Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 56 of 65
Found at i:11031673 original size:14 final size:15
Alignment explanation
Indices: 11031654--11031688 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
11031644 GGTCTGTAAT
11031654 TATTTATTT-ATATA
1 TATTTATTTAATATA
11031668 TATTTATTTAATATA
1 TATTTATTTAATATA
11031683 TATTTA
1 TATTTA
11031689 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:11031695 original size:3 final size:3
Alignment explanation
Indices: 11031687--11031751 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
11031677 AATATATATT
11031687 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11031735 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
11031752 TTATGGATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11032303 original size:113 final size:113
Alignment explanation
Indices: 11032040--11033162 Score: 1736
Period size: 113 Copynumber: 9.9 Consensus size: 113
11032030 ATCTCCTTCT
* * * * *
11032040 GTGATAGAATT-ATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCA
1 GTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
11032104 GATGAGTTCTTCTCATTATGAA-CTTCTCTGG-AAAAGATAATCCATCAA
65 GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAA-ATAATCCATCAA
* * *
11032152 TTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
11032217 ATGAGTTCTTCTCATTATGAACCTTCTATGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
* * *
11032265 GTGATGAATTCAGGTAAAAGGTTGAACAAATTCGTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
11032330 ATGAGTTCTTCTTATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
* * *
11032378 GTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCCCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
11032443 ATGAGTTCTTCTTATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
* *
11032491 GTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
11032556 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
* * *
11032604 GTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTTTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
11032669 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
*
11032717 GTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
11032782 AAGAGTTCTTCTAATTATGAACCTTCTCTGACAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
*
11032830 GTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* ** *
11032895 ATGAGTTCTTCTAATTATGAACCTTCTCTGG-AAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA-AATAATCCATCAA
* * * * *
11032943 ATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* ** *
11033008 ATGAGTTCTTCTAATTATGAACCTTCTCTGG-AAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA-AATAATCCATCAA
* * * *
11033056 ATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
11033121 ATGAATTCTTCTCATTATTAACTTTCTCTGG-AAAAGATAATC
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAA-ATAATC
11033163 TTTCAAATGA
Statistics
Matches: 958, Mismatches: 48, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
111 5 0.01
112 75 0.08
113 874 0.91
114 4 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (113 bp):
GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAA
Found at i:11034052 original size:83 final size:83
Alignment explanation
Indices: 11033913--11034071 Score: 309
Period size: 83 Copynumber: 1.9 Consensus size: 83
11033903 GTTCCTACCA
*
11033913 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCACATTCATCTTCTAAATT
11033978 CAATGATTGGTTCTGTCT
66 CAATGATTGGTTCTGTCT
11033996 AACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCACATTCATCTTCTAAATT
11034061 CAATGATTGGT
66 CAATGATTGGT
11034072 CTAGGATATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCACATTCATCTTCTAAATT
CAATGATTGGTTCTGTCT
Found at i:11035164 original size:7 final size:6
Alignment explanation
Indices: 11035148--11035187 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
11035138 CTTGACCCCC
11035148 CTTTTT CTTTTT AC-TTTT -TTTTT CTTTTT -TTTTT CTTTTT
1 CTTTTT CTTTTT -CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
11035188 TTCAAGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 9 0.30
6 20 0.67
7 1 0.03
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:11035176 original size:11 final size:11
Alignment explanation
Indices: 11035148--11035189 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
11035138 CTTGACCCCC
11035148 CTTTTTCTTTTT
1 CTTTTT-TTTTT
11035160 AC-TTTTTTTTT
1 -CTTTTTTTTTT
11035171 CTTTTTTTTTT
1 CTTTTTTTTTT
11035182 CTTTTTTT
1 CTTTTTTT
11035190 CAAGCATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 22 0.79
12 4 0.14
13 1 0.04
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:11035186 original size:17 final size:18
Alignment explanation
Indices: 11035148--11035187 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
11035138 CTTGACCCCC
11035148 CTTTTTCTTTTTACTTTT
1 CTTTTTCTTTTTACTTTT
*
11035166 -TTTTTCTTTTT-TTTTT
1 CTTTTTCTTTTTACTTTT
11035182 CTTTTT
1 CTTTTT
11035188 TTCAAGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
CTTTTTCTTTTTACTTTT
Found at i:11046651 original size:18 final size:19
Alignment explanation
Indices: 11046628--11046665 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11046618 AATATATTTA
11046628 AAAACA-ATAAAATAACTG
1 AAAACATATAAAATAACTG
11046646 AAAACATATAAAATAACTG
1 AAAACATATAAAATAACTG
11046665 A
1 A
11046666 CTAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAACATATAAAATAACTG
Found at i:11048007 original size:14 final size:15
Alignment explanation
Indices: 11047988--11048022 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
11047978 GGTCTGTAAT
11047988 TATTTATTT-ATATA
1 TATTTATTTAATATA
11048002 TATTTATTTAATATA
1 TATTTATTTAATATA
11048017 TATTTA
1 TATTTA
11048023 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:11048029 original size:3 final size:3
Alignment explanation
Indices: 11048021--11048100 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
11048011 AATATATATT
*
11048021 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11048069 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11048101 TTATGGATAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11051366 original size:26 final size:26
Alignment explanation
Indices: 11051337--11051392 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
11051327 GAACTAAGTG
11051337 GAAGTACAACAAATATCCAAAACGTA
1 GAAGTACAACAAATATCCAAAACGTA
**
11051363 GAAGTACAACATGTATCCAAAACGTA
1 GAAGTACAACAAATATCCAAAACGTA
11051389 GAAG
1 GAAG
11051393 CATCTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (26 bp):
GAAGTACAACAAATATCCAAAACGTA
Found at i:11057504 original size:23 final size:23
Alignment explanation
Indices: 11057460--11057508 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11057450 ATAAAGAACC
*
11057460 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
11057483 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
11057506 AAA
1 AAA
11057509 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:11063140 original size:23 final size:23
Alignment explanation
Indices: 11063096--11063144 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11063086 ATAAAGAACC
*
11063096 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
11063119 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
11063142 AAA
1 AAA
11063145 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:11066200 original size:13 final size:13
Alignment explanation
Indices: 11066182--11066206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11066172 TAAGATTTTT
11066182 ATTTTGAAAAATC
1 ATTTTGAAAAATC
11066195 ATTTTGAAAAAT
1 ATTTTGAAAAAT
11066207 TTACTCCCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
ATTTTGAAAAATC
Found at i:11067832 original size:12 final size:13
Alignment explanation
Indices: 11067815--11067847 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11067805 AATGGGCAAA
*
11067815 TTTGAAAACT-AT
1 TTTGAAAACTAAG
11067827 TTTGAAAACTAAG
1 TTTGAAAACTAAG
11067840 TTTGAAAA
1 TTTGAAAA
11067848 ATTTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACTAAG
Found at i:11070848 original size:24 final size:21
Alignment explanation
Indices: 11070798--11070847 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11070788 GAAGCTTTAA
*
11070798 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTGCTTTTGAT
11070819 GATCATCAATTTGCTTTTGAT
1 GATCATCAATTTGCTTTTGAT
11070840 GATCATCA
1 GATCATCA
11070848 TTAACTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (21 bp):
GATCATCAATTTGCTTTTGAT
Found at i:11070857 original size:20 final size:21
Alignment explanation
Indices: 11070798--11070858 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
11070788 GAAGCTTTAA
**
11070798 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTAACTTTTGAT
**
11070819 GATCATCAATTTGCTTTTGAT
1 GATCATCAATTAACTTTTGAT
11070840 GATCATC-ATTAACTTTTGA
1 GATCATCAATTAACTTTTGA
11070859 AAGTAAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 10 0.27
21 27 0.73
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (21 bp):
GATCATCAATTAACTTTTGAT
Found at i:11070924 original size:20 final size:20
Alignment explanation
Indices: 11070899--11070937 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11070889 TTCAAAATCA
11070899 TTTAAT-TTGACTTGCAAGTC
1 TTTAATCTT-ACTTGCAAGTC
*
11070919 TTTAATCTTACTTTCAAGT
1 TTTAATCTTACTTGCAAGT
11070938 TCATTGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTAATCTTACTTGCAAGTC
Found at i:11078667 original size:19 final size:19
Alignment explanation
Indices: 11078643--11078685 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11078633 ACCGGCTGAA
* *
11078643 AACCGGTAAAACCAGGTTG
1 AACCGGCAAAACCAAGTTG
*
11078662 AACCGGCAAAACCAATTTG
1 AACCGGCAAAACCAAGTTG
11078681 AACCG
1 AACCG
11078686 CCGGTTCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.14
Consensus pattern (19 bp):
AACCGGCAAAACCAAGTTG
Found at i:11079864 original size:30 final size:30
Alignment explanation
Indices: 11079800--11079866 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
11079790 GGTCTGGCAA
* **
11079800 TGAACCGACTGAAAATCGGTAAAATTGGGG
1 TGAACCGACTGAAAATCGGCAAAACCGGGG
* **
11079830 TGAACCGGCTGAAAATCGGCAAAACCGGTT
1 TGAACCGACTGAAAATCGGCAAAACCGGGG
11079860 TGAACCG
1 TGAACCG
11079867 CTGGTTCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (30 bp):
TGAACCGACTGAAAATCGGCAAAACCGGGG
Found at i:11081659 original size:32 final size:32
Alignment explanation
Indices: 11081618--11081686 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
11081608 TTTAAAAAAT
*
11081618 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGA
1 AATTAAGAATGTT-ATGGTGGAAA-AATTTAAGA
*
11081650 AATTAAGAATGTTATGGTGGTAAAATTTAAGA
1 AATTAAGAATGTTATGGTGGAAAAATTTAAGA
11081682 AATTA
1 AATTA
11081687 GAAATTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 28 0.85
33 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.36
Consensus pattern (32 bp):
AATTAAGAATGTTATGGTGGAAAAATTTAAGA
Found at i:11082732 original size:3 final size:3
Alignment explanation
Indices: 11082713--11082746 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
11082703 TTCCTAGTTA
*
11082713 TAT TAT AAT TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11082747 CAAATAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11089813 original size:17 final size:17
Alignment explanation
Indices: 11089791--11089825 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11089781 TTGTGTAAAA
11089791 TCGTTGACCGTTGACCG
1 TCGTTGACCGTTGACCG
*
11089808 TCGTTGATCGTTGACCG
1 TCGTTGACCGTTGACCG
11089825 T
1 T
11089826 TGACTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.26, G:0.29, T:0.34
Consensus pattern (17 bp):
TCGTTGACCGTTGACCG
Found at i:11092983 original size:17 final size:17
Alignment explanation
Indices: 11092957--11092989 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11092947 TTTTTGATTC
11092957 GAGTAATTATATATGTA
1 GAGTAATTATATATGTA
*
11092974 GAGTATTTATATATGT
1 GAGTAATTATATATGT
11092990 TAGCAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
GAGTAATTATATATGTA
Found at i:11095775 original size:20 final size:19
Alignment explanation
Indices: 11095746--11095787 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
11095736 GAAATTAGGG
11095746 TTTTTTTAT-AAATATAATA
1 TTTTTTTATAAAATATAA-A
11095765 TTTTTTATATAAAATATAAA
1 TTTTTT-TATAAAATATAAA
11095785 TTT
1 TTT
11095788 CAAATCCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTTTATAAAATATAAA
Found at i:11099217 original size:18 final size:18
Alignment explanation
Indices: 11099194--11099232 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
11099184 AAAACATAAC
11099194 AAAGTATTTCTAATCCAA
1 AAAGTATTTCTAATCCAA
11099212 AAAGTATTTCTAATCCAA
1 AAAGTATTTCTAATCCAA
11099230 AAA
1 AAA
11099233 AACACATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAGTATTTCTAATCCAA
Found at i:11100727 original size:18 final size:17
Alignment explanation
Indices: 11100685--11100745 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
11100675 TCTCTACGGT
*
11100685 GGATGAATCGACCGAAGGA
1 GGATGAA-CGACC-AAAGA
11100704 GG-TGAACGACCAAAGAA
1 GGATGAACGACCAAAG-A
*
11100721 GGATGAACGATCGAAAGA
1 GGATGAACGA-CCAAAGA
11100739 GGATGAA
1 GGATGAA
11100746 TCGATTGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 3 0.08
17 8 0.22
18 19 0.51
19 7 0.19
ACGTcount: A:0.43, C:0.13, G:0.34, T:0.10
Consensus pattern (17 bp):
GGATGAACGACCAAAGA
Found at i:11102261 original size:17 final size:17
Alignment explanation
Indices: 11102234--11102274 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
11102224 AAATAATAAT
*
11102234 TTTTATTTTTGTGACACA
1 TTTT-TTTTTGTAACACA
11102252 TTTTTTTTTGTAACACA
1 TTTTTTTTTGTAACACA
11102269 TTTTTT
1 TTTTTT
11102275 GTCTGCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (17 bp):
TTTTTTTTTGTAACACA
Found at i:11103192 original size:2 final size:2
Alignment explanation
Indices: 11103185--11103211 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11103175 CAAAGAAAAT
11103185 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11103212 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11105245 original size:76 final size:77
Alignment explanation
Indices: 11105133--11105353 Score: 286
Period size: 76 Copynumber: 2.9 Consensus size: 77
11105123 TAAGAAATAC
*
11105133 GGTTGTGTCCAATAATATC-TGGTTCACTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTT
1 GGTTGTGTCCAAAAATATCATGGTTCACTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTT
*
11105197 ATTAATAAAATT
66 ATTAATAAAATG
* * * * * *
11105209 GGTTGTGCCCAAAAATATCATGGTTCGCTAAG-AATAGGTTGTGATATGAAATTTTAATATTTTT
1 GGTTGTGTCCAAAAATATCATGGTTCACTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTT
11105273 ATTAATAAAATG
66 ATTAATAAAATG
** * * * *
11105285 GGTTACGTCCAAGAATGA-CATGATTCACTAAGAAATAAATTGCGATCTGGAATGTTAATATTTT
1 GGTTGTGTCCAAAAAT-ATCATGGTTCACTAAGAAATAGATTGTGATCTGGAATGTTAATATTTT
11105349 TATTA
65 TATTA
11105354 GTTAAAAACA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
76 80 0.66
77 42 0.34
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (77 bp):
GGTTGTGTCCAAAAATATCATGGTTCACTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTT
ATTAATAAAATG
Found at i:11105742 original size:102 final size:100
Alignment explanation
Indices: 11105611--11105965 Score: 342
Period size: 101 Copynumber: 3.5 Consensus size: 100
11105601 TCTATACTTT
* ** *
11105611 TTTTTAAATTATCAACCGTTTACATTATATGT-TTAAAGCCGTTTATATTATAAAAAAGTAAAAC
1 TTTTT-AATTGTCAACCGTTTAGGTTATATGTATTAAA-CCGTTTATATTATACAAAAGTAAAAC
* * * *
11105675 AAAACAGGTTTATAAGTTTAACATTATAGGTTGTACCC
64 AAAATAAGTTTATAAGTATAACATTATAGGTAGT-CCC
* * * *
11105713 ATTTTTAATTGTCAACCATTTAGGTTATAT-TTTTGAAACCGTCTT-TATCATACAAAAGTACAA
1 -TTTTTAATTGTCAACCGTTTAGGTTATATGTATT-AAACCGT-TTATATTATACAAAAGTAAAA
* * *
11105776 CAAAATATGTTTTTAAGTATAACATTATAGCTAG-CGCC
63 CAAAATAAGTTTATAAGTATAACATTATAGGTAGTC-CC
** * * * * * *
11105814 TTTTTTAATTGTCAATTGTTTATGTTATATGTGTGAAACCTTTTATATTATGCAAAAGTAAGACA
1 -TTTTTAATTGTCAACCGTTTAGGTTATATGTATTAAACCGTTTATATTATACAAAAGTAAAACA
* * *
11105879 AAATAAATTTATAAGTATAATATTATAGGTAGT-GC
65 AAATAAGTTTATAAGTATAACATTATAGGTAGTCCC
*
11105914 TTTTGCTAATTGTTAACCGTTTAGGTTATATGTATTAAACCGTTTATATTAT
1 TTTT--TAATTGTCAACCGTTTAGGTTATATGTATTAAACCGTTTATATTAT
11105966 TAAATATAAT
Statistics
Matches: 205, Mismatches: 38, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
99 4 0.02
100 4 0.02
101 116 0.57
102 71 0.35
103 10 0.05
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (100 bp):
TTTTTAATTGTCAACCGTTTAGGTTATATGTATTAAACCGTTTATATTATACAAAAGTAAAACAA
AATAAGTTTATAAGTATAACATTATAGGTAGTCCC
Found at i:11110612 original size:16 final size:16
Alignment explanation
Indices: 11110574--11110620 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
11110564 TAAGTTAAAG
* * *
11110574 TTTTAGTTTAAATTTA
1 TTTTAATTTAATTTTT
*
11110590 TTCTAATTTAATTTTT
1 TTTTAATTTAATTTTT
11110606 TTTTAATTT-ATTTTT
1 TTTTAATTTAATTTTT
11110621 ATTACTTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTAATTTAATTTTT
Found at i:11116247 original size:97 final size:96
Alignment explanation
Indices: 11116056--11116450 Score: 334
Period size: 97 Copynumber: 4.0 Consensus size: 96
11116046 TTATTACTTT
* ** *
11116056 CTTTCA-AAATAGAATCATACTTGATT-TCCAAAAAAATAAATTCAATCCACCGATTTATTTTCT
1 CTTTCATAAACAGAATCATACAAGATTCT-CAAAAAAATAAATTCAAT-----GATTTATTTCCT
* * *
11116119 TTTAC-AAATCATGAAAATAAATCCAACGATTTATTTT
60 TTTTCAAAAT-ATGAAAATAAATTCAACGATTTATTTC
* *
11116156 CTTTCATAAACAAAAATCATACAAGATT-TCCAAAAAAATAAATTCAATGATTTATTTCCTTTTG
1 CTTTCATAAAC-AGAATCATACAAGATTCT-CAAAAAAATAAATTCAATGATTTATTTCCTTTTT
11116220 CAAAATA-GCAAAATAAATTCAACGATTTATTTC
64 CAAAATATG-AAAATAAATTCAACGATTTATTTC
* * * ** * *
11116253 CTTTTACAT-ATCAGAATCATATAAGATTCTTAGGAAAATAAATTTACTGATTTATTTCCTTTTT
1 C-TTT-CATAAACAGAATCATACAAGATTCTCAAAAAAATAAATTCAATGATTTATTTCCTTTTT
*
11116317 CAAAATATGAAAATAAATTCTACGATTTATTTC
64 CAAAATATGAAAATAAATTCAACGATTTATTTC
* * ** * ** * ** *
11116350 CTTTTACAGATTAGAATCATACAAGATTCTTAGGAAAATAAATTTACCGATTTATTTCTTTTTTC
1 CTTTCATA-AACAGAATCATACAAGATTCTCAAAAAAATAAATTCAATGATTTATTTCCTTTTTC
* * * * *
11116415 TAAACAGGAAAATAAATTCAATGATTTATTTT
65 AAAATATGAAAATAAATTCAACGATTTATTTC
11116447 CTTT
1 CTTT
11116451 TACAAAACAG
Statistics
Matches: 255, Mismatches: 30, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
95 1 0.00
96 4 0.02
97 194 0.76
98 11 0.04
99 3 0.01
100 6 0.02
101 3 0.01
102 33 0.13
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (96 bp):
CTTTCATAAACAGAATCATACAAGATTCTCAAAAAAATAAATTCAATGATTTATTTCCTTTTTCA
AAATATGAAAATAAATTCAACGATTTATTTC
Found at i:11116424 original size:39 final size:38
Alignment explanation
Indices: 11116381--11116492 Score: 136
Period size: 39 Copynumber: 2.9 Consensus size: 38
11116371 CAAGATTCTT
* *
11116381 AGGAAAATAAATTTACCGATTTATTTCTTTTTTCTAAAC
1 AGGAAAATAAATTTA-CGATTTATTTCTTTTTACAAAAC
* *
11116420 AGGAAAATAAATTCAATGATTTATTT-TCTTTTACAAAAC
1 AGGAAAATAAATT-TACGATTTATTTCT-TTTTACAAAAC
*
11116459 AGGAAAATAAATTTTACGATTTATTTCCTTTTAC
1 AGGAAAATAAA-TTTACGATTTATTTCTTTTTAC
11116493 GAATCAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.02
39 58 0.94
40 3 0.05
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (38 bp):
AGGAAAATAAATTTACGATTTATTTCTTTTTACAAAAC
Found at i:11116442 original size:136 final size:136
Alignment explanation
Indices: 11116284--11116627 Score: 404
Period size: 136 Copynumber: 2.5 Consensus size: 136
11116274 TAAGATTCTT
* * *
11116284 AGGAAAATAAATTTACTGATTTATTTCCTTTTTCAAAATATGAAAATAAATTCTACGATTTATTT
1 AGGAAAATAAATTCAATGATTTATTTCCTTTTTCAAAATAAGAAAATAAATTCTACGATTTATTT
* * * * * *
11116349 CCTTTTAC-AGATTAGAATCATACAAGATTCTTAGGAAAATAAATTTACCGATTTATTTCTTTTT
66 CCTTTTACGA-ATCAGAATCATACAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTT
* *
11116413 TCTAAAC
130 ACAAAAC
* * * * *
11116420 AGGAAAATAAATTCAATGATTTATTTTCTTTTACAAAACAGGAAAATAAATTTTACGATTTATTT
1 AGGAAAATAAATTCAATGATTTATTTCCTTTTTCAAAATAAGAAAATAAATTCTACGATTTATTT
***
11116485 CCTTTTACGAATCAGAATCATGTGAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTTA
66 CCTTTTACGAATCAGAATCATACAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTTA
11116550 CAAAAC
131 CAAAAC
* * * * * * * *
11116556 AAGAAACTAGATTCAACGATTTGTTTCCTTTTTTAAAATAAGAAAATAAA-CCTAACAATTTATT
1 AGGAAAATAAATTCAATGATTTATTTCCTTTTTCAAAATAAGAAAATAAATTCT-ACGATTTATT
*
11116620 TTCTTTTA
65 TCCTTTTA
11116628 AAAGATAAAA
Statistics
Matches: 174, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
135 1 0.01
136 172 0.99
137 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (136 bp):
AGGAAAATAAATTCAATGATTTATTTCCTTTTTCAAAATAAGAAAATAAATTCTACGATTTATTT
CCTTTTACGAATCAGAATCATACAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTTA
CAAAAC
Found at i:11116451 original size:97 final size:97
Alignment explanation
Indices: 11116104--11116456 Score: 402
Period size: 97 Copynumber: 3.6 Consensus size: 97
11116094 AATTCAATCC
* * * * * * * * *
11116104 ACCGATTTATTTTCTTTTACAAATCATGAAAATAAATCCAACGATTTATTTTCTTTCATAAACAA
1 ACCGATTTATTTCCTTTTTCAAAACAGGAAAATAAATTCAACGATTTATTTCCTTTTACAAATAA
* * ** *
11116169 AAATCATACAAGATT-TCCAAAAAAATAAATTC
66 GAATCATACAAGATTCT-TAGGAAAATAAATTT
** * * * * *
11116201 AATGATTTATTTCCTTTTGCAAAATAGCAAAATAAATTCAACGATTTATTTCCTTTTACATATCA
1 ACCGATTTATTTCCTTTTTCAAAACAGGAAAATAAATTCAACGATTTATTTCCTTTTACAAATAA
*
11116266 GAATCATATAAGATTCTTAGGAAAATAAATTT
66 GAATCATACAAGATTCTTAGGAAAATAAATTT
* * * * * *
11116298 ACTGATTTATTTCCTTTTTCAAAATATGAAAATAAATTCTACGATTTATTTCCTTTTACAGATTA
1 ACCGATTTATTTCCTTTTTCAAAACAGGAAAATAAATTCAACGATTTATTTCCTTTTACAAATAA
11116363 GAATCATACAAGATTCTTAGGAAAATAAATTT
66 GAATCATACAAGATTCTTAGGAAAATAAATTT
* * * *
11116395 ACCGATTTATTTCTTTTTTCTAAACAGGAAAATAAATTCAATGATTTATTTTCTTTTACAAA
1 ACCGATTTATTTCCTTTTTCAAAACAGGAAAATAAATTCAACGATTTATTTCCTTTTACAAA
11116457 ACAGGAAAAT
Statistics
Matches: 217, Mismatches: 38, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
97 216 1.00
98 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (97 bp):
ACCGATTTATTTCCTTTTTCAAAACAGGAAAATAAATTCAACGATTTATTTCCTTTTACAAATAA
GAATCATACAAGATTCTTAGGAAAATAAATTT
Found at i:11116599 original size:39 final size:39
Alignment explanation
Indices: 11116516--11116627 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 39
11116506 GTGAGATTCT
*
11116516 CAAGAAAATAAATTTAACAATTTATTTCCTTTTACAAAA
1 CAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
* * * * **
11116555 CAAGAAACTAGATTCAACGATTTGTTTCCTTTTTTAAAA
1 CAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
* * *
11116594 TAAGAAAATAAA-CCTAACAATTTATTTTCTTTTA
1 CAAGAAAATAAATTC-AACAATTTATTTCCTTTTA
11116628 AAAGATAAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 1 0.02
39 56 0.98
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (39 bp):
CAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
Found at i:11116752 original size:58 final size:58
Alignment explanation
Indices: 11116688--11117194 Score: 545
Period size: 58 Copynumber: 8.8 Consensus size: 58
11116678 AATATTTCTG
* * *
11116688 AGAAAATAAATGT-AACAATTTATTTCCTTTAACAAA-ATAGAATCATTTAAGGTTCTCA
1 AGAAAATAAAT-TCAACAATTTATTTCCTTT-ACAAAGTTAGAATCATTCAAGATTCTCA
* * * * *
11116746 AGAAAATAAATTTAACAATTTATTTCTTTTTA-AAGGATT-GAATCATCCAGGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTC-CTTTACAAAG-TTAGAATCATTCAAGATTCTCA
* * * * *
11116804 AGAAAATAAATTCGATAATTTATTT-TTCTTACAAAGTTAAAATCACTCAAGATT-TCCA
1 AGAAAATAAATTCAACAATTTATTTCCT-TTACAAAGTTAGAATCATTCAAGATTCT-CA
* ** * *
11116862 AGGAAATAAATTCAACAAAATATTTTCTTTACAAAGTTAGAATCACTT-AAGATTCTTA
1 AGAAAATAAATTCAACAATTTATTTCCTTTACAAAGTTAGAATCA-TTCAAGATTCTCA
* * * *
11116920 AGGAAATAAATTCAACAATTTGTTTTCC-TTAAAAAGTTAGAATCATTCAAGATTCTCT
1 AGAAAATAAATTCAACAATTT-ATTTCCTTTACAAAGTTAGAATCATTCAAGATTCTCA
* * *
11116978 GGAAAATAAATTCAACAATTT-TTTCC-TTACAAAGTTAGAATCATTTAAGATTCTCT
1 AGAAAATAAATTCAACAATTTATTTCCTTTACAAAGTTAGAATCATTCAAGATTCTCA
11117034 AGAAAATAAATTCAACAATTTATTTTCC-TTACAAAGTTAGAATCATTCAAGATTCTCA
1 AGAAAATAAATTCAACAATTTA-TTTCCTTTACAAAGTTAGAATCATTCAAGATTCTCA
* * * *
11117092 AGGAAATAGATTCAACAATTTATTT-TTCTTACAAAGTTAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTCCT-TTACAAAGTTAGAATCATTCAAGATTCTCA
* *
11117150 ATG-AAATAAATTCAACAATCTATTTCCCTTACAAAGTTAGAATCA
1 A-GAAAATAAATTCAACAATTTATTTCCTTTACAAAGTTAGAATCA
11117195 ACGTAAGATT
Statistics
Matches: 384, Mismatches: 46, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
56 55 0.14
57 14 0.04
58 303 0.79
59 12 0.03
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (58 bp):
AGAAAATAAATTCAACAATTTATTTCCTTTACAAAGTTAGAATCATTCAAGATTCTCA
Found at i:11117096 original size:230 final size:231
Alignment explanation
Indices: 11116691--11117194 Score: 635
Period size: 230 Copynumber: 2.2 Consensus size: 231
11116681 ATTTCTGAGA
* * * *
11116691 AAATAAATGT-AACAATTTATTTCCTTTAACAAA-ATAGAATCATTTAAGGTTCTCAAGAAAATA
1 AAATAAAT-TCAACAATTTTTTTCC-TTAA-AAAGTTAGAATCATTCAAGATTCTCAAGAAAATA
* * ** * *
11116754 AATTTAACAATTTATTTCTTTTTAAAGGATTGAATCATCCAGGATTCTCAAGAAAATAAATTCGA
63 AATTCAACAATTTATTTCCTTACAAAGGATTGAATCATCCAAGATTCTCAAGAAAATAAATTCAA
* *
11116819 TAATTTATTTTTCTTACAAAGTTAAAATCACTCAAGATTTCCAAGGAAATAAATTCAACAAAATA
128 CAATTTATTTTCCTTACAAAGTTAAAATCACTCAAGATTTCCAAGGAAATAAATTCAACAAAATA
*
11116884 -TTTTCTTTACAAAGTTAGAATCACTTAAGATTCTTAAGG
193 TTTTTC-TTACAAAGTTAGAATCACTTAAGATTCTCAAGG
**
11116923 AAATAAATTCAACAATTTGTTTTCCTTAAAAAGTTAGAATCATTCAAGATTCTCTGGAAAATAAA
1 AAATAAATTCAACAATTT-TTTTCCTTAAAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAAA
** *
11116988 TTCAACAATTT-TTTCCTTACAAA-G-TTAGAATCATTTAAGATTCTCTAGAAAATAAATTCAAC
65 TTCAACAATTTATTTCCTTACAAAGGATT-GAATCATCCAAGATTCTCAAGAAAATAAATTCAAC
* * * **
11117050 AATTTATTTTCCTTACAAAGTTAGAATCATTCAAGA-TTCTCAAGGAAATAGATTCAACAATTTA
129 AATTTATTTTCCTTACAAAGTTAAAATCACTCAAGATTTC-CAAGGAAATAAATTCAACAAAATA
* *
11117114 TTTTTCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
193 TTTTTCTTACAAAGTTAGAATCACTTAAGATTCTCAAGG
* * *
11117153 AAATAAATTCAACAATCTATTTCCCTTACAAAGTTAGAATCA
1 AAATAAATTCAACAAT-TTTTTTCCTTAAAAAGTTAGAATCA
11117195 ACGTAAGATT
Statistics
Matches: 237, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
229 5 0.02
230 151 0.64
231 19 0.08
232 57 0.24
233 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (231 bp):
AAATAAATTCAACAATTTTTTTCCTTAAAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAAAT
TCAACAATTTATTTCCTTACAAAGGATTGAATCATCCAAGATTCTCAAGAAAATAAATTCAACAA
TTTATTTTCCTTACAAAGTTAAAATCACTCAAGATTTCCAAGGAAATAAATTCAACAAAATATTT
TTCTTACAAAGTTAGAATCACTTAAGATTCTCAAGG
Found at i:11117459 original size:44 final size:45
Alignment explanation
Indices: 11117361--11117459 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
11117351 ACCAACCTAT
* *
11117361 TAATCACAAGAAATTAATCCATTTATTTTACATTTTGCAGCACAA
1 TAATCAAAAGAAATTAATCCATTTATTTTACATTTTGCAACACAA
* *
11117406 -AATTCAAAAGGAATTAATCC-TTTGATTTTAC-TTTTGATAAC-CAA
1 TAA-TCAAAAGAAATTAATCCATTT-ATTTTACATTTTG-CAACACAA
11117450 TAATCAAAAG
1 TAATCAAAAG
11117460 CCTTGGATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
44 20 0.43
45 26 0.57
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.35
Consensus pattern (45 bp):
TAATCAAAAGAAATTAATCCATTTATTTTACATTTTGCAACACAA
Found at i:11117678 original size:14 final size:15
Alignment explanation
Indices: 11117659--11117691 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11117649 GTTATATGGT
11117659 AATAATACCAT-AAC
1 AATAATACCATGAAC
*
11117673 AATAATATCATGAAC
1 AATAATACCATGAAC
11117688 AATA
1 AATA
11117692 TCATGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATACCATGAAC
Found at i:11118976 original size:27 final size:27
Alignment explanation
Indices: 11118946--11119000 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11118936 GAGTAACCTA
* * *
11118946 GCTGAGTCAACCCAGTTATGTCAACTC
1 GCTGAATCAACCCAATTAAGTCAACTC
11118973 GCTGAATCAACCCAATTAAGTCAACTC
1 GCTGAATCAACCCAATTAAGTCAACTC
11119000 G
1 G
11119001 ACCAGAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (27 bp):
GCTGAATCAACCCAATTAAGTCAACTC
Found at i:11124135 original size:6 final size:6
Alignment explanation
Indices: 11124124--11124184 Score: 68
Period size: 6 Copynumber: 10.2 Consensus size: 6
11124114 TCAACTATTA
* * * * *
11124124 CTTCTT CTTCTT CATCTT CTTCGT CTTCTT CATCTT CATCTT CTTCGT
1 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT
*
11124172 CTTCTT CATCTT C
1 CTTCTT CTTCTT C
11124185 ATGGTTTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.56
Consensus pattern (6 bp):
CTTCTT
Found at i:11124141 original size:9 final size:9
Alignment explanation
Indices: 11124124--11124184 Score: 74
Period size: 9 Copynumber: 7.1 Consensus size: 9
11124114 TCAACTATTA
*
11124124 CTTCTTCTT
1 CTTCATCTT
11124133 CTTCATCTT
1 CTTCATCTT
*
11124142 CTTCGTCTT
1 CTTCATCTT
11124151 CTTCA---T
1 CTTCATCTT
11124157 CTTCATCTT
1 CTTCATCTT
*
11124166 CTTCGTCTT
1 CTTCATCTT
11124175 CTTCATCTT
1 CTTCATCTT
11124184 C
1 C
11124185 ATGGTTTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 6 0.14
9 38 0.86
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.56
Consensus pattern (9 bp):
CTTCATCTT
Found at i:11124151 original size:24 final size:24
Alignment explanation
Indices: 11124124--11124186 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
11124114 TCAACTATTA
*
11124124 CTTCTTCTTCTTCATCTTCTTCGT
1 CTTCTTCATCTTCATCTTCTTCGT
11124148 CTTCTTCATCTTCATCTTCTTCGT
1 CTTCTTCATCTTCATCTTCTTCGT
11124172 CTTCTTCATCTTCAT
1 CTTCTTCATCTTCAT
11124187 GGTTTTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.08, C:0.33, G:0.03, T:0.56
Consensus pattern (24 bp):
CTTCTTCATCTTCATCTTCTTCGT
Found at i:11131229 original size:18 final size:18
Alignment explanation
Indices: 11131206--11131247 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11131196 TTGACCGGTT
11131206 CCGACCCAACCCGTTGAC
1 CCGACCCAACCCGTTGAC
* *
11131224 CCGACCCGACCCGTTGAT
1 CCGACCCAACCCGTTGAC
11131242 CCGACC
1 CCGACC
11131248 TGTTAACCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (18 bp):
CCGACCCAACCCGTTGAC
Found at i:11133760 original size:24 final size:24
Alignment explanation
Indices: 11133730--11133802 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
11133720 ATACATGACC
*
11133730 TGAATTCTCTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * * *
11133754 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTTTGATTTCTGATA
11133778 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
11133802 T
1 T
11133803 CTCTGTTTAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:11133761 original size:48 final size:48
Alignment explanation
Indices: 11133709--11133802 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
11133699 TCCGACTTAA
11133709 ATTCTGTTCTGATA-CATGACCTGAATTCTCTTTTGATTTCTGATATGG
1 ATTCTGTTCTGATATC-TGACCTGAATTCTCTTTTGATTTCTGATATGG
** *
11133757 ATTCTGTTCTGATATCTGTTCTGAATTCTGTTTTGATTTCTGATAT
1 ATTCTGTTCTGATATCTGACCTGAATTCTCTTTTGATTTCTGATAT
11133803 CTCTGTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (48 bp):
ATTCTGTTCTGATATCTGACCTGAATTCTCTTTTGATTTCTGATATGG
Found at i:11133966 original size:2 final size:2
Alignment explanation
Indices: 11133959--11134033 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
11133949 GGGATGGGGG
11133959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11134001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11134034 GTGTGTGTGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11134645 original size:3 final size:3
Alignment explanation
Indices: 11134637--11134700 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
11134627 AATTTATATA
11134637 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
11134685 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
11134701 CCAATACATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11150646 original size:64 final size:62
Alignment explanation
Indices: 11150567--11150701 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 62
11150557 TTCAATGTGT
*
11150567 ACCGATGCACTTTT-AAATAAAGAACATCGAATGCCATTAATGCATCGATGCATAAGG-AGTGC
1 ACCGATGCACTTTTAAAATAAA-AACATCGAATGCCATTAATGCACCGATGCAT-AGGTAGTGC
* * * ** *
11150629 ATCGATGCACCTATTTAAAATATAAACATTGAATGGGATTTATGCACCGATGCATAGGTAGTGC
1 ACCGATGCA-CT-TTTAAAATAAAAACATCGAATGCCATTAATGCACCGATGCATAGGTAGTGC
11150693 ACCGATGCA
1 ACCGATGCA
11150702 TAGGTAGTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 8 0.13
63 5 0.08
64 42 0.69
65 6 0.10
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (62 bp):
ACCGATGCACTTTTAAAATAAAAACATCGAATGCCATTAATGCACCGATGCATAGGTAGTGC
Found at i:11150695 original size:19 final size:19
Alignment explanation
Indices: 11150671--11150720 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
11150661 ATGGGATTTA
11150671 TGCACCGATGCATAGGTAG
1 TGCACCGATGCATAGGTAG
11150690 TGCACCGATGCATAGGTAG
1 TGCACCGATGCATAGGTAG
*
11150709 TGCATCGATGCA
1 TGCACCGATGCA
11150721 CTTGTCAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCACCGATGCATAGGTAG
Found at i:11153464 original size:21 final size:21
Alignment explanation
Indices: 11153438--11153482 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11153428 GATTTCTGGG
* *
11153438 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
11153459 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
11153480 CAA
1 CAA
11153483 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:11154321 original size:31 final size:31
Alignment explanation
Indices: 11154283--11154438 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
11154273 AGGGTCGAGG
11154283 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
11154314 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
11154345 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
11154376 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
11154407 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
11154438 G
1 G
11154439 GTCCTTCGGG
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:11155332 original size:18 final size:20
Alignment explanation
Indices: 11155289--11155333 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11155279 CCCTGATGTA
11155289 GAGTATCGATACTCTCCCAAT
1 GAGTATCGATAC-CTCCCAAT
*
11155310 G-GTATCGATA-CT-CCTAT
1 GAGTATCGATACCTCCCAAT
11155327 GAGTATC
1 GAGTATC
11155334 AGTATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
20 9 0.41
21 1 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (20 bp):
GAGTATCGATACCTCCCAAT
Found at i:11155875 original size:18 final size:19
Alignment explanation
Indices: 11155850--11155907 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
11155840 TCGAGGGATA
11155850 ATTAGTGGTCCTTCGGGAC
1 ATTAGTGGTCCTTCGGGAC
* * *
11155869 A-TAGTGGTTCTTCAGAAC
1 ATTAGTGGTCCTTCGGGAC
11155887 AATTAGTGGTCCTTCGGGAC
1 -ATTAGTGGTCCTTCGGGAC
11155907 A
1 A
11155908 AATATTCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 14 0.45
19 3 0.10
20 14 0.45
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (19 bp):
ATTAGTGGTCCTTCGGGAC
Found at i:11155908 original size:20 final size:20
Alignment explanation
Indices: 11155844--11155908 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
11155834 CAAGATTCGA
*
11155844 GGGATAATTAGTGGTCCTTC
1 GGGACAATTAGTGGTCCTTC
*
11155864 GGGAC-A-TAGTGGTTCTTC
1 GGGACAATTAGTGGTCCTTC
* *
11155882 AGAACAATTAGTGGTCCTTC
1 GGGACAATTAGTGGTCCTTC
11155902 GGGACAA
1 GGGACAA
11155909 ATATTCAGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 14 0.39
19 2 0.06
20 20 0.56
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
GGGACAATTAGTGGTCCTTC
Found at i:11157363 original size:23 final size:23
Alignment explanation
Indices: 11157330--11157413 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
11157320 CTCATATAAA
*
11157330 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
11157353 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
11157376 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
11157399 TGCACC-ATAGTGCCA
1 TGCACCGA-AGTGCCA
11157414 TATAAGATTG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 1 0.02
23 56 0.98
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:11158207 original size:64 final size:62
Alignment explanation
Indices: 11158055--11158215 Score: 166
Period size: 63 Copynumber: 2.5 Consensus size: 62
11158045 TCCCTTGACG
* *
11158055 GGTGCATCGATGCACTATCTATGCATCGGTGCA-TAAATCCCATTCGATGTGTGTATTTAATA
1 GGTGCATCGATGCACT-TCTATGCATCGATACACTAAATCCCATTCGATGTGTGTATTTAATA
* * * ** *
11158117 GGGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGGCATTCGATGTTTGTATTTTAAAT
1 -GGTGCATCGATGCACTTC-TATGCATCGATACACTAAATCCCATTCGATGTGTGTA-TTT-AA-
11158181 TA
61 TA
11158183 -GTGCATCGATGCACTTCATATGCATCGATACAC
1 GGTGCATCGATGCACTTC-TATGCATCGATACAC
11158216 CTTGAACAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 43 0.52
64 34 0.41
65 2 0.02
66 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (62 bp):
GGTGCATCGATGCACTTCTATGCATCGATACACTAAATCCCATTCGATGTGTGTATTTAATA
Found at i:11163984 original size:3 final size:3
Alignment explanation
Indices: 11163976--11164024 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
11163966 GTGAGGCAAT
11163976 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11164024 A
1 A
11164025 GGAAATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11171530 original size:123 final size:122
Alignment explanation
Indices: 11171312--11171557 Score: 456
Period size: 123 Copynumber: 2.0 Consensus size: 122
11171302 TCGATGCATA
*
11171312 CCATCATTAAAAGTTGGAAATAGCTTTCTTTTAGCACAAAGAGTGATAGTTTAGAATATATTAAT
1 CCATCATTAAAAGTTGGAAATAACTTTCTTTTAGCACAAAGAGTGATAGTTTAGAATATATTAAT
11171377 TAATATACTGATTAGTATCAATGTATTACTATGTAGATATAGAACATAATTTTGTTC
66 TAATATACTGATTAGTATCAATGTATTACTATGTAGATATAGAACATAATTTTGTTC
* *
11171434 CCATCATTAAAAGTTGGAAATAACTTTCTTTTTAGCCCAATGAGTGATAGTTTAGAATATATTAA
1 CCATCATTAAAAGTTGGAAATAACTTTC-TTTTAGCACAAAGAGTGATAGTTTAGAATATATTAA
11171499 TTAATATACTGATTAGTATCAATGTATTACTATGTAGATATAGAACATAATTTTGTTC
65 TTAATATACTGATTAGTATCAATGTATTACTATGTAGATATAGAACATAATTTTGTTC
11171557 C
1 C
11171558 GGAACAAACA
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
122 27 0.22
123 93 0.77
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (122 bp):
CCATCATTAAAAGTTGGAAATAACTTTCTTTTAGCACAAAGAGTGATAGTTTAGAATATATTAAT
TAATATACTGATTAGTATCAATGTATTACTATGTAGATATAGAACATAATTTTGTTC
Found at i:11171961 original size:20 final size:20
Alignment explanation
Indices: 11171933--11172019 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
11171923 CAAGAGTCGA
*
11171933 GGAATAATCAGTGGTTCTTC
1 GGAACAATCAGTGGTTCTTC
* *
11171953 GGAACAATCACTGGTTCTTT
1 GGAACAATCAGTGGTTCTTC
*
11171973 GGAACAATAAGTGGTTCTTC
1 GGAACAATCAGTGGTTCTTC
*
11171993 GAAACAATCAGTGGTTCTTC
1 GGAACAATCAGTGGTTCTTC
*
11172013 GGGACAA
1 GGAACAA
11172020 ATATTCAGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (20 bp):
GGAACAATCAGTGGTTCTTC
Found at i:11177134 original size:24 final size:23
Alignment explanation
Indices: 11177099--11177144 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
11177089 AGGGGACAAA
*
11177099 CTTATAATATTTTAAGAGTTTAAG
1 CTTATAAAATTTT-AGAGTTTAAG
*
11177123 CTTATAAAATTTTAGTGTTTAA
1 CTTATAAAATTTTAGAGTTTAA
11177145 CAGATTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (23 bp):
CTTATAAAATTTTAGAGTTTAAG
Found at i:11179016 original size:30 final size:30
Alignment explanation
Indices: 11178935--11179044 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
11178925 TTTCCAAAAA
* * **
11178935 ATATAATTAATTTTATGTAAAAT-AGCTTC
1 ATATAATTTATTTTACGTAAAATAATTTTC
* * *
11178964 AGATAATTCATTTTACGAAAAATAATTTTC
1 ATATAATTTATTTTACGTAAAATAATTTTC
*
11178994 ATATAATTTATTGTACGTAAAATAATTTTC
1 ATATAATTTATTTTACGTAAAATAATTTTC
11179024 A-AGTAATTTATTTTACGTAAA
1 ATA-TAATTTATTTTACGTAAA
11179045 TTATTTTATA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 20 0.29
30 48 0.71
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
ATATAATTTATTTTACGTAAAATAATTTTC
Found at i:11179046 original size:15 final size:15
Alignment explanation
Indices: 11178998--11179052 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
11178988 ATTTTCATAT
*
11178998 AATTTATTGTACGTA
1 AATTTATTTTACGTA
* * *
11179013 AAATAATTTTCAAGT-
1 AATTTATTTT-ACGTA
11179028 AATTTATTTTACGTA
1 AATTTATTTTACGTA
11179043 AA-TTATTTTA
1 AATTTATTTTA
11179053 TAGAAAACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
14 11 0.35
15 17 0.55
16 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (15 bp):
AATTTATTTTACGTA
Found at i:11179048 original size:14 final size:14
Alignment explanation
Indices: 11179001--11179052 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
11178991 TTCATATAAT
*
11179001 TTATTGTACGTAAAA
1 TTATTTTACGT-AAA
* * *
11179016 TAATTTTCAAGTAAT
1 TTATTTT-ACGTAAA
11179031 TTATTTTACGTAAA
1 TTATTTTACGTAAA
11179045 TTATTTTA
1 TTATTTTA
11179053 TAGAAAACTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 13 0.45
15 13 0.45
16 3 0.10
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (14 bp):
TTATTTTACGTAAA
Found at i:11182379 original size:9 final size:10
Alignment explanation
Indices: 11182352--11182381 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
11182342 ATAAAGTAAT
11182352 ATATGTTTTAA
1 ATAT-TTTTAA
11182363 ATATTTTTAA
1 ATATTTTTAA
11182373 ATATTTTTA
1 ATATTTTTA
11182382 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:11182999 original size:31 final size:31
Alignment explanation
Indices: 11182927--11183006 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
11182917 TAATATGTGG
* *
11182927 ATTAAGTTTTGGTAACTTATATTATCGTTTT
1 ATTAAGTTTTTGTAACTTATATTATCGTTTC
* *
11182958 ATTAAGTTTTTGTCACTTATGTTATCGTTTC
1 ATTAAGTTTTTGTAACTTATATTATCGTTTC
*
11182989 ATTAAGTTTTTGTGACTT
1 ATTAAGTTTTTGTAACTT
11183007 GGACATTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (31 bp):
ATTAAGTTTTTGTAACTTATATTATCGTTTC
Found at i:11184438 original size:31 final size:31
Alignment explanation
Indices: 11184379--11184443 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
11184369 TGATCTAAAT
* * *
11184379 TTAATAAAACGACAATATAAGTGGCCAAAGC
1 TTAATAAAACGACAATATAAATGACCAAAAC
* *
11184410 TTAATAAAACGATAATGTAAATGACCAAAAC
1 TTAATAAAACGACAATATAAATGACCAAAAC
11184441 TTA
1 TTA
11184444 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (31 bp):
TTAATAAAACGACAATATAAATGACCAAAAC
Found at i:11187939 original size:2 final size:2
Alignment explanation
Indices: 11187934--11187958 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11187924 TCTCTCTCTC
11187934 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11187959 GTTTGTGTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11194980 original size:16 final size:16
Alignment explanation
Indices: 11194947--11194991 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
11194937 TTTTTATTAT
**
11194947 ATTTAAAAAAACCGAAA
1 ATTTAAAAAAA-AAAAA
11194964 ATTTAAAAAAAAAAAA
1 ATTTAAAAAAAAAAAA
*
11194980 ACTTAAAAAAAA
1 ATTTAAAAAAAA
11194992 TCCCAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (16 bp):
ATTTAAAAAAAAAAAA
Found at i:11197276 original size:19 final size:19
Alignment explanation
Indices: 11197249--11197318 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
11197239 ATGCAATTGG
11197249 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
*
11197268 TGTATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
*
11197287 TGCATCGATGCATAAGACA
1 TGCATCGATGCATAAGGCA
11197306 TGCATCGATGCAT
1 TGCATCGATGCAT
11197319 CCTAGTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:11197378 original size:19 final size:20
Alignment explanation
Indices: 11197351--11197403 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
11197341 ATGTATTTTA
* *
11197351 TGCACCGATGCACAG-GTAG
1 TGCATCGATGCACAGTGCAG
11197370 TGCATCGATGCACACAGTGCAG
1 TGCATCGATG--CACAGTGCAG
11197392 TGCATCGATGCA
1 TGCATCGATGCA
11197404 TACCTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 9 0.31
20 2 0.07
21 5 0.17
22 13 0.45
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGTGCAG
Found at i:11198373 original size:103 final size:103
Alignment explanation
Indices: 11198148--11198365 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
11198138 GTCGAGGGTC
11198148 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* ** *
11198213 TTGATCCTTGGCATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
11198251 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
11198316 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
11198354 TATGTGGTCCTT
1 TATGTGGTCCTT
11198366 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
Found at i:11198413 original size:23 final size:23
Alignment explanation
Indices: 11198383--11198447 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
11198373 TTATTATATT
*
11198383 GCACTCCGGTGCAATTCTACGCG
1 GCACTCCGGTGCAATTATACGCG
*
11198406 GCACTCCGGTGCAATTATACGTG
1 GCACTCCGGTGCAATTATACGCG
*
11198429 GCACTTCGGTGCAATTATA
1 GCACTCCGGTGCAATTATA
11198448 TGAGCTGTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
GCACTCCGGTGCAATTATACGCG
Found at i:11199695 original size:15 final size:15
Alignment explanation
Indices: 11199675--11199727 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
11199665 GAAGACCGTT
11199675 ATACAATAACATAAA
1 ATACAATAACATAAA
11199690 ATACAA-AATCATAAA
1 ATACAATAA-CATAAA
* *
11199705 TTAAAATAACATAAA
1 ATACAATAACATAAA
11199720 ATACAATA
1 ATACAATA
11199728 TAAAAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ATACAATAACATAAA
Found at i:11202349 original size:21 final size:21
Alignment explanation
Indices: 11202322--11202375 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
11202312 GAACCATGCT
11202322 ATCATCTATCTTTGTTTCTCC
1 ATCATCTATCTTTGTTTCTCC
*
11202343 TTCATCTATCTTTGTTTCTCC
1 ATCATCTATCTTTGTTTCTCC
*
11202364 ATCATTTATCTT
1 ATCATCTATCTT
11202376 AGTTGGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.26, G:0.04, T:0.56
Consensus pattern (21 bp):
ATCATCTATCTTTGTTTCTCC
Found at i:11203135 original size:24 final size:27
Alignment explanation
Indices: 11203108--11203160 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
11203098 ACATTTTGGT
*
11203108 AATTTAAAAT-TTATT-TATTT-TAAA
1 AATTAAAAATATTATTATATTTATAAA
11203132 AATTAAAAATATTATTATATTTATAAA
1 AATTAAAAATATTATTATATTTATAAA
11203159 AA
1 AA
11203161 AATATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 5 0.20
27 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTAAAAATATTATTATATTTATAAA
Found at i:11205191 original size:9 final size:9
Alignment explanation
Indices: 11205173--11205210 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
11205163 TAGAATAATT
*
11205173 AAAATGAAA
1 AAAATAAAA
11205182 AAAATAAAA
1 AAAATAAAA
11205191 AAAATAAAAA
1 AAAAT-AAAA
11205201 AAAATAAAA
1 AAAATAAAA
11205210 A
1 A
11205211 GAAGGATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAATAAAA
Found at i:11205194 original size:10 final size:10
Alignment explanation
Indices: 11205179--11205210 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11205169 AATTAAAATG
11205179 AAAAAAAT-A
1 AAAAAAATAA
11205188 AAAAAAATAA
1 AAAAAAATAA
11205198 AAAAAAATAA
1 AAAAAAATAA
11205208 AAA
1 AAA
11205211 GAAGGATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:11206847 original size:110 final size:111
Alignment explanation
Indices: 11206708--11206928 Score: 345
Period size: 110 Copynumber: 2.0 Consensus size: 111
11206698 TGGAAATCAT
* * *
11206708 ATATCTCTACGCTTTGTTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGATGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
11206773 TATTTAGTT-ATTTATTTAATACATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
* *
11206818 ATATCTCGACACTTTGATGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGATGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
11206883 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
11206929 TTTTTGTAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 68 0.68
111 32 0.32
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGATGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
Found at i:11212237 original size:21 final size:21
Alignment explanation
Indices: 11212213--11212304 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
11212203 TTGAAAATCG
11212213 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * *
11212234 CGTTGCGATAGTATACAATAT
1 CGTTGCGATAGTCTACAGTGT
* * *
11212255 CGTTGCGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
*
11212273 CGCGTTGCAATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
11212296 CGTTGCGAT
1 CGTTGCGAT
11212305 TTTCCATTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
18 2 0.04
19 4 0.07
20 8 0.15
21 35 0.64
22 4 0.07
23 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:11212280 original size:20 final size:20
Alignment explanation
Indices: 11212255--11212324 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
11212245 TATACAATAT
11212255 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* * * *
11212275 CGTTGCAATAGTCTACA-GT-G
1 CGTTGCGAT--TTTCCATTTCG
11212295 TCGTTGCGATTTTCCATTTCG
1 -CGTTGCGATTTTCCATTTCG
11212316 CGTTGCGAT
1 CGTTGCGAT
11212325 AGATGAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 4 0.11
20 19 0.51
21 10 0.27
22 4 0.11
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:11212299 original size:41 final size:41
Alignment explanation
Indices: 11212234--11212542 Score: 218
Period size: 41 Copynumber: 7.4 Consensus size: 41
11212224 TCTACAGTGT
* * *
11212234 CGTTGCGATAGTATACAATATCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
*
11212275 CGTTGCAATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
* * * * *
11212316 CGTTGCGATAGAT-GAAAATCG-CGTTGCGATAGTGTACAGTCATTGCG
1 CGTTGCGATAG-TCTACAGT-GTCGTTGCGAT--T-TTC---CATTTCG
* * * * ** **
11212363 ATCGTTGCGAT--TTTCCA-TTTCGCGTTGCGATAGTTGAAAATCG
1 --CGTTGCGATAGTCTACAGTGT--CGTTGCGAT-TTTCCATTTCG
* * *
11212406 CGTTGCGATAGTGTACAGTGTCATTGCGATTTTCCATCTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
* * * *
11212447 CATTGCGATAGTGTACAGTGGCGTTACGATTTTCCATTTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
*
11212488 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCC-ATTTCG
11212528 CGTTGCGATAGTCTA
1 CGTTGCGATAGTCTA
11212543 TAGTAAATTA
Statistics
Matches: 209, Mismatches: 41, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
40 15 0.07
41 141 0.67
42 13 0.06
43 8 0.04
44 4 0.02
46 3 0.01
47 7 0.03
48 9 0.04
49 9 0.04
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
Found at i:11212338 original size:62 final size:62
Alignment explanation
Indices: 11212188--11212458 Score: 296
Period size: 62 Copynumber: 4.3 Consensus size: 62
11212178 GTATCGCAAA
* *
11212188 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATAGTATACAAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT--T-TTCCAT
* * ** ** *
11212253 AT--CGTTGCGAT-TTTCCATTTCGCGTTGCAATAGTCTACAGTGTCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAT
* *
11212312 TTCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAGTCATTGCGATCGTTGCGATTTT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAG----T--G-TCGTTGCGATTTT
11212377 CCAT
59 CCAT
* *
11212381 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTGTACAGTGTCATTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAT
* *
11212443 CTCGCATTGCGATAGT
1 TTCGCGTTGCGATAGT
11212459 GTACAGTGGC
Statistics
Matches: 174, Mismatches: 22, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
59 5 0.03
60 1 0.01
61 9 0.05
62 86 0.49
63 10 0.06
65 2 0.01
66 1 0.01
68 1 0.01
69 59 0.34
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (62 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAT
Found at i:11212406 original size:69 final size:70
Alignment explanation
Indices: 11212295--11212435 Score: 257
Period size: 69 Copynumber: 2.0 Consensus size: 70
11212285 GTCTACAGTG
11212295 TCGTTGCGATTTTCCATTTCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACA-GTCAT
1 TCGTTGCGATTTTCCATTTCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAGGTCAT
11212359 TGCGA
66 TGCGA
*
11212364 TCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTGTACAGTGTCA
1 TCGTTGCGATTTTCCATTTCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAG-GTCA
11212429 TTGCGA
65 TTGCGA
11212435 T
1 T
11212436 TTTCCATCTC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 58 0.84
71 11 0.16
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (70 bp):
TCGTTGCGATTTTCCATTTCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAGGTCAT
TGCGA
Found at i:11212512 original size:21 final size:19
Alignment explanation
Indices: 11212488--11212542 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
11212478 TTCCATTTCG
*
11212488 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTA-AAT-T
** *
11212509 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTAAATT
11212528 CGTTGCGATAGTCTA
1 CGTTGCGATAGTCTA
11212543 TAGTAAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 13 0.48
20 2 0.07
21 12 0.44
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCTAAATT
Found at i:11213526 original size:49 final size:51
Alignment explanation
Indices: 11213442--11213542 Score: 136
Period size: 49 Copynumber: 2.0 Consensus size: 51
11213432 CGATTTTCTC
*
11213442 ATAAAATTATGTCAGGAGTAAAGGTATGTCGCGGTACCTGCCCCGCGCTAT
1 ATAAAATTATGTCAGGAGTAAAGGTATGTCGCGGTACCTGACCCGCGCTAT
* * *
11213493 ATAAAATTAT-T-AGGAGTAAATGTATAGT-TCGGTACCTGATCCGCGCTAT
1 ATAAAATTATGTCAGGAGTAAAGGTAT-GTCGCGGTACCTGACCCGCGCTAT
11213542 A
1 A
11213543 CCCCTACGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 32 0.71
50 3 0.07
51 10 0.22
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (51 bp):
ATAAAATTATGTCAGGAGTAAAGGTATGTCGCGGTACCTGACCCGCGCTAT
Found at i:11214189 original size:16 final size:16
Alignment explanation
Indices: 11214154--11214196 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
11214144 ACTCATTAAT
**
11214154 AATATTTTTATATATGA
1 AATA-TTTTATATAAAA
11214171 AATATTTTATATAAAA
1 AATATTTTATATAAAA
*
11214187 AATATATTAT
1 AATATTTTAT
11214197 CAATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATTTTATATAAAA
Found at i:11214545 original size:2 final size:2
Alignment explanation
Indices: 11214538--11214567 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11214528 ATATTATTTA
11214538 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
11214568 TAATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11223456 original size:17 final size:17
Alignment explanation
Indices: 11223434--11223466 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11223424 ATCTCTATTT
*
11223434 TTTTTCTTCGATTCTCG
1 TTTTTCTCCGATTCTCG
11223451 TTTTTCTCCGATTCTC
1 TTTTTCTCCGATTCTC
11223467 TTGGGTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.27, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTTTCTCCGATTCTCG
Found at i:11234655 original size:16 final size:16
Alignment explanation
Indices: 11234634--11234685 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
11234624 TCTATTGTGA
11234634 GGTTTTTGTTTTCTTT
1 GGTTTTTGTTTTCTTT
* ** *
11234650 GG-TTTTGTTATGGTG
1 GGTTTTTGTTTTCTTT
*
11234665 GGTTTCTGTTTTCTTT
1 GGTTTTTGTTTTCTTT
11234681 GGTTT
1 GGTTT
11234686 GCTTTCATGG
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.02, C:0.06, G:0.27, T:0.65
Consensus pattern (16 bp):
GGTTTTTGTTTTCTTT
Found at i:11247533 original size:18 final size:19
Alignment explanation
Indices: 11247510--11247556 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
11247500 TTTCCAATAA
*
11247510 TTATATTCC-CTGGTAATC
1 TTATATTCCACTGATAATC
11247528 TTATATTCTCACTGATAATC
1 TTATATTC-CACTGATAATC
*
11247548 TTACATTCC
1 TTATATTCC
11247557 GTGAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (19 bp):
TTATATTCCACTGATAATC
Found at i:11254013 original size:18 final size:19
Alignment explanation
Indices: 11253978--11254015 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11253968 CTCTCTTATT
*
11253978 TTTATTTAAATTGCTTTTA
1 TTTATTTAAATCGCTTTTA
11253997 TTTATTT-AATCGCTTTTA
1 TTTATTTAAATCGCTTTTA
11254015 T
1 T
11254016 CACTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATTTAAATCGCTTTTA
Found at i:11256023 original size:2 final size:2
Alignment explanation
Indices: 11256012--11256044 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11256002 TCTTGACGTT
11256012 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11256045 ATAAATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11256909 original size:15 final size:15
Alignment explanation
Indices: 11256889--11256918 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11256879 TCGATAGTAC
11256889 TAGATCCTACGAAAT
1 TAGATCCTACGAAAT
11256904 TAGATCCTACGAAAT
1 TAGATCCTACGAAAT
11256919 GGGAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
TAGATCCTACGAAAT
Found at i:11267393 original size:17 final size:17
Alignment explanation
Indices: 11267373--11267411 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11267363 CATATACATT
*
11267373 TAAT-TTATAATGATAAA
1 TAATATTATAACG-TAAA
11267390 TAATATTATAACGTAAA
1 TAATATTATAACGTAAA
11267407 TAATA
1 TAATA
11267412 AGCAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (17 bp):
TAATATTATAACGTAAA
Found at i:11269209 original size:8 final size:8
Alignment explanation
Indices: 11269193--11269226 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11269183 TACGGATAAG
11269193 TAATTAAA
1 TAATTAAA
*
11269201 TAGTTAAA
1 TAATTAAA
*
11269209 TAATTGAA
1 TAATTAAA
11269217 TAATTAAA
1 TAATTAAA
11269225 TA
1 TA
11269227 TATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:11272657 original size:16 final size:16
Alignment explanation
Indices: 11272636--11272667 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11272626 CTAAAGCATG
11272636 ATTGGGTAGATATCAT
1 ATTGGGTAGATATCAT
11272652 ATTGGGTAGATATCAT
1 ATTGGGTAGATATCAT
11272668 GTGAATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
ATTGGGTAGATATCAT
Found at i:11279133 original size:8 final size:8
Alignment explanation
Indices: 11279120--11279147 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11279110 AGATTCTCCC
11279120 ATATGTAT
1 ATATGTAT
11279128 ATATGTAT
1 ATATGTAT
11279136 ATATGTAT
1 ATATGTAT
11279144 ATAT
1 ATAT
11279148 CTTCTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:11282682 original size:16 final size:17
Alignment explanation
Indices: 11282663--11282704 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
11282653 AGTGAAAATG
11282663 AAAAAAGAAAAAAT-AA
1 AAAAAAGAAAAAATGAA
* *
11282679 AAAAATGAAAAAATGGA
1 AAAAAAGAAAAAATGAA
11282696 AAAAAAGAA
1 AAAAAAGAA
11282705 GGGTTCAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAAAGAAAAAATGAA
Found at i:11283787 original size:55 final size:55
Alignment explanation
Indices: 11283703--11284292 Score: 760
Period size: 55 Copynumber: 10.7 Consensus size: 55
11283693 AACGATAATC
* * *
11283703 GAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* *
11283758 GAAGATTGTTCGAGTCTTATACTCTCTGAAAAAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* * * *
11283813 GAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATATGGAGCAGACACGATGGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* * *
11283868 GAAGATTGTTCGAGTCTTGTACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
*
11283923 GAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
**
11283978 GAAGATTGTTCGAGTCTTATACTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* *
11284033 GAAGATTGTTCAAGTCTTATACTCTCTGAA-AGAATGGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTGAT
* * * *
11284088 GAAGATTGTTTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGAT
* * * *
11284144 GAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCATACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* * ** * * * * *
11284199 GAAGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAAC-GAACCCG-TTGACA
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGA-T
* * *
11284252 GAAGATTGTTCGAGT-TCTATACTCCCCGAAGAAAGAGGGAG
1 GAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAG
11284293 TGAACTCGTT
Statistics
Matches: 474, Mismatches: 54, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
52 4 0.01
53 29 0.06
54 16 0.03
55 373 0.79
56 52 0.11
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
Found at i:11284256 original size:53 final size:54
Alignment explanation
Indices: 11284199--11284345 Score: 174
Period size: 55 Copynumber: 2.7 Consensus size: 54
11284189 CACGATTGAT
* * *
11284199 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAACGAACCCGTT-GACA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAACGAACCCGTTCG-CA
* ** *
11284252 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCA
1 GAAGATTGTTCGAGTTCTATACT-CCCTAAGAAAGAGGGAACGAACCCGTTCGCA
*
11284307 GAAAATTGTTCGAGTTCTATACTCCCTAA-AAATGAGGGA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAA-GAGGGA
11284346 GCGAGCTCGT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
53 18 0.22
54 15 0.19
55 47 0.58
56 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (54 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAACGAACCCGTTCGCA
Found at i:11284640 original size:8 final size:8
Alignment explanation
Indices: 11284624--11284657 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11284614 TACGGATAAG
11284624 TAATTAAA
1 TAATTAAA
*
11284632 TAGTTAAA
1 TAATTAAA
*
11284640 TAATTGAA
1 TAATTAAA
11284648 TAATTAAA
1 TAATTAAA
11284656 TA
1 TA
11284658 TATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:11291612 original size:20 final size:20
Alignment explanation
Indices: 11291584--11291621 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11291574 AAGTTCATGG
*
11291584 GTATAGATACTAACCCTTCA
1 GTATAGATACTAAACCTTCA
*
11291604 GTATTGATACTAAACCTT
1 GTATAGATACTAAACCTT
11291622 TGTTATCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
GTATAGATACTAAACCTTCA
Found at i:11296886 original size:2 final size:2
Alignment explanation
Indices: 11296879--11296952 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
11296869 AATAATTCAA
11296879 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
11296921 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
11296953 GTTTGTGTGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11297070 original size:20 final size:20
Alignment explanation
Indices: 11297047--11297089 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11297037 ATAAACTCTA
* * *
11297047 AAATTTATTTAATTTGACTC
1 AAATTTAATAAATTTAACTC
11297067 AAATTTAATAAATTTAACTC
1 AAATTTAATAAATTTAACTC
11297087 AAA
1 AAA
11297090 AATAGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATTTAATAAATTTAACTC
Found at i:11297894 original size:2 final size:2
Alignment explanation
Indices: 11297887--11297934 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
11297877 AACAATTCAA
11297887 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
11297929 AT AT AT
1 AT AT AT
11297935 TTTGAAATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11303206 original size:2 final size:2
Alignment explanation
Indices: 11303199--11303229 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11303189 AGACTTCATC
11303199 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11303230 TTAGAGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11303808 original size:17 final size:17
Alignment explanation
Indices: 11303786--11303818 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11303776 TTTTAAATCA
*
11303786 CAAAATAACTGAAAGGC
1 CAAAATAACCGAAAGGC
11303803 CAAAATAACCGAAAGG
1 CAAAATAACCGAAAGG
11303819 TCCCTCTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.18, T:0.09
Consensus pattern (17 bp):
CAAAATAACCGAAAGGC
Found at i:11305027 original size:56 final size:56
Alignment explanation
Indices: 11304941--11305050 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
11304931 AGGTTACTAG
11304941 TGTTAGAGTATGCCCAAAGACCAATCATATGATGATTGTAATAATACTTTTATTAT
1 TGTTAGAGTATGCCCAAAGACCAATCATATGATGATTGTAATAATACTTTTATTAT
11304997 TGTTAGAGTATGCCCAAAGACCAATCATATGATGATTGTAATAATACTTTTATT
1 TGTTAGAGTATGCCCAAAGACCAATCATATGATGATTGTAATAATACTTTTATT
11305051 TACCGATTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (56 bp):
TGTTAGAGTATGCCCAAAGACCAATCATATGATGATTGTAATAATACTTTTATTAT
Found at i:11306035 original size:20 final size:21
Alignment explanation
Indices: 11305968--11306037 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
11305958 ATATCTAGAG
**
11305968 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATAATTTAA
* *
11305989 -TAATCCTGAATATTTAATTTCAA
1 TTAAT--TAAATATATAATTT-AA
11306012 TTAATTAAATATAT-ATTTAA
1 TTAATTAAATATATAATTTAA
11306032 TTAATT
1 TTAATT
11306038 TGAAATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 12 0.31
21 4 0.10
22 17 0.44
23 2 0.05
24 4 0.10
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATAATTTAA
Found at i:11306120 original size:90 final size:89
Alignment explanation
Indices: 11305999--11306171 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
11305989 TAATCCTGAA
* * *
11305999 TATTTAATTTCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
11306064 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
11306089 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
11306154 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
11306172 AAGGGTGTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 30 0.38
90 49 0.62
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:11309145 original size:36 final size:36
Alignment explanation
Indices: 11309087--11309172 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 36
11309077 TTCAATTAAT
11309087 CTTCAATAAG-AAAATACCCAAATTTCTTATGAAAC
1 CTTCAATAAGAAAAATACCCAAATTTCTTATGAAAC
* *
11309122 CTTTAATAAGAAAAATACTCAAATTTCTTATGAAAC
1 CTTCAATAAGAAAAATACCCAAATTTCTTATGAAAC
11309158 CTTCAATAAGAAAAA
1 CTTCAATAAGAAAAA
11309173 AAACCTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.19
36 38 0.81
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (36 bp):
CTTCAATAAGAAAAATACCCAAATTTCTTATGAAAC
Found at i:11310351 original size:12 final size:12
Alignment explanation
Indices: 11310331--11310361 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11310321 TATTGTTATT
*
11310331 ATTATAATATAG
1 ATTAAAATATAG
11310343 ATTAAAATATAG
1 ATTAAAATATAG
11310355 ATTAAAA
1 ATTAAAA
11310362 CGTGAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (12 bp):
ATTAAAATATAG
Found at i:11312676 original size:31 final size:31
Alignment explanation
Indices: 11312641--11312703 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
11312631 AATGGGCTAC
* *
11312641 TGTTTTTGTTTGAGTTGGTGGAGTGAATTGG
1 TGTTTTTGATTGAGTTGATGGAGTGAATTGG
11312672 TGTTTTTGATTGAGTTGATGGAGTGAATTGG
1 TGTTTTTGATTGAGTTGATGGAGTGAATTGG
11312703 T
1 T
11312704 TTGGGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.48
Consensus pattern (31 bp):
TGTTTTTGATTGAGTTGATGGAGTGAATTGG
Found at i:11315005 original size:123 final size:122
Alignment explanation
Indices: 11314866--11315106 Score: 437
Period size: 123 Copynumber: 2.0 Consensus size: 122
11314856 CTATTCAAAA
11314866 AAAAAAATATCACATTTGAGGAAATATACCGATATATAATAAACAAATTTATATCAATAATTGTA
1 AAAAAAATATCACATTTGAGGAAATATACCGATATATAATAAACAAATTTATATCAATAATTGTA
* *
11314931 ATAGTGGTTGTTGATAGTGTTTAGGGATGACAACGAGAGAGTCAAGATGTTTTTTAAT
66 ATAGTGGTTGTTGATAGTGTTTAGAGATGACAAC-AGAAAGTCAAGATGTTTTTTAAT
* *
11314989 AAAAAATTATCACATTTGATGAAATATACCGATATATAATAAACAAATTTATATCAATAATTGTA
1 AAAAAAATATCACATTTGAGGAAATATACCGATATATAATAAACAAATTTATATCAATAATTGTA
11315054 ATAGTGGTTGTTGATAGTGTTTAGAGATGACAACAGAAAGTCAAGATGTTTTT
66 ATAGTGGTTGTTGATAGTGTTTAGAGATGACAACAGAAAGTCAAGATGTTTTT
11315107 CAATCGACTA
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
122 18 0.16
123 96 0.84
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (122 bp):
AAAAAAATATCACATTTGAGGAAATATACCGATATATAATAAACAAATTTATATCAATAATTGTA
ATAGTGGTTGTTGATAGTGTTTAGAGATGACAACAGAAAGTCAAGATGTTTTTTAAT
Found at i:11318267 original size:28 final size:29
Alignment explanation
Indices: 11318210--11318364 Score: 203
Period size: 29 Copynumber: 5.4 Consensus size: 29
11318200 TTTTTAAAAT
* * *
11318210 AATTACCAAACTAGCACCTTTTCAAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
*
11318239 AATTCCCAAAATAGCA-CTTTTCAAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
11318267 AATTCCCAAAATAGCACCTTTTGCGAA-TA
1 AATTCCCAAAATAGCACCTTTT-CGAATTA
11318296 AATTCCCAAAAT-GACACCTTTTCGAATT-
1 AATTCCCAAAATAG-CACCTTTTCGAATTA
*
11318324 AATTCTCAAAATAGCACCTATTTCGAATT-
1 AATTCCCAAAATAGCACCT-TTTCGAATTA
11318353 AATTCCCAAAAT
1 AATTCCCAAAAT
11318365 GTCACCCGAT
Statistics
Matches: 115, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
28 49 0.43
29 63 0.55
30 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCTTTTCGAATTA
Found at i:11318282 original size:57 final size:57
Alignment explanation
Indices: 11318200--11318370 Score: 206
Period size: 57 Copynumber: 3.0 Consensus size: 57
11318190 ATATCACATT
* * * * *
11318200 TTTTTAAAATAATTACCAAACTAGCACCTTTTCAAATTAAATTCCCAAAAT-AGCA-C
1 TTTTCAAATTAATTCCCAAAATAGCACCTTTTCGAATTAAATTCCCAAAATGA-CACC
11318256 TTTTCAAATTAAATTCCCAAAATAGCACCTTTTGCGAA-TAAATTCCCAAAATGACACC
1 TTTTCAAATT-AATTCCCAAAATAGCACCTTTT-CGAATTAAATTCCCAAAATGACACC
* * *
11318314 TTTTCGAATTAATTCTCAAAATAGCACCTATTTCGAATT-AATTCCCAAAATGTCACC
1 TTTTCAAATTAATTCCCAAAATAGCACCT-TTTCGAATTAAATTCCCAAAATGACACC
11318371 CGATCAACGG
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
56 8 0.08
57 75 0.74
58 18 0.18
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (57 bp):
TTTTCAAATTAATTCCCAAAATAGCACCTTTTCGAATTAAATTCCCAAAATGACACC
Found at i:11318407 original size:13 final size:13
Alignment explanation
Indices: 11318389--11318413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11318379 GGTCAACGTT
11318389 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
11318402 CGGGTCGGGTCA
1 CGGGTCGGGTCA
11318414 GATCAACGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Done.