Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_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: 2208279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 10
Found at i:1976455 original size:26 final size:28
Alignment explanation
Indices: 1976425--1976486 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
1976415 GAAAATTTTA
1976425 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
1976451 AGCTCCATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCT-C--TGCAGAGTTTTCGAGTCGAGTCG
1976482 AGCTC
1 AGCTC
1976487 AGCAATACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.13
27 1 0.03
30 2 0.07
31 23 0.77
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:1978170 original size:26 final size:27
Alignment explanation
Indices: 1978136--1978189 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
1978126 AGAAAAAATA
1978136 AACCGTCAAATAGAA-CTGACTGCTAT
1 AACCGTCAAATAGAACCTGACTGCTAT
1978162 AACCGTCAAATAGAACTCTGACTGCTAT
1 AACCGTCAAATAGAAC-CTGACTGCTAT
1978190 CAGTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 15 0.58
28 11 0.42
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (27 bp):
AACCGTCAAATAGAACCTGACTGCTAT
Found at i:1978198 original size:26 final size:25
Alignment explanation
Indices: 1978140--1978198 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1978130 AAAATAAACC
*
1978140 GTCAAATAGAACTGACTGCTATAACC
1 GTCAAATAGAACTGACTGCTAT-ACA
1978166 GTCAAATAGAACTCTGACTGCTAT-CA
1 GTCAAATAGAA--CTGACTGCTATACA
*
1978192 GTTAAAT
1 GTCAAAT
1978199 TGTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.62
28 11 0.38
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (25 bp):
GTCAAATAGAACTGACTGCTATACA
Found at i:1987753 original size:54 final size:54
Alignment explanation
Indices: 1987661--1987763 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
1987651 TATGTATTGT
* *
1987661 AATTTCCGTATTGGCACCGTGTGTGCGACATAAGAAATTCATAATAAGTTTATG
1 AATTTCCGTATTAGCACCGTGTGTGCAACATAAGAAATTCATAATAAGTTTATG
* ** * * *
1987715 AATTTTCGTATTAGCATTGTGTGTGCAACCTAATAAATTTATAATAAGT
1 AATTTCCGTATTAGCACCGTGTGTGCAACATAAGAAATTCATAATAAGT
1987764 CACTATGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
AATTTCCGTATTAGCACCGTGTGTGCAACATAAGAAATTCATAATAAGTTTATG
Found at i:1987832 original size:54 final size:54
Alignment explanation
Indices: 1987764--1987927 Score: 242
Period size: 54 Copynumber: 3.0 Consensus size: 54
1987754 TATAATAAGT
*
1987764 CACTATGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGA
1 CACTGTGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGA
* *
1987818 CACTGTGTGTGTAACCTAAGAAATTCATAATAAATTTATGAACTTTC-GTATTGA
1 CACTGTGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATTGA
* * *
1987872 CACTGTATGTGCAACTTAAGAAATTCATAATAAGATTATGAATTT-TCGTATTGA
1 CACTGTGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATTGA
1987926 CA
1 CA
1987928 TTGAGTATAC
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
53 3 0.03
54 92 0.93
55 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (54 bp):
CACTGTGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGA
Found at i:1988468 original size:5 final size:6
Alignment explanation
Indices: 1988437--1988465 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1988427 ATTTTTTGTT
1988437 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1988466 TAATAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:1989970 original size:60 final size:60
Alignment explanation
Indices: 1989875--1990065 Score: 215
Period size: 60 Copynumber: 3.1 Consensus size: 60
1989865 GCATTATATG
* * *
1989875 TCCCCAAACACTATGGCTCTCATTTTAAATTAGTCCATAAACTTTT-AGATATTTTAATTTAA
1 TCCCC-AA-ACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTGA-ATATTCTAATTTTA
* * *
1989937 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAACATTCTATTTTTA
1 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTGAATATTCTAATTTTA
* * * * * *
1989997 TCCCTAAATTATGACCCT-TTTTCTAAATTAATCCCTAAACTTTTGAATATTCTAATTTTA
1 TCCCCAAACTATGACTCTCATTT-TAAATTAGTCCATAAACTTTTGAATATTCTAATTTTA
*
1990057 TCCCAAAAC
1 TCCCCAAAC
1990066 CCAAAACTCG
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 3 0.03
60 100 0.90
61 3 0.03
62 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (60 bp):
TCCCCAAACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTGAATATTCTAATTTTA
Found at i:1989977 original size:31 final size:31
Alignment explanation
Indices: 1989884--1989977 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
1989874 GTCCCCAAAC
*
1989884 ACTATGGCTCTCATTTTAAATTAGTCCATAA
1 ACTATGACTCTCATTTTAAATTAGTCCATAA
* * ** * * **
1989915 ACTTTTA-GAT-ATTTTAATTTAATCCCCAA
1 ACTATGACTCTCATTTTAAATTAGTCCATAA
*
1989944 ACTATGACTCTCATTTTAAATTAGTCCTTAA
1 ACTATGACTCTCATTTTAAATTAGTCCATAA
1989975 ACT
1 ACT
1989978 TTTGAACATT
Statistics
Matches: 44, Mismatches: 17, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
29 20 0.45
30 2 0.05
31 22 0.50
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.41
Consensus pattern (31 bp):
ACTATGACTCTCATTTTAAATTAGTCCATAA
Found at i:1990004 original size:29 final size:29
Alignment explanation
Indices: 1989972--1990065 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
1989962 AATTAGTCCT
*
1989972 TAAACTTTTGAACATTCTATTTTTATCCC
1 TAAACTTTTGAACATTCTAATTTTATCCC
* * * * *
1990001 TAAA-TTATGACCCTTTTTCTAAATTAATCCC
1 TAAACTTTTGA-AC--ATTCTAATTTTATCCC
*
1990032 TAAACTTTTGAATATTCTAATTTTATCCC
1 TAAACTTTTGAACATTCTAATTTTATCCC
*
1990061 AAAAC
1 TAAAC
1990066 CCAAAACTCG
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
28 5 0.10
29 22 0.46
31 16 0.33
32 5 0.10
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (29 bp):
TAAACTTTTGAACATTCTAATTTTATCCC
Found at i:2001439 original size:36 final size:36
Alignment explanation
Indices: 2001379--2001574 Score: 215
Period size: 36 Copynumber: 5.5 Consensus size: 36
2001369 ACGAAAGAAT
2001379 GCATCG-CACTTCCGA-TCAAGTCGAACGGAAGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
* * *
2001413 GTATTGACACTTCCGATTCAAGTCGAACGG-AGAAAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAG-GAA
* * * * *
2001449 GCGTCGGCACTCCCAATTCAAGTCGAACGGAGGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
*
2001485 GCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
*
2001521 GCATC-AGCACTTCCGATTCAAG-CTGAACGGAAGGAT
1 GCATCGA-CACTTCCGATTCAAGTC-GAACGGAAGGAA
* *
2001557 GTATCG-CACTTTCGATTC
1 GCATCGACACTTCCGATTC
2001575 GAGTGTTCTT
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
34 4 0.03
35 23 0.17
36 108 0.79
37 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (36 bp):
GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
Found at i:2014613 original size:16 final size:16
Alignment explanation
Indices: 2014592--2014627 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2014582 TTAGAGTGAA
2014592 AACAATATTAGTTTAT
1 AACAATATTAGTTTAT
2014608 AACAATATTAGTTTAT
1 AACAATATTAGTTTAT
2014624 AACA
1 AACA
2014628 TCTACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (16 bp):
AACAATATTAGTTTAT
Found at i:2020243 original size:44 final size:44
Alignment explanation
Indices: 2020153--2020235 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
2020143 TCACGTCTGT
*
2020153 TGTAACACCCCCAACCTGTATACCAACCCGGATACGAGTCAGAG
1 TGTAACACCCCCAACCCGTATACCAACCCGGATACGAGTCAGAG
*
2020197 TGTAACACCCCCAACCCGTAT-CCGACCCGGATACGAGTC
1 TGTAACACCCCCAACCCGTATACCAACCCGGATACGAGTC
2020236 CGAAGTGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 17 0.46
44 20 0.54
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (44 bp):
TGTAACACCCCCAACCCGTATACCAACCCGGATACGAGTCAGAG
Found at i:2020891 original size:21 final size:21
Alignment explanation
Indices: 2020855--2020920 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
2020845 AGCTCGTATA
2020855 AATGCACCGAAGTGCCCCGTAG
1 AATGCACCGAAGTG-CCCGTAG
2020877 AATGCACCG-AGTG-CCGTAG
1 AATGCACCGAAGTGCCCGTAG
*
2020896 AATTGCACCGTAGTGCCCG-AG
1 AA-TGCACCGAAGTGCCCGTAG
2020917 AATG
1 AATG
2020921 ATGTCCATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
19 8 0.20
20 9 0.22
21 12 0.29
22 12 0.29
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (21 bp):
AATGCACCGAAGTGCCCGTAG
Found at i:2021343 original size:17 final size:18
Alignment explanation
Indices: 2021310--2021343 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2021300 TAACATACTT
2021310 ATCATATCTTCACATAAG
1 ATCATATCTTCACATAAG
*
2021328 ATCATA-CTTCATATAA
1 ATCATATCTTCACATAA
2021344 TATATCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (18 bp):
ATCATATCTTCACATAAG
Found at i:2021777 original size:94 final size:93
Alignment explanation
Indices: 2021679--2021948 Score: 207
Period size: 94 Copynumber: 3.0 Consensus size: 93
2021669 TATATATATA
2021679 TATATCCTCAAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATC
1 TATATCCTCAAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATC
2021744 TATGTCAGACTTATAAAACATCTCACTTC
66 TATGTCAGACTTAT-AAACATCTCACTTC
** * * ** * * * * * *
2021773 TATAT--TCTTG-TATAT-CTAATTTGTTTACTTAATATTGTATTCATATAACTCATTTCAT-TT
1 TATATCCTCAAGATTTATCCTAA----TATAAATCATATAGCACTCTTATAATTCATTTCATATT
* * *
2021833 CA--T-T-TCATA-TCTAT----ATAT-A--TA
62 CATCTATGTCAGACT-TATAAACATCTCACTTC
2021854 TATATCCTCAAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATATTCATATTCAT
1 TATATCCTCAAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCAT-TTCATATTCAT
2021919 CTATGTCAGACTTA-AACACATCTCACTTC
65 CTATGTCAGACTTATAA-ACATCTCACTTC
2021948 T
1 T
2021949 TATTTCTTTC
Statistics
Matches: 122, Mismatches: 30, Indels: 48
0.61 0.15 0.24
Matches are distributed among these distances:
81 27 0.22
82 5 0.04
83 8 0.07
84 7 0.06
85 5 0.04
86 1 0.01
87 6 0.05
88 2 0.02
89 7 0.06
90 5 0.04
91 8 0.07
92 4 0.03
93 4 0.03
94 33 0.27
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (93 bp):
TATATCCTCAAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATC
TATGTCAGACTTATAAACATCTCACTTC
Found at i:2021942 original size:175 final size:178
Alignment explanation
Indices: 2021623--2022000 Score: 608
Period size: 175 Copynumber: 2.1 Consensus size: 178
2021613 TTTCATCACA
2021623 TAATTATGTATTCATATAACTCATTTCATTTCATTTCATATCTATATATATATATATATATCCTC
1 TAATT-TGTATTCATATAACTCATTTCATTTCATTTCATATC---ATATATATATATATATCCTC
2021688 AAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATCTATGTCAGA
62 AAGATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATCTATGTCAGA
2021753 CTTATAAAACATCTCACTTC-TATATTC-T-TGTAT-ATCTAATTTGTTTACT
127 CTTATAAAACATCTCACTTCTTAT-TTCTTCTGTATAATCTAATTTGTTTACT
2021802 TAATATTGTATTCATATAACTCATTTCATTTCATTTCATATC-TATATATATATATATCCTCAAG
1 TAAT-TTGTATTCATATAACTCATTTCATTTCATTTCATATCATATATATATATATATCCTCAAG
2021866 ATTTATCCTAATATAAATCATATAGCACTCTTATAATTCATATTCATATTCATCTATGTCAGACT
65 ATTTATCCTAATATAAATCATATAGCACTCTTATAATTCAT-TTCATATTCATCTATGTCAGACT
*
2021931 TA-AACACATCTCACTTCTTATTTCTTTCTGTATAATCTAATTTGTTTACT
129 TATAAAACATCTCACTTCTTATTTC-TTCTGTATAATCTAATTTGTTTACT
**
2021981 TAATTCAT-TTCATATAACTC
1 TAATTTGTATTCATATAACTC
2022001 GTATAATCTT
Statistics
Matches: 189, Mismatches: 3, Indels: 16
0.91 0.01 0.08
Matches are distributed among these distances:
175 80 0.42
176 28 0.15
177 13 0.07
178 7 0.04
179 60 0.32
180 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (178 bp):
TAATTTGTATTCATATAACTCATTTCATTTCATTTCATATCATATATATATATATATCCTCAAGA
TTTATCCTAATATAAATCATATAGCACTCTTATAATTCATTTCATATTCATCTATGTCAGACTTA
TAAAACATCTCACTTCTTATTTCTTCTGTATAATCTAATTTGTTTACT
Found at i:2022721 original size:21 final size:21
Alignment explanation
Indices: 2022697--2022741 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2022687 TCTTGTTCGT
* *
2022697 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2022718 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2022739 TTG
1 TTG
2022742 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2023800 original size:14 final size:14
Alignment explanation
Indices: 2023781--2023815 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2023771 ACAAGGCAAT
2023781 GTAATGAAAATGTC
1 GTAATGAAAATGTC
2023795 GTAATGAAAATGTC
1 GTAATGAAAATGTC
*
2023809 ATAATGA
1 GTAATGA
2023816 TATGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (14 bp):
GTAATGAAAATGTC
Found at i:2024667 original size:11 final size:11
Alignment explanation
Indices: 2024651--2024689 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
2024641 TAGTTTAGTA
2024651 TTTCTTCTTTT
1 TTTCTTCTTTT
2024662 TTTCTTCTTCTTCT
1 TTTCTTC-T-TT-T
2024676 TTTCTTCTTTT
1 TTTCTTCTTTT
2024687 TTT
1 TTT
2024690 TTATATGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.44
12 3 0.12
13 3 0.12
14 8 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTCTTCTTTT
Found at i:2024671 original size:14 final size:14
Alignment explanation
Indices: 2024652--2024691 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
2024642 AGTTTAGTAT
2024652 TTCTTCTTTTTTTC
1 TTCTTCTTTTTTTC
*
2024666 TTCTTCTTCTTTTC
1 TTCTTCTTTTTTTC
2024680 TTCTT-TTTTTTT
1 TTCTTCTTTTTTT
2024692 ATATGGGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCTTCTTTTTTTC
Found at i:2024732 original size:19 final size:20
Alignment explanation
Indices: 2024695--2024732 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2024685 TTTTTTTATA
*
2024695 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
2024715 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
2024733 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:2030553 original size:13 final size:13
Alignment explanation
Indices: 2030532--2030567 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2030522 AGTTTAGTCT
*
2030532 TTCTCTTTTTTTC
1 TTCTTTTTTTTTC
*
2030545 TTCTTTTTTCTTC
1 TTCTTTTTTTTTC
2030558 TTCTTTTTTT
1 TTCTTTTTTT
2030568 ATATGGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:2030608 original size:19 final size:20
Alignment explanation
Indices: 2030571--2030608 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2030561 TTTTTTTATA
*
2030571 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
2030591 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
2030609 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:2034507 original size:13 final size:13
Alignment explanation
Indices: 2034485--2034534 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
2034475 TTTATATAAA
2034485 TAATTAATCAAAT
1 TAATTAATCAAAT
*
2034498 TAATTTATCAAA-
1 TAATTAATCAAAT
* *
2034510 TAACTAATTAAAT
1 TAATTAATCAAAT
2034523 TAATTAATCAAA
1 TAATTAATCAAA
2034535 CCAACTATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATTAATCAAAT
Found at i:2034517 original size:25 final size:25
Alignment explanation
Indices: 2034482--2034534 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
2034472 ACTTTTATAT
* *
2034482 AAATAATTAATCAAATTAATTTATC
1 AAATAACTAATCAAATTAATTAATC
*
2034507 AAATAACTAATTAAATTAATTAATC
1 AAATAACTAATCAAATTAATTAATC
2034532 AAA
1 AAA
2034535 CCAACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATAACTAATCAAATTAATTAATC
Found at i:2034544 original size:25 final size:25
Alignment explanation
Indices: 2034489--2034550 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
2034479 TATAAATAAT
* * *
2034489 TAATCAAATTAATTTATCAAATAAC
1 TAATTAAATTAATTAATCAAACAAC
2034514 TAATTAAATTAATTAATCAAACCAAC
1 TAATTAAATTAATTAATCAAA-CAAC
2034540 T-ATTAAATTAA
1 TAATTAAATTAA
2034551 CTATAAGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (25 bp):
TAATTAAATTAATTAATCAAACAAC
Found at i:2045539 original size:22 final size:21
Alignment explanation
Indices: 2045508--2045563 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
2045498 TTTTATAATG
2045508 TTAAAATATATTATTTAATTA
1 TTAAAATATATTATTTAATTA
* * *
2045529 TTAAAAT-TA-TAATAAATAA
1 TTAAAATATATTATTTAATTA
2045548 TTATAAATATATTATT
1 TTA-AAATATATTATT
2045564 ATAAAATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 10 0.36
20 6 0.21
21 9 0.32
22 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAAATATATTATTTAATTA
Found at i:2045575 original size:15 final size:14
Alignment explanation
Indices: 2045511--2045578 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
2045501 TATAATGTTA
2045511 AAATATATTATT-T
1 AAATATATTATTAT
* **
2045524 AATTATTAAAATTAT
1 AAATA-TATTATTAT
* *
2045539 -AATAAATAATTAT
1 AAATATATTATTAT
2045552 AAATATATTATTAT
1 AAATATATTATTAT
*
2045566 AAAATGTATTATT
1 -AAATATATTATT
2045579 TTAATTATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (14 bp):
AAATATATTATTAT
Found at i:2050006 original size:18 final size:19
Alignment explanation
Indices: 2049971--2050013 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2049961 TTGAAATAAT
2049971 AATTTATTTGTAATCCTAAA
1 AATTTATTTGTAATCCT-AA
2049991 AATTTATTT-T-ATCCTAA
1 AATTTATTTGTAATCCTAA
2050008 AATTTA
1 AATTTA
2050014 GAACATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 1 0.04
20 9 0.39
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTTATTTGTAATCCTAA
Found at i:2051120 original size:41 final size:41
Alignment explanation
Indices: 2051063--2051148 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
2051053 TGATCCATCC
* *
2051063 TTAGGATGTGACCTAGTTAAATGGATGATGCAGCTGATAAT
1 TTAGGATGTGACCTAGTTAAATGCACGATGCAGCTGATAAT
*
2051104 TTAGGATGTGTCCTAGTTAAATGCACGATGCAGCTGATAAT
1 TTAGGATGTGACCTAGTTAAATGCACGATGCAGCTGATAAT
2051145 TTAG
1 TTAG
2051149 TGGCATGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (41 bp):
TTAGGATGTGACCTAGTTAAATGCACGATGCAGCTGATAAT
Found at i:2052621 original size:22 final size:23
Alignment explanation
Indices: 2052577--2052624 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2052567 ATCTGATTAA
* *
2052577 TAAAATTAAAAGAAATCAGTAGT
1 TAAAATAAAAAGAAATCAATAGT
2052600 TAAAATAAAAAGAAA-CAATAGT
1 TAAAATAAAAAGAAATCAATAGT
2052622 TAA
1 TAA
2052625 GTAAATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.23
Consensus pattern (23 bp):
TAAAATAAAAAGAAATCAATAGT
Found at i:2061483 original size:90 final size:90
Alignment explanation
Indices: 2061330--2061509 Score: 306
Period size: 90 Copynumber: 2.0 Consensus size: 90
2061320 GGAAAACATT
* * * *
2061330 CGACTCAACACTGGAAGTCTAGAGAATGCCTTAGGAAGTTTAATCATAGTAAGGTGCAGCGTGTG
1 CGACTCAACACTGGAAGTCTAGAGAATGCCGTAGGAAGTTTAATCACAATAAGGTGCAACGTGTG
* *
2061395 GAAGGATTGCCTGAACTTGAAGGTA
66 GAAGGATTACCTGAACTTAAAGGTA
2061420 CGACTCAACACTGGAAGTCTAGAGAATGCCGTAGGAAGTTTAATCACAATAAGGTGCAACGTGTG
1 CGACTCAACACTGGAAGTCTAGAGAATGCCGTAGGAAGTTTAATCACAATAAGGTGCAACGTGTG
2061485 GAAGGATTACCTGAACTTAAAGGTA
66 GAAGGATTACCTGAACTTAAAGGTA
2061510 GAATACTTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (90 bp):
CGACTCAACACTGGAAGTCTAGAGAATGCCGTAGGAAGTTTAATCACAATAAGGTGCAACGTGTG
GAAGGATTACCTGAACTTAAAGGTA
Found at i:2062803 original size:18 final size:20
Alignment explanation
Indices: 2062777--2062813 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
2062767 CTGTGTGTAA
2062777 TTAGGTTA-GTTTT-TTTAC
1 TTAGGTTAGGTTTTATTTAC
*
2062795 TTAGTTTAGGTTTTATTTA
1 TTAGGTTAGGTTTTATTTA
2062814 TTAATAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 5 0.31
20 4 0.25
ACGTcount: A:0.19, C:0.03, G:0.16, T:0.62
Consensus pattern (20 bp):
TTAGGTTAGGTTTTATTTAC
Found at i:2065904 original size:34 final size:34
Alignment explanation
Indices: 2065861--2065928 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2065851 TTAAGGAGAT
2065861 TGATTTAGTTTAATGCTTTTTGTTCTGTTTCTCG
1 TGATTTAGTTTAATGCTTTTTGTTCTGTTTCTCG
2065895 TGATTTAGTTTAATGCTTTTTGTTCTGTTTCTCG
1 TGATTTAGTTTAATGCTTTTTGTTCTGTTTCTCG
2065929 ATCCCTGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (34 bp):
TGATTTAGTTTAATGCTTTTTGTTCTGTTTCTCG
Found at i:2079838 original size:20 final size:20
Alignment explanation
Indices: 2079813--2079866 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2079803 CGATTTTGCA
*
2079813 AAATCGCAATACGAATATGT
1 AAATCGCAACACGAATATGT
*
2079833 AAATCGCAACGCGAATATGT
1 AAATCGCAACACGAATATGT
2079853 AAATCGCAACACGA
1 AAATCGCAACACGA
2079867 TTCTGACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (20 bp):
AAATCGCAACACGAATATGT
Found at i:2080104 original size:22 final size:22
Alignment explanation
Indices: 2080079--2080136 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
2080069 CTACGGCGAC
2080079 ATCCGTCCTCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
* * *
2080101 ATCCGTCCCCATCTCTGGCGAA
1 ATCCGTCCTCATCTCCGACGAA
2080123 ATCCGT-CT-ATCTCC
1 ATCCGTCCTCATCTCC
2080137 ATCTCTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 5 0.16
21 1 0.03
22 25 0.81
ACGTcount: A:0.19, C:0.41, G:0.14, T:0.26
Consensus pattern (22 bp):
ATCCGTCCTCATCTCCGACGAA
Found at i:2080527 original size:19 final size:18
Alignment explanation
Indices: 2080505--2080562 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
2080495 AAATCGCAAC
2080505 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGCGTT
*
2080524 GCGA---T-TTTCTCGTT
1 GCGATTTTATTTCGCGTT
2080538 GCGATTTTCATTTCGCGTT
1 GCGATTTT-ATTTCGCGTT
2080557 GCGATT
1 GCGATT
2080563 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 12 0.38
16 1 0.03
17 1 0.03
19 18 0.56
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (18 bp):
GCGATTTTATTTCGCGTT
Found at i:2080532 original size:14 final size:14
Alignment explanation
Indices: 2080515--2080546 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2080505 GCGATTTTAG
2080515 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
2080529 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
2080543 TTTC
1 TTTC
2080547 ATTTCGCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:2080552 original size:33 final size:34
Alignment explanation
Indices: 2080505--2080638 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 34
2080495 AAATCGCAAC
2080505 GCGATTTT-AGTTTCGCGTTGCGATTTTCTCGTT
1 GCGATTTTCAGTTTCGCGTTGCGATTTTCTCGTT
*
2080538 GCGATTTTCA-TTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCAGTTTCGCGTTGCGATTTTCTCGTT
** ** *
2080571 GCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTT
1 GCGATTTTCAGTTTCGCGTTGCGAT--T--TTCTC--GTT
* *
2080611 GCGATTTTCATTTTCGTGTTGCGATTTT
1 GCGATTTTCAGTTTCGCGTTGCGATTTT
2080639 AAGTTTCAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
33 38 0.46
34 14 0.17
36 3 0.04
38 4 0.05
40 23 0.28
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.46
Consensus pattern (34 bp):
GCGATTTTCAGTTTCGCGTTGCGATTTTCTCGTT
Found at i:2080592 original size:20 final size:20
Alignment explanation
Indices: 2080567--2080615 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2080557 GCGATTCTCT
2080567 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
2080587 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
2080607 TGTTGCGAT
1 CGTTGCGAT
2080616 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2080621 original size:20 final size:20
Alignment explanation
Indices: 2080583--2080638 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2080573 GATAGTCAAA
* **
2080583 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2080603 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
2080623 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
2080639 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2080645 original size:20 final size:20
Alignment explanation
Indices: 2080602--2080645 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2080592 CGATAGTCAT
* *
2080602 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
2080622 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
2080642 TTTC
1 TTTC
2080646 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:2082524 original size:20 final size:20
Alignment explanation
Indices: 2082501--2082565 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
2082491 CTTAAAATCC
*
2082501 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCG
2082521 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
2082541 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
2082561 CAACG
1 CAACG
2082566 GGAGAATCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:2082594 original size:33 final size:34
Alignment explanation
Indices: 2082557--2082632 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
2082547 GAATTTGACT
* *
2082557 ATCGCAACGGGAGAATCGTAATGCG-AAATAAAA
1 ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
* *
2082590 ATCGCAACGTGAAAATCGCAATGCGAAAATGAAA
1 ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
2082624 ATCGCAACG
1 ATCGCAACG
2082633 CGAATTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 22 0.58
34 16 0.42
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
Found at i:2082622 original size:20 final size:20
Alignment explanation
Indices: 2082599--2082636 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2082589 AATCGCAACG
*
2082599 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
2082619 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
2082637 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:2082654 original size:19 final size:19
Alignment explanation
Indices: 2082632--2082673 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2082622 AAATCGCAAC
2082632 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* *
2082651 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
2082670 GCGA
1 GCGA
2082674 TTTTCACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:2082674 original size:19 final size:19
Alignment explanation
Indices: 2082641--2082677 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2082631 CGCGAATTTA
2082641 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
2082660 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
2082678 CACGTTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:2082683 original size:14 final size:14
Alignment explanation
Indices: 2082661--2082691 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2082651 GCGATTTTGG
*
2082661 TTTCGCGTTGCGAT
1 TTTCACGTTGCGAT
2082675 TTTCACGTTGCGAT
1 TTTCACGTTGCGAT
2082689 TTT
1 TTT
2082692 TATTTCACAT
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:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (14 bp):
TTTCACGTTGCGAT
Found at i:2082689 original size:33 final size:33
Alignment explanation
Indices: 2082642--2082721 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
2082632 GCGAATTTAG
* * * *
2082642 TTTCGCGTTGCGATTTTGGTTTCGCGTTGCGAT
1 TTTCACGTTGCGATTTTGATTTCACATTGCGAT
*
2082675 TTTCACGTTGCGATTTTTATTTCACATTGCGAT
1 TTTCACGTTGCGATTTTGATTTCACATTGCGAT
* *
2082708 TCTCCCGTTGCGAT
1 TTTCACGTTGCGAT
2082722 AGTCAAATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (33 bp):
TTTCACGTTGCGATTTTGATTTCACATTGCGAT
Found at i:2082767 original size:20 final size:19
Alignment explanation
Indices: 2082713--2082781 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
2082703 GCGATTCTCC
* *
2082713 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTC-ATTTCG
2082733 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2082753 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
2082773 CATTGCGAT
1 CGTTGCGAT
2082782 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2082791 original size:20 final size:20
Alignment explanation
Indices: 2082768--2082811 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2082758 CGATAGTCAT
2082768 TTTCGCATTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
**
2082788 TTTCGTGTTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
2082808 TTTC
1 TTTC
2082812 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCATTGCGATTTTAAG
Found at i:2083364 original size:42 final size:42
Alignment explanation
Indices: 2083298--2083409 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
2083288 CTGTCATCGT
* *
2083298 TCAAGAGG-CCTCTCCTATCATTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGTCC-CTCCCACCATTCAAGAGGCCCCTATCATCCC
* * **
2083340 TCAAGA-GTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGT-CCCTCCCACCATTCAAGAGGCCCCTATCATCCC
*
2083382 TGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCAAGAGGTCCCTCCCACCATTCAAGAG
2083410 CCCGATTCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 54 0.92
43 4 0.07
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
Found at i:2083382 original size:21 final size:21
Alignment explanation
Indices: 2083287--2083394 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
2083277 GCCCGACTCA
2083287 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
2083308 TCT-CCTATCATTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
2083329 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
2083350 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
2083371 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
2083392 CCT
1 CCT
2083395 CCCACCATTC
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:2083408 original size:21 final size:21
Alignment explanation
Indices: 2083297--2083409 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
2083287 CCTGTCATCG
* * *
2083297 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCCCTCCCACCA
**
2083318 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCA
* * *
2083339 CTCAAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCA
** * *
2083360 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCCCACCA
* *
2083381 TTGAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
2083402 TTCAAGAG
1 TTCAAGAG
2083410 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:2084806 original size:14 final size:14
Alignment explanation
Indices: 2084770--2084806 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2084760 GCTTGTTTAA
*
2084770 TTGATTTGAAAAAG
1 TTGATTTGTAAAAG
2084784 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2084798 TTGATTTGT
1 TTGATTTGT
2084807 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2084953 original size:20 final size:20
Alignment explanation
Indices: 2084903--2085169 Score: 274
Period size: 20 Copynumber: 14.1 Consensus size: 20
2084893 ATTTGTTGAT
*
2084903 TTCGCGTTGCGAAAGTC-AA
1 TTCGCGTTGCGATAGTCAAA
2084922 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* *
2084942 TACGCTTTGCGAT--T----
1 TTCGCGTTGCGATAGTCAAA
*
2084956 TTCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* * *
2084976 TTCCCATTGCGATAATCAAA
1 TTCGCGTTGCGATAGTCAAA
*
2084996 TTCGCGTTACGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
2085016 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* *
2085036 TTTGTGTTGCGAT--T----
1 TTCGCGTTGCGATAGTCAAA
* *
2085050 TTCACGTTGCGAAAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
2085070 -TCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* * *
2085089 TACGCTTTGTGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* *
2085109 TTCCCGTTGCGATAATCAAA
1 TTCGCGTTGCGATAGTCAAA
*
2085129 TTCACGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
2085149 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
2085169 T
1 T
2085170 AATTGTGTAA
Statistics
Matches: 201, Mismatches: 33, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
14 19 0.09
16 2 0.01
18 2 0.01
19 33 0.16
20 145 0.72
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:2085130 original size:93 final size:94
Alignment explanation
Indices: 2084905--2085141 Score: 291
Period size: 93 Copynumber: 2.5 Consensus size: 94
2084895 TTGTTGATTT
* * * * *
2084905 CGCGTTGCGAAAGTC-AATTCGCGTTGCGATAGTCAAATACGCTTTGCGATTTTCTCGTTGCGAT
1 CGCGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCTTTGCGATTTTCACGTTGCGAA
*
2084969 AGTCAAATTCCCATTGCGATAATCAAATT
66 AGTCAAATTCCCATTGCGATAATCAAATA
*
2084998 CGCGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAATTTG-TGTTGCGATTTTCACGTTGCGA
1 CGCGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCT-TTGCGATTTTCACGTTGCGA
* * *
2085062 AAGTCAAA-TCGCGTTGCGATAGTCAAATA
65 AAGTCAAATTCCCATTGCGATAATCAAATA
* ** * * * *
2085091 CGCTTTGTGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGAT
1 CGCGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCTTTGCGAT
2085142 AGTCAAATTC
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
93 73 0.59
94 50 0.41
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (94 bp):
CGCGTTACGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCTTTGCGATTTTCACGTTGCGAA
AGTCAAATTCCCATTGCGATAATCAAATA
Found at i:2085361 original size:18 final size:18
Alignment explanation
Indices: 2085335--2085375 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2085325 AGGTGAAGCC
*
2085335 GATTGTGATTGGGATTTT
1 GATTGTGATTGCGATTTT
*
2085353 GATTTTGATTGCGATTTT
1 GATTGTGATTGCGATTTT
2085371 GATTG
1 GATTG
2085376 CCTTTTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.51
Consensus pattern (18 bp):
GATTGTGATTGCGATTTT
Found at i:2087438 original size:12 final size:13
Alignment explanation
Indices: 2087402--2087439 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
2087392 ATACTCCCGT
2087402 GGGATTTTCTTCG
1 GGGATTTTCTTCG
2087415 GGGACTTTTCTTCG
1 GGGA-TTTTCTTCG
2087429 GGGA-TTTCTTC
1 GGGATTTTCTTC
2087440 TTCTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 13 0.54
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.45
Consensus pattern (13 bp):
GGGATTTTCTTCG
Found at i:2088337 original size:17 final size:17
Alignment explanation
Indices: 2088315--2088352 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2088305 CGAATGGGGA
*
2088315 AGGATGTCGTTGGATAT
1 AGGATGCCGTTGGATAT
2088332 AGGATGCCGTTGGATAT
1 AGGATGCCGTTGGATAT
2088349 AGGA
1 AGGA
2088353 ACGGATGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.37, T:0.29
Consensus pattern (17 bp):
AGGATGCCGTTGGATAT
Found at i:2088503 original size:20 final size:20
Alignment explanation
Indices: 2088478--2088525 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2088468 ACTAAAACCT
*
2088478 GTTGCGA-ATTCAGAAATCGA
1 GTTGCGATAGTCAG-AATCGA
*
2088498 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGA
2088518 GTTGCGAT
1 GTTGCGAT
2088526 TTACATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGA
Found at i:2088565 original size:21 final size:20
Alignment explanation
Indices: 2088541--2088587 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2088531 TATTCGCGTT
*
2088541 GCGATTTTGGAAAATCGCAAC
1 GCGATTTT-AAAAATCGCAAC
*
2088562 GCGAATTTTAAAAATCGCAAT
1 GCG-ATTTTAAAAATCGCAAC
2088583 GCGAT
1 GCGAT
2088588 AGTCAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
GCGATTTTAAAAATCGCAAC
Found at i:2096609 original size:31 final size:30
Alignment explanation
Indices: 2096568--2096627 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
2096558 TGTTTTCTTA
* * *
2096568 AATTTTTATATAATACTTTAATTTCCAAAAT
1 AATTTATATATAATAATCTAATTT-CAAAAT
*
2096599 AATTTATATATATTAATCTAATTTCAAAA
1 AATTTATATATAATAATCTAATTTCAAAA
2096628 CATTATATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTTATATATAATAATCTAATTTCAAAAT
Found at i:2097295 original size:19 final size:20
Alignment explanation
Indices: 2097271--2097318 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
2097261 ATATACGTTT
2097271 TATGAACAAT-AAAATA-CG
1 TATGAACAATAAAAATACCG
2097289 ATATGAACAATGAAAAATACCG
1 -TATGAACAAT-AAAAATACCG
2097311 TATGAACA
1 TATGAACA
2097319 TTAGTGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (20 bp):
TATGAACAATAAAAATACCG
Found at i:2097833 original size:17 final size:17
Alignment explanation
Indices: 2097788--2097821 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2097778 TTATCATGAA
2097788 CATA-TTTATCACTAAT
1 CATATTTTATCACTAAT
2097804 CATATTATTATCACTAAT
1 CATATT-TTATCACTAAT
2097822 TCCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 1 0.06
18 11 0.69
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (17 bp):
CATATTTTATCACTAAT
Found at i:2102574 original size:18 final size:17
Alignment explanation
Indices: 2102551--2102584 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2102541 AATTGAAAAC
2102551 ACATCATAAAATCATTCA
1 ACATCATAAAA-CATTCA
*
2102569 ACATCATGAAACATTC
1 ACATCATAAAACATTC
2102585 TCTAATCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (17 bp):
ACATCATAAAACATTCA
Found at i:2103068 original size:24 final size:22
Alignment explanation
Indices: 2103034--2103079 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
2103024 CGGTATGAAC
2103034 AGTGAACAGTACCGTACGAACAGT
1 AGTGAACAGTACCGT--GAACAGT
*
2103058 AGTGAATAGTACCGTGAACAGT
1 AGTGAACAGTACCGTGAACAGT
2103080 TCAAAACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (22 bp):
AGTGAACAGTACCGTGAACAGT
Found at i:2104613 original size:10 final size:12
Alignment explanation
Indices: 2104600--2104639 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2104590 TTCAAAGAAA
2104600 TTAAAAT-TA-T
1 TTAAAATCTATT
2104610 TT-AAATCTATT
1 TTAAAATCTATT
*
2104621 TTAAAATGTATT
1 TTAAAATCTATT
2104633 TTAAAAT
1 TTAAAAT
2104640 ATGGATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 3 0.12
12 15 0.58
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (12 bp):
TTAAAATCTATT
Found at i:2104654 original size:22 final size:22
Alignment explanation
Indices: 2104629--2104968 Score: 536
Period size: 22 Copynumber: 15.5 Consensus size: 22
2104619 TTTTAAAATG
2104629 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
2104651 TATTTTAAAATATGGAGTGATT
1 TATTTTAAAATATGGATTGATT
* ***
2104673 TATTTTAAATTATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
*
2104695 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
2104717 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
2104739 TATTTTAAAACATGGATTGATT
1 TATTTTAAAATATGGATTGATT
2104761 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
2104783 TATTTTAAAATATGGATTAATT
1 TATTTTAAAATATGGATTGATT
2104805 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
2104827 TATTTTAAAACATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* * *** *
2104849 TATTTTAAAATAAGAAAAAAAT
1 TATTTTAAAATATGGATTGATT
2104871 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
2104893 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
2104915 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
2104937 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
2104959 TATTTAAAAA
1 TATTTTAAAA
2104969 AAAATTATTA
Statistics
Matches: 288, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 288 1.00
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (22 bp):
TATTTTAAAATATGGATTGATT
Found at i:2105031 original size:31 final size:31
Alignment explanation
Indices: 2104993--2105052 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2104983 AGTTGTATGG
*
2104993 ATTATTTAAATTTCATTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTATAAAACTAAA
*
2105024 ATTATTTAAATTTCAGTATTGTAAAACTA
1 ATTATTTAAATTTCAGTATTATAAAACTA
2105053 TTTTAAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTATAAAACTAAA
Found at i:2110829 original size:27 final size:27
Alignment explanation
Indices: 2110798--2110855 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
2110788 ATTCTTCCCT
*
2110798 GATGGCTTTCCTTGGCTACGAACAGTC
1 GATGGCTTTCCTTGGCTACGAACAATC
2110825 GATGGCTTTCCTTGGCTACGAACAATC
1 GATGGCTTTCCTTGGCTACGAACAATC
2110852 GATG
1 GATG
2110856 ACTCACCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (27 bp):
GATGGCTTTCCTTGGCTACGAACAATC
Found at i:2110864 original size:27 final size:27
Alignment explanation
Indices: 2110807--2110864 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2110797 TGATGGCTTT
* * **
2110807 CCTTGGCTACGAACAGTCGATGGCTTT
1 CCTTGGCTACGAACAATCGATGACTCA
2110834 CCTTGGCTACGAACAATCGATGACTCA
1 CCTTGGCTACGAACAATCGATGACTCA
2110861 CCTT
1 CCTT
2110865 TGCCATTCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (27 bp):
CCTTGGCTACGAACAATCGATGACTCA
Found at i:2112937 original size:35 final size:34
Alignment explanation
Indices: 2112898--2112964 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
2112888 AATATACATA
* *
2112898 TTATGAGGTATATTTATTTTTTATAATTTAAAAAT
1 TTATG-GGTATAATTATATTTTATAATTTAAAAAT
* *
2112933 TTATGTGTATAATTATATTTTGTAATTTAAAA
1 TTATGGGTATAATTATATTTTATAATTTAAAA
2112965 TCATATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (34 bp):
TTATGGGTATAATTATATTTTATAATTTAAAAAT
Found at i:2114890 original size:24 final size:24
Alignment explanation
Indices: 2114863--2114951 Score: 105
Period size: 23 Copynumber: 3.8 Consensus size: 24
2114853 AGCTCGTATA
2114863 AATTTGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
*
2114887 AATTTGTC-CCGAAG-GACCGCGTAG
1 AATTTG-CACCGAAGTG-CCACGTAG
*
2114911 AA-ATGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
*
2114934 AATTT-CACCGTAGTGCCA
1 AATTTGCACCGAAGTGCCA
2114952 TATAATATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 30 0.55
24 23 0.42
25 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:2121193 original size:20 final size:20
Alignment explanation
Indices: 2121168--2121206 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2121158 AGATTATGTA
2121168 GGGGGTA-CAGATTCCCCCTG
1 GGGGGTATCA-ATTCCCCCTG
2121188 GGGGGTATCAATTCCCCCT
1 GGGGGTATCAATTCCCCCT
2121207 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (20 bp):
GGGGGTATCAATTCCCCCTG
Found at i:2122943 original size:11 final size:11
Alignment explanation
Indices: 2122929--2122963 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2122919 ATTTTACGGA
2122929 AGTATTGTAGC
1 AGTATTGTAGC
* *
2122940 AGTACTATAGC
1 AGTATTGTAGC
2122951 AGTATTGTAGC
1 AGTATTGTAGC
2122962 AG
1 AG
2122964 GGTATCGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (11 bp):
AGTATTGTAGC
Found at i:2122997 original size:22 final size:21
Alignment explanation
Indices: 2122956--2122998 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2122946 ATAGCAGTAT
* *
2122956 TGTAGCAGGGTATCGGTTCCC
1 TGTAGCAGGGAATCGATTCCC
2122977 TGTAGCAGGGGAATCGATTCCC
1 TGTAGCA-GGGAATCGATTCCC
2122999 CTATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGAATCGATTCCC
Found at i:2123634 original size:2 final size:2
Alignment explanation
Indices: 2123627--2123652 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2123617 ACTGGAAATA
2123627 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
2123653 GGATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2126075 original size:20 final size:20
Alignment explanation
Indices: 2126050--2126088 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2126040 AGATTATGCA
2126050 GGGGGTA-CAGATTCCCCCTG
1 GGGGGTATC-GATTCCCCCTG
2126070 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
2126089 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.23
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCCTG
Found at i:2126720 original size:43 final size:41
Alignment explanation
Indices: 2126655--2126735 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
2126645 AGCATGTTAT
* * **
2126655 ATGATATAATATTAAGTGATGAAACATATATGATATATATATG
1 ATGATATAAGAATAAGACATGAAACA-A-ATGATATATATATG
*
2126698 ATGATATAAGAATAAGACATGAATCAAATGATATATAT
1 ATGATATAAGAATAAGACATGAAACAAATGATATATAT
2126736 GTTTATGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 11 0.33
42 1 0.03
43 21 0.64
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (41 bp):
ATGATATAAGAATAAGACATGAAACAAATGATATATATATG
Found at i:2129464 original size:24 final size:24
Alignment explanation
Indices: 2129429--2129517 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 24
2129419 AGCTCGTATA
*
2129429 AATTTACACCGAAGTGCCACATAG
1 AATTTGCACCGAAGTGCCACATAG
* *
2129453 AATTTGTC-CCGAA-TGACCGCGTAG
1 AATTTG-CACCGAAGTG-CCACATAG
* *
2129477 AA-ATGCACCAAAGTGCCACATAG
1 AATTTGCACCGAAGTGCCACATAG
2129500 AA-TTGCACC-ATAGTGCCA
1 AATTTGCACCGA-AGTGCCA
2129518 TATAATATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 29 0.56
24 20 0.38
25 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACATAG
Found at i:2129802 original size:30 final size:30
Alignment explanation
Indices: 2129759--2129820 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
2129749 TATATCGCGC
*
2129759 AGACATATTATTTCCATACCTTTATCACAT
1 AGACATATCATTTCCATACCTTTATCACAT
* *
2129789 AGACTTATCATTTCCATACCTTTATCATAT
1 AGACATATCATTTCCATACCTTTATCACAT
2129819 AG
1 AG
2129821 CTCATATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AGACATATCATTTCCATACCTTTATCACAT
Found at i:2129905 original size:25 final size:25
Alignment explanation
Indices: 2129877--2129925 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2129867 ATGAACTTAT
* *
2129877 ATCATGTTTCATAATATGGAATATG
1 ATCATGTATCAAAATATGGAATATG
*
2129902 ATCATGTATCAAAATATTGAATAT
1 ATCATGTATCAAAATATGGAATAT
2129926 AGACTTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (25 bp):
ATCATGTATCAAAATATGGAATATG
Found at i:2137534 original size:2 final size:2
Alignment explanation
Indices: 2137529--2137559 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2137519 TTAAGATACA
2137529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2137560 ATGTTCATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2139840 original size:18 final size:18
Alignment explanation
Indices: 2139817--2139854 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2139807 GTTTGTCTTT
2139817 CCTTGCCTTCGACTATCA
1 CCTTGCCTTCGACTATCA
2139835 CCTTGCCTTCGACTATCA
1 CCTTGCCTTCGACTATCA
2139853 CC
1 CC
2139855 GGAAAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.42, G:0.11, T:0.32
Consensus pattern (18 bp):
CCTTGCCTTCGACTATCA
Found at i:2140125 original size:34 final size:35
Alignment explanation
Indices: 2140085--2140150 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2140075 CTACATATAG
*
2140085 ATATCTTTT-AGTATATAGAT-TTAAACATATAATA
1 ATATCTTTTAAATATA-AGATATTAAACATATAATA
*
2140119 ATATCTTTTAAATCTAAGATATTAAACATATA
1 ATATCTTTTAAATATAAGATATTAAACATATA
2140151 TACACTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (35 bp):
ATATCTTTTAAATATAAGATATTAAACATATAATA
Found at i:2143136 original size:37 final size:37
Alignment explanation
Indices: 2143094--2143168 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
2143084 CATTAAACCT
*
2143094 TTTTAT-AATTTCAATTTTGTAAAAAAAATTATATAAA
1 TTTTATGAATTTAAATTTTGTAAAAAAAA-TATATAAA
* *
2143131 TTTTATGAATTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTATGAATTTAAATTTTGTAAAAAAAATATATAAA
2143168 T
1 T
2143169 ATTTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 15 0.44
38 19 0.56
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTATGAATTTAAATTTTGTAAAAAAAATATATAAA
Found at i:2144738 original size:6 final size:6
Alignment explanation
Indices: 2144727--2144759 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2144717 TCTCGTCTCG
2144727 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2144760 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2144890 original size:20 final size:20
Alignment explanation
Indices: 2144865--2144967 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 20
2144855 TTTGACCGTT
*
2144865 TTGCGATTATCTGAATCGCG
1 TTGCGATTCTCTGAATCGCG
*
2144885 TTGCGATTCT-TGGAA--GACA
1 TTGCGATTCTCT-GAATCG-CG
2144904 TTGCGATTCTCTGAATCGCG
1 TTGCGATTCTCTGAATCGCG
2144924 TTGCGATTCT-TGGAA--GACG
1 TTGCGATTCTCT-GAATCG-CG
2144943 TTGCGATTCT-TGGAATCGCG
1 TTGCGATTCTCT-GAATCGCG
2144963 TTGCG
1 TTGCG
2144968 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.03
19 33 0.46
20 34 0.48
21 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
TTGCGATTCTCTGAATCGCG
Found at i:2144908 original size:39 final size:39
Alignment explanation
Indices: 2144865--2144967 Score: 172
Period size: 39 Copynumber: 2.6 Consensus size: 39
2144855 TTTGACCGTT
*
2144865 TTGCGATTATCTGAATCGCGTTGCGATTCTTGGAAGACA
1 TTGCGATTCTCTGAATCGCGTTGCGATTCTTGGAAGACA
*
2144904 TTGCGATTCTCTGAATCGCGTTGCGATTCTTGGAAGACG
1 TTGCGATTCTCTGAATCGCGTTGCGATTCTTGGAAGACA
2144943 TTGCGATTCT-TGGAATCGCGTTGCG
1 TTGCGATTCTCT-GAATCGCGTTGCG
2144968 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.02
39 60 0.98
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.34
Consensus pattern (39 bp):
TTGCGATTCTCTGAATCGCGTTGCGATTCTTGGAAGACA
Found at i:2144909 original size:19 final size:19
Alignment explanation
Indices: 2144883--2144957 Score: 100
Period size: 19 Copynumber: 3.9 Consensus size: 19
2144873 ATCTGAATCG
2144883 CGTTGCGATTCTTGGAAGA
1 CGTTGCGATTCTTGGAAGA
*
2144902 CATTGCGATTCTCT-GAATCG-
1 CGTTGCGATTCT-TGGAA--GA
2144922 CGTTGCGATTCTTGGAAGA
1 CGTTGCGATTCTTGGAAGA
2144941 CGTTGCGATTCTTGGAA
1 CGTTGCGATTCTTGGAA
2144958 TCGCGTTGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
18 1 0.02
19 32 0.65
20 15 0.31
21 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (19 bp):
CGTTGCGATTCTTGGAAGA
Found at i:2145118 original size:20 final size:20
Alignment explanation
Indices: 2145095--2145133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2145085 TAAATACTAT
* *
2145095 TTTAAGATTTTTTATATATG
1 TTTAAGATTATATATATATG
*
2145115 TTTAATATTATATATATAT
1 TTTAAGATTATATATATAT
2145134 ATGTATGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAAGATTATATATATATG
Found at i:2147611 original size:20 final size:20
Alignment explanation
Indices: 2147586--2147933 Score: 246
Period size: 20 Copynumber: 17.2 Consensus size: 20
2147576 TGCCAGAATT
* *
2147586 GCAACGCGAATATGAAAATC
1 GCAACGCGAATCTGTAAATC
* *
2147606 GCAACGCG-AGCATATAAATC
1 GCAACGCGAATC-TGTAAATC
* * *
2147626 GCAATGCGATTCTG-ACTATC
1 GCAACGCGAATCTGTA-AATC
* * *
2147646 GCAACGAGTATCCGTAAAAATC
1 GCAACGCGAATCTGT--AAATC
* *
2147668 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATCTGTAAATC
*
2147688 GCAACGAC-AATACAT-AAAATC
1 GCAACG-CGAAT-C-TGTAAATC
* *
2147709 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATCTGTAAATC
*
2147729 GCAACGAGAATAC-GTAAATC
1 GCAACGCGAAT-CTGTAAATC
*
2147749 GCAACGCGATTCTG-AATATC
1 GCAACGCGAATCTGTAA-ATC
* *
2147769 GCAACGAGAATAC-GTTAATC
1 GCAACGCGAAT-CTGTAAATC
*
2147789 GCAATGC-ATATCTGTAAATC
1 GCAACGCGA-ATCTGTAAATC
*
2147809 GCAACGAGAATAC-GTAAAATC
1 GCAACGCGAAT-CTGT-AAATC
*
2147830 GCAACGAGAATCTGTAAATC
1 GCAACGCGAATCTGTAAATC
*
2147850 GCAACGAGAATCTGTAAATC
1 GCAACGCGAATCTGTAAATC
** *
2147870 GCAACGATAATCCGTAAATC
1 GCAACGCGAATCTGTAAATC
** *
2147890 GCAACGATAATCCGTAAATC
1 GCAACGCGAATCTGTAAATC
*
2147910 GCAACGAGAATCTGTAAATC
1 GCAACGCGAATCTGTAAATC
2147930 GCAA
1 GCAA
2147934 TACTGAAATT
Statistics
Matches: 268, Mismatches: 38, Indels: 44
0.77 0.11 0.13
Matches are distributed among these distances:
19 7 0.03
20 204 0.76
21 39 0.15
22 17 0.06
23 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
GCAACGCGAATCTGTAAATC
Found at i:2147770 original size:40 final size:40
Alignment explanation
Indices: 2147586--2147933 Score: 316
Period size: 40 Copynumber: 8.6 Consensus size: 40
2147576 TGCCAGAATT
* * * *
2147586 GCAACGCGAATATGAAAATCGCAACGCGAGCATA--TAAATC
1 GCAACGCGATTCTGTAAATCGCAA--CGAGAATACGTAAATC
* * * *
2147626 GCAATGCGATTCTG-ACTATCGCAACGAGTATCCGTAAAAATC
1 GCAACGCGATTCTGTA-AATCGCAACGAGAATACGT--AAATC
* * *
2147668 GCAACGCG-TATCCGTAAATCGCAACGACAATACATAAAATC
1 GCAACGCGAT-TCTGTAAATCGCAACGAGAATACGT-AAATC
*
2147709 GCAACGCG-TATCCGTAAATCGCAACGAGAATACGTAAATC
1 GCAACGCGAT-TCTGTAAATCGCAACGAGAATACGTAAATC
*
2147749 GCAACGCGATTCTG-AATATCGCAACGAGAATACGTTAATC
1 GCAACGCGATTCTGTAA-ATCGCAACGAGAATACGTAAATC
*
2147789 GCAATGC-ATATCTGTAAATCGCAACGAGAATACGTAAAATC
1 GCAACGCGAT-TCTGTAAATCGCAACGAGAATACGT-AAATC
* *
2147830 GCAACGAGAATCTGTAAATCGCAACGAGAAT-CTGTAAATC
1 GCAACGCGATTCTGTAAATCGCAACGAGAATAC-GTAAATC
** * * * *
2147870 GCAACGATAATCCGTAAATCGCAACGATAATCCGTAAATC
1 GCAACGCGATTCTGTAAATCGCAACGAGAATACGTAAATC
* *
2147910 GCAACGAGAATCTGTAAATCGCAA
1 GCAACGCGATTCTGTAAATCGCAA
2147934 TACTGAAATT
Statistics
Matches: 266, Mismatches: 27, Indels: 30
0.82 0.08 0.09
Matches are distributed among these distances:
38 6 0.02
39 5 0.02
40 148 0.56
41 76 0.29
42 30 0.11
43 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
GCAACGCGATTCTGTAAATCGCAACGAGAATACGTAAATC
Found at i:2147847 original size:121 final size:121
Alignment explanation
Indices: 2147586--2147933 Score: 400
Period size: 121 Copynumber: 2.9 Consensus size: 121
2147576 TGCCAGAATT
* * * * *
2147586 GCAACGCGAATATGAAAATCGCAACGCGAGCATA--TAAATCGCAATGCGATTCTGACTATCGCA
1 GCAACGCGAATCTGTAAATCGCAA--CGAGAATACGTAAATCGCAACGCGATTCTGAATATCGCA
* * *
2147649 ACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATC
64 ACGAGAATCCGT--AAATCGCAACGCATATCTGTAAATCGCAACGACAATACATAAAATC
* *
2147709 GCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGATTCTGAATATCGCAAC
1 GCAACGCGAATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGCGATTCTGAATATCGCAAC
* * * * *
2147774 GAGAATACGTTAATCGCAATGCATATCTGTAAATCGCAACGAGAATACGTAAAATC
66 GAGAATCCGTAAATCGCAACGCATATCTGTAAATCGCAACGACAATACATAAAATC
* ** * *
2147830 GCAACGAGAATCTGTAAATCGCAACGAGAAT-CTGTAAATCGCAACGATAATCCGTAA-ATCGCA
1 GCAACGCGAATCTGTAAATCGCAACGAGAATAC-GTAAATCGCAACGCGATTCTG-AATATCGCA
* *
2147893 ACGATAATCCGTAAATCGCAACG-AGAATCTGTAAATCGCAA
64 ACGAGAATCCGTAAATCGCAACGCA-TATCTGTAAATCGCAA
2147934 TACTGAAATT
Statistics
Matches: 193, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
120 2 0.01
121 132 0.68
122 2 0.01
123 57 0.30
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (121 bp):
GCAACGCGAATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGCGATTCTGAATATCGCAAC
GAGAATCCGTAAATCGCAACGCATATCTGTAAATCGCAACGACAATACATAAAATC
Found at i:2148617 original size:12 final size:12
Alignment explanation
Indices: 2148596--2148629 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2148586 ACCGCATTTC
*
2148596 CAATACCAAACA
1 CAATATCAAACA
2148608 CAATATCAAACA
1 CAATATCAAACA
*
2148620 CAATCTCAAA
1 CAATATCAAA
2148630 ACCTACAACC
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:2148783 original size:24 final size:24
Alignment explanation
Indices: 2148756--2148809 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2148746 GTATTCGAAA
2148756 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
2148780 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
2148804 TTTGAT
1 TTTGAT
2148810 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:2151329 original size:20 final size:20
Alignment explanation
Indices: 2151288--2151329 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2151278 CTTAATGACT
*
2151288 ATCGCAACGCAGAAATTACA
1 ATCGCAACGCAGAAATCACA
*
2151308 ATCGCAACG-AGAGAATCGCA
1 ATCGCAACGCAGA-AATCACA
2151328 AT
1 AT
2151330 GCGAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCAGAAATCACA
Found at i:2151349 original size:33 final size:33
Alignment explanation
Indices: 2151288--2151488 Score: 177
Period size: 33 Copynumber: 5.8 Consensus size: 33
2151278 CTTAATGACT
* * * *
2151288 ATCGCAACGCAGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCACAACGAGAGA
* * *
2151322 ATCGCAATGCGAAATGAAAATTACAACGTGAAA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
* * * * *
2151355 ATCACAACGCGAGTATGAATATCACAACGCGGAAATGA
1 ATCGCAATGCGA-AATGAAAATCACAA--C-GAGA-GA
*
2151393 CTATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 --ATCGCAATGCGAAATGAAAATCACAACGAGAGA
* *
2151428 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
* *
2151461 ATCGCAATGCGAAATTAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCACAACG
2151489 CGAATTTAGT
Statistics
Matches: 137, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
33 86 0.63
34 20 0.15
35 2 0.01
36 4 0.03
37 3 0.02
38 1 0.01
39 11 0.08
40 10 0.07
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAGA
Found at i:2151392 original size:20 final size:19
Alignment explanation
Indices: 2151350--2151422 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
2151340 AATTACAACG
*
2151350 TGAAAATCACAACGCGAGTA
1 TGAAAATCACAACGCGA-AA
*
2151370 TGAATATCACAACGCGGAAA
1 TGAAAATCACAACGC-GAAA
** * *
2151390 TGACTATCGCAATGCGAAA
1 TGAAAATCACAACGCGAAA
*
2151409 TGAAAATCGCAACG
1 TGAAAATCACAACG
2151423 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 15 0.34
20 27 0.61
21 2 0.05
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (19 bp):
TGAAAATCACAACGCGAAA
Found at i:2151410 original size:19 final size:17
Alignment explanation
Indices: 2151395--2151475 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 17
2151385 GGAAATGACT
2151395 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
2151414 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
2151428 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
**
2151447 ATCGCAA--CG-AGGGA
1 ATCGCAATGCGAAATGA
2151461 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
2151476 TAAAATCGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
14 16 0.33
16 9 0.19
17 8 0.17
19 15 0.31
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:2151422 original size:73 final size:66
Alignment explanation
Indices: 2151292--2151488 Score: 187
Period size: 73 Copynumber: 2.9 Consensus size: 66
2151282 ATGACTATCG
* * * * ** *
2151292 CAACGCAGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTACAACGTGAAAAT
1 CAACGC-GAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGAGAAAAT
2151357 CA
65 CA
* * *
2151359 CAACGCGAGTATGAATATCACAACGCGGAAATGACTATCGCAATGCGAAATGAAAATCGCAACGA
1 CAACGCGA-AATGAAAATCACAACGAGG----GA--ATCGCAATGCGAAATGAAAATCGCAACGA
* *
2151424 GAGAATCG
59 GAAAATCA
* * *
2151432 CAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATTAAAATCGCAACG
1 CAACGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACG
2151489 CGAATTTAGT
Statistics
Matches: 105, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
66 29 0.28
67 18 0.17
68 2 0.02
71 2 0.02
72 15 0.14
73 39 0.37
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (66 bp):
CAACGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATC
A
Found at i:2151542 original size:33 final size:33
Alignment explanation
Indices: 2151498--2151577 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
2151488 GCGAATTTAG
* * *
2151498 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
*
2151531 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
2151564 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
2151578 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
Found at i:2151585 original size:19 final size:19
Alignment explanation
Indices: 2151517--2151577 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
2151507 GCGATTTTGT
2151517 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
2151536 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
2151552 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
2151569 CATTGCGAT
1 CATTGCGAT
2151578 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 6 0.17
16 7 0.20
17 7 0.20
19 15 0.43
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:2151703 original size:14 final size:14
Alignment explanation
Indices: 2151684--2151720 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2151674 CATCAATTAA
2151684 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2151698 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2151712 ACAAATCAA
1 ACAAATCAA
2151721 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2153150 original size:42 final size:41
Alignment explanation
Indices: 2153065--2153187 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2153055 GTGAATCGGG
* * * *
2153065 CTCTTGAAAGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
2153107 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
2153149 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
2153188 CGAGCCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:2153679 original size:19 final size:19
Alignment explanation
Indices: 2153620--2153699 Score: 80
Period size: 19 Copynumber: 4.5 Consensus size: 19
2153610 AAAAATGACT
*
2153620 ATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAAATGAAA
2153639 ATCGCAACGAG--A-G--A
1 ATCGCAACGAGAAATGAAA
*
2153653 ACCGCAACGAGAAATGAAA
1 ATCGCAACGAGAAATGAAA
* **
2153672 ATCGCAACGCGAAACCAAA
1 ATCGCAACGAGAAATGAAA
2153691 ATCGCAACG
1 ATCGCAACG
2153700 TGATTATAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.22
16 2 0.04
17 2 0.04
19 35 0.70
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.07
Consensus pattern (19 bp):
ATCGCAACGAGAAATGAAA
Found at i:2153721 original size:19 final size:19
Alignment explanation
Indices: 2153699--2153742 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2153689 AAATCGCAAC
2153699 GTGATTATAGTTTCGCGTT
1 GTGATTATAGTTTCGCGTT
* *
2153718 GTGATTTTGGTTTCGCGTT
1 GTGATTATAGTTTCGCGTT
*
2153737 GCGATT
1 GTGATT
2153743 CTCTCGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.48
Consensus pattern (19 bp):
GTGATTATAGTTTCGCGTT
Found at i:2153756 original size:14 final size:14
Alignment explanation
Indices: 2153733--2153789 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2153723 TTTGGTTTCG
2153733 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2153747 CGTTGTGATTTTCATTTCT
1 CGTTGCGA--TTC---TCT
2153766 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2153780 CGTTGCGATT
1 CGTTGCGATT
2153790 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2153756 original size:33 final size:33
Alignment explanation
Indices: 2153714--2153807 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
2153704 TATAGTTTCG
**
2153714 CGTTGTGATTTTGGTTTCGCGTTGCGATTCTCT
1 CGTTGTGATTTTCATTTCGCGTTGCGATTCTCT
*
2153747 CGTTGTGATTTTCATTTCTCGTTGCGATTCTCT
1 CGTTGTGATTTTCATTTCGCGTTGCGATTCTCT
*
2153780 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGTGATTTTCATTTCGCGTTGCGAT
2153808 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.48
Consensus pattern (33 bp):
CGTTGTGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:2153768 original size:19 final size:19
Alignment explanation
Indices: 2153744--2153831 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
2153734 GTTGCGATTC
*
2153744 TCTCGTTGTGATTTTCATT
1 TCTCGTTGCGATTTTCATT
2153763 TCTCGTTGCGA--TTC---
1 TCTCGTTGCGATTTTCATT
2153777 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
* **
2153796 TCGCGTTGCGATAGTCATTTT
1 TCTCGTTGCGATTTTCA--TT
*
2153817 TCACGTTGCGATTTT
1 TCTCGTTGCGATTTT
2153832 AAGTTTCGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 11 0.20
16 3 0.05
17 3 0.05
19 24 0.44
21 14 0.25
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.49
Consensus pattern (19 bp):
TCTCGTTGCGATTTTCATT
Found at i:2154158 original size:94 final size:93
Alignment explanation
Indices: 2153895--2154179 Score: 428
Period size: 94 Copynumber: 3.1 Consensus size: 93
2153885 ATGGATTGCA
* * * *
2153895 TTACTTCAACCAATAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* *
2153960 TAGCAGAATTGGTAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
*
2153988 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ATTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2154052 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
* * * *
2154081 TTACTTCAACCAAAAGACAAAACAAAAGAAAAATATTAACTTCACAGTGTTAAAGAATAAACATT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2154146 TTAGCAGTATTGGCATCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
2154175 TTACT
1 TTACT
2154180 AAGCAATCTA
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
92 19 0.11
93 70 0.40
94 86 0.49
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:2155929 original size:19 final size:19
Alignment explanation
Indices: 2155866--2155944 Score: 104
Period size: 20 Copynumber: 4.1 Consensus size: 19
2155856 CTTTTGGTTC
*
2155866 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
**
2155885 AGAATGACTATCGCAACGCGG
1 A-AATGAAAATCGCAACGC-G
2155906 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
2155925 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAACGCG
2155944 A
1 A
2155945 TTTTGGTTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 21 0.40
20 29 0.56
21 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:2155982 original size:21 final size:21
Alignment explanation
Indices: 2155956--2156027 Score: 110
Period size: 21 Copynumber: 3.5 Consensus size: 21
2155946 TTTGGTTTCG
2155956 CGTTGCGATTTTCATTTCTCT
1 CGTTGCGATTTTCATTTCTCT
** *
2155977 CGTTGCGATAGTCATTT-TCG
1 CGTTGCGATTTTCATTTCTCT
2155997 CGTTGCGATTTTCATTTCTCT
1 CGTTGCGATTTTCATTTCTCT
2156018 CGTTGCGATT
1 CGTTGCGATT
2156028 CTTCTGCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.47
Consensus pattern (21 bp):
CGTTGCGATTTTCATTTCTCT
Found at i:2156645 original size:22 final size:20
Alignment explanation
Indices: 2156566--2156656 Score: 94
Period size: 20 Copynumber: 4.4 Consensus size: 20
2156556 CTTTAAAAAT
*
2156566 CGCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
* *
2156586 CGCGTTGCGATTTTAAGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2156606 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
2156627 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGA--TTTACGGATA
*
2156649 CTCGTTGC
1 CGCGTTGC
2156657 AATAGTCAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
20 26 0.44
21 16 0.27
22 17 0.29
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2157245 original size:20 final size:20
Alignment explanation
Indices: 2157222--2157296 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 20
2157212 AATTTTATGT
*
2157222 TAAAAGATAAATTTTTAAAA
1 TAAAAAATAAATTTTTAAAA
* *
2157242 TAAAACTTATAAAATTTTATGAAA
1 TAAAA--AAT-AAATTTT-TAAAA
2157266 TAAAAAAT-AATTTTTAATAA
1 TAAAAAATAAATTTTTAA-AA
2157286 -AAAAACATAAA
1 TAAAAA-ATAAA
2157297 AATATATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
19 7 0.16
20 15 0.34
21 2 0.05
22 4 0.09
23 7 0.16
24 9 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAATAAATTTTTAAAA
Found at i:2157296 original size:42 final size:41
Alignment explanation
Indices: 2157210--2157297 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
2157200 AGAGTTACAC
* * *
2157210 AAAATTTTATGTTAAAAGATAAATTTTTAAAATAAAACTTAT
1 AAAATTTTATGATAAAAAATAAATTTTTAAAAAAAAAC-TAT
2157252 AAAATTTTATGAAATAAAAAAT-AATTTTTAATAAAAAAAC-AT
1 AAAATTTTATG--ATAAAAAATAAATTTTTAA-AAAAAAACTAT
2157294 AAAA
1 AAAA
2157298 ATATATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
42 17 0.43
43 9 0.22
44 14 0.35
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (41 bp):
AAAATTTTATGATAAAAAATAAATTTTTAAAAAAAAACTAT
Found at i:2157299 original size:43 final size:42
Alignment explanation
Indices: 2157210--2157299 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 42
2157200 AGAGTTACAC
* * * *
2157210 AAAATTTTATGTTAAAAGATAAATTTTTAAAATAAAACTTAT
1 AAAATTTTATGATAAAAAATAAATTTTTAAAAAAAAACATAT
2157252 AAAATTTTATGAAATAAAAAAT-AATTTTTAATAAAAAAACATA-
1 AAAATTTTATG--ATAAAAAATAAATTTTTAA-AAAAAAACATAT
2157295 AAAAT
1 AAAAT
2157300 ATATAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.27
43 14 0.34
44 16 0.39
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (42 bp):
AAAATTTTATGATAAAAAATAAATTTTTAAAAAAAAACATAT
Found at i:2164378 original size:466 final size:466
Alignment explanation
Indices: 2163499--2164418 Score: 1788
Period size: 466 Copynumber: 2.0 Consensus size: 466
2163489 GGGTGAACTC
*
2163499 AATTTGGAAAATAAGTTACCCAAAATTCAAATAAAGTTGAATGTCCAAAAACGAAAGAGAAATTA
1 AATTTGGAAAATAAGTTACCCAAAATTCAAATAAAGTTGAATGTCCAAAAACAAAAGAGAAATTA
*
2163564 ACATATAAGTAACTAGTATTATTCTTCATTTCGAGTTCGAGCAGCTACGTTTGTAGAGTTTATGC
66 ACATATAAGTAACTAGTATTATTCTTCATTCCGAGTTCGAGCAGCTACGTTTGTAGAGTTTATGC
2163629 ATTATCAATAGTTAAAAAAGATTATGAACATATATTATCTTGTAATCACTCCAACTATTAAAAAA
131 ATTATCAATAGTTAAAAAAGATTATGAACATATATTATCTTGTAATCACTCCAACTATTAAAAAA
2163694 ATCGTCACCTAGTCAGTAAGTATTATTCCACTTCAATAAATATGAATGGTTTATATTCAAATGAA
196 ATCGTCACCTAGTCAGTAAGTATTATTCCACTTCAATAAATATGAATGGTTTATATTCAAATGAA
2163759 ATCTCTTAAGAAATAAGTCCATCAGCTGAAATCATTTTCTTTTTCACATTAGTCCCATCGATAAC
261 ATCTCTTAAGAAATAAGTCCATCAGCTGAAATCATTTTCTTTTTCACATTAGTCCCATCGATAAC
2163824 CATGAAGAGGAATATAATAAATGGGGTTCTTTTAGTTCACAGAATGGCAAGGAGACGGATATCTC
326 CATGAAGAGGAATATAATAAATGGGGTTCTTTTAGTTCACAGAATGGCAAGGAGACGGATATCTC
2163889 TGGTTAACAAAGGATCCCATTTAGGGCAGCATATATCTTATAATCAACACAAATAAGAATTTATG
391 TGGTTAACAAAGGATCCCATTTAGGGCAGCATATATCTTATAATCAACACAAATAAGAATTTATG
2163954 CATTGTCCAAA
456 CATTGTCCAAA
2163965 AATTTGTG-AAATAAGTTACCCAAAATTCAAATAAAGTTGAATGTCCAAAAACAAAAGAGAAATT
1 AATTTG-GAAAATAAGTTACCCAAAATTCAAATAAAGTTGAATGTCCAAAAACAAAAGAGAAATT
2164029 AACATATAAGTAACTAGTATTATTCTTCATTCCGAGTTCGAGCAGCTACGTTTGTAGAGTTTATG
65 AACATATAAGTAACTAGTATTATTCTTCATTCCGAGTTCGAGCAGCTACGTTTGTAGAGTTTATG
* *
2164094 CATTGTCAATAGTTAAAAAAGATTATGAACATATATTATCTTGTAATCACTCTAACTATTAAAAA
130 CATTATCAATAGTTAAAAAAGATTATGAACATATATTATCTTGTAATCACTCCAACTATTAAAAA
2164159 AATCGTCACCTAGTCAGTAAGTATTATTCCACTTCAATAAATATGAATGGTTTATATTCAAATGA
195 AATCGTCACCTAGTCAGTAAGTATTATTCCACTTCAATAAATATGAATGGTTTATATTCAAATGA
2164224 AATCTCTTAAGAAATAAGTCCATCAGCTGAAATCATTTTCTTTTTCACATTAGTCCCATCGATAA
260 AATCTCTTAAGAAATAAGTCCATCAGCTGAAATCATTTTCTTTTTCACATTAGTCCCATCGATAA
2164289 CCATGAAGAGGAATATAATAAATGGGGTTCTTTTAGTTCACAGAATGGCAAGGAGACGGATATCT
325 CCATGAAGAGGAATATAATAAATGGGGTTCTTTTAGTTCACAGAATGGCAAGGAGACGGATATCT
2164354 CTGGTTAACAAAGGATCCCATTTAGGGCAGCATATATCTTATAATCAACACAAATAAGAATTTAT
390 CTGGTTAACAAAGGATCCCATTTAGGGCAGCATATATCTTATAATCAACACAAATAAGAATTTAT
2164419 TCTTATTTGT
Statistics
Matches: 449, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
466 448 1.00
467 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (466 bp):
AATTTGGAAAATAAGTTACCCAAAATTCAAATAAAGTTGAATGTCCAAAAACAAAAGAGAAATTA
ACATATAAGTAACTAGTATTATTCTTCATTCCGAGTTCGAGCAGCTACGTTTGTAGAGTTTATGC
ATTATCAATAGTTAAAAAAGATTATGAACATATATTATCTTGTAATCACTCCAACTATTAAAAAA
ATCGTCACCTAGTCAGTAAGTATTATTCCACTTCAATAAATATGAATGGTTTATATTCAAATGAA
ATCTCTTAAGAAATAAGTCCATCAGCTGAAATCATTTTCTTTTTCACATTAGTCCCATCGATAAC
CATGAAGAGGAATATAATAAATGGGGTTCTTTTAGTTCACAGAATGGCAAGGAGACGGATATCTC
TGGTTAACAAAGGATCCCATTTAGGGCAGCATATATCTTATAATCAACACAAATAAGAATTTATG
CATTGTCCAAA
Found at i:2165531 original size:102 final size:101
Alignment explanation
Indices: 2165397--2165594 Score: 310
Period size: 102 Copynumber: 2.0 Consensus size: 101
2165387 TTAAGGAGTA
* *
2165397 CAAAATTAGATGATCAATAAAAGATACAAAAATAAAATATAAAATATAAGAGAATTTAAAAATTC
1 CAAAATTAGATGATCAATAAAAGATAAAAAAATAAAATATAAAATATAAGAGAACTTAAAAATTC
*
2165462 TAGGAT-GTGACTGCACCTCAACACCCCTTGTCAAGTG
66 TAGGATAG-GACCGCA-CTCAACACCCCTTGTCAAGTG
*
2165499 CAAAATTAGATGATTAATAGAAA-ATAAAAAAATAAAATATAAAATATAAGAGAACTTAAAAATT
1 CAAAATTAGATGATCAATA-AAAGATAAAAAAATAAAATATAAAATATAAGAGAACTTAAAAATT
*
2165563 CTAGGGTAGGACCGCACTCAACACCCCTTGTC
65 CTAGGATAGGACCGCACTCAACACCCCTTGTC
2165595 CATCCCTGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
101 16 0.18
102 69 0.78
103 4 0.04
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.24
Consensus pattern (101 bp):
CAAAATTAGATGATCAATAAAAGATAAAAAAATAAAATATAAAATATAAGAGAACTTAAAAATTC
TAGGATAGGACCGCACTCAACACCCCTTGTCAAGTG
Done.