATA
202329 ACT
1 ACT
202332 ATCGACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTTTAATATA
Found at i:203895 original size:17 final size:17
Alignment explanation
Indices: 203873--203905 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
203863 GGGTTAACCT
203873 GACCCG-CCTGTTGACCC
1 GACCCGACC-GTTGACCC
203890 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
203906 GTTGACTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.15, C:0.45, G:0.24, T:0.15
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:203907 original size:7 final size:7
Alignment explanation
Indices: 203895--203931 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
203885 GACCCGACCC
203895 GACCGTT
1 GACCGTT
203902 GACCGTT
1 GACCGTT
*
203909 GACTG-T
1 GACCGTT
203915 GACCGTT
1 GACCGTT
203922 GACCGTT
1 GACCGTT
203929 GAC
1 GAC
203932 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:203920 original size:20 final size:20
Alignment explanation
Indices: 203895--203932 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
203885 GACCCGACCC
203895 GACCGTTGACCGTTGACTGT
1 GACCGTTGACCGTTGACTGT
203915 GACCGTTGACCGTTGACT
1 GACCGTTGACCGTTGACT
203933 TTCTTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (20 bp):
GACCGTTGACCGTTGACTGT
Found at i:204854 original size:63 final size:63
Alignment explanation
Indices: 204771--204894 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
204761 CTAATGTGAC
* ** * *
204771 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGC-CATGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCTC-T-CAGGCCCTAAGATGTG
204833 T
63 T
*
204834 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCTCTCAGGCCCTAAGATGT
204895 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCTCTCAGGCCCTAAGATGTGT
Found at i:206766 original size:22 final size:23
Alignment explanation
Indices: 206715--206770 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
206705 AATGTTTTTG
* *
206715 TTTTTTTATATAAAATGATAGCA
1 TTTTATTATATAAAATGATAACA
*
206738 TAGTTATTATATAAAATGATAAC-
1 T-TTTATTATATAAAATGATAACA
206761 TTTTATTATA
1 TTTTATTATA
206771 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 2 0.07
24 18 0.64
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAACA
Found at i:208953 original size:19 final size:19
Alignment explanation
Indices: 208929--208975 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
208919 AAATGCAGGG
208929 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
208948 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
208967 ATAATTTTG
1 TTAATTTTG
208976 CATGTGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:209665 original size:199 final size:199
Alignment explanation
Indices: 209325--210587 Score: 2202
Period size: 199 Copynumber: 6.3 Consensus size: 199
209315 GTAAACTTAT
* * *
209325 GTGTCGATACAATTATAACAAGTGTTGATCCCAAAAACATCGAAAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
209390 GGTAAATTATCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
209455 TCGACACAAATCAAACATGTGTCGATACTTTTGGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
209520 AAAA
196 AAAA
*
209524 GTGTCGATACATTTATAACAAGTGTCGATTCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
209589 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAACGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
209654 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCATGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
209719 AAAA
196 AAAA
* * *
209723 GTGTCGATATATTTATAACAAGTGTCGATCCCAAAAACATTGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
209788 GGTAAATTAGCAATATAATCGGTCTAAATATACCGGTTTTTGAAAAAACAGGTGTATAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
209853 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
209918 AAAA
196 AAAA
209922 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
209987 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTTAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
210052 TCGACACAAATCAAACAAATGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
210117 AAAA
196 AAAA
* * *
210121 GTGTTGATACATTTATAACAAATGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * *
210186 GGTAAATTATCAATATAACCGGTCTAAATGTACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
210251 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
210316 AAAA
196 AAAA
* *
210320 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*** *
210385 GGTAAATTAGCAATATAATTAGTCTAAATATACCGGTTTGTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
210450 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
210515 AAAA
196 AAAA
*
210519 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
210584 GGTA
66 GGTA
210588 GCAATGTAAC
Statistics
Matches: 1006, Mismatches: 58, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 1006 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:212179 original size:6 final size:6
Alignment explanation
Indices: 212168--212277 Score: 148
Period size: 6 Copynumber: 18.3 Consensus size: 6
212158 CAAGCGGTCA
* * * * * *
212168 ATGAAG ATGAAG ATGAAG ATGAAG ATGATG ACGATG ATGATG ATTATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
* *
212216 ATGATT ATGATT ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
212264 ATGATG ATGATG AT
1 ATGATG ATGATG AT
212278 CCAAACAAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 97 1.00
ACGTcount: A:0.37, C:0.01, G:0.30, T:0.32
Consensus pattern (6 bp):
ATGATG
Found at i:212203 original size:9 final size:9
Alignment explanation
Indices: 212168--212277 Score: 148
Period size: 9 Copynumber: 12.2 Consensus size: 9
212158 CAAGCGGTCA
*
212168 ATGAAGATG
1 ATGATGATG
* *
212177 AAGATGAAG
1 ATGATGATG
*
212186 ATGAAGATG
1 ATGATGATG
*
212195 ATGACGATG
1 ATGATGATG
*
212204 ATGATGATT
1 ATGATGATG
*
212213 ATGATGATT
1 ATGATGATG
*
212222 ATGATTATG
1 ATGATGATG
212231 ATGATGATG
1 ATGATGATG
212240 ATGATGATG
1 ATGATGATG
212249 ATGATGATG
1 ATGATGATG
212258 ATGATGATG
1 ATGATGATG
212267 ATGATGATG
1 ATGATGATG
212276 AT
1 AT
212278 CCAAACAAGT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 89 1.00
ACGTcount: A:0.37, C:0.01, G:0.30, T:0.32
Consensus pattern (9 bp):
ATGATGATG
Found at i:214439 original size:399 final size:399
Alignment explanation
Indices: 213677--215835 Score: 3427
Period size: 399 Copynumber: 5.4 Consensus size: 399
213667 TACCATTTTC
213677 AAATATACC-GGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA-TGTCG
1 AAATATACCAGG-TTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
*
213740 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAATAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* * *
213805 AAGTGTTGATCCCGAAAACATCGAAAAACATAATTATAATATAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
213870 CGGTCTAAATATATCC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA
195 CGGTCTAAATATA-CCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA
213934 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
*
213999 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAAAATAATTATAATGTAATAGGTAAATTATTAA
324 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
*
214064 TGTAACAGTCT
389 TGTAACGGTCT
* * * * **
214075 AAATATATC-GGTTTTGAGAAAACAGGTGTGCAAAAAGTGTCGAAACAAATAAAAAAAAGTGTTA
1 AAATATACCAGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* *
214139 ATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCATAACAAAGTGTCGAT-CATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214203 AAGTGTCGATCCCGAAAACATCGAAAAATATAATTATAATGTAATAGGTAAATGATTAATGTGAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
214268 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAA
195 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
214333 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
* *
214398 TAAAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
324 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
214463 TGTAACAGGTCT
389 TGTAAC-GGTCT
* * * *
214475 AAATATACCAGTTTTTGAGAAAACAGGTGTGCAAAAAGTGTCGACACAAATAAAAAAAAGTGTTG
1 AAATATACCAGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* *
214540 ATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCATAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214605 AAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTATTGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
214670 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAA
195 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
* * * * *
214735 GTGTCGATACATCTTGTCCAGATTGTGTTATAAAAACCAAGTGCACAATAAAGTGTCGATTCATT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
*
214800 TAAAACAAGTGTCGATCCGGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
324 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
214865 TGTAACCGGTCT
389 TGTAA-CGGTCT
** *
214877 AAATATACC-GGTTTTTGAGAAAACAAATGTACAAAAAGTATCGATACAAAT-AAAAAAGTGTCG
1 AAATATACCAGG-TTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
* *
214940 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAATTGTCGATATATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
215005 AAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
* * * * * *
215070 TGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTATAAAAAGTATCGACACAAATCAAACATG
195 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
* * * *
215135 TGTCGATAC-TTTTGGTCCAGAATGTATTTCAAAAACCAAGTGCACAACAAAGTGTCGATACATT
260 TGTCGATACATCTT-GTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATT
*
215199 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAA
324 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
*
215264 TTTAACCGGTCT
389 TGTAA-CGGTCT
** *
215276 AAATATACCAATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCAGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
**
215341 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAACTTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
215406 AGTGTTGAT--C-----C-T-G-AAAACATAATTATAATGTAATAGGTAAATGATTAATTTAATC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
*
215461 GGTCTAAATATACCGGTCTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
196 GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
* * * * *
215526 GTCGGTACATCTTTTCCTGATTGTATTTTAAAAACCAATTGTACAACAAAGTGTCGATACATTTA
261 GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATTTA
*
215591 AAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
326 AAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
215656 TAACTGGTCT
391 TAAC-GGTCT
** * * *
215666 AAATATACCAATTTTTGAGAAAACAGGTGTATAAAAAGTATCGATATAAATAAAAAAAAGTGTCG
1 AAATATACCAGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
215731 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
215796 AAGTGTCGATCCCGAAAAACATCGAAAAACGTAATTATAA
130 AAGTGTCGATCCCG-AAAACATCGAAAAACATAATTATAA
215836 CCAAATGCCT
Statistics
Matches: 1633, Mismatches: 102, Indels: 48
0.92 0.06 0.03
Matches are distributed among these distances:
389 1 0.00
390 268 0.16
391 89 0.05
392 1 0.00
393 2 0.00
397 38 0.02
398 145 0.09
399 372 0.23
400 285 0.17
401 106 0.06
402 325 0.20
403 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (399 bp):
AAATATACCAGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATTTA
AAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
TAACGGTCT
Found at i:214476 original size:201 final size:200
Alignment explanation
Indices: 213677--215835 Score: 3443
Period size: 201 Copynumber: 10.8 Consensus size: 200
213667 TACCATTTTC
213677 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA-TGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
213741 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAATAAAGTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
213806 AGTGTTGATCCCGAAAACATCGAAAAACATAATTATAATATAATAGGTAAATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
213871 GGTCT
196 GGTCT
213876 AAATATATCC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
1 AAATATA-CCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
*
213940 ATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214005 AAGTGTCGATCCCGAAAACATCGAAAAAAATAATTATAATGTAATAGGTAAATTATTAATGTAA-
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
*
214069 CAGTCT
195 CGGTCT
* * * * **
214075 AAATATATCGG-TTTTGAGAAAACAGGTGTGCAAAAAGTGTCGAAACAAATAAAAAAAAGTGTTA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* *
214139 ATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCATAACAAAGTGTCGAT-CATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214203 AAGTGTCGATCCCGAAAACATCGAAAAATATAATTATAATGTAATAGGTAAATGATTAATGTGAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
214268 CGGTCT
195 CGGTCT
214274 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
*
214339 ATACATCTTGTCCAGATTGTATTTTAAAAACCAACTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* * *
214404 AATTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
*
214469 AGGTCT
195 CGGTCT
* * * *
214475 AAATATACCAGTTTTTGAGAAAACAGGTGTGCAAAAAGTGTCGACACAAATAAAAAAAAGTGTTG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* *
214540 ATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCATAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214605 AAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTATTGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
214670 CGGTCT
195 CGGTCT
214676 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* * * *
214741 ATACATCTTGTCCAGATTGTGTTATAAAAACCAAGTGCACAATAAAGTGTCGATTCATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
214806 AAGTGTCGATCCGGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
214871 CGGTCT
195 CGGTCT
** *
214877 AAATATACCGGTTTTTGAGAAAACAAATGTACAAAAAGTATCGATACAAAT-AAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* *
214941 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAATTGTCGATATATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* *
215006 AGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACT
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
215071 GGTCT
196 GGTCT
* * * * *
215076 AAATATACTGGTTTTTGAGAAAACAGGTGTATAAAAAGTATCGACACAAATCAAACATGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* * *
215141 TAC-TTTTGGTCCAGAATGTATTTCAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
66 TACATCTT-GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
215205 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATTTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAAC
215270 CGGTCT
195 CGGTCT
** *
215276 AAATATACCAATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
**
215341 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAACTTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
215406 AGTGTTGAT--C-----C-T-G-AAAACATAATTATAATGTAATAGGTAAATGATTAATTTAATC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
215461 GGTCT
196 GGTCT
* *
215466 AAATATACCGGTCTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* * * *
215531 TACATCTTTTCCTGATTGTATTTTAAAAACCAATTGTACAACAAAGTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
215596 AGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACT
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
215661 GGTCT
196 GGTCT
** * * *
215666 AAATATACCAATTTTTGAGAAAACAGGTGTATAAAAAGTATCGATATAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
215731 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
215796 AAGTGTCGATCCCGAAAAACATCGAAAAACGTAATTATAA
130 AAGTGTCGATCCCG-AAAACATCGAAAAACATAATTATAA
215836 CCAAATGCCT
Statistics
Matches: 1807, Mismatches: 131, Indels: 41
0.91 0.07 0.02
Matches are distributed among these distances:
190 173 0.10
191 1 0.00
192 2 0.00
193 1 0.00
197 1 0.00
198 110 0.06
199 333 0.18
200 573 0.32
201 589 0.33
202 24 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (200 bp):
AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATGATTAATGTAACC
GGTCT
Found at i:214478 original size:22 final size:19
Alignment explanation
Indices: 214435--214472 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
214425 CGAAAAACAT
*
214435 AATTATAATGTAATAGGTA
1 AATTATAATGTAACAGGTA
214454 AATTATTAATGTAACAGGT
1 AATTA-TAATGTAACAGGT
214473 CTAAATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
AATTATAATGTAACAGGTA
Found at i:218910 original size:23 final size:23
Alignment explanation
Indices: 218860--218904 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
218850 TGGCTATTTT
*
218860 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
218883 ATTATATAAGCTCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
218905 TGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:218912 original size:26 final size:23
Alignment explanation
Indices: 218853--218901 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
218843 TGTTAAATGG
218853 CTATTTTATTATATAAGCGCTAC
1 CTATTTTATTATATAAGCGCTAC
** *
218876 CTATTACATTATATAAGCTCTAC
1 CTATTTTATTATATAAGCGCTAC
218899 CTA
1 CTA
218902 ATATGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (23 bp):
CTATTTTATTATATAAGCGCTAC
Found at i:219102 original size:31 final size:31
Alignment explanation
Indices: 219018--219095 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
219008 CCCTAATAAA
* ** *
219018 AGACAAGACACTCCTTAACGTAGGACCATTT
1 AGACAAGACACTCCTCAACGTCTGATCATTT
219049 AGACAAGACACTCCTCAACGTCTGATCATTT
1 AGACAAGACACTCCTCAACGTCTGATCATTT
219080 AGACAAGACACTCCTC
1 AGACAAGACACTCCTC
219096 GGCGTCTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (31 bp):
AGACAAGACACTCCTCAACGTCTGATCATTT
Found at i:220718 original size:35 final size:36
Alignment explanation
Indices: 220647--220719 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
220637 TACTATAATT
**
220647 AATTTATATATATTTTTTAAAAATTTTAAATTAATAA
1 AATTTATATATATTTTTTAAAAA-TTTAAAAAAATAA
220684 AATTTATATA-ATTTTTTACAAAA-TTAAAAAAATAA
1 AATTTATATATATTTTTTA-AAAATTTAAAAAAATAA
220719 A
1 A
220720 TAGGTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 11 0.33
36 8 0.24
37 14 0.42
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (36 bp):
AATTTATATATATTTTTTAAAAATTTAAAAAAATAA
Found at i:223544 original size:3 final size:3
Alignment explanation
Indices: 223531--223582 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
223521 TTTGTCCCAT
*
223531 TTA TT- TTA TTA TTA TTA TTA TTA TT- TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
223577 TTA TTA
1 TTA TTA
223583 AATAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:225740 original size:20 final size:22
Alignment explanation
Indices: 225695--225752 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
225685 GCATGGGTAG
225695 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
225719 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
* *
225739 TGTATCGATACACT
1 TGCATCGATGCACT
225753 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 2 0.06
24 13 0.41
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:226189 original size:20 final size:20
Alignment explanation
Indices: 226149--226203 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
226139 ATGATGATAT
*
226149 AAATTATATGATATTATAAG
1 AAATTATATGATATTAAAAG
226169 AAATTATATGA-ATATAAAAG
1 AAATTATATGATAT-TAAAAG
*
226189 AGAAGTTATGTGATA
1 A-AA-TTATATGATA
226204 AGATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 17 0.59
21 2 0.07
22 7 0.24
23 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.35
Consensus pattern (20 bp):
AAATTATATGATATTAAAAG
Found at i:226788 original size:25 final size:26
Alignment explanation
Indices: 226753--226801 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
226743 ATGTATAAGC
226753 TATATGATATGATATAAGTTATTATA
1 TATATGATATGATATAAGTTATTATA
226779 TATAT-ATATGATATAAGTTATTA
1 TATATGATATGATATAAGTTATTA
226802 ATCAGGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (26 bp):
TATATGATATGATATAAGTTATTATA
Found at i:227384 original size:23 final size:23
Alignment explanation
Indices: 227349--227416 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
227339 AACCTTATAT
*
227349 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTATACGC
* * * *
227372 GGCACTACAGTGCAATTATACGT
1 GGCACTTCGGTGCATTTATACGC
227395 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTATACG
227417 AGCTATGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGC
Found at i:231660 original size:25 final size:26
Alignment explanation
Indices: 231625--231673 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
231615 ATGTATAAGC
231625 TATATGATATGATATAAGTTATTATA
1 TATATGATATGATATAAGTTATTATA
231651 TATAT-ATATGATATAAGTTATTA
1 TATATGATATGATATAAGTTATTA
231674 ATCAGGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (26 bp):
TATATGATATGATATAAGTTATTATA
Found at i:232250 original size:23 final size:23
Alignment explanation
Indices: 232217--232279 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
232207 AACCTTATAT
232217 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
232240 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
232263 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
232280 ATACAAGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:237560 original size:2 final size:2
Alignment explanation
Indices: 237553--237777 Score: 212
Period size: 2 Copynumber: 113.0 Consensus size: 2
237543 ATACATATTC
237553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
237595 AT AT AT AT AT AT AT AT AT AT AT AT AA AG AG ACT CT -T CAGT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -A-T AT
* * * * *
237637 -T A- ACT GCT A- AT A- AA AT -T AT ACT -T AT AC AT AT AC AT AC
1 AT AT A-T -AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
237674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
237716 AT CT AT CT AT AT AT AT AT AT AT AT CT AT AT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
237758 AT AT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
237778 TTACCATTTT
Statistics
Matches: 186, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
1 7 0.04
2 176 0.95
3 2 0.01
4 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:237702 original size:111 final size:111
Alignment explanation
Indices: 237508--237730 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
237498 TTTCATTTCA
* * * *
237508 AAAGAGGCTCTTCAGTCTTAACTGCTAATAAAATTATACATATTCATATATATATATATATATAT
1 AAAGAGACTCTTCAGTCTTAACTGCTAATAAAATTATACATATACATATACATACATATATATAT
237573 ATATATATATATATATATATATATATATATATATATATATATATAT
66 ATATATATATATATATATATATATATATATATATATATATATATAT
*
237619 AAAGAGACTCTTCAGTCTTAACTGCTAATAAAATTATACTTATACATATACATACATATATATAT
1 AAAGAGACTCTTCAGTCTTAACTGCTAATAAAATTATACATATACATATACATACATATATATAT
* *
237684 ATATATATATATATATATATATATATATATATATCTATCTATATAT
66 ATATATATATATATATATATATATATATATATATATATATATATAT
237730 A
1 A
237731 TATATATATC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (111 bp):
AAAGAGACTCTTCAGTCTTAACTGCTAATAAAATTATACATATACATATACATACATATATATAT
ATATATATATATATATATATATATATATATATATATATATATATAT
Found at i:242069 original size:27 final size:28
Alignment explanation
Indices: 242005--242069 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
241995 TATTTAAACT
*
242005 TTTAGTTTTTTTAAAATCACATCTAAAA
1 TTTAGTTTTTTTAAAATCACACCTAAAA
242033 TTTAGTTTTTTTAAAATCACACCTAAAA
1 TTTAGTTTTTTTAAAATCACACCTAAAA
242061 TTTAGTTTT
1 TTTAGTTTT
242070 ATTTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTAGTTTTTTTAAAATCACACCTAAAA
Found at i:250901 original size:5 final size:5
Alignment explanation
Indices: 250891--250915 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
250881 ATAGCACCTT
250891 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
250916 CACAACCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:253104 original size:3 final size:3
Alignment explanation
Indices: 253096--253154 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
253086 CAAAAACTTG
* * * *
253096 TAA TAA TAAA TAT TAA TAG TAA TAA TAG TAA TAT TAAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
253143 TAA TAA TAA TAA
1 TAA TAA TAA TAA
253155 ATATTAATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:253135 original size:22 final size:21
Alignment explanation
Indices: 253095--253162 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
253085 CCAAAAACTT
253095 GTAATAATA-AATATT-AATA
1 GTAATAATATAATATTAAATA
253114 GTAATAATAGTAATATTAAATA
1 GTAATAATA-TAATATTAAATA
* *
253136 ATAATAATAATAATAATAAATA
1 GTAATAAT-ATAATATTAAATA
*
253158 TTAAT
1 GTAAT
253163 GATAACCCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.21
21 6 0.14
22 26 0.62
23 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
GTAATAATATAATATTAAATA
Found at i:253146 original size:19 final size:21
Alignment explanation
Indices: 253096--253153 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 21
253086 CAAAAACTTG
253096 TAATAATAAATATTAATAGTAA
1 TAATAAT-AATATTAATAGTAA
*
253118 TAATAGTAATATTAA-A-TAA
1 TAATAATAATATTAATAGTAA
*
253137 TAATAATAATAATAATA
1 TAATAATAATATTAATA
253154 AATATTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 2 0.06
21 8 0.25
22 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TAATAATAATATTAATAGTAA
Found at i:253838 original size:259 final size:259
Alignment explanation
Indices: 253291--255023 Score: 2341
Period size: 259 Copynumber: 6.7 Consensus size: 259
253281 AAATGAGGCA
* * * * * *
253291 GACAGATAACCCGAAAGATTTAATCATCATGCTCGAAAGAGTCACCGATGGCTCGAAGGACTTAC
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * * * *
253356 TAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCG-TTTTCTTACTTTTGAAAGATT
66 CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAATT
** * * * *
253420 TCAACTTATGAAAATATTAAATAAGAAACTTTGGAAATCGCTTTCTTATTTTTTGAAAATCATGT
131 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGT
* * * * *
253485 G-AAACATCCTGCCCAAAGGTCTTATAGATGGCTCGAATGACTTATCATCTTGCTTGAAAGACT
196 GAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACT
* *
253548 GACATATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTA-TCGATGGCCCGAAGGACTTA
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT-GATGGCCCGAAGGACTTA
** * *
253612 TTAATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGA-TTTCTTACTTTTCAAAAAT
65 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAAT
* **
253676 TTCATTTTTCTGAAAACATTAAATGAGAAAATTTGGAAATAACTTTCTCATTTTTTGAAAATCAT
130 TTCA-TTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCAT
* * * *
253741 GTGAAAACATCCTACCTGAAGGGCTTATAGATGGCTCAAAGGACTTATCATCTTGCTCGAAAGAC
194 GTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGAC
253806 T
259 T
* * **
253807 GACAGATTACCCGAAGGATTTAATTATCATGCTCGAAAGAAC-TACTGATGGTTCGAAGGACTTA
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAG-ACTTACTGATGGCCCGAAGGACTTA
* * *
253871 CCAGTTTTAGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCG-CTTTCTTACTTTTGAAAAAT
65 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAAT
* *
253935 TTCATTTTCTGAAAACATTAAAT-AAAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCA
130 TTCATTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCA--TTTTTTGAAAATCA
*
253999 TGTGAAAACATCCTACCCGAAGGTCTTATTGATGGCCCGAAA-GACTTATCATCTTGCTCGAAAG
193 TGTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCC-AAATGACTTATCATCTTGCTCGAAAG
254063 ACT
257 ACT
* * *
254066 GATAGATGACTCTAAGGATTTAATCATCATGCTCGAATA-ACTTACTGATGGCCCGAAGGACTTA
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAA-AGACTTACTGATGGCCCGAAGGACTTA
* *
254130 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAA-CCACTTCCTTACTTTTCAAAAAT
65 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAAT
* * *
254194 TTCATTTTCAGAAAAGATTCAAATGAGAAACTTTGGAAATCGCTTTCTCA--TTTTCAAAA-CAT
130 TTCATTTTCTGAAAACATT-AAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCAT
* * * * * *
254256 GTGAAAGCATCCTAACCAAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCCAAAGAC
194 GTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGAC
254321 T
259 T
* * *
254322 GACAGATGACCCGAAGGATTTAATCACCATGCTTGAAAGACTTACTGATGGCCCGAAGGATTTAC
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* *
254387 CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAAT-TACTTTCTTATTTTTCAAAAATT
66 CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAATT
* * ** * *
254451 TCATTTTATGAAAAAAATTAAATGAGAAACTTTGGAAATCATTTTCTCTTTTTTTTAAAAAATCA
131 TCATTTTCTG-AAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTC-ATTTTTT-GAAAATCA
* * *
254516 TGTGAAATCATCCTACCCGAAGGTCTTATAGATGACCCAAAGGACTTATCATCTTGCTCGAAAGA
193 TGTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGA
254581 CT
258 CT
* * *
254583 GACATATG-CCTCGAAGGATTTAATCATCACGCTCGAAAGACTTACTGATGGCCTGAAGGACTTA
1 GACAGATGACC-CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* * *
254647 CCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTGGAAATC-ACTTTCTTACTTTTCAAAAAT
65 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAAT
* * * *
254711 TTCATTTTCTCAAAGCATTAAATGAGAAAATTTGGAAATCGCTTTCTCATTTTTTTAAAATCATG
130 TTCATTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATG
* * * * *
254776 TGAAAACATCATA-CCGGAGGTCTTATGGATGGCCCGAATGACTTATCATATTGCTCGAAAGACT
195 TGAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACT
* *
254840 GATAGATGACCCGAAGGATTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGAAGGACTTAC
1 GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* *
254905 CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGATATC-ACTTTCTTACTTTTTAAAAATT
66 CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAATT
** * *
254969 TCATTTTTCAAAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTT
131 TCA-TTTTC-TGAAAACA-TTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTT
255024 CAAAAAAACT
Statistics
Matches: 1310, Mismatches: 136, Indels: 57
0.87 0.09 0.04
Matches are distributed among these distances:
255 3 0.00
256 212 0.16
257 319 0.24
258 103 0.08
259 383 0.29
260 83 0.06
261 207 0.16
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (259 bp):
GACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
CAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGACTTTCTTACTTTTCAAAAATT
TCATTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGT
GAAAACATCCTACCCGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACT
Found at i:254125 original size:42 final size:40
Alignment explanation
Indices: 254023--254129 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 40
254013 ACCCGAAGGT
* *
254023 CTTATTGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGA
1 CTTA-TGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * * * *
254064 CTGATAGATGACTCTAAGGATTTAATCATCATGCTCGAATA-A
1 CTTAT-GATGGCCCGAAGGACTT-ATCATCATGCTCGAA-AGA
254106 CTTACTGATGGCCCGAAGGACTTA
1 CTTA-TGATGGCCCGAAGGACTTA
254130 CCAATTTTAG
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
40 1 0.02
41 16 0.32
42 31 0.62
43 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (40 bp):
CTTATGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:254838 original size:774 final size:772
Alignment explanation
Indices: 253294--255028 Score: 2531
Period size: 774 Copynumber: 2.2 Consensus size: 772
253284 TGAGGCAGAC
* * * * * * *
253294 AGATAACCCGAAAGATTTAATCATCATGCTCGAAAGAGTCACCGATGGCTCGAAGGACTTACTAA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAA-ACTTACTGATGGCCCGAAGGACTTACCAA
* ** * * *
253359 TTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTGAAAGATTTCAA
65 TTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
* * * * *
253424 CTT-ATGAAAATATTAAATAAGAAACTTTGGAAATCGCTTTCTTATTTTTTGAAAATCATGTGAA
130 TTTCA-GAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCA--TTTTCAAAATCATGTGAA
** * ** *
253488 ACATCCTGCCCAAAGGTCTTATAGATGGCTCGAATGACTTATCATCTTGCTTGAAAGACTGACAT
192 ACATCCTAACCAAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCCAAAGACTGACAG
* **
253553 ATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTATCGATGGCCCGAAGGACTTATTAATT
257 ATGACCCGAAGGATTTAATCACCATGCTCAAAAGACTTATCGATGGCCCGAAGGACTTACCAATT
* *
253618 TTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTT
322 TTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTT
* * *
253683 TTCTGAAAACATTAAATGAGAAAATTTGGAAATAACTTTCTCATTTTTTGAAAATCATGTGAAAA
387 TTATGAAAAAATTAAATGAGAAAATTTGGAAATAACTTTCTCATTTTTTAAAAATCATGTGAAAA
* * *
253748 CATCCTACCTGAAGGGCTTATAGATGGCTCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGA
452 CATCCTACCCGAAGGGCTTATAGATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGA
* * * *
253813 TTACCCGAAGGATTTAATTATCATGCTCGAAAGAACTACTGATGGTTCGAAGGACTTACCAGTTT
517 TTACCCGAAGGATTTAATCATCACGCTCGAAAGAACTACTGATGGCTCGAAGGACTTACCAATTT
* * *
253878 TAGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTGAAAAATTTCATTTT
582 TAGAAATAGTTTAATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTT
*
253943 CTGAAAACATTAAATAAAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCATGTGAAAAC
647 CTCAAAACATTAAATAAAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCATGTGAAAAC
* * *
254008 ATCCTACCCGAAGGTCTTATTGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGAT
712 ATCATACCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATATTGCTCGAAAGACTGAT
* *
254069 AGATGACTCTAAGGATTTAATCATCATGCTCGAATAACTTACTGATGGCCCGAAGGACTTACCAA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAA-AACTTACTGATGGCCCGAAGGACTTACCAA
* *
254134 TTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAACCACTTCCTTACTTTTCAAAAATTTCAT
65 TTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
254199 TTTCAGAAAAGATTCAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAAAA-CATGTGAAAG
130 TTTCAGAAAAGATT-AAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAAAATCATGTGAAA-
*
254263 CATCCTAACCAAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCCAAAGACTGACAGA
193 CATCCTAACCAAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCCAAAGACTGACAGA
** *
254328 TGACCCGAAGGATTTAATCACCATGCTTGAAAGACTTA-CTGATGGCCCGAAGGATTTACCAATT
258 TGACCCGAAGGATTTAATCACCATGCTCAAAAGACTTATC-GATGGCCCGAAGGACTTACCAATT
* *
254392 TTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAAT-TACTTTCTTATTTTTCAAAAATTTCA-T
322 TTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGA-TTTCTTACTTTTCAAAAATTTCATT
* * * *
254455 TTTATGAAAAAAATTAAATGAGAAACTTTGGAAATCATTTTCTCTTTTTTTTAAAAAATCATGTG
386 TTTATG-AAAAAATTAAATGAGAAAATTTGGAAATAACTTTCTC-ATTTTTT-AAAAATCATGTG
* *
254520 AAATCATCCTACCCGAAGGTCTTATAGATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTGA
448 AAAACATCCTACCCGAAGGGCTTATAGATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTGA
* *
254585 CATA-TGCCTCGAAGGATTTAATCATCACGCTCGAAAG-ACTTACTGATGGC-CTGAAGGACTTA
513 CAGATTACC-CGAAGGATTTAATCATCACGCTCGAAAGAAC-TACTGATGGCTC-GAAGGACTTA
*
254647 CCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
575 CCAATTTTAGAAATAGTTTAATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
* *
254712 TCATTTTCTCAAAGCATTAAATGAGAAAA-TTTGGAAATCGCTTTCTCA-TTTTTTT-AAAATCA
640 TCATTTTCTCAAAACATTAAAT-A-AAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCA
* *
254774 TGTGAAAACATCATA-CCGGAGGTCTTATGGATGGCCCGAATGACTTATCATATTGCTCGAAAGA
703 TGTGAAAACATCATACCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATATTGCTCGAAAGA
254838 CTGAT
768 CTGAT
*
254843 AGATGACCCGAAGGATTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGAAGGACTTACCAA
1 AGATGACCCGAAGGATTTAATCATCATGCTC-GAAAACTTACTGATGGCCCGAAGGACTTACCAA
* *
254908 TTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGATATCACTTTCTTACTTTTTAAAAATTTCAT
65 TTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCA-
* *
254973 TTTTCAAAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTCAAAA
129 TTTTC-AGAAAAGA-TTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAAAA
255029 AAACTTGATG
Statistics
Matches: 864, Mismatches: 78, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
773 17 0.02
774 379 0.44
775 162 0.19
776 281 0.33
777 21 0.02
778 4 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (772 bp):
AGATGACCCGAAGGATTTAATCATCATGCTCGAAAACTTACTGATGGCCCGAAGGACTTACCAAT
TTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATT
TTCAGAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAAAATCATGTGAAACAT
CCTAACCAAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCCAAAGACTGACAGATGA
CCCGAAGGATTTAATCACCATGCTCAAAAGACTTATCGATGGCCCGAAGGACTTACCAATTTTAG
AAATAGTTTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTTAT
GAAAAAATTAAATGAGAAAATTTGGAAATAACTTTCTCATTTTTTAAAAATCATGTGAAAACATC
CTACCCGAAGGGCTTATAGATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATTAC
CCGAAGGATTTAATCATCACGCTCGAAAGAACTACTGATGGCTCGAAGGACTTACCAATTTTAGA
AATAGTTTAATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTCA
AAACATTAAATAAAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCATGTGAAAACATCA
TACCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATATTGCTCGAAAGACTGAT
Found at i:254854 original size:41 final size:41
Alignment explanation
Indices: 254803--254903 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 41
254793 AGGTCTTATG
*
254803 GATGGCCCGAATGACTTATCAT-ATTGCTCGAAAGACTGA-T
1 GATGGCCCGAAGGACTTATCATCA-TGCTCGAAAGACTGACT
* * * *
254843 AGATGACCCGAAGGATTTAATCATCATGCTCGGAAGACTTACT
1 -GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTGACT
254886 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
254904 CCAATTTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
41 15 0.30
42 33 0.66
43 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGACT
Found at i:268056 original size:23 final size:23
Alignment explanation
Indices: 268030--268107 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
268020 CACCACAGCT
268030 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
268053 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
268076 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
268099 TATAATAAT
1 CAT-ATAAT
268108 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:268434 original size:103 final size:103
Alignment explanation
Indices: 268114--268430 Score: 580
Period size: 103 Copynumber: 3.1 Consensus size: 103
268104 TAATGTCCAT
* * *
268114 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
268179 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
268217 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
268282 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
268320 AAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
268385 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
268423 AAGGACCA
1 AAGGACCA
268431 TATAGACCCT
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:269326 original size:19 final size:19
Alignment explanation
Indices: 269302--269342 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
269292 AAAAGAGTGT
*
269302 ATCGATGCAGTTCCTGTGC
1 ATCGATGCACTTCCTGTGC
269321 ATCGATGCACTTCCTGTGC
1 ATCGATGCACTTCCTGTGC
269340 ATC
1 ATC
269343 TATACACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (19 bp):
ATCGATGCACTTCCTGTGC
Found at i:273573 original size:23 final size:23
Alignment explanation
Indices: 273547--273624 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
273537 CACCACAGCT
273547 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * * *
273570 CATATAATTCCACCGGAGTGTCG
1 CATATAATTGCACCGAAGTGCCA
* * *
273593 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
273616 TATAATAAT
1 CAT-ATAAT
273625 GTCCATAAGG
Statistics
Matches: 41, Mismatches: 13, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:273802 original size:104 final size:103
Alignment explanation
Indices: 273631--273952 Score: 554
Period size: 103 Copynumber: 3.1 Consensus size: 103
273621 TAATGTCCAT
* *
273631 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
273696 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
273734 AAGGACCACATATCATTCCTTAAAAAATCATATACATATTCCAAGGATCAAGTATGTGCCTCACC
1 AAGGACCACATATCATTCCTT-AAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACC
273799 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
273838 AAGAACCATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
273903 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
273941 AATGACCACATA
1 AAGGACCACATA
273953 GACCCTCGAC
Statistics
Matches: 205, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
103 109 0.53
104 96 0.47
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:282595 original size:3 final size:3
Alignment explanation
Indices: 282587--282646 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
282577 TGCAATAAAA
* * * *
282587 AAT AAT AAT AAAT ATT AAT AGT AAT AAT AGT AAT ATT AAAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
282634 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
282647 TTAAATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
3 42 0.89
4 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:282620 original size:25 final size:25
Alignment explanation
Indices: 282608--282663 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
282598 ATATTAATAG
* * *
282608 TAATAATAGTAATATTAAATAATAA
1 TAATAATAATAATAATAAATATTAA
*
282633 TAATAATAATAATATTAAATATTAA
1 TAATAATAATAATAATAAATATTAA
*
282658 TTATAA
1 TAATAA
282664 CCAGGAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
TAATAATAATAATAATAAATATTAA
Found at i:282653 original size:22 final size:21
Alignment explanation
Indices: 282587--282643 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
282577 TGCAATAAAA
*
282587 AATAATAATAAATATTAATAGT
1 AATAATAAT-AATATTAATAAT
*
282609 AATAATAGTAATATTAAATAAT
1 AATAATAATAATATT-AATAAT
282631 AATAATAATAATA
1 AATAATAATAATA
282644 ATATTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
AATAATAATAATATTAATAAT
Found at i:283298 original size:2 final size:2
Alignment explanation
Indices: 283291--283315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
283281 GCTAATGTCA
283291 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 A
283316 AATAATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:284108 original size:20 final size:20
Alignment explanation
Indices: 284085--284126 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
284075 CGGTAAAAAT
*
284085 ATGATAAAACCGGTCTCAAA
1 ATGACAAAACCGGTCTCAAA
284105 ATGACAAAACCGGTCTCAAA
1 ATGACAAAACCGGTCTCAAA
284125 AT
1 AT
284127 ACTTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.19
Consensus pattern (20 bp):
ATGACAAAACCGGTCTCAAA
Found at i:284261 original size:160 final size:157
Alignment explanation
Indices: 283967--284278 Score: 480
Period size: 160 Copynumber: 2.0 Consensus size: 157
283957 TGAAAGTGTC
* **
283967 AATACTTTATTATAAGTGTCGACACTTTTGGAATTTAAAAGACAAGCAGTAATAGCGTCTATAAA
1 AATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCAGTAATAGCACCTATAAA
* * * * * * *
284032 GTGTCGATACTTTAAAAAATGTATCGACACTTAACAATGCAACCGGTAAAAATATGATAAAACCG
66 ATGTCAAGACTTAAAAAAATGAATCGACACTTAACAATACAACAGGTAAAAATATGATAAAACCG
284097 GTCTCAAAATGACAAAACCGGTCTCAA
131 GTCTCAAAATGACAAAACCGGTCTCAA
*
284124 AATACTTTATTATAAGTATCGACACACTTTTGGACTTTAAAAGACAAGCAGTAATAGCACCTATA
1 AATACTTTATTATAAGTATCG--ACACTTTTGGAATTTAAAAGACAAGCAGTAATAGCACCTATA
* *
284189 AAATGTCAAGACATTAAAAAAATGAATCGACACTTAACAATATAACATGTAAAAATATGATAAAA
64 AAATGTCAAGAC-TTAAAAAAATGAATCGACACTTAACAATACAACAGGTAAAAATATGATAAAA
284254 CCGGTCTCAAAATGACAAAACCGGT
128 CCGGTCTCAAAATGACAAAACCGGT
284279 AAAGAGTCAC
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
157 20 0.14
159 48 0.35
160 71 0.51
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (157 bp):
AATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCAGTAATAGCACCTATAAA
ATGTCAAGACTTAAAAAAATGAATCGACACTTAACAATACAACAGGTAAAAATATGATAAAACCG
GTCTCAAAATGACAAAACCGGTCTCAA
Found at i:286320 original size:22 final size:23
Alignment explanation
Indices: 286270--286324 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
286260 AACATTTTTG
*
286270 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
286292 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
286315 TTTTATTATA
1 TTTTATTATA
286325 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 4 0.14
24 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:287022 original size:18 final size:18
Alignment explanation
Indices: 286999--287037 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
286989 GAAAAAATAT
286999 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
287017 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
287035 GAA
1 GAA
287038 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:288638 original size:19 final size:20
Alignment explanation
Indices: 288578--288647 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
288568 AATGTAGGGT
288578 TAATTTTGTATATAGGTTTA
1 TAATTTTGTATATAGGTTTA
288598 TAATTTTGTATATAGGTTTA
1 TAATTTTGTATATAGGTTTA
* *
288618 TAATTTTGTATA-CGATTTA
1 TAATTTTGTATATAGGTTTA
288637 TAATTTTGTAT
1 TAATTTTGTAT
288648 GTGAATGTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 16 0.33
20 32 0.67
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (20 bp):
TAATTTTGTATATAGGTTTA
Found at i:289172 original size:20 final size:20
Alignment explanation
Indices: 289149--289192 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
289139 TAATGAAATA
289149 GGTAATTTTTCAATGTAACC
1 GGTAATTTTTCAATGTAACC
*
289169 GGTACTTTTTCAATGTAACC
1 GGTAATTTTTCAATGTAACC
289189 GGTA
1 GGTA
289193 TAAATATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
GGTAATTTTTCAATGTAACC
Found at i:289597 original size:199 final size:200
Alignment explanation
Indices: 289179--289983 Score: 1274
Period size: 199 Copynumber: 4.0 Consensus size: 200
289169 GGTACTTTTT
* * * *
289179 CAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTT
1 CAATGTAACCGATATAAATTTACC-GATTTATGAGAAAATAGGTCTACATAATGTATCGACACTT
* * *
289244 GTGGAACTTGTGTCGATACTTTTTGTCCAAAATGAACGCCCAAAAGGAGTGCACGCATAAAGTGT
65 GTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAAGTGT
*
289309 TGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
130 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
289374 AATTTA
195 AATTTA
* * * *
289380 CAATCTAACCGGTATAAATTTATCGATTTATGAGAAAATAGGTCTACATAATGTATCGACACTTA
1 CAATGTAACCGATATAAATTTACCGATTTATGAGAAAATAGGTCTACATAATGTATCGACACTTG
*
289445 TGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAGGGGTGCATGCATAAAGTGTC
66 TGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAAGTGTC
* * * * *
289509 GATACATTTATAAAACGTATCGATCTCAAAAACATCAAAACCTATAATTATAATATAATAGGTAA
131 GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
289574 ATTTA
196 ATTTA
* ** *
289579 TAATGTAACCGATATAAATTTAGAGATTTATGAGAAAATAGGTCTACATAATGTATCAACACTTG
1 CAATGTAACCGATATAAATTTACCGATTTATGAGAAAATAGGTCTACATAATGTATCGACACTTG
* *
289644 TGGAACTTGTGTTGATACTTTTTGTCCAGAATGAATTCCCAAAAGGGGTGCACGCATAAAGTGTC
66 TGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAAGTGTC
* *
289709 GATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAA
131 GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
289774 ATTTA
196 ATTTA
* * * *
289779 CAATGTAACC-AGTAGAAATTTACCGGTTTATGAGAAAACAGGTCTACATAATATATCGACACTT
1 CAATGTAACCGA-TATAAATTTACCGATTTATGAGAAAATAGGTCTACATAATGTATCGACACTT
*
289843 GTGGAACTTGTGTCGATACTTTTTGTCTAGAATGAATGCCC-AAAGGGGTGCACGCATAAAGTGT
65 GTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAAGTGT
* *
289907 CGATGCATTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
130 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
289972 AATTTA
195 AATTTA
289978 CAATGT
1 CAATGT
289984 TTGCAGTTGT
Statistics
Matches: 556, Mismatches: 46, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
199 279 0.50
200 256 0.46
201 21 0.04
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (200 bp):
CAATGTAACCGATATAAATTTACCGATTTATGAGAAAATAGGTCTACATAATGTATCGACACTTG
TGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAAGTGTC
GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
ATTTA
Found at i:289957 original size:399 final size:399
Alignment explanation
Indices: 289179--289983 Score: 1324
Period size: 399 Copynumber: 2.0 Consensus size: 399
289169 GGTACTTTTT
* * * *
289179 CAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTT
1 CAATGTAACCGATATAAATATA-CGGATTTATGAGAAAATAGGTCTACATAATGTATCAACACTT
289244 GTGGAACTTGTGTCGATACTTTTTGTCCAAAATGAACGCCCAAAAGGAGTGCACGCATAAAGTGT
65 GTGGAACTTGTGTCGATACTTTTTGTCCAAAATGAACGCCCAAAAGGAGTGCACGCATAAAGTGT
*
289309 TGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
130 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
* * * * *
289374 AATTTACAATCTAACCGGTATAAATTTATCGATTTATGAGAAAATAGGTCTACATAATGTATCGA
195 AATTTACAATCTAACCAGTAGAAATTTACCGATTTATGAGAAAACAGGTCTACATAATATATCGA
*
289439 CACTTATGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAGGGGTGCATGCATAAA
260 CACTTATGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAGGGGTGCACGCATAAA
* *
289504 GTGTCGATACATTTATAAAACGTATCGATCTCAAAAACATCAAAACCTATAATTATAATATAATA
325 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCAAAACCCATAATTATAATATAATA
289569 GGTAAATTTA
390 GGTAAATTTA
* *
289579 TAATGTAACCGATATAAATTTA-GAGATTTATGAGAAAATAGGTCTACATAATGTATCAACACTT
1 CAATGTAACCGATATAAATATACG-GATTTATGAGAAAATAGGTCTACATAATGTATCAACACTT
* * ** *
289643 GTGGAACTTGTGTTGATACTTTTTGTCCAGAATGAATTCCCAAAAGGGGTGCACGCATAAAGTGT
65 GTGGAACTTGTGTCGATACTTTTTGTCCAAAATGAACGCCCAAAAGGAGTGCACGCATAAAGTGT
* *
289708 CGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTA
130 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
* *
289773 AATTTACAATGTAACCAGTAGAAATTTACCGGTTTATGAGAAAACAGGTCTACATAATATATCGA
195 AATTTACAATCTAACCAGTAGAAATTTACCGATTTATGAGAAAACAGGTCTACATAATATATCGA
* *
289838 CACTTGTGGAACTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAAGGGGTGCACGCATAAA
260 CACTTATGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAGGGGTGCACGCATAAA
* * *
289903 GTGTCGATGCATTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
325 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCAAAACCCATAATTATAATATAATA
289968 GGTAAATTTA
390 GGTAAATTTA
289978 CAATGT
1 CAATGT
289984 TTGCAGTTGT
Statistics
Matches: 374, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
398 1 0.00
399 354 0.95
400 19 0.05
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (399 bp):
CAATGTAACCGATATAAATATACGGATTTATGAGAAAATAGGTCTACATAATGTATCAACACTTG
TGGAACTTGTGTCGATACTTTTTGTCCAAAATGAACGCCCAAAAGGAGTGCACGCATAAAGTGTC
GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
ATTTACAATCTAACCAGTAGAAATTTACCGATTTATGAGAAAACAGGTCTACATAATATATCGAC
ACTTATGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAGGGGTGCACGCATAAAG
TGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCAAAACCCATAATTATAATATAATAG
GTAAATTTA
Found at i:290575 original size:19 final size:19
Alignment explanation
Indices: 290551--290598 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
290541 ATGTAGGGGA
290551 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
290570 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
290589 AATTTTGTAT
1 AATTTTGTAT
290599 GTGAGTGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:293549 original size:198 final size:198
Alignment explanation
Indices: 293086--293723 Score: 875
Period size: 198 Copynumber: 3.2 Consensus size: 198
293076 TAAATATGTG
* * * * *
293086 TCGATACCCATAATTATAATGTAATAGGTAAATTTACAATATAACTGGTATAAATTTACCGATTT
1 TCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTT
* * * *
293151 TAAGAGAATATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTATCGATACTTGTTGTCCA
66 TATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAACTTGTGTCGATACTT-TTGTCCA
* ** * ** *
293216 GAATGAATGCCCAAAATGGTGCACGCATAAAGTGTTGATACATTTATAAAAAGTATCGATCCCAA
130 GAATGAATGCTCAAACGGGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGATCCAAA
293281 AAACA
194 AAACA
** * *
293286 TCGAAACCCATAATTATAATGTAATACATAAATTTACAATGTAACCGGTAGACATTTATCGGTTT
1 TCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTT
*
293351 TATGAAAAAATAGGTCTACATAATGTATCGACACTTGTGAAACTTGTGTCGATACATTTTGTCCA
66 TATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAACTTGTGTCGATAC-TTTTGTCCA
*
293416 GAATGAATG-TCAAACGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGCATCGATCCAAAA
130 GAATGAATGCTCAAACGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAA
293480 AACA
195 AACA
* * * * *
293484 TCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATACCGGTTT
1 TCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTT
* * * ** *
293549 TATGAGAAAATAGTTCTACATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAG
66 TATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAACTTGTGTCGATACTTTTGTCCAG
* *
293614 AATGAATGCTC-AACGAGGTGCATGCATAAAGTGTCGATACATTTAAAATTGTATCGATCTAAAA
131 AATGAATGCTCAAACG-GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAA
*
293678 AATA
195 AACA
* * *
293682 TTGAAACCGATAATTATAATGTAATAGGTAAATTTGCAATGT
1 TCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGT
293724 TGTCGGTATA
Statistics
Matches: 390, Mismatches: 45, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
197 21 0.05
198 213 0.55
199 32 0.08
200 122 0.31
201 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (198 bp):
TCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTT
TATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAACTTGTGTCGATACTTTTGTCCAG
AATGAATGCTCAAACGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAA
ACA
Found at i:293898 original size:23 final size:23
Alignment explanation
Indices: 293848--293892 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
293838 TGCCTATTTT
*
293848 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
293871 ATTATATAAGTGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
293893 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:293910 original size:87 final size:87
Alignment explanation
Indices: 293764--293926 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
293754 AAATAGGTCA
*
293764 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACCTGATAATATTT
*
293829 CTGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
293851 ATATAAGCGCTACCTATTACATTATATAAGTGCTACCTAATATGTTATTGTACCTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACCTGATAATATTT
293916 CCGGTTAAATG
66 CCGGTTAAATG
293927 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACCTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:295131 original size:28 final size:27
Alignment explanation
Indices: 295045--295143 Score: 81
Period size: 28 Copynumber: 3.6 Consensus size: 27
295035 TTATGCATTG
* * *
295045 ATTAACAAACCAGCATCGATGTTCCCTT
1 ATTAACAAACAAGCACCG-TGTACCCTT
* * * * * *
295073 AGTAACAAACAAGAACCATTGTGCTCAT
1 ATTAACAAACAAGCACC-GTGTACCCTT
295101 ATTAACAAACAAGCACCGTCGTACCCTT
1 ATTAACAAACAAGCACCGT-GTACCCTT
*
295129 ATTAATAAACAAGCA
1 ATTAACAAACAAGCA
295144 TCATTATGTT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
27 1 0.02
28 53 0.98
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.23
Consensus pattern (27 bp):
ATTAACAAACAAGCACCGTGTACCCTT
Found at i:310006 original size:10 final size:10
Alignment explanation
Indices: 309991--310022 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
309981 TCCTTCTCTA
*
309991 ATTTATCCTC
1 ATTTATCTTC
310001 ATTTATCTTC
1 ATTTATCTTC
310011 ATTTATCTTC
1 ATTTATCTTC
310021 AT
1 AT
310023 CTTGGGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTATCTTC
Found at i:325327 original size:58 final size:58
Alignment explanation
Indices: 325234--325350 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
325224 GTCAATACAG
*
325234 TGGGATCTTATTCAGCTAATCATGGGACCAGATAACATAAGGTAAATCGAGAGAACAC
1 TGGGATCTTATTCAGCTAATCATGGGACCAGATAACATAAGGTAAATCGAAAGAACAC
* * *
325292 TGGGATCTTATTCAGCTAATCATGGGACCATATAACATAAGGTGAATTGAAAGAACAC
1 TGGGATCTTATTCAGCTAATCATGGGACCAGATAACATAAGGTAAATCGAAAGAACAC
325350 T
1 T
325351 TATATTGACC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (58 bp):
TGGGATCTTATTCAGCTAATCATGGGACCAGATAACATAAGGTAAATCGAAAGAACAC
Found at i:328482 original size:10 final size:10
Alignment explanation
Indices: 328467--328515 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
328457 AACTAAAAAT
328467 AAAATAATAA
1 AAAATAATAA
328477 AAAATAATAA
1 AAAATAATAA
328487 AAAAT-A-AA
1 AAAATAATAA
328495 AAAATAAT-A
1 AAAATAATAA
*
328504 ATAATAATAA
1 AAAATAATAA
328514 AA
1 AA
328516 TAACTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.21
9 10 0.29
10 17 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAATAA
Found at i:328485 original size:3 final size:3
Alignment explanation
Indices: 328464--328518 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
328454 TGTAACTAAA
*
328464 AAT AA- AAT AAT AA- AA- AAT AAT AA- AA- AAT AA- AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
328506 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
328519 CTAAATAGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
2 14 0.30
3 32 0.70
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:328485 original size:18 final size:18
Alignment explanation
Indices: 328464--328515 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 18
328454 TGTAACTAAA
328464 AATAAAATAATAAAAAAT
1 AATAAAATAATAAAAAAT
328482 AATAAAA-AATAAAAAAAT
1 AATAAAATAAT-AAAAAAT
328500 AATAATAATAATAAAA
1 AATAA-AATAATAAAA
328516 TAACTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.10
18 19 0.61
19 6 0.19
20 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAAATAATAAAAAAT
Found at i:328516 original size:17 final size:16
Alignment explanation
Indices: 328461--328518 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 16
328451 TATTGTAACT
328461 AAAAATAA-AATAATA
1 AAAAATAATAATAATA
*
328476 AAAAATAATAAAAAATAA
1 AAAAATAAT-AATAAT-A
328494 AAAAATAATAATAATA
1 AAAAATAATAATAATA
328510 ATAAAATAA
1 A-AAAATAA
328519 CTAAATAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 8 0.22
16 2 0.05
17 17 0.46
18 10 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAATAATAATAATA
Found at i:328518 original size:25 final size:25
Alignment explanation
Indices: 328461--328515 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
328451 TATTGTAACT
*
328461 AAAAATAAAATAATAAAAAATAATA
1 AAAAATAAAAAAATAAAAAATAATA
328486 AAAAATAAAAAAATAATAATAATAATA
1 AAAAATAAAAAAATAA-AA-AATAATA
328513 AAA
1 AAA
328516 TAACTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.56
26 2 0.07
27 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (25 bp):
AAAAATAAAAAAATAAAAAATAATA
Found at i:328523 original size:9 final size:8
Alignment explanation
Indices: 328464--328523 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
328454 TGTAACTAAA
328464 AATAAAAT
1 AATAAAAT
328472 AATAAAA-
1 AATAAAAT
328479 AAT--AAT
1 AATAAAAT
328485 AA-AAAAT
1 AATAAAAT
*
328492 AAAAAAAT
1 AATAAAAT
328500 AATAATAAT
1 AATAA-AAT
328509 AATAAAAT
1 AATAAAAT
328517 AACTAAA
1 AA-TAAA
328524 TAGAGATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
7 8 0.18
8 21 0.47
9 12 0.27
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (8 bp):
AATAAAAT
Found at i:328668 original size:4 final size:4
Alignment explanation
Indices: 328655--328694 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
328645 TATATATAGG
* *
328655 TAAA TGAA TAAA TAAT TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
328695 AGGGACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:329906 original size:3 final size:3
Alignment explanation
Indices: 329898--329928 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
329888 AATGAAAAGA
*
329898 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
329929 TAGACTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:329945 original size:16 final size:16
Alignment explanation
Indices: 329903--329948 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
329893 AAAGAAATAA
*
329903 TAATAATAATA-ATAC
1 TAATAATAATATAGAC
329918 TAATAATAATATAGAC
1 TAATAATAATATAGAC
329934 TATATAATATATATA
1 TA-ATAATA-ATATA
329949 TCTCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.41
16 5 0.19
17 6 0.22
18 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (16 bp):
TAATAATAATATAGAC
Found at i:330047 original size:32 final size:32
Alignment explanation
Indices: 330011--330078 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
330001 ACTATATACC
330011 ATAT-AGTTTTCAAAAATGA-TTTTAAAAATATT
1 ATATAAGTTTTCAAAAAT-ATTTTTAAAAATA-T
* *
330043 ATATAAGTTTTCCAAAATATTTTTAAAACTAT
1 ATATAAGTTTTCAAAAATATTTTTAAAAATAT
330075 ATAT
1 ATAT
330079 TATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.31
33 22 0.69
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (32 bp):
ATATAAGTTTTCAAAAATATTTTTAAAAATAT
Found at i:330096 original size:37 final size:37
Alignment explanation
Indices: 330038--330239 Score: 120
Period size: 35 Copynumber: 5.5 Consensus size: 37
330028 GATTTTAAAA
* * *
330038 ATATTATATAAGTTTTCCAAAATATTTTTAAAACTAT
1 ATATTATATAAATTTTTCAAAATAGTTTTAAAACTAT
*
330075 ATATTATATAAATTTTTCAAAA-ATGTTTTTTTTAAACTAT
1 ATATTATATAAATTTTTCAAAATA-G---TTTTAAAACTAT
* * *
330115 ACA-T-TAT--A-TTTTCAAAAT-GATTTCAAAAATAT
1 ATATTATATAAATTTTTCAAAATAG-TTTTAAAACTAT
*
330147 ATGTTATAT-AA-TTTTCAAAAT-GTTTTAAAACTTAT
1 ATATTATATAAATTTTTCAAAATAGTTTTAAAAC-TAT
* * **
330182 ATATTGTATATAAGTTTTCAAAA-ACGTTTTAAAAAAACT
1 ATATTATATA-AATTTTTCAAAATA-GTTTTAAAACTA-T
330221 ATATTATATATATATTTTT
1 ATATTATATA-A-ATTTTT
330240 GGAAACCGTT
Statistics
Matches: 130, Mismatches: 19, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
32 10 0.08
33 1 0.01
34 11 0.08
35 31 0.24
36 2 0.02
37 22 0.17
38 13 0.10
39 22 0.17
40 18 0.14
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (37 bp):
ATATTATATAAATTTTTCAAAATAGTTTTAAAACTAT
Found at i:330166 original size:107 final size:108
Alignment explanation
Indices: 330012--330211 Score: 268
Period size: 107 Copynumber: 1.9 Consensus size: 108
330002 CTATATACCA
* *
330012 TATAGTTTTCAAAAATGATTTTAAAAATATTATATAAGTTTTCCAAAATATTTTTAAAAC-TATA
1 TATAGTTTTCAAAAATGATTTAAAAAATATTATATAAGTTTTCCAAAAT-GTTTTAAAACTTATA
* *
330076 TATTATATA-AATTTTTCAAAAATGTTTTTTTTAAACTATACAT
65 TATTATATATAAGTTTTCAAAAACGTTTTTTTTAAACTATACAT
330119 TATA-TTTTC-AAAATGATTTCAAAAATATATGTTATATAA-TTTT-CAAAATGTTTTAAAACTT
1 TATAGTTTTCAAAAATGATTT-AAAAA-ATA--TTATATAAGTTTTCCAAAATGTTTTAAAACTT
*
330180 ATATATTGTATATAAGTTTTCAAAAACGTTTT
62 ATATATTATATATAAGTTTTCAAAAACGTTTT
330212 AAAAAAACTA
Statistics
Matches: 82, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
105 10 0.12
106 18 0.22
107 25 0.30
108 21 0.26
109 8 0.10
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (108 bp):
TATAGTTTTCAAAAATGATTTAAAAAATATTATATAAGTTTTCCAAAATGTTTTAAAACTTATAT
ATTATATATAAGTTTTCAAAAACGTTTTTTTTAAACTATACAT
Found at i:330224 original size:39 final size:36
Alignment explanation
Indices: 330122--330238 Score: 103
Period size: 39 Copynumber: 3.1 Consensus size: 36
330112 TATACATTAT
* * *
330122 ATTTTCAAAATGATTT-CAAAAATATAT-GTTATATA
1 ATTTTCAAAACGTTTTAAAAAAATATATTG-TATATA
* **
330157 ATTTTCAAAATGTTTTAAAACTTATATATTGTATATA
1 ATTTTCAAAACGTTTTAAAA-AAATATATTGTATATA
*
330194 AGTTTTCAAAAACGTTTTAAAAAAACTATATTATATATA
1 A-TTTTC-AAAACGTTTTAAAAAAA-TATATTGTATATA
330233 TATTTT
1 -ATTTT
330239 TGGAAACCGT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
35 15 0.22
36 2 0.03
37 13 0.19
38 7 0.10
39 29 0.43
40 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
ATTTTCAAAACGTTTTAAAAAAATATATTGTATATA
Found at i:331022 original size:84 final size:84
Alignment explanation
Indices: 330924--332120 Score: 1204
Period size: 84 Copynumber: 14.4 Consensus size: 84
330914 GCATGTAATT
* * * ** * * *
330924 GAACTCGGAGGTCTTCGGTTGGCAGATAACCCTTCTTGACTTAAACTATACTGCAAATGATATGT
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
330989 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * *
331008 GAACTCAAAGGTCTTTGGTTGG-AGAATAACCCTTCTCGACTTAAGTTATGCCGTAAATGATGTG
1 GAACTCGAAGGTCTTTGGTTGGCAG-ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * * *
331072 CCCTCGAAGCTGAGTGTAATC
65 -CCTTGGAGCTGAGCGTAGTC
* * ** ** *
331093 GAACTC-AGGGGTC-TT--TTGGCAGATAACCCTTCTTGACTTAAACTATATTGCAAATGATATG
1 GAACTCGA-AGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
331154 CCTTGGAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
* * * * * *
331174 GAACTCAAAGGTCTTTGGTTGGCGGATAACCCTTCTCAACTTAAGTTATGCCGCAAATAATGTTC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG-TG
* * * *
331239 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
* * *
331259 GAACTC-AGGGGTC-TT--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 GAACTCGA-AGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
331320 CCGTT-GAGCTGAGCGTAGTC
65 CC-TTGGAGCTGAGCGTAGTC
* * * * *
331340 GAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
331405 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * * * * *
331424 GAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGACGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
* * * *
331488 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
** * * * *
331508 GAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGTAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
*
331569 CTTGGAGCTGAGCGTGGTC
66 CTTGGAGCTGAGCGTAGTC
* * *
331588 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
331653 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * * * * *
331672 GAACTCAAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
* * * *
331736 CCTCT-AAGCTAAGTGTAATC
65 CCT-TGGAGCTGAGCGTAGTC
* * *
331756 GAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* *
331817 CTTGGAGCTGGGCGTGGTC
66 CTTGGAGCTGAGCGTAGTC
* * * *
331836 GAACTCGAAGGTCTTTAGTTGGCATATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATGTAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-G
* * * *
331901 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
* * * * *
331921 GAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
* * ** * *
331985 CCTCGAAGAAGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
** * * *
332005 GAACTCGTGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
332066 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* *
332085 GAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCT
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
332121 TGTCTTGAGC
Statistics
Matches: 904, Mismatches: 172, Indels: 74
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.00
80 75 0.08
81 163 0.18
82 86 0.10
83 79 0.09
84 416 0.46
85 84 0.09
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTC
Done.