Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 35
Found at i:3781689 original size:21 final size:20
Alignment explanation
Indices: 3781645--3781683 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3781635 ATGGAAGAGA
*
3781645 GAAATGAAATGATAGGAAAG
1 GAAATGAAATGAAAGGAAAG
3781665 GAAATGGAAATGAAAGGAA
1 GAAAT-GAAATGAAAGGAA
3781684 TTGAAAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.13
Consensus pattern (20 bp):
GAAATGAAATGAAAGGAAAG
Found at i:3783864 original size:293 final size:293
Alignment explanation
Indices: 3783336--3783928 Score: 1105
Period size: 293 Copynumber: 2.0 Consensus size: 293
3783326 GGGAAGAACA
*
3783336 CACCAAAAAGGAATGGATCAAGACAAGTTTGCAGTGAAAAGCAAGTTGATTTATCCTTTAGAGTT
1 CACCAAAAAGGAATGGATCAAGACAAGTTTGCAGAGAAAAGCAAGTTGATTTATCCTTTAGAGTT
* *
3783401 TTAGATGGTTGCAAGAGACCTGGGAAGGGAACTCCTGATATTGGTATGTGTACTGAAACTTGGGT
66 TTAGATGGTTACAAGAGACCTGGGAAGAGAACTCCTGATATTGGTATGTGTACTGAAACTTGGGT
*
3783466 TCAGTGTGATGCTTGACACAAGTGGAGGAAACTTGTAGGCTCAAGTTTAACTGATTCTAAGGTAG
131 TCAGTGTGATGCTTGACACAAGTGGAGGAAACTTGTAGGCTCAAGTTTAACTGATTCCAAGGTAG
*
3783531 CATGGTTTTGTAGTATGAACACTGACCTTGCACATCAGGACTGTACTGATCCTGAAGAGGCATGG
196 CATGGTTTTGTAGTATGAACACTGACCTTGCACATCAGGACTGTACTGATCATGAAGAGGCATGG
*
3783596 GATACTCATGGTTCTATAGCTACCAAGATTTTT
261 GATACTCATGGTTCTATAGCTACCAAGAATTTT
3783629 CACCAAAAAGGAATGGATCAAGACAAGTTTGCAGAGAAAAGCAAGTTGATTTATCCTTTAGAGTT
1 CACCAAAAAGGAATGGATCAAGACAAGTTTGCAGAGAAAAGCAAGTTGATTTATCCTTTAGAGTT
* *
3783694 TTAGATGGTTACAAGAGACCTGGGAAGAGAACTGCTGATATTGGTATGTGTATTGAAACTTGGGT
66 TTAGATGGTTACAAGAGACCTGGGAAGAGAACTCCTGATATTGGTATGTGTACTGAAACTTGGGT
3783759 TCAGTGTGATGCTTGACACAAGTGGAGGAAACTTGTAGGCTCAAGTTTAACTGATTCCAAGGTAG
131 TCAGTGTGATGCTTGACACAAGTGGAGGAAACTTGTAGGCTCAAGTTTAACTGATTCCAAGGTAG
*
3783824 CATGGTTTTGTAGTATGAACACTGACCTTGCACGTCAGGACTGTACTGATCATGAAGAGGCATGG
196 CATGGTTTTGTAGTATGAACACTGACCTTGCACATCAGGACTGTACTGATCATGAAGAGGCATGG
3783889 GATACTCATGGTTCTATAGCTACCAAGAATTTT
261 GATACTCATGGTTCTATAGCTACCAAGAATTTT
3783922 CACCAAA
1 CACCAAA
3783929 GGATCAGCTG
Statistics
Matches: 291, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
293 291 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (293 bp):
CACCAAAAAGGAATGGATCAAGACAAGTTTGCAGAGAAAAGCAAGTTGATTTATCCTTTAGAGTT
TTAGATGGTTACAAGAGACCTGGGAAGAGAACTCCTGATATTGGTATGTGTACTGAAACTTGGGT
TCAGTGTGATGCTTGACACAAGTGGAGGAAACTTGTAGGCTCAAGTTTAACTGATTCCAAGGTAG
CATGGTTTTGTAGTATGAACACTGACCTTGCACATCAGGACTGTACTGATCATGAAGAGGCATGG
GATACTCATGGTTCTATAGCTACCAAGAATTTT
Found at i:3787033 original size:24 final size:24
Alignment explanation
Indices: 3787006--3787056 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
3786996 AACAGGTAGG
3787006 TTAATTATTGATTTAATCGTTTTA
1 TTAATTATTGATTTAATCGTTTTA
*
3787030 TTAATTCTTGATTTAATCGTTTTA
1 TTAATTATTGATTTAATCGTTTTA
3787054 TTA
1 TTA
3787057 TGTAGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (24 bp):
TTAATTATTGATTTAATCGTTTTA
Found at i:3789746 original size:6 final size:6
Alignment explanation
Indices: 3789735--3789762 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3789725 GGCATGCCAA
3789735 ATCCTC ATCCTC ATCCTC ATCCTC ATCC
1 ATCCTC ATCCTC ATCCTC ATCCTC ATCC
3789763 CAGGACATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCCTC
Found at i:3795562 original size:20 final size:22
Alignment explanation
Indices: 3795537--3795578 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3795527 ATGTTCAAAT
3795537 ATTGTTT-AAA-GATTAATTTA
1 ATTGTTTGAAAGGATTAATTTA
3795557 ATTGTTTGAAAGTGATTAATTT
1 ATTGTTTGAAAG-GATTAATTT
3795579 TCAATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
23 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
ATTGTTTGAAAGGATTAATTTA
Found at i:3795735 original size:23 final size:21
Alignment explanation
Indices: 3795663--3795744 Score: 105
Period size: 20 Copynumber: 3.9 Consensus size: 21
3795653 TTTTGGTGCA
*
3795663 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
3795683 GAGGGAACCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
3795703 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
3795724 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
3795745 CACAGGGGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 30 0.55
21 8 0.15
22 1 0.02
23 16 0.29
ACGTcount: A:0.23, C:0.37, G:0.26, T:0.15
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:3795751 original size:22 final size:21
Alignment explanation
Indices: 3795675--3795766 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 21
3795665 GGGAATCGAT
*
3795675 CCCCCCATGAGGGAACCGA-T-
1 CCCCCCAAG-GGGAACCGATTC
*
3795695 CCCCCCATGAGGGAACCGATTC
1 CCCCCCAAG-GGGAACCGATTC
**
3795717 CCCCTTTGAAGGGGAACCGATTC
1 CCCC--CCAAGGGGAACCGATTC
* *
3795740 CCCCCCACAGGGGAATCGATAC
1 CCCCCCA-AGGGGAACCGATTC
3795762 CCCCC
1 CCCCC
3795767 TGGGGTTCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
20 19 0.32
21 2 0.03
22 21 0.35
23 16 0.27
24 2 0.03
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (21 bp):
CCCCCCAAGGGGAACCGATTC
Found at i:3800066 original size:20 final size:20
Alignment explanation
Indices: 3800022--3800066 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3800012 GAAGCTGAGA
*
3800022 GGTTTAAGTGAGTTTTGGGT
1 GGTTTAAGTGAGTTTTAGGT
*
3800042 AGTTTAAG-GATGTTTTAGGT
1 GGTTTAAGTGA-GTTTTAGGT
3800062 GGTTT
1 GGTTT
3800067 TAAGCCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.47
Consensus pattern (20 bp):
GGTTTAAGTGAGTTTTAGGT
Found at i:3803036 original size:65 final size:65
Alignment explanation
Indices: 3802964--3803120 Score: 228
Period size: 65 Copynumber: 2.4 Consensus size: 65
3802954 ACACCCTATT
* * *
3802964 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATTGATGCACTC-TTGAATATTTTGAAA
1 TCGAATGCATTTAGTGTACCGATGCACAGA-CCATGCATCGATGCACTCATAG-ATATTTTGAAA
3803027 CA
64 CA
*
3803029 TCGAATGCATTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCATAGCTATTTTGAAACA
1 TCGAATGCATTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCATAGATATTTTGAAACA
* *
3803094 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTAGTGTACCGATGCAC
3803121 CCCTAGTGTA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 81 0.96
66 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCATAGATATTTTGAAACA
Found at i:3803129 original size:19 final size:19
Alignment explanation
Indices: 3803105--3803158 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
3803095 CGAATGTAAT
*
3803105 TAGTGTACCGATGCACCCC
1 TAGTGTACTGATGCACCCC
3803124 TAGTGTACTGATGCACCCC
1 TAGTGTACTGATGCACCCC
3803143 TAGTGTACTGATGCAC
1 TAGTGTACTGATGCAC
3803159 TAAGTCTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (19 bp):
TAGTGTACTGATGCACCCC
Found at i:3803228 original size:54 final size:54
Alignment explanation
Indices: 3803143--3803267 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
3803133 GATGCACCCC
3803143 TAGTGTACTGATGCACTAAGTCTTATAACGGTAGAAATATTTGAATTTTACACA
1 TAGTGTACTGATGCACTAAGTCTTATAACGGTAGAAATATTTGAATTTTACACA
* *
3803197 TATTGTACTGATGCACTAAGTCTTATAACGGTCGAAATATTTGAATTTTACACA
1 TAGTGTACTGATGCACTAAGTCTTATAACGGTAGAAATATTTGAATTTTACACA
3803251 TAGTGTA-TCGATGCACT
1 TAGTGTACT-GATGCACT
3803268 CTTTTAGTGC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 1 0.01
54 66 0.99
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
TAGTGTACTGATGCACTAAGTCTTATAACGGTAGAAATATTTGAATTTTACACA
Found at i:3808979 original size:23 final size:22
Alignment explanation
Indices: 3808949--3809028 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
3808939 ACACTAGACA
3808949 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
* * *
3808972 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
* *
3808993 GTGCACCGACGCATTCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
3809016 GTGCATCGATGCA
1 GTGCATCGATGCA
3809029 CTCTACTGTG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 16 0.36
23 29 0.64
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:3808996 original size:21 final size:20
Alignment explanation
Indices: 3808930--3808997 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 20
3808920 TTGTGCACTA
*
3808930 TGCATCGATACACTA-GACAG
1 TGCATCGATACACCATGA-AG
* *
3808950 TGCATCGATGCATCCCTTGAATG
1 TGCATCGATACA--CCATGAA-G
3808973 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCATGAA-G
3808994 TGCA
1 TGCA
3808998 CCGACGCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
20 11 0.29
21 11 0.29
22 2 0.05
23 14 0.37
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (20 bp):
TGCATCGATACACCATGAAG
Found at i:3809014 original size:44 final size:43
Alignment explanation
Indices: 3808930--3809025 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 43
3808920 TTGTGCACTA
* * *
3808930 TGCATCGATACACTAGACAGTGCATCGATGCATCCCTTGAATG
1 TGCATCGATACACCAGACAGTGCACCGACGCATCCCTTGAATG
*
3808973 TGCATCGATACACCATGA-AGGTGCACCGACGCATTCCTTGAATG
1 TGCATCGATACACCA-GACA-GTGCACCGACGCATCCCTTGAATG
3809017 TGCATCGAT
1 TGCATCGAT
3809026 GCACTCTACT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 15 0.32
44 32 0.68
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
TGCATCGATACACCAGACAGTGCACCGACGCATCCCTTGAATG
Found at i:3809516 original size:12 final size:13
Alignment explanation
Indices: 3809485--3809519 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
3809475 TTACATATTA
3809485 ATTTTCAAACATT
1 ATTTTCAAACATT
*
3809498 GTTTTCAAA-ATT
1 ATTTTCAAACATT
3809510 ATTTTCAAAC
1 ATTTTCAAAC
3809520 TTTGCCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (13 bp):
ATTTTCAAACATT
Found at i:3811729 original size:65 final size:65
Alignment explanation
Indices: 3811640--3811796 Score: 215
Period size: 65 Copynumber: 2.4 Consensus size: 65
3811630 ACACCCTATT
* * *
3811640 TCGAATGTATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCTTGAATATTTTGAAACA
1 TCGAATGTATTTAGTGTACCGATGCACAAACCATACATCGATGCACTCATGAATATTTTGAAACA
* * * * **
3811705 TCGAATGCATTTAGTATACCGATGCACAAACCATGCATCGATGTACTCATGGCTATTTTGAAACA
1 TCGAATGTATTTAGTGTACCGATGCACAAACCATACATCGATGCACTCATGAATATTTTGAAACA
* *
3811770 TCAAATGTAATTAGTGTACCGATGCAC
1 TCGAATGTATTTAGTGTACCGATGCAC
3811797 CCCTAGTGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (65 bp):
TCGAATGTATTTAGTGTACCGATGCACAAACCATACATCGATGCACTCATGAATATTTTGAAACA
Found at i:3826941 original size:9 final size:9
Alignment explanation
Indices: 3826929--3826972 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
3826919 TAATAATAAT
3826929 AAAGGAAAA
1 AAAGGAAAA
3826938 AAAGG-AAA
1 AAAGGAAAA
3826946 AAAGGAAAA
1 AAAGGAAAA
3826955 AAAGG-AAA
1 AAAGGAAAA
3826963 AAAGGAAAA
1 AAAGGAAAA
3826972 A
1 A
3826973 GGAAAAAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.48
9 17 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAGGAAAA
Found at i:3826951 original size:17 final size:17
Alignment explanation
Indices: 3826929--3826985 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
3826919 TAATAATAAT
3826929 AAAGGAAAAAAAGGAAA
1 AAAGGAAAAAAAGGAAA
3826946 AAAGGAAAAAAAGGAAA
1 AAAGGAAAAAAAGGAAA
3826963 AAAGG--AAAAAGG-AA
1 AAAGGAAAAAAAGGAAA
3826977 AAAGGAAAA
1 AAAGGAAAA
3826986 TAAAATAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.18
15 7 0.18
16 2 0.05
17 22 0.58
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGGAAAAAAAGGAAA
Found at i:3826954 original size:7 final size:8
Alignment explanation
Indices: 3826929--3826985 Score: 82
Period size: 8 Copynumber: 7.1 Consensus size: 8
3826919 TAATAATAAT
3826929 AAAGGAAAA
1 AAAGG-AAA
3826938 AAAGGAAA
1 AAAGGAAA
3826946 AAAGGAAAA
1 AAAGG-AAA
3826955 AAAGGAAA
1 AAAGGAAA
3826963 AAAGG-AA
1 AAAGGAAA
3826970 AAAGG-AA
1 AAAGGAAA
3826977 AAAGGAAA
1 AAAGGAAA
3826985 A
1 A
3826986 TAAAATAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.30
8 19 0.41
9 13 0.28
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAGGAAA
Found at i:3827096 original size:17 final size:17
Alignment explanation
Indices: 3827069--3827112 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3827059 GAAAGAAAAT
* *
3827069 AAGATAAAAATAGATAA
1 AAGAAAAAAATAAATAA
* *
3827086 AATAAAAAAATAAATCA
1 AAGAAAAAAATAAATAA
3827103 AAGAAAAAAA
1 AAGAAAAAAA
3827113 CATATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
AAGAAAAAAATAAATAA
Found at i:3828787 original size:85 final size:85
Alignment explanation
Indices: 3828688--3829233 Score: 643
Period size: 85 Copynumber: 6.4 Consensus size: 85
3828678 TCAAATTAAT
* * * *
3828688 CTATGATGCAAATTTGACATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTAACAG
1 CTATGCTGTAAATTTGATATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAG
3828753 ATAACCCTTCTCGCCTTGAG
66 ATAACCCTTCTCGCCTTGAG
* *
3828773 CTATGCTGTAAATTTGATATGCCAC-AGAGCTGAGTGTAATCGAACTCGAGGGTCTTGGTTGACA
1 CTATGCTGTAAATTTGATATGCC-CTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACA
*
3828837 GATAACCCTTCTCACCTTGAG
65 GATAACCCTTCTCGCCTTGAG
* * * * * * *
3828858 TTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTTGATGACA
1 CTATGCTGTAAATTTGATATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACA
* * *
3828923 TATAGCCTTTCTCGCCTTGAG
65 GATAACCCTTCTCGCCTTGAG
* *
3828944 CTATGCTGTAAATTTGATGTG-CCTTGGAGCTGAGTGTAATCAAACTCG-AGGTCTTGGTTGACA
1 CTATGCTGTAAATTTGATATGCCCTT-GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACA
*
3829007 TATAACCCTTCTCGCCTTGAG
65 GATAACCCTTCTCGCCTTGAG
* * * * * * *
3829028 TTATGTTATAAATTTGATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGATCTTTTGATT-AC
1 CTATGCTGTAAATTTGATATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTC--TTGGTTGAC
* * *
3829092 AGATAGCCCTTATCGGCTTGAG
64 AGATAACCCTTCTCGCCTTGAG
* * * **
3829114 CTATGCTGTAAATTTGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAGGGTCTTGGTTTCCA
1 CTATGCTGTAAATTTGATATGCCCT-TGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACA
*
3829178 GATAACCCTTCTCACCTTGAG
65 GATAACCCTTCTCGCCTTGAG
* * * *
3829199 TTATGCTGCAAATTTGATATGCCTTTGAGTTGAGT
1 CTATGCTGTAAATTTGATATGCCCTTGAGCTGAGT
3829234 TATACTGTAA
Statistics
Matches: 387, Mismatches: 63, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
84 69 0.18
85 184 0.48
86 129 0.33
87 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (85 bp):
CTATGCTGTAAATTTGATATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAG
ATAACCCTTCTCGCCTTGAG
Found at i:3828912 original size:170 final size:170
Alignment explanation
Indices: 3828689--3829233 Score: 797
Period size: 170 Copynumber: 3.2 Consensus size: 170
3828679 CAAATTAATC
* * *
3828689 TATGATGCAAATTTGACATGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTAACAG
1 TATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTT-ACAG
* * * *
3828753 ATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCACAGAGCTGAGTGTAATCGAAC
65 ATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTCGGAGCTGAGTGTAATCGAAC
3828818 TCGAGGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGT
130 TCGAGGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGT
* * * * *
3828859 TATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTTGATGACAT
1 TATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGTTACAG
* * *
3828924 ATAGCCTTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTGGAGCTGAGTGTAATCAAAC
65 ATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTCGGAGCTGAGTGTAATCGAAC
* *
3828989 TCGA-GGTCTTGGTTGACATATAACCCTTCTCGCCTTGAGT
130 TCGAGGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGT
* ** * * *
3829029 TATGTTATAAATTTGATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGATCTTTTGATTACAG
1 TATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGTTACAG
* *
3829094 ATAGCCCTTATCGGCTTGAGCTATGCTGTAAATTTGATGTGCCTCGGAGCTGAGTGTAATCGAAC
65 ATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTCGGAGCTGAGTGTAATCGAAC
**
3829159 TCGAGGGTCTTGGTTTCCAGATAACCCTTCTCACCTTGAGT
130 TCGAGGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGT
*
3829200 TATGCTGCAAATTTGATATGCCTTTGAGTTGAGT
1 TATGCTGCAAATTTGATATGCCTTTGAGCTGAGT
3829234 TATACTGTAA
Statistics
Matches: 333, Mismatches: 39, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
170 202 0.61
171 127 0.38
172 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (170 bp):
TATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTACAGA
TAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTCGGAGCTGAGTGTAATCGAACT
CGAGGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGT
Found at i:3829246 original size:34 final size:34
Alignment explanation
Indices: 3829194--3829267 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
3829184 CCTTCTCACC
* * *
3829194 TTGAGTTATGCTGCAAATTTGATATGCCTTTGAG
1 TTGAGTTATACTGCAAATTGGATATACCTTTGAG
*
3829228 TTGAGTTATACTGTAAATTGGATATACCTTTGAG
1 TTGAGTTATACTGCAAATTGGATATACCTTTGAG
*
3829262 CTGAGT
1 TTGAGT
3829268 GTAATCAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (34 bp):
TTGAGTTATACTGCAAATTGGATATACCTTTGAG
Found at i:3830420 original size:99 final size:99
Alignment explanation
Indices: 3830246--3830432 Score: 293
Period size: 99 Copynumber: 1.9 Consensus size: 99
3830236 AATATATAAA
* * *
3830246 CACCTTTATCAGGTTAGCTAAATTTTATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGG
1 CACCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGG
***
3830311 GACGGTTCAAGCTTTATTGTATAAATATTATATT
66 GACAACTCAAGCTTTATTGTATAAATATTATATT
* * *
3830345 CACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGG
1 CACCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGG
3830410 GACAACTCAAGCTTTATTGTATA
66 GACAACTCAAGCTTTATTGTATA
3830433 TATAAAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 79 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (99 bp):
CACCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGG
GACAACTCAAGCTTTATTGTATAAATATTATATT
Found at i:3831289 original size:252 final size:253
Alignment explanation
Indices: 3830795--3831300 Score: 820
Period size: 252 Copynumber: 2.0 Consensus size: 253
3830785 TAAGGTCAAA
** * * * *
3830795 AGTCCTTGTTTTATCCATTTTTTATCGTGTTACTTTGTCAAAGATTTGTAACTCTGAATCATTTA
1 AGTCCTTGTTTTATCCATTTTGAATCATGTCACTTTGTCAAAGATCTGTAACTCCGAATCATTTA
* * *
3830860 CAAAGTTTCTCAATTCAGTTGATATTCAAAGAATTTTAAGTTGTAGATTTTATGCAATGCTCAGC
66 CAAAGTTTCTCAATTCAGTTGATATTCAAAGAATTTCAAGTTGTAGACTTGATGCAATGCTCAGC
*
3830925 ATAAATTCATTGAAATATCTTTAAAAAATGAAATATGAGAAAGTTCAAAAGACAAGTTCAAATAG
131 ATAAATTCATTGAAATATCTTT-AAAAATGAAATATGAGAAAGTTCAAAAGACAAGTTCAAACAG
3830990 GATGCTGCAAAATGGAATAAAGCCTCATTAGGATGCCCCATTATTTCTAGAATGCTGAG
195 GATGCTGCAAAATGGAATAAAGCCTCATTAGGATGCCCCATTATTTCTAGAATGCTGAG
* *
3831049 AGTCCTTGTTTTA-CCACTTTTGAATCATGTCATTTTGTCAAAGGTCTGTAACTCCG-ATCATTT
1 AGTCCTTGTTTTATCCA-TTTTGAATCATGTCACTTTGTCAAAGATCTGTAACTCCGAATCATTT
3831112 ACAAAGTTTCTCAATTCAGTTGATATTCAAAGAATTTCAAGTTGTAGACTTGATGCAATGCTCAG
65 ACAAAGTTTCTCAATTCAGTTGATATTCAAAGAATTTCAAGTTGTAGACTTGATGCAATGCTCAG
* *
3831177 TATAAATTCATTGAAATATCATTT-AAAATGAAATATGAGAAAGTTTAAAAGACAAGTTCAAACA
130 CATAAATTCATTGAAATATC-TTTAAAAATGAAATATGAGAAAGTTCAAAAGACAAGTTCAAACA
* *
3831241 GGATGCTGCAAAATGGAATAAAGCCTCATTAGGATGCCCTATTATTTCTAGAATGTTGAG
194 GGATGCTGCAAAATGGAATAAAGCCTCATTAGGATGCCCCATTATTTCTAGAATGCTGAG
3831301 TGTCTAATTG
Statistics
Matches: 234, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
252 96 0.41
253 91 0.39
254 47 0.20
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (253 bp):
AGTCCTTGTTTTATCCATTTTGAATCATGTCACTTTGTCAAAGATCTGTAACTCCGAATCATTTA
CAAAGTTTCTCAATTCAGTTGATATTCAAAGAATTTCAAGTTGTAGACTTGATGCAATGCTCAGC
ATAAATTCATTGAAATATCTTTAAAAATGAAATATGAGAAAGTTCAAAAGACAAGTTCAAACAGG
ATGCTGCAAAATGGAATAAAGCCTCATTAGGATGCCCCATTATTTCTAGAATGCTGAG
Found at i:3831481 original size:10 final size:10
Alignment explanation
Indices: 3831466--3831490 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3831456 TAATGTAATG
3831466 AAAAAAAGAA
1 AAAAAAAGAA
3831476 AAAAAAAGAA
1 AAAAAAAGAA
3831486 AAAAA
1 AAAAA
3831491 TAATGCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:3833287 original size:3 final size:3
Alignment explanation
Indices: 3833279--3833327 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
3833269 AACAATGTTA
3833279 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
3833323 AAT AA
1 AAT AA
3833328 AGATATATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3833292 original size:40 final size:38
Alignment explanation
Indices: 3833186--3833295 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 38
3833176 TACTTACAGT
* *
3833186 AAAAA-AATGTTAGATAATAAATATTAAATAAATCAAGGA
1 AAAAACAATGTTAAATAAT-AATAAT-AATAAATCAAGGA
* ***
3833225 AACAACAAAAAATAAATAATAATAATAATAAATCAAAAGGA
1 AAAAAC-AATGTTAAATAATAATAATAATAAATC--AAGGA
3833266 AAAAACAATGTTAAATAATAATAATAATAA
1 AAAAACAATGTTAAATAATAATAATAATAA
3833296 TAATAATAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
39 12 0.21
40 26 0.46
41 19 0.33
ACGTcount: A:0.66, C:0.05, G:0.06, T:0.23
Consensus pattern (38 bp):
AAAAACAATGTTAAATAATAATAATAATAAATCAAGGA
Found at i:3834725 original size:43 final size:43
Alignment explanation
Indices: 3834638--3834880 Score: 262
Period size: 43 Copynumber: 5.7 Consensus size: 43
3834628 AGCGCCGCTA
* *
3834638 ATCT-TAGCGGCGTTTTTGTATACAAACGCAGCAAAAGGTCAG
1 ATCTATAGCGGCATTTTTGTATACAAACGCCGCAAAAGGTCAG
* * * *
3834680 ATCTATAGCGGCATTTTT-TATACAAACACCGTAAAAGATTGAG
1 ATCTATAGCGGCATTTTTGTATACAAACGCCGCAAAAG-GTCAG
* *
3834723 ATCTATAGCGCCATTTTTGTATATAAACGCCGCAAAAGGTCAG
1 ATCTATAGCGGCATTTTTGTATACAAACGCCGCAAAAGGTCAG
* * *
3834766 ATCTGTAGCGGCATTTTTTGGA-ACAAACGCCGCAAAAGGTTAG
1 ATCTATAGCGGCA-TTTTTGTATACAAACGCCGCAAAAGGTCAG
* *
3834809 ATCTATA-CATCGC-TTTTTGTATACAAACGCCACAAAAGGTCAG
1 ATCTATAGC--GGCATTTTTGTATACAAACGCCGCAAAAGGTCAG
* * * *
3834852 ATCTTTAACGACATTTTTGAATACAAACG
1 ATCTATAGCGGCATTTTTGTATACAAACG
3834881 TCGTAAAAAG
Statistics
Matches: 166, Mismatches: 26, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
42 29 0.17
43 111 0.67
44 26 0.16
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (43 bp):
ATCTATAGCGGCATTTTTGTATACAAACGCCGCAAAAGGTCAG
Found at i:3834880 original size:129 final size:128
Alignment explanation
Indices: 3834638--3834921 Score: 283
Period size: 129 Copynumber: 2.2 Consensus size: 128
3834628 AGCGCCGCTA
* *
3834638 ATCTTAGCGGCGTTTTTGTATACAAACGCAGCAAAAGGTCAGATCTATAGCGGCATTTTTTATAC
1 ATCTTAGCGGCGTTTTTGGATACAAACGCAGCAAAAGGTCAGATCTATAGCCGCATTTTTTATAC
** * * * * * *
3834703 AAACACCGTAAAAGATTGAGATCTATAGCGCCATTTTTGTATATAAACGCCGCAAAAGGTCAG
66 AAACACCACAAAAGAGTCAGATCTATAACGACATTTTTGAATACAAACGCCGCAAAAGGTCAG
* * *
3834766 ATCTGTAGCGGCATTTTTTGGA-ACAAACGCCGCAAAAGGTTAGATCTATA-CATCGC-TTTTTG
1 ATCT-TAGCGGC-GTTTTTGGATACAAACGCAGCAAAAGGTCAGATCTATAGC--CGCATTTTT-
* * * * *
3834828 TATACAAACGCCACAAAAG-GTCAGATCTTTAACGACATTTTTGAATACAAACGTCGTAAAAAGT
61 TATACAAACACCACAAAAGAGTCAGATCTATAACGACATTTTTGAATACAAACGCCGCAAAAGGT
*
3834892 TA-
126 CAG
*
3834894 ATTCTTTAACGGCGTTTTTGGA-ACAAAC
1 A-TC-TTAGCGGCGTTTTTGGATACAAAC
3834922 ACCGCTAATT
Statistics
Matches: 128, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
128 20 0.16
129 82 0.64
130 26 0.20
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (128 bp):
ATCTTAGCGGCGTTTTTGGATACAAACGCAGCAAAAGGTCAGATCTATAGCCGCATTTTTTATAC
AAACACCACAAAAGAGTCAGATCTATAACGACATTTTTGAATACAAACGCCGCAAAAGGTCAG
Found at i:3834912 original size:86 final size:86
Alignment explanation
Indices: 3834645--3834921 Score: 282
Period size: 86 Copynumber: 3.2 Consensus size: 86
3834635 CTAATCTTAG
* *
3834645 CGGCGTTTTTGTATACAAACG-CAGCAAAAGGTCAGATCTATAGCGGCATTTTT-TATACAAACA
1 CGGCGTTTTTGTATACAAACGCCA-CAAAAGGTCAGATCTATAGCGGCATTTTTGAATACAAACG
*
3834708 CCGT-AAAAGATTGAGATCTATAG
65 CCGTAAAAAG-TT-AGATCTATAA
* * * * * *
3834731 CGCCATTTTTGTATATAAACGCCGCAAAAGGTCAGATCTGTAGCGGCATTTTTTGGA-ACAAACG
1 CGGCGTTTTTGTATACAAACGCCACAAAAGGTCAGATCTATAGCGGCA-TTTTTGAATACAAACG
* *
3834795 CCGCAAAAGGTTAGATCTATACA
65 CCGTAAAAAGTTAGATCTATA-A
* * *
3834818 TC-GC-TTTTTGTATACAAACGCCACAAAAGGTCAGATCTTTAACGACATTTTTGAATACAAACG
1 -CGGCGTTTTTGTATACAAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTGAATACAAACG
* *
3834881 TCGTAAAAAGTTA-ATTCTTTAA
65 CCGTAAAAAGTTAGA-TCTATAA
*
3834903 CGGCGTTTTTGGA-ACAAAC
1 CGGCGTTTTTGTATACAAAC
3834922 ACCGCTAATT
Statistics
Matches: 159, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
84 1 0.01
85 17 0.11
86 117 0.74
87 18 0.11
88 6 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (86 bp):
CGGCGTTTTTGTATACAAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTGAATACAAACGC
CGTAAAAAGTTAGATCTATAA
Found at i:3839344 original size:41 final size:41
Alignment explanation
Indices: 3839292--3839530 Score: 191
Period size: 41 Copynumber: 5.8 Consensus size: 41
3839282 TGCATGTCTT
* *
3839292 TAGCGTCGTTTGTATAAAAACGATACTAAAAG-ACGACTCTA
1 TAGCGGCGTTTGTATAAAAACGACACT-AAAGTACGACTCTA
** * * * *
3839333 TATTGGTGTTTGTATAAAAAAGCCACTAAAGTACGAGTCTA
1 TAGCGGCGTTTGTATAAAAACGACACTAAAGTACGACTCTA
* * *
3839374 TAGCGGCGTTTGTTATAAAAACGCCACTAAAGTAC-AGTCAA
1 TAGCGGCGTTTG-TATAAAAACGACACTAAAGTACGACTCTA
* * *
3839415 TAGCGGCGTTTAT-TCAAAAACGCCACTAAAGTACGAGTCTA
1 TAGCGGCGTTTGTAT-AAAAACGACACTAAAGTACGACTCTA
* * *
3839456 CAGCGGCGTTTTTATAAAAAACG-CAACTAAAGTAC-AGTCTA
1 TAGCGGCGTTTGTAT-AAAAACGAC-ACTAAAGTACGACTCTA
* * * * *
3839497 TAGTGGCATTTTTATAACAAATGCCACTAAAGTA
1 TAGCGGCGTTTGTATAA-AAACGACACTAAAGTA
3839531 TAGTCTTTAG
Statistics
Matches: 168, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 26 0.15
41 101 0.60
42 40 0.24
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAACGACACTAAAGTACGACTCTA
Found at i:3839443 original size:123 final size:123
Alignment explanation
Indices: 3839307--3839535 Score: 293
Period size: 123 Copynumber: 1.9 Consensus size: 123
3839297 TCGTTTGTAT
* * ** * *
3839307 AAAAACGATACTAAAAG-ACGACTCTATATTGGTGTTTGTATAAAAAA-GCCACTAAAGTACGAG
1 AAAAACGACACT-AAAGTACGACTCTACAGCGGCGTTTGTATAAAAAACGCAACTAAAGTAC-AG
*
3839370 TCTATAGCGGCGTTTGTTATAA-AAACGCCACTAAAGTACAGTCAATAGCGGCGTTTATTC
64 TCTATAGCGGCATTT-TTATAACAAACGCCACTAAAGTACAGTCAATAGCGGCGTTTATTC
* * *
3839430 AAAAACGCCACTAAAGTACGAGTCTACAGCGGCGTTTTTATAAAAAACGCAACTAAAGTACAGTC
1 AAAAACGACACTAAAGTACGACTCTACAGCGGCGTTTGTATAAAAAACGCAACTAAAGTACAGTC
* * *
3839495 TATAGTGGCATTTTTATAACAAATGCCACTAAAGTATAGTC
66 TATAGCGGCATTTTTATAACAAACGCCACTAAAGTACAGTC
3839536 TTTAGCGCCA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
122 10 0.11
123 68 0.76
124 12 0.13
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (123 bp):
AAAAACGACACTAAAGTACGACTCTACAGCGGCGTTTGTATAAAAAACGCAACTAAAGTACAGTC
TATAGCGGCATTTTTATAACAAACGCCACTAAAGTACAGTCAATAGCGGCGTTTATTC
Found at i:3839536 original size:41 final size:41
Alignment explanation
Indices: 3839345--3839542 Score: 240
Period size: 41 Copynumber: 4.8 Consensus size: 41
3839335 TTGGTGTTTG
* *
3839345 TATAAAAAAGCCACTAAAGTACGAGTCTATAGCGGCGTTTGT
1 TATAAAAACGCCACTAAAGTAC-AGTCTATAGCGGCGTTTAT
*
3839387 TATAAAAACGCCACTAAAGTACAGTCAATAGCGGCGTTTAT
1 TATAAAAACGCCACTAAAGTACAGTCTATAGCGGCGTTTAT
* *
3839428 T-CAAAAACGCCACTAAAGTACGAGTCTACAGCGGCGTTT-T
1 TATAAAAACGCCACTAAAGTAC-AGTCTATAGCGGCGTTTAT
* * *
3839468 TATAAAAAACGCAACTAAAGTACAGTCTATAGTGGCATTT-T
1 TAT-AAAAACGCCACTAAAGTACAGTCTATAGCGGCGTTTAT
* * *
3839509 TATAACAAATGCCACTAAAGTATAGTCTTTAGCG
1 TATAA-AAACGCCACTAAAGTACAGTCTATAGCG
3839543 CCACTAAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 23 0.17
41 74 0.54
42 39 0.29
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (41 bp):
TATAAAAACGCCACTAAAGTACAGTCTATAGCGGCGTTTAT
Found at i:3839545 original size:23 final size:24
Alignment explanation
Indices: 3839519--3839566 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
3839509 TATAACAAAT
* *
3839519 GCCACTAAAGTA-TAGTCTTTAGC
1 GCCACTAAAATACTAGTCTATAGC
3839542 GCCACTAAAATACTAGTCTATAGC
1 GCCACTAAAATACTAGTCTATAGC
3839566 G
1 G
3839567 GCGTTTGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (24 bp):
GCCACTAAAATACTAGTCTATAGC
Found at i:3839656 original size:39 final size:40
Alignment explanation
Indices: 3839543--3839662 Score: 116
Period size: 39 Copynumber: 3.0 Consensus size: 40
3839533 GTCTTTAGCG
* *
3839543 CCACTAAAATACTAGTCTATAGCGGCGTTTGTTCTAAAAACA
1 CCACTAAAATAC-AGTCTTTAGCGGCGTTTG-TATAAAAACA
* * * * * * *
3839585 CCATTAAATTAAAATCTTTCGCGACATTTGTATAAAAAC-
1 CCACTAAAATACAGTCTTTAGCGGCGTTTGTATAAAAACA
* *
3839624 CCACTAAAGTACAGTTTTTAGCGGCGTTTGTATAAAAAC
1 CCACTAAAATACAGTCTTTAGCGGCGTTTGTATAAAAAC
3839663 GCTGCTAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
39 31 0.51
40 8 0.13
41 13 0.21
42 9 0.15
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (40 bp):
CCACTAAAATACAGTCTTTAGCGGCGTTTGTATAAAAACA
Found at i:3847263 original size:15 final size:15
Alignment explanation
Indices: 3847243--3847272 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3847233 TGTACTCTAG
3847243 GTACATAAATTCTTT
1 GTACATAAATTCTTT
3847258 GTACATAAATTCTTT
1 GTACATAAATTCTTT
3847273 TCAACATTAG
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:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
GTACATAAATTCTTT
Found at i:3849382 original size:3 final size:3
Alignment explanation
Indices: 3849376--3849401 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3849366 AAAAAAACCC
3849376 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
3849402 GGGAAGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3859245 original size:2 final size:2
Alignment explanation
Indices: 3859238--3859286 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3859228 TAGTTATTAT
3859238 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
*
3859280 TA CA TA T
1 TA TA TA T
3859287 TAAATGTGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3866223 original size:43 final size:43
Alignment explanation
Indices: 3866157--3866310 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 43
3866147 GGCGTTTGTA
* *
3866157 AGGTTTTGATG-TTTAACGACGTTTTTC-CTACAATCGCCGCAAT
1 AGGTTTTGA-GATTTAGCGGCGTTTTTCTC-ACAATCGCCGCAAT
* *
3866200 AGGTTTTGAGATTTAGCGGCGTTTTTATCACAAAT-GTCGCAAT
1 AGGTTTTGAGATTTAGCGGCGTTTTTCTCAC-AATCGCCGCAAT
* * * * *
3866243 ATGTGTTGAGATTTAGAGGCATTTTTCTCACAAACGCCGCAAT
1 AGGTTTTGAGATTTAGCGGCGTTTTTCTCACAATCGCCGCAAT
* *
3866286 AGG-TATG-GTATGTAGCGGCGTTTTT
1 AGGTTTTGAG-ATTTAGCGGCGTTTTT
3866311 AAGATACAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 18 0.20
43 66 0.74
44 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
AGGTTTTGAGATTTAGCGGCGTTTTTCTCACAATCGCCGCAAT
Found at i:3874171 original size:15 final size:15
Alignment explanation
Indices: 3874151--3874180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3874141 AAATTGACTG
*
3874151 ATATATGTAGAAACA
1 ATATATGGAGAAACA
3874166 ATATATGGAGAAACA
1 ATATATGGAGAAACA
3874181 TTTGTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (15 bp):
ATATATGGAGAAACA
Found at i:3875473 original size:83 final size:83
Alignment explanation
Indices: 3875385--3875642 Score: 232
Period size: 83 Copynumber: 3.1 Consensus size: 83
3875375 CGTTTGTGGT
3875385 ATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAAATTTCATCTC
1 ATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAAATTTCATCTC
3875450 TATTGCGGCGTTTTTACA
66 TATTGCGGCGTTTTTACA
* * * * * * *
3875468 ATAAACGCCACTATTGATTAAC-CCT-TCTGT-GGTG--TTT-GTCTAAACATTACGCAAAAAAG
1 ATAAACGCCGCTA--AATT-ACTACTATAT-TAGG-GCATTTGGGCTAAA-A-TGC-CACAAAA-
* * ***
3875527 TATT-ATCCCCT-TT-C-G-GTTTGTGGT
57 T-TTCAT-CTCTATTGCGGCGTTTTTACA
3875551 ATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAAATTTCATCTC
1 ATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAAATTTCATCTC
3875616 TATTGCGGCGTTTTTACA
66 TATTGCGGCGTTTTTACA
3875634 ATAAACGCC
1 ATAAACGCC
3875643 ACTATTGATT
Statistics
Matches: 129, Mismatches: 24, Indels: 44
0.65 0.12 0.22
Matches are distributed among these distances:
79 5 0.04
80 7 0.05
81 14 0.11
82 13 0.10
83 51 0.40
84 13 0.10
85 14 0.11
86 7 0.05
87 5 0.04
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (83 bp):
ATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAAATTTCATCTC
TATTGCGGCGTTTTTACA
Found at i:3875582 original size:166 final size:167
Alignment explanation
Indices: 3875375--3875776 Score: 677
Period size: 166 Copynumber: 2.4 Consensus size: 167
3875365 TTTATTATGA
3875375 CGTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAA
1 CGTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAA
3875440 ATTTCATCTCTATTGCGGCGTTTTTACAATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTT
66 ATTTCATCTCTATTGCGGCGTTTTTACAATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTT
3875505 GTCTAAACATTACGCAAAAAAGTATTATCCCCTTTC-G
131 GTCTAAACATTACGC-AAAAAGTATTATCCCCTTTCGG
3875542 -GTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAA
1 CGTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAA
3875606 ATTTCATCTCTATTGCGGCGTTTTTACAATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTT
66 ATTTCATCTCTATTGCGGCGTTTTTACAATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTT
3875671 GTCTAAACATTACGCAAAAAGTATTATCCCCTTTCGG
131 GTCTAAACATTACGCAAAAAGTATTATCCCCTTTCGG
* * * * * *
3875708 CGTTTGAGTTATAAACGCCGCTAATTTACCACTCTATT-GTGACATTTGTGG-TATAAATGCCAC
1 CGTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAG-GGCATTTG-GGCTA-AAATGCCAC
*
3875771 TAAATT
63 AAAATT
3875777 ACCACTATAT
Statistics
Matches: 223, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
165 20 0.09
166 146 0.65
167 41 0.18
168 16 0.07
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (167 bp):
CGTTTGTGGTATAAACGCCGCTAAATTACTACTATATTAGGGCATTTGGGCTAAAATGCCACAAA
ATTTCATCTCTATTGCGGCGTTTTTACAATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTT
GTCTAAACATTACGCAAAAAGTATTATCCCCTTTCGG
Found at i:3875723 original size:84 final size:84
Alignment explanation
Indices: 3875468--3875726 Score: 204
Period size: 83 Copynumber: 3.1 Consensus size: 84
3875458 CGTTTTTACA
3875468 ATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTTGTCTAAACATTACGCAAAAAAGTATTAT
1 ATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTTGTCTAAACATTACGC-AAAAAGTATTAT
* *
3875533 CCCCTTTC-G-GTTTGTGGT
65 CCCCTTTCGGCGTTTGAGCT
* * * * * *
3875551 ATAAACGCCGCTA--AATT-ACTACTATAT-TAGG-GCATTTGGGCTAAA-A-TGC-CACAAAA-
1 ATAAACGCCACTATTGATTAAC-CCT-TCTGT-GGTG--TTT-GTCTAAACATTACGCA-AAAAG
* * *
3875607 T-TTCAT-CTCTATTGCGGCGTTTTTA-CA
59 TATT-ATCCCCT-TT-CGGCG-TTTGAGCT
3875634 ATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTTGTCTAAACATTACGCAAAAAGTATTATC
1 ATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTTGTCTAAACATTACGCAAAAAGTATTATC
*
3875699 CCCTTTCGGCGTTTGAGTT
66 CCCTTTCGGCGTTTGAGCT
3875718 ATAAACGCC
1 ATAAACGCC
3875727 GCTAATTTAC
Statistics
Matches: 130, Mismatches: 21, Indels: 49
0.65 0.10 0.25
Matches are distributed among these distances:
79 5 0.04
80 8 0.06
81 13 0.10
82 13 0.10
83 37 0.28
84 33 0.25
85 14 0.11
86 7 0.05
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (84 bp):
ATAAACGCCACTATTGATTAACCCTTCTGTGGTGTTTGTCTAAACATTACGCAAAAAGTATTATC
CCCTTTCGGCGTTTGAGCT
Found at i:3880349 original size:21 final size:21
Alignment explanation
Indices: 3880323--3880378 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
3880313 CCTTAAAATG
3880323 TATATTTTTATATAAAATATA
1 TATATTTTTATATAAAATATA
*
3880344 TATATTTTTATATAATATATA
1 TATATTTTTATATAAAATATA
* *
3880365 TATATATATATATA
1 TATATTTTTATATA
3880379 TTTTAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATTTTTATATAAAATATA
Found at i:3880374 original size:19 final size:19
Alignment explanation
Indices: 3880331--3880376 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3880321 TGTATATTTT
* *
3880331 TATATAAAATATATATATT
1 TATATATAATATATATATA
*
3880350 TTTATATAATATATATATA
1 TATATATAATATATATATA
3880369 TATATATA
1 TATATATA
3880377 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATAATATATATATA
Found at i:3880390 original size:2 final size:2
Alignment explanation
Indices: 3880339--3880379 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
3880329 TTTATATAAA
* *
3880339 AT AT AT AT AT TT TT AT AT A- 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
3880380 TTTAAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:3884842 original size:37 final size:36
Alignment explanation
Indices: 3884771--3884844 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
3884761 TTCATTAAAC
* *
3884771 ATTTTTATATTTTCAATTTTGTAAAAAAAGTATATA
1 ATTTTTATAATTTAAATTTTGTAAAAAAAGTATATA
*
3884807 ATTTTTATGAATTTAAATTTTTTAAAGAAAA-TATATA
1 ATTTTTAT-AATTTAAATTTTGTAAA-AAAAGTATATA
3884844 A
1 A
3884845 ATATTTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 21 0.64
38 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (36 bp):
ATTTTTATAATTTAAATTTTGTAAAAAAAGTATATA
Found at i:3886953 original size:88 final size:88
Alignment explanation
Indices: 3886804--3886976 Score: 346
Period size: 88 Copynumber: 2.0 Consensus size: 88
3886794 CGGAGAGGGG
3886804 TTTACCCACGTGCTGAAACGTAAACTGCCATCCCTAAATCGGCCTCGTTCTAGAGTTGGTATAAA
1 TTTACCCACGTGCTGAAACGTAAACTGCCATCCCTAAATCGGCCTCGTTCTAGAGTTGGTATAAA
3886869 TACCCAAAAATAGGTGAAATAAT
66 TACCCAAAAATAGGTGAAATAAT
3886892 TTTACCCACGTGCTGAAACGTAAACTGCCATCCCTAAATCGGCCTCGTTCTAGAGTTGGTATAAA
1 TTTACCCACGTGCTGAAACGTAAACTGCCATCCCTAAATCGGCCTCGTTCTAGAGTTGGTATAAA
3886957 TACCCAAAAATAGGTGAAAT
66 TACCCAAAAATAGGTGAAAT
3886977 TAATAAATCC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (88 bp):
TTTACCCACGTGCTGAAACGTAAACTGCCATCCCTAAATCGGCCTCGTTCTAGAGTTGGTATAAA
TACCCAAAAATAGGTGAAATAAT
Found at i:3887970 original size:3 final size:3
Alignment explanation
Indices: 3887949--3888010 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
3887939 GTAACCTGAA
* *
3887949 AAT AA- AAT AAT AA- AA- AAT AAT ATT AAT AAAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
3887992 GAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
3888011 ATTATGACCC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 8 0.16
3 38 0.78
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3888003 original size:14 final size:14
Alignment explanation
Indices: 3887949--3888006 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
3887939 GTAACCTGAA
*
3887949 AATAAAATAATAA-
1 AATATAATAATAAT
* *
3887962 AAAATAATATTAAT
1 AATATAATAATAAT
*
3887976 AA-ATAGTAATAAT
1 AATATAATAATAAT
3887989 AATGATAAT-ATAAT
1 AAT-ATAATAATAAT
3888003 AATA
1 AATA
3888007 ATAAATTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
13 22 0.61
14 10 0.28
15 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:3888007 original size:20 final size:20
Alignment explanation
Indices: 3887949--3888010 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
3887939 GTAACCTGAA
*
3887949 AATAA-AATAATA-AAAAAT
1 AATAATAATAATATAATAAT
* *
3887967 AATATTAATAA-ATAGTAAT
1 AATAATAATAATATAATAAT
*
3887986 AATAATGATAATATAATAAT
1 AATAATAATAATATAATAAT
3888006 AATAA
1 AATAA
3888011 ATTATGACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 5 0.14
19 18 0.51
20 12 0.34
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AATAATAATAATATAATAAT
Found at i:3888435 original size:134 final size:134
Alignment explanation
Indices: 3888185--3888492 Score: 395
Period size: 134 Copynumber: 2.3 Consensus size: 134
3888175 AGATTGTGAA
* ** * * *
3888185 ACGTTGACTCATTCCACTGTTCTTTTGTGAAGATTGAATCGAGGTAGACTTGTTCCATTGTCACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACT
* *
3888250 CAGGGAATATCAAATCTTGAAAGAGAGGGATATATTCCACTTTTTCCTGAGGGAAAATTAGATCT
66 CAGGGAATATCAAATCTTGAAAGAGAGGGATATATTCCACTTTTTCCTGAGGGAAAATCAGATAT
3888315 AGGG
131 AGGG
* * * *
3888319 ACTTTGATTCATTCCAATGTTCTTCAGGGAATATTGAATCGAGGTAGACTTATTCCACTGTTACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACT
* ** * **
3888384 CAGGGAATATCAAATCTTGAAA-ATGAGGGATATGTTCTGCTTTTTCTTGAGGGTCAATCAGATA
66 CAGGGAATATCAAATCTTGAAAGA-GAGGGATATATTCCACTTTTTCCTGAGGGAAAATCAGATA
*
3888448 TGGGG
130 TAGGG
* *
3888453 ACGTTGATTCATTTCACTGTTAC-TCAGGGAAGGTTGAATC
1 ACGTTGATTCATTCCACTGTT-CTTCAGGGAAGATTGAATC
3888493 ACGTTTGATT
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
133 1 0.01
134 146 0.99
135 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (134 bp):
ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTGTCACT
CAGGGAATATCAAATCTTGAAAGAGAGGGATATATTCCACTTTTTCCTGAGGGAAAATCAGATAT
AGGG
Found at i:3889655 original size:16 final size:16
Alignment explanation
Indices: 3889634--3889704 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
3889624 CTTTTCTTTT
3889634 TTTCTTTTTTATCTTC
1 TTTCTTTTTTATCTTC
*
3889650 TTTC-TTATT-TC--C
1 TTTCTTTTTTATCTTC
*
3889662 TTTCTTATTTTATTTTC
1 TTTCTT-TTTTATCTTC
* *
3889679 TTTATTTTTTAT-TTT
1 TTTCTTTTTTATCTTC
3889694 TTATCTTTTTT
1 TT-TCTTTTTT
3889705 TTTCAGGCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 5 0.12
13 1 0.02
14 5 0.12
15 9 0.21
16 17 0.40
17 6 0.14
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTTTATCTTC
Found at i:3889676 original size:17 final size:16
Alignment explanation
Indices: 3889654--3889692 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3889644 ATCTTCTTTC
*
3889654 TTATTTCCTTTCTTATT
1 TTATTTCCTTTATT-TT
*
3889671 TTATTTTCTTTATTTT
1 TTATTTCCTTTATTTT
3889687 TTATTT
1 TTATTT
3889693 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTCCTTTATTTT
Found at i:3896115 original size:16 final size:16
Alignment explanation
Indices: 3896094--3896125 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3896084 TTTTGTTTTG
3896094 AAATCAAGTTTGAAAT
1 AAATCAAGTTTGAAAT
3896110 AAATCAAGTTTGAAAT
1 AAATCAAGTTTGAAAT
3896126 TACTCCCCCT
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:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
AAATCAAGTTTGAAAT
Found at i:3897826 original size:133 final size:134
Alignment explanation
Indices: 3897588--3897854 Score: 527
Period size: 133 Copynumber: 2.0 Consensus size: 134
3897578 TATTGACAAA
3897588 ACCTAAAGTAGAGATTTTATTTACGACCGGGTTCATTGAAACAAGAATTGCGAATGGTCATGTTT
1 ACCTAAAGTAGAGATTTTATTTACGACCGGGTTCATTGAAACAAGAATTGCGAATGGTCATGTTT
3897653 GGATCACCGGGATTAGGAATAGGAATTTGTGGGATAGGTGGAGGATTTGTA-GTGAGTTTGGAGG
66 GGATCACCGGGATTAGGAATAGGAATTTGTGGGATAGGTGGAGGATTTGTAGGTGAGTTTGGAGG
3897717 TTGG
131 TTGG
3897721 ACCTAAAGTAGAGATTTTATTTACGACCGGGTTCATTGAAACAAGAATTGCGAATGGTCATGTTT
1 ACCTAAAGTAGAGATTTTATTTACGACCGGGTTCATTGAAACAAGAATTGCGAATGGTCATGTTT
3897786 GGATCACCGGGATTAGGAATAGGAATTTGTGGGATAGGTGGAGGATTTGTAGGTGAGTTTGGAGG
66 GGATCACCGGGATTAGGAATAGGAATTTGTGGGATAGGTGGAGGATTTGTAGGTGAGTTTGGAGG
3897851 TTGG
131 TTGG
3897855 CTAGAACGGC
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
133 116 0.87
134 17 0.13
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.31
Consensus pattern (134 bp):
ACCTAAAGTAGAGATTTTATTTACGACCGGGTTCATTGAAACAAGAATTGCGAATGGTCATGTTT
GGATCACCGGGATTAGGAATAGGAATTTGTGGGATAGGTGGAGGATTTGTAGGTGAGTTTGGAGG
TTGG
Found at i:3898589 original size:22 final size:23
Alignment explanation
Indices: 3898542--3898600 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
3898532 CCCTGTGCGA
3898542 GGGAATCGGTTCCCCTTCAAAGG
1 GGGAATCGGTTCCCCTTCAAAGG
3898565 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGGTTCCCCTTCAAAGG
* *
3898587 GGGTATCGATTCCC
1 GGGAATCGGTTCCC
3898601 TCTGCACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGGAATCGGTTCCCCTTCAAAGG
Found at i:3909932 original size:17 final size:16
Alignment explanation
Indices: 3909895--3909932 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
3909885 AAATATCATT
3909895 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
*
3909911 AAAAATAATTTTAAAGA
1 TAAAATAATTTT-AAGA
3909928 TAAAA
1 TAAAA
3909933 AATGATCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:3914487 original size:72 final size:72
Alignment explanation
Indices: 3914332--3914480 Score: 298
Period size: 72 Copynumber: 2.1 Consensus size: 72
3914322 TCGGATGTGA
3914332 GAAAATCGATGAACAAGGAAAAGACTCCTAAGTAGATTTTCCTAAATCTAACATTCCTTGAGGTT
1 GAAAATCGATGAACAAGGAAAAGACTCCTAAGTAGATTTTCCTAAATCTAACATTCCTTGAGGTT
3914397 TCTTCGT
66 TCTTCGT
3914404 GAAAATCGATGAACAAGGAAAAGACTCCTAAGTAGATTTTCCTAAATCTAACATTCCTTGAGGTT
1 GAAAATCGATGAACAAGGAAAAGACTCCTAAGTAGATTTTCCTAAATCTAACATTCCTTGAGGTT
3914469 TCTTCGT
66 TCTTCGT
3914476 GAAAA
1 GAAAA
3914481 CTGATGATTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (72 bp):
GAAAATCGATGAACAAGGAAAAGACTCCTAAGTAGATTTTCCTAAATCTAACATTCCTTGAGGTT
TCTTCGT
Found at i:3915146 original size:13 final size:13
Alignment explanation
Indices: 3915128--3915153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3915118 TGTATTTTAA
3915128 ATTAATTTATTTT
1 ATTAATTTATTTT
3915141 ATTAATTTATTTT
1 ATTAATTTATTTT
3915154 TCAAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTAATTTATTTT
Found at i:3922980 original size:256 final size:255
Alignment explanation
Indices: 3922520--3923289 Score: 1001
Period size: 256 Copynumber: 3.0 Consensus size: 255
3922510 CTCAACAACG
* * * * * *
3922520 AGGACCTATTTTTC-AACCAAGGTTTTCAAGTTAAATTCCAACTTCACAACGAAGGAAATTGAAC
1 AGGAGCTA-TTTTCAAACCAAGGTCTTCAAGTCAAATTTCAACTTCACGACGAAGGATATTGAAC
* * * * *
3922584 TAGAAGAAGATCCAAAATCAATTTCAATTTAGCTTAACTCAACAACTAGGAGATACTTTCCAGTT
65 TAGAAGAAGACCCAAAATCAATTACGATTTAGCTTAACTCAACAACGA-GAGCTACTTTCCAGTT
* * * * **
3922649 CAGATTTTGAGCTTGATTTCAACTTCACGACGTAGGATATCATACTCAAATCACCCAAGATAAAC
129 TAGATTTTGAGCTTGATTTCAACTTCACGATGAAGGATATCATGCTCAAATCACCCAAGATTGAC
* * *
3922714 TCAACTTCACGATGAAGCAGTCGACTA-GTATTTCAACTTCATGATGAATGATATCGTGCTCA
194 TCAACTTCACGATGAAGGAGTCGACCATG-ATTTCAACTTCATGATGAATGATATCATGCTCA
* *
3922776 AGGAGCTATTTTCAAACCAAGGTCTTCAAGTCAAATTTCAACTTCACGACGAATGATATTGTACT
1 AGGAGCTATTTTCAAACCAAGGTCTTCAAGTCAAATTTCAACTTCACGACGAAGGATATTGAACT
* * *
3922841 AGAAGAAGACCCGAAATCAATTACGATTTAGCTTAACTCAACAACGATGAGCTAATTTCCAATTT
66 AGAAGAAGACCCAAAATCAATTACGATTTAGCTTAACTCAACAACGA-GAGCTACTTTCCAGTTT
* * *
3922906 AGATTTCGAGCTTGATTTCAACTTCACGATGAAGGATATAATGCTCAAATAACCCAAGATTGACT
130 AGATTTTGAGCTTGATTTCAACTTCACGATGAAGGATATCATGCTCAAATCACCCAAGATTGACT
* * * *
3922971 CAACTTCACGACGAAGGAGTCGACCATGATTTCAATTTCATGATTAATGATATCATACTCA
195 CAACTTCACGATGAAGGAGTCGACCATGATTTCAACTTCATGATGAATGATATCATGCTCA
* * * * *
3923032 GGGAGCTATTTTCAAACCAATGTCTTCAATTCAAATTTTAACTTCACGACGAAGGATATTGGACT
1 AGGAGCTATTTTCAAACCAAGGTCTTCAAGTCAAATTTCAACTTCACGACGAAGGATATTGAACT
* *
3923097 AGAAGAATACTCAAAATCAATTACGATTTAGCTTAACTCAACAACGAGAAGCTACTTTCCAGTTT
66 AGAAGAAGACCCAAAATCAATTACGATTTAGCTTAACTCAACAACGAG-AGCTACTTTCCAGTTT
** * * *
3923162 AGATTTTGAGCTAT-ATTTCAACTTCACG-TCGAATAATATCATGTTCAAGTCATCCAAGATTGA
130 AGATTTTGAGCT-TGATTTCAACTTCACGAT-GAAGGATATCATGCTCAAATCACCCAAGATTGA
* * * *
3923225 CTCAACTTCACAATGAAGGAGTC-ATCCATGATTTCAACTTCATGACGAAGGATATCATGATCA
193 CTCAACTTCACGATGAAGGAGTCGA-CCATGATTTCAACTTCATGATGAATGATATCATGCTCA
3923288 AG
1 AG
3923290 TCATCCAAGA
Statistics
Matches: 447, Mismatches: 61, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
255 8 0.02
256 437 0.98
257 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (255 bp):
AGGAGCTATTTTCAAACCAAGGTCTTCAAGTCAAATTTCAACTTCACGACGAAGGATATTGAACT
AGAAGAAGACCCAAAATCAATTACGATTTAGCTTAACTCAACAACGAGAGCTACTTTCCAGTTTA
GATTTTGAGCTTGATTTCAACTTCACGATGAAGGATATCATGCTCAAATCACCCAAGATTGACTC
AACTTCACGATGAAGGAGTCGACCATGATTTCAACTTCATGATGAATGATATCATGCTCA
Found at i:3923307 original size:79 final size:79
Alignment explanation
Indices: 3923176--3923411 Score: 303
Period size: 79 Copynumber: 3.0 Consensus size: 79
3923166 TTTGAGCTAT
* * * *
3923176 ATTTCAACTTCACGTCGAATA-ATATCATGTTCAAGTCATCCAAGATTGACTCAACTTCACAATG
1 ATTTCAACTTCACGACGAA-AGATATCATGATCAAGTCATCCAAGATTGACTCAACTTCACGACG
3923240 AAGGAGTCATCCATG
65 AAGGAGTCATCCATG
* * ** *
3923255 ATTTCAACTTCATGACGAAGGATATCATGATCAAGTCATCCAAGATCAACTCAACTTCACGACAA
1 ATTTCAACTTCACGACGAAAGATATCATGATCAAGTCATCCAAGATTGACTCAACTTCACGACGA
*
3923320 ATGAGTCATCCATG
66 AGGAGTCATCCATG
** * * *
3923334 ATTTCAACTTCACGAAAAAAGATATCATGCTCAAATTATCCAAGATTGACTCAACTTCACGACGA
1 ATTTCAACTTCACGACGAAAGATATCATGATCAAGTCATCCAAGATTGACTCAACTTCACGACGA
* *
3923399 AGTAGTCAACCAT
66 AGGAGTCATCCAT
3923412 AACTGAACAA
Statistics
Matches: 133, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 133 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (79 bp):
ATTTCAACTTCACGACGAAAGATATCATGATCAAGTCATCCAAGATTGACTCAACTTCACGACGA
AGGAGTCATCCATG
Found at i:3926404 original size:2 final size:2
Alignment explanation
Indices: 3926397--3926424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3926387 AGTTTTGAGA
3926397 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
3926425 TAATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3930142 original size:18 final size:19
Alignment explanation
Indices: 3930104--3930142 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3930094 AAATCTTGCA
* *
3930104 TTACAAGCCAAATATTATT
1 TTACAAACCAAATAATATT
3930123 TTACAAACCAAA-AATATT
1 TTACAAACCAAATAATATT
3930141 TT
1 TT
3930143 GGAGGGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (19 bp):
TTACAAACCAAATAATATT
Found at i:3943145 original size:32 final size:31
Alignment explanation
Indices: 3943065--3943145 Score: 112
Period size: 30 Copynumber: 2.6 Consensus size: 31
3943055 CAATCTTATG
3943065 ATTATAATTTGAATATTAACTATAATATATA
1 ATTATAATTTGAATATTAACTATAATATATA
* *
3943096 A-TATAGTTT-TATCATTAACTATAATATATA
1 ATTATAATTTGAAT-ATTAACTATAATATATA
3943126 TATTATAATTTGAATATTAA
1 -ATTATAATTTGAATATTAA
3943146 ATTATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 2 0.05
30 24 0.57
31 2 0.05
32 12 0.29
33 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (31 bp):
ATTATAATTTGAATATTAACTATAATATATA
Found at i:3944537 original size:23 final size:23
Alignment explanation
Indices: 3944499--3944553 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
3944489 ATAATAGAAG
*
3944499 AAAT-AAAATAATTTACTTAATC
1 AAATCAAATTAATTTACTTAATC
3944521 AAATCAAATTAATTTACTTAATC
1 AAATCAAATTAATTTACTTAATC
3944544 AAATCAAATT
1 AAATCAAATT
3944554 GGAACTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATCAAATTAATTTACTTAATC
Found at i:3957062 original size:2 final size:2
Alignment explanation
Indices: 3957055--3957080 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3957045 TAGTCATTAA
3957055 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
3957081 TCACTTATAT
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:3957376 original size:13 final size:13
Alignment explanation
Indices: 3957358--3957398 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
3957348 TAGGATTAGT
3957358 AATATTTATATTA
1 AATATTTATATTA
*
3957371 AATATTATTTATTA
1 AATATT-TATATTA
*
3957385 ATTATTTATATTA
1 AATATTTATATTA
3957398 A
1 A
3957399 GTTATTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTATATTA
Found at i:3957403 original size:14 final size:13
Alignment explanation
Indices: 3957360--3957405 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
3957350 GGATTAGTAA
*
3957360 TATTTATATTAAA
1 TATTTATATTAAT
*
3957373 TATTATTTATTAAT
1 TATT-TATATTAAT
3957387 TATTTATATTAAGT
1 TATTTATATTAA-T
3957401 TATTT
1 TATTT
3957406 GTAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTATATTAAT
Found at i:3967953 original size:36 final size:36
Alignment explanation
Indices: 3967906--3968097 Score: 303
Period size: 36 Copynumber: 5.3 Consensus size: 36
3967896 AGATTCTTTC
3967906 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
1 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
* *
3967942 AAGCAATGCACATCCAGCCTTCACAGAAGAGTAGTG
1 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
*
3967978 AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTG
1 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
* * *
3968014 AAGCGACGCACATTCAGCCTTCACGAAAGAGTAGTG
1 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
* *
3968050 AAGCAATTCACATTCAACCTTCACGGAAGAGTAGTG
1 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
*
3968086 AAGCGATGCACA
1 AAGCAATGCACA
3968098 GCCTTCACAA
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 140 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (36 bp):
AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTG
Found at i:3968025 original size:72 final size:71
Alignment explanation
Indices: 3967906--3968120 Score: 321
Period size: 72 Copynumber: 3.0 Consensus size: 71
3967896 AGATTCTTTC
* *
3967906 AAGCAATGCACATTCAGCCTTCACGGAAGAGTAGTGAAGCAATGCACATCCAGCCTTCACAGAAG
1 AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTGAAGCGATGCACAT-CAGCCTTCACAGAAG
3967971 AGTAGTG
65 AGTAGTG
*
3967978 AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTGAAGCGACGCACATTCAGCCTTCAC-GAAA
1 AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTGAAGCGATGCACA-TCAGCCTTCACAG-AA
3968042 GAGTAGTG
64 GAGTAGTG
* *
3968050 AAGCAATTCACATTCAACCTTCACGGAAGAGTAGTGAAGCGATG--CA-CAGCCTTCACAAAAGA
1 AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTGAAGCGATGCACATCAGCCTTCACAGAAGA
*
3968112 ATAGTG
66 GTAGTG
3968118 AAG
1 AAG
3968121 TAGGAACATA
Statistics
Matches: 133, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
68 22 0.17
70 2 0.02
71 1 0.01
72 107 0.80
73 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (71 bp):
AAGCAATGCACATTCAACCTTCACGGAAGAGTAGTGAAGCGATGCACATCAGCCTTCACAGAAGA
GTAGTG
Found at i:3969795 original size:26 final size:27
Alignment explanation
Indices: 3969764--3969823 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
3969754 TAAATATTAA
3969764 ATATTATAATAGGA-TTAGTAA-TATTT
1 ATATTA-AATAGGATTTAGTAATTATTT
**
3969790 ATATTAAATATTATTTAGTAATTATTT
1 ATATTAAATAGGATTTAGTAATTATTT
3969817 ATATTAA
1 ATATTAA
3969824 GTTATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 13 0.43
27 12 0.40
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (27 bp):
ATATTAAATAGGATTTAGTAATTATTT
Found at i:3972243 original size:19 final size:21
Alignment explanation
Indices: 3972199--3972239 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3972189 GAAACCCCTT
3972199 TGAAAATACATGACTTTAAAAA
1 TGAAAATACATGACTTT-AAAA
*
3972221 TGAAAATACATGATTTTAA
1 TGAAAATACATGACTTTAA
3972240 TGAAGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (21 bp):
TGAAAATACATGACTTTAAAA
Found at i:3975437 original size:19 final size:19
Alignment explanation
Indices: 3975415--3975462 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
3975405 TCTTTTCTTT
3975415 TCTTCTTTTCTG-ATTTTTC
1 TCTTCTTTT-TGTATTTTTC
*
3975434 TCTTCTTTTTGTCTTTTTC
1 TCTTCTTTTTGTATTTTTC
3975453 T-TTCTTTTTG
1 TCTTCTTTTTG
3975463 CACTCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (19 bp):
TCTTCTTTTTGTATTTTTC
Found at i:3976210 original size:19 final size:21
Alignment explanation
Indices: 3976167--3976216 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
3976157 GAAACCCCTT
3976167 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
3976188 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
3976207 TGAAGATACA
1 TGAAAATACA
3976217 AGATCTTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:3977050 original size:17 final size:17
Alignment explanation
Indices: 3977028--3977061 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3977018 ATATAATGCA
*
3977028 TATAATATAATGATGTG
1 TATAATATAAAGATGTG
3977045 TATAATATAAAGATGTG
1 TATAATATAAAGATGTG
3977062 AACTATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (17 bp):
TATAATATAAAGATGTG
Found at i:3978321 original size:15 final size:15
Alignment explanation
Indices: 3978303--3978387 Score: 52
Period size: 15 Copynumber: 5.7 Consensus size: 15
3978293 ATTCAAAATA
*
3978303 TTATTATTTATATAT
1 TTATTATTAATATAT
3978318 TTATTATTAATATA-
1 TTATTATTAATATAT
* *
3978332 CTATT-TTAGTATCAT
1 TTATTATTAATAT-AT
* *
3978347 TTA--AATAAAATAT
1 TTATTATTAATATAT
*
3978360 TAATTATTAAAATATAT
1 TTATTATT--AATATAT
*
3978377 TTATTAATAAT
1 TTATTATTAAT
3978388 TTTCATAATA
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
13 10 0.20
14 9 0.18
15 20 0.39
17 12 0.24
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (15 bp):
TTATTATTAATATAT
Found at i:3978440 original size:15 final size:15
Alignment explanation
Indices: 3978395--3978463 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
3978385 AATTTTCATA
* *
3978395 ATATAATATAATATT
1 ATATTATATTATATT
* *
3978410 ATTATAATAATATATT
1 A-TATTATATTATATT
3978426 CA-ATTATATTATATT
1 -ATATTATATTATATT
*
3978441 ATATTATA-TATAAT
1 ATATTATATTATATT
*
3978455 ATATAATAT
1 ATATTATAT
3978464 ATAATATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 13 0.30
15 18 0.41
16 12 0.27
17 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTATATTATATT
Found at i:3978440 original size:31 final size:29
Alignment explanation
Indices: 3978400--3978539 Score: 103
Period size: 31 Copynumber: 4.8 Consensus size: 29
3978390 TCATAATATA
3978400 ATATAATA-TTATTATAATAATATATTCAATT
1 ATATAATATTTATTATAATAATATA-T-AA-T
*
3978431 ATATTATATTATATTATATATAATATATAAT
1 ATATAATATT-TATTATA-ATAATATATAAT
* *
3978462 ATATAATATTTATTTTAATAATA-ATTA-
1 ATATAATATTTATTATAATAATATATAAT
* * *
3978489 ATA-AATAATTAATATAATTA-ATATAAT
1 ATATAATATTTATTATAATAATATATAAT
* * *
3978516 TTATTAAT-TTCATTAAAATAATAT
1 ATA-TAATATTTATTATAATAATAT
3978540 TATTAAATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
25 1 0.01
26 16 0.19
27 5 0.06
28 11 0.13
29 11 0.13
30 6 0.07
31 17 0.20
32 3 0.03
33 8 0.09
34 8 0.09
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATAATATTTATTATAATAATATATAAT
Found at i:3978445 original size:36 final size:33
Alignment explanation
Indices: 3978395--3978486 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 33
3978385 AATTTTCATA
*
3978395 ATATAATATAATATTATTATAATAATATATTCAATT
1 ATATAATATTATATTATTATAATAATATA-T-AA-T
*
3978431 ATATTATATTATATTA-TAT-ATAATATATAAT
1 ATATAATATTATATTATTATAATAATATATAAT
3978462 ATATAATATT-TATT-TTAATAATAAT
1 ATATAATATTATATTATT-ATAATAAT
3978487 TAATAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
30 5 0.10
31 12 0.24
32 7 0.14
33 1 0.02
34 8 0.16
35 3 0.06
36 14 0.28
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (33 bp):
ATATAATATTATATTATTATAATAATATATAAT
Found at i:3978456 original size:7 final size:7
Alignment explanation
Indices: 3978400--3978470 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
3978390 TCATAATATA
3978400 ATATAAT
1 ATATAAT
*
3978407 AT-TATT
1 ATATAAT
3978413 ATAATAAT
1 AT-ATAAT
3978421 ATATTCAAT
1 ATA-T-AAT
3978430 -TAT-AT
1 ATATAAT
*
3978435 -TATATT
1 ATATAAT
*
3978441 ATATTAT
1 ATATAAT
3978448 ATATAAT
1 ATATAAT
3978455 ATATAAT
1 ATATAAT
3978462 ATATAAT
1 ATATAAT
3978469 AT
1 AT
3978471 TTATTTTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.10
6 6 0.12
7 30 0.58
8 8 0.15
9 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (7 bp):
ATATAAT
Found at i:3978507 original size:9 final size:10
Alignment explanation
Indices: 3978476--3978516 Score: 59
Period size: 9 Copynumber: 4.2 Consensus size: 10
3978466 AATATTTATT
3978476 TTAATAATAA
1 TTAATAATAA
3978486 TTAATAAATAA
1 TTAAT-AATAA
3978497 TTAAT-ATAA
1 TTAATAATAA
3978506 TTAAT-ATAA
1 TTAATAATAA
3978515 TT
1 TT
3978517 TATTAATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 15 0.50
10 5 0.17
11 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAATAATAA
Found at i:3978558 original size:18 final size:18
Alignment explanation
Indices: 3978535--3978593 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
3978525 TCATTAAAAT
*
3978535 AATATTATTAAATTATTG
1 AATATTATTAAATTATTC
* *
3978553 AATATT-TAAAATATATTT
1 AATATTATTAAAT-TATTC
*
3978571 ACTATATATT-AATTATTC
1 AATAT-TATTAAATTATTC
3978589 AATAT
1 AATAT
3978594 ATATATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 5 0.16
18 22 0.69
19 4 0.12
20 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (18 bp):
AATATTATTAAATTATTC
Found at i:3978609 original size:29 final size:29
Alignment explanation
Indices: 3978546--3978610 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
3978536 ATATTATTAA
* *
3978546 ATTATTGAATATTTAAAATATATTTACTAT
1 ATTATT-AATATTCAAAATATATATACTAT
*
3978576 A-TATTAATTATTCAATATATATATA-TAT
1 ATTATTAA-TATTCAAAATATATATACTAT
3978604 ATTATTA
1 ATTATTA
3978611 GTCTTTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 6 0.20
29 23 0.77
30 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (29 bp):
ATTATTAATATTCAAAATATATATACTAT
Found at i:3978659 original size:15 final size:15
Alignment explanation
Indices: 3978639--3978674 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
3978629 AATATTTTTA
3978639 TTTTAATATTATAAT
1 TTTTAATATTATAAT
3978654 TTTTAATATTATAAT
1 TTTTAATATTATAAT
3978669 TTTTAA
1 TTTTAA
3978675 CAATTACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:3982783 original size:18 final size:19
Alignment explanation
Indices: 3982760--3982795 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3982750 AAATTAATTA
3982760 AATAAAAAT-AAAAGAAAT
1 AATAAAAATAAAAAGAAAT
*
3982778 AATAAAAGTAAAAAGAAA
1 AATAAAAATAAAAAGAAA
3982796 AAAAAACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
AATAAAAATAAAAAGAAAT
Found at i:3983925 original size:7 final size:7
Alignment explanation
Indices: 3983890--3984098 Score: 61
Period size: 7 Copynumber: 30.6 Consensus size: 7
3983880 GGGTGTTAAA
3983890 ATAATA-
1 ATAATAT
3983896 ATAATA-
1 ATAATAT
*
3983902 GTAATAT
1 ATAATAT
3983909 ATAATAAT
1 ATAAT-AT
3983917 ATAATAT
1 ATAATAT
*
3983924 ATGTATTAT
1 A--TAATAT
3983933 ATAATAT
1 ATAATAT
3983940 A-AATACT
1 ATAATA-T
3983947 AT-ATAGT
1 ATAATA-T
3983954 ATAATA-
1 ATAATAT
3983960 A-AATAT
1 ATAATAT
* *
3983966 GTACTAT
1 ATAATAT
3983973 ATAATAT
1 ATAATAT
3983980 A-ATATAT
1 ATA-ATAT
*
3983987 ATGTATGAT
1 AT-AAT-AT
**
3983996 ATACCAT
1 ATAATAT
*
3984003 ATAATAA
1 ATAATAT
*
3984010 ATAACAT
1 ATAATAT
3984017 A-ATATAT
1 ATA-ATAT
*
3984024 ATACTAT
1 ATAATAT
* *
3984031 ACAATAG
1 ATAATAT
* *
3984038 ACAATAA
1 ATAATAT
3984045 AT-ATAT
1 ATAATAT
*
3984051 A-AACA-
1 ATAATAT
3984056 ATAATAT
1 ATAATAT
*
3984063 GT--T-T
1 ATAATAT
*
3984067 ATACTAT
1 ATAATAT
3984074 ATAATAT
1 ATAATAT
3984081 A-AATAAT
1 ATAAT-AT
*
3984088 ATATTAT
1 ATAATAT
3984095 ATAA
1 ATAA
3984099 ACAAGGTCAG
Statistics
Matches: 147, Mismatches: 33, Indels: 45
0.65 0.15 0.20
Matches are distributed among these distances:
4 2 0.01
5 6 0.04
6 31 0.21
7 83 0.56
8 15 0.10
9 10 0.07
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:3983933 original size:24 final size:24
Alignment explanation
Indices: 3983893--3983938 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3983883 TGTTAAAATA
3983893 ATAATAATAGTAATATATAATAAT
1 ATAATAATAGTAATATATAATAAT
*
3983917 ATAAT-ATATGTATTATATAATA
1 ATAATAATA-GTAATATATAATA
3983939 TAAATACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
ATAATAATAGTAATATATAATAAT
Found at i:3983950 original size:40 final size:37
Alignment explanation
Indices: 3983896--3983988 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 37
3983886 TAAAATAATA
* *
3983896 ATAATAGTAATATATAATA-AT-ATAATATATGTATTAT
1 ATAATA-TAATATAT-ATAGATAATAAAATATGTACTAT
3983933 ATAATATAAATACTATATAGTATAATAAAATATGTACTAT
1 ATAATAT-AATA-TATATAG-ATAATAAAATATGTACTAT
3983973 ATAATATAATATATAT
1 ATAATATAATATATAT
3983989 GTATGATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
36 1 0.02
37 13 0.27
38 8 0.16
39 6 0.12
40 21 0.43
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (37 bp):
ATAATATAATATATATAGATAATAAAATATGTACTAT
Found at i:3983986 original size:21 final size:19
Alignment explanation
Indices: 3983906--3983986 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 19
3983896 ATAATAGTAA
3983906 TATATAATAATATAATATATG
1 TATAT-ATAATATAA-ATATG
*
3983927 TATTATATAATATAAATACTA
1 TA-TATATAATATAAATA-TG
3983948 TATAGTATAATA-AAATATG
1 TATA-TATAATATAAATATG
3983967 TACTATATAATATAATATAT
1 TA-TATATAATATAA-ATAT
3983987 ATGTATGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.19
20 14 0.27
21 25 0.48
22 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
TATATATAATATAAATATG
Found at i:3984019 original size:61 final size:63
Alignment explanation
Indices: 3983890--3984020 Score: 139
Period size: 63 Copynumber: 2.1 Consensus size: 63
3983880 GGGTGTTAAA
* **
3983890 ATAATAATAATAGTAATATATAATAATATAATATATGTATTATATAATATAAATACTATATAGT
1 ATAATAATAATAGTAATATATAATAATATAATATATGTATGATATAATATAAATAC-ATATAAC
*
3983954 ATAATAA-AATATGTACTATATAAT-ATA-ATATATATGTATGATATACCATAT-AATA-A-ATA
1 ATAATAATAATA-GTAATATATAATAATATA-ATATATGTATGATATA--ATATAAATACATATA
3984013 AC
62 AC
3984015 ATAATA
1 ATAATA
3984021 TATATACTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
61 9 0.15
62 2 0.03
63 22 0.37
64 22 0.37
65 4 0.07
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (63 bp):
ATAATAATAATAGTAATATATAATAATATAATATATGTATGATATAATATAAATACATATAAC
Found at i:4005550 original size:40 final size:40
Alignment explanation
Indices: 4005506--4005598 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
4005496 TGTTCATCTA
* * * *
4005506 TAGTGGCGTTTTTCAA-AAACGTAGTAACATATTAGTACTT
1 TAGTGGTGTTTTTCAATAAA-GCAGTAACAAATTAGAACTT
* * *
4005546 TAGTGGTATTTTTCAATAAAGCCGTAATAAATTAGAACTT
1 TAGTGGTGTTTTTCAATAAAGCAGTAACAAATTAGAACTT
4005586 TAGTGGTGTTTTT
1 TAGTGGTGTTTTT
4005599 ATACAAATGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (40 bp):
TAGTGGTGTTTTTCAATAAAGCAGTAACAAATTAGAACTT
Found at i:4005657 original size:41 final size:41
Alignment explanation
Indices: 4005594--4005680 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
4005584 TTTAGTGGTG
* *
4005594 TTTTTATACAAATGCTGCAATAGGGTTCACCTCTAGTGGCA
1 TTTTTATACAAATGCTGCAATAGGGTTCACCTATAGTGACA
* * *
4005635 TTTTTATACAAAT-ATCGTAATAGGGTTTACCTATAGTGACA
1 TTTTTATACAAATGCT-GCAATAGGGTTCACCTATAGTGACA
4005676 TTTTT
1 TTTTT
4005681 TCAATAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (41 bp):
TTTTTATACAAATGCTGCAATAGGGTTCACCTATAGTGACA
Found at i:4006143 original size:16 final size:18
Alignment explanation
Indices: 4006111--4006145 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4006101 ATGTTTTAAA
4006111 ATTTATTAAAAATTATAT
1 ATTTATTAAAAATTATAT
4006129 ATTT-TTAAAAA-TATAT
1 ATTTATTAAAAATTATAT
4006145 A
1 A
4006146 GGGTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATTAAAAATTATAT
Found at i:4009763 original size:43 final size:42
Alignment explanation
Indices: 4009332--4009785 Score: 299
Period size: 42 Copynumber: 10.6 Consensus size: 42
4009322 AAGATAATTA
*** *
4009332 GCGGCGTTTGTATCCAAAAACAATGCTATAGATCTG-ATTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGAACTTTT
* *
4009374 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAACTTTT
* * * *
4009416 GCGACGTTTGTTCTAAAAATGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAACTTTT
* * * * ** * *
4009458 ACGACGTTTGTTTCGAAAACGCCAATATAGATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAACTTTT
* * * * * * * * *
4009500 TCGGCCTTT-TTTCAAAAACGTCACTACAGAACTCGACCGTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GAACTTTT
* *
4009542 GAGGCGTTTGTT-CAAAAATGCCGCTATAGATCTCG-ACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GAAC-TTTT
* * * * *
4009584 GAGGCGTTTGTTCCAAAAACGCTGCTACATATCTCAACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAAC-TTTT
** * * * * **
4009627 GCTACATTTGTTCCAAAAAATGCTGCTATAGATATCGATTTTTT
1 GCGGCGTTTGTTCC-AAAAACGCCGCTATAGATCT-GAACTTTT
* * * * *
4009671 ACGGCGTTTGTTCAAAAAACGTCGCTATTGGTATC-GATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTA-TAG-ATCTGAACTTTT
* * *
4009714 GTGGCGTTTGTTCCAAAAACGCCGCTATAGATCTTAACTTATG
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAACTT-TT
4009757 GCGGCGTTTTTGGTT-CAAAAACGCCGCTA
1 GCGGCG--TTT-GTTCCAAAAACGCCGCTA
4009786 ACTTTAGCGG
Statistics
Matches: 323, Mismatches: 74, Indels: 27
0.76 0.17 0.06
Matches are distributed among these distances:
41 42 0.13
42 146 0.45
43 81 0.25
44 31 0.10
45 20 0.06
46 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAACTTTT
Found at i:4011965 original size:35 final size:35
Alignment explanation
Indices: 4011918--4012158 Score: 271
Period size: 35 Copynumber: 7.0 Consensus size: 35
4011908 AATTTCAAAT
*
4011918 ATAACTTTTGAAAACATATAATATATAATTTTTAAA
1 ATAA-TTTTGAAAACATATAATATATAGTTTTTAAA
*
4011954 GTAATTTTGAAAACATATAATATATAGTTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAG-TTTTTAAA
** *
4011990 ATGGTTTTG--AA-A-AT-ATATATAGTTTTTAGA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
* * * *
4012020 GTAATTTTGGAAACATATAATATATAATTTCTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
** * * *
4012055 ACGATTTTGAAAAACATGTAGTATAT-G-GTTTAAA
1 ATAATTTTG-AAAACATATAATATATAGTTTTTAAA
4012089 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
*
4012124 GTAATTTTGAAAACATATAATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
4012159 CATTAAAAAA
Statistics
Matches: 169, Mismatches: 27, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
30 13 0.08
31 8 0.05
32 4 0.02
33 16 0.09
34 17 0.10
35 81 0.48
36 30 0.18
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (35 bp):
ATAATTTTGAAAACATATAATATATAGTTTTTAAA
Found at i:4012023 original size:66 final size:64
Alignment explanation
Indices: 4011937--4012142 Score: 234
Period size: 69 Copynumber: 3.1 Consensus size: 64
4011927 GAAAACATAT
*
4011937 AATATATA-ATTTTTAAAGTAATTTTGAAAACATATAATATATAGTTTTTTAAAATGGTTTTGAA
1 AATATATATATTTTTAAAGTAATTTTGAAAACATATAATATATAG-TTTTTAAAATGATTTTGAA
* * * * *
4012001 AATATATATAGTTTTTAGAGTAATTTTGGAAACATATAATATATAATTTCTAAAACGATTTTGAA
1 AATATATATA-TTTTTAAAGTAATTTTGAAAACATATAATATATAGTTTTTAAAATGATTTTG--
4012066 AA
63 AA
* * * * *
4012068 ACATGTAGTATATGGTTTAAAATAATTTTGAAAACATATAATATATAGTTTTTAAAGTAATTTTG
1 A-ATATA-TATAT-TTTTAAAGTAATTTTGAAAACATATAATATATAGTTTTTAAAATGATTTTG
4012133 AA
63 AA
*
4012135 AACATATA
1 AATATATA
4012143 ATATATAGTT
Statistics
Matches: 117, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
64 8 0.07
65 17 0.15
66 35 0.30
67 6 0.05
68 5 0.04
69 46 0.39
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (64 bp):
AATATATATATTTTTAAAGTAATTTTGAAAACATATAATATATAGTTTTTAAAATGATTTTGAA
Found at i:4012176 original size:33 final size:33
Alignment explanation
Indices: 4012098--4012231 Score: 119
Period size: 35 Copynumber: 3.9 Consensus size: 33
4012088 AATAATTTTG
* **
4012098 AAAACATATAATATATAGTTTTTAAAGTAATTTTG
1 AAAACGTATAATATATAGTTTTTAAA--AATTTAA
* *
4012133 AAAACATATAATATATAGTTTTTAAACA-TTAA
1 AAAACGTATAATATATAGTTTTTAAAAATTTAA
*
4012165 AAAAGCGTATAATATATGGTTTTTAAAAAATTTAAA
1 AAAA-CGTATAATATATAGTTTTT-AAAAATTT-AA
* * *
4012201 AAAATGTATGATATAT-GTTTTTTAAATATTT
1 AAAACGTATAATATATAG-TTTTTAAAAATTT
4012232 TTTTACAAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
32 6 0.07
33 18 0.21
34 12 0.14
35 43 0.51
36 6 0.07
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (33 bp):
AAAACGTATAATATATAGTTTTTAAAAATTTAA
Found at i:4012386 original size:22 final size:20
Alignment explanation
Indices: 4012356--4012396 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
4012346 ATATAATATA
4012356 TATTATTTTTTAGTTTTTATTC
1 TATTA-TTTTTA-TTTTTATTC
*
4012378 TATTGTTTTTATTTTTATT
1 TATTATTTTTATTTTTATT
4012397 TCGTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (20 bp):
TATTATTTTTATTTTTATTC
Found at i:4018592 original size:20 final size:19
Alignment explanation
Indices: 4018565--4018626 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 19
4018555 CATTTTGGTG
4018565 CAGAGGGAATCGATCCCCC
1 CAGAGGGAATCGATCCCCC
*
4018584 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TCCCCC
*
4018605 CACAGGGGAATCGATACCCCC
1 CAGA-GGGAATCGAT-CCCCC
4018626 C
1 C
4018627 TGGGATTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 22 0.61
ACGTcount: A:0.26, C:0.39, G:0.24, T:0.11
Consensus pattern (19 bp):
CAGAGGGAATCGATCCCCC
Found at i:4018604 original size:21 final size:20
Alignment explanation
Indices: 4018567--4018606 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4018557 TTTTGGTGCA
*
4018567 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
4018587 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGA-TCCCCCCA
4018607 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:4030117 original size:50 final size:50
Alignment explanation
Indices: 4030012--4030117 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
4030002 ATTATGACTG
*
4030012 GCATAGACCCGCGAAGGGGAGCCATTCTTCACTTAGAGGAACCGTTCGCA
1 GCATAGACCCGCGAAGGGGAGCCATTCTTCACTTAGAGGAACCATTCGCA
* * * * *
4030062 TCATAGACCCGTGAAGGGGAGCCATTTTTCACTTAGAGGAATCATTCGTA
1 GCATAGACCCGCGAAGGGGAGCCATTCTTCACTTAGAGGAACCATTCGCA
4030112 GCATAG
1 GCATAG
4030118 CTCAAGGCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (50 bp):
GCATAGACCCGCGAAGGGGAGCCATTCTTCACTTAGAGGAACCATTCGCA
Found at i:4030947 original size:35 final size:35
Alignment explanation
Indices: 4030892--4031127 Score: 245
Period size: 35 Copynumber: 6.9 Consensus size: 35
4030882 CAAATATAAC
* *
4030892 TTTTGAAAACATATAGTATATAATTTTTAAAGTAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAGTAA
** * * *
4030927 TTTTGAAAATGTACAATATATAGTTTTTTAAAATGA
1 TTTTGAAAACATATAATATATAG-TTTTTAAAGTAA
*
4030963 TTTTG--AA-A-AT-ATATATAGTTTTTAGAGTAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAGTAA
* *
4030993 TTTTGAAAACATATAATATATAGTTTCTAAA-AAGA
1 TTTTGAAAACATATAATATATAGTTTTTAAAGTA-A
* * * *
4031028 TTTTGAAAAACATGTAGTATAT-G-GTTTAAAATAA
1 TTTTG-AAAACATATAATATATAGTTTTTAAAGTAA
* *
4031062 TTTTGAAAACATATAGTATAGAGTTTTTAAAGTAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAGTAA
4031097 TTTTGAAAACATATAATATATAGTTTTTAAA
1 TTTTGAAAACATATAATATATAGTTTTTAAA
4031128 CATTTTTTCA
Statistics
Matches: 164, Mismatches: 26, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
30 14 0.09
31 8 0.05
32 3 0.02
33 15 0.09
34 17 0.10
35 78 0.48
36 29 0.18
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTTGAAAACATATAATATATAGTTTTTAAAGTAA
Found at i:4030994 original size:66 final size:65
Alignment explanation
Indices: 4030908--4031111 Score: 194
Period size: 66 Copynumber: 3.1 Consensus size: 65
4030898 AAACATATAG
** * *
4030908 TATATAATTTTTAAAGTAATTTTGAAAATGTACAATATATAGTTTTTTAAAATGATTTTGAAAAT
1 TATATAATTTTTAAAGTAATTTTGAAAACATACAATATATAG-TTTCTAAAAAGATTTTGAAAAT
4030973 A
65 A
* * * *
4030974 TATATAGTTTTTAGAGTAATTTTGAAAACATATAATATATAGTTTCTAAAAAGATTTTGAAAAAC
1 TATATAATTTTTAAAGTAATTTTGAAAACATACAATATATAGTTTCTAAAAAGATTTTG-AAAAT
4031039 A
65 A
* * * * * * * *
4031040 TGTAGTATATGGTTTAAAATAATTTTGAAAACATATAGTATAGAGTTTTTAAAGTA-ATTTTGAA
1 TATA-TA-AT-TTTTAAAGTAATTTTGAAAACATACAATATATAGTTTCTAAA-AAGATTTTGAA
*
4031104 AACA
62 AATA
4031108 TATA
1 TATA
4031112 ATATATAGTT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
65 15 0.13
66 45 0.39
67 2 0.02
68 10 0.09
69 42 0.37
70 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (65 bp):
TATATAATTTTTAAAGTAATTTTGAAAACATACAATATATAGTTTCTAAAAAGATTTTGAAAATA
Found at i:4031141 original size:104 final size:99
Alignment explanation
Indices: 4030953--4031141 Score: 270
Period size: 104 Copynumber: 1.9 Consensus size: 99
4030943 TATATAGTTT
* *
4030953 TTTAAAATGATTTTGAAAATATATATAGTTTTTAGAGTAATTTTGAAAACATATAATATATAGTT
1 TTTAAAATAATTTTGAAAATATATATAGTTTTTAAAGTAATTTTGAAAACATATAATATATAGTT
*
4031018 TCTAAAAAGATTTTGAAAAACATGTAGTATATGG
66 TCTAAAAAGATTTTCAAAAACATGTAGTATATGG
4031052 TTTAAAATAATTTTGAAAACATATAGTATAGAGTTTTTAAAGTAATTTTGAAAACATATAATATA
1 TTTAAAATAATTTTG-AAA-ATATA-TAT--AGTTTTTAAAGTAATTTTGAAAACATATAATATA
* * **
4031117 TAGTTTTTAAACATTTTTTCAAAAA
61 TAGTTTCTAAAAAGATTTTCAAAAA
4031142 AAGTGTATAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
99 14 0.18
100 3 0.04
101 5 0.06
102 3 0.04
104 53 0.68
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (99 bp):
TTTAAAATAATTTTGAAAATATATATAGTTTTTAAAGTAATTTTGAAAACATATAATATATAGTT
TCTAAAAAGATTTTCAAAAACATGTAGTATATGG
Found at i:4031153 original size:39 final size:36
Alignment explanation
Indices: 4031108--4031216 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 36
4031098 TTTGAAAACA
*
4031108 TATAATATATAGTTTTTAAACATTTTTTCAAAAAAAGTG
1 TATAATATATGGTTTTTAAA-ATTTTTT-AAAAAAA-TG
*
4031147 TATAATATATGGTTTTTAAAACTTTTTTTAAAAAATG
1 TATAATATATGGTTTTTAAAA-TTTTTTAAAAAAATG
* *
4031184 TATGATATATGGTTTTTAAATATTTTTTGAAAA
1 TATAATATATGGTTTTTAAA-ATTTTTTAAAAA
4031217 CATATATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
37 31 0.48
38 8 0.12
39 25 0.39
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (36 bp):
TATAATATATGGTTTTTAAAATTTTTTAAAAAAATG
Found at i:4031377 original size:6 final size:6
Alignment explanation
Indices: 4031332--4031383 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
4031322 ATAATATATA
* *
4031332 TTATTT TTAATTT TTATTCT ATTATTT TTAATT TTA-TT TTGTTT TTATTT
1 TTATTT TT-ATTT TTATT-T -TTATTT TTATTT TTATTT TTATTT TTATTT
4031382 TT
1 TT
4031384 CAGGGTCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.10
6 22 0.56
7 8 0.21
8 5 0.13
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:4044872 original size:30 final size:31
Alignment explanation
Indices: 4044838--4044916 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 31
4044828 CAACCATTCA
*
4044838 CAACTTTTCCAAAATTATTGAATTGGTCCC-
1 CAACTTTTCAAAAATTATTGAATTGGTCCCT
* *
4044868 CAACTTTTTAAAAATTGTTGAATTGGTCCCT
1 CAACTTTTCAAAAATTATTGAATTGGTCCCT
**
4044899 TTACTTTTCAAAAATTAT
1 CAACTTTTCAAAAATTAT
4044917 AAAATGGTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (31 bp):
CAACTTTTCAAAAATTATTGAATTGGTCCCT
Found at i:4045671 original size:30 final size:30
Alignment explanation
Indices: 4045637--4045693 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
4045627 ATTAAACCAA
4045637 GACACCT-AACCTTATCATCTTCTCAATCAT
1 GACACCTAAACCTTATCATCTT-TCAATCAT
*
4045667 GACACCTAAACCTTATTATCTTTCAAT
1 GACACCTAAACCTTATCATCTTTCAAT
4045694 AGTCAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (30 bp):
GACACCTAAACCTTATCATCTTTCAATCAT
Found at i:4049403 original size:64 final size:64
Alignment explanation
Indices: 4049302--4049430 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
4049292 TGACGTTGTA
4049302 AAAGCTTTGAGAGATTGTCTGGGTCGTGGTAAAACATGTCTTGGCAATTTAAGAGCATCGAGAG
1 AAAGCTTTGAGAGATTGTCTGGGTCGTGGTAAAACATGTCTTGGCAATTTAAGAGCATCGAGAG
4049366 AAAGCTTTGAGAGATTGTCTGGGTCGTGGTAAAACATGTCTTGGCAATTTAAGAGCATCGAGAG
1 AAAGCTTTGAGAGATTGTCTGGGTCGTGGTAAAACATGTCTTGGCAATTTAAGAGCATCGAGAG
4049430 A
1 A
4049431 TTGCCTTTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (64 bp):
AAAGCTTTGAGAGATTGTCTGGGTCGTGGTAAAACATGTCTTGGCAATTTAAGAGCATCGAGAG
Found at i:4055735 original size:35 final size:34
Alignment explanation
Indices: 4055696--4055913 Score: 225
Period size: 34 Copynumber: 6.4 Consensus size: 34
4055686 AACCACATAG
* ** *
4055696 TATATAATTTTTAATGTAATTTTGAAAATGTATAA
1 TATATAGTTTTTAAAATAATTTTGAAAA-ATATAA
**
4055731 TATATAGTTTTTTAAAACGATTTTG---AA-A-AA
1 TATATAG-TTTTTAAAATAATTTTGAAAAATATAA
*
4055761 TATATAGTTTTTAAATTAATTTTGAAAAATATAA
1 TATATAGTTTTTAAAATAATTTTGAAAAATATAA
* * *
4055795 TATATAGTTTTTAAAATGATTTTGAAAAGCATGTAG
1 TATATAGTTTTTAAAATAATTTTGAAAA--ATATAA
*
4055831 TATAT-G-GTTTAAAATAATTTTGAAAACATATAA
1 TATATAGTTTTTAAAATAATTTTGAAAA-ATATAA
*
4055864 TATATAGTTTTTAAAGTAATTTTGAAAACATATAA
1 TATATAGTTTTTAAAATAATTTTGAAAA-ATATAA
4055899 TATATAGTTTTTAAA
1 TATATAGTTTTTAAA
4055914 CATTTTTTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
29 14 0.09
30 9 0.06
31 1 0.01
32 2 0.01
33 12 0.08
34 47 0.31
35 47 0.31
36 22 0.14
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (34 bp):
TATATAGTTTTTAAAATAATTTTGAAAAATATAA
Found at i:4055782 original size:29 final size:30
Alignment explanation
Indices: 4055729--4055793 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
4055719 GAAAATGTAT
*
4055729 AATATATAGTTTTTTAAAACGATTTTGAAA
1 AATATATAGTTTTTTAAAACAATTTTGAAA
**
4055759 AATATATAG-TTTTTAAATTAATTTTGAAA
1 AATATATAGTTTTTTAAAACAATTTTGAAA
4055788 AATATA
1 AATATA
4055794 ATATATAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (30 bp):
AATATATAGTTTTTTAAAACAATTTTGAAA
Found at i:4055802 original size:34 final size:35
Alignment explanation
Indices: 4055675--4055913 Score: 244
Period size: 35 Copynumber: 7.0 Consensus size: 35
4055665 AATTTCAAAT
* * * * *
4055675 ATAACTTTTGAAACCACATAGTATATAATTTTTAAT
1 ATAA-TTTTGAAAACATATAATATATAGTTTTTAAA
* **
4055711 GTAATTTTGAAAATGTATAATATATAGTTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAG-TTTTTAAA
**
4055747 ACGATTTTG---A-A-A-AATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
*
4055776 TTAATTTTGAAAA-ATATAATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
* * * *
4055810 ATGATTTTGAAAAGCATGTAGTATAT-G-GTTTAAA
1 ATAATTTTGAAAA-CATATAATATATAGTTTTTAAA
4055844 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
*
4055879 GTAATTTTGAAAACATATAATATATAGTTTTTAAA
1 ATAATTTTGAAAACATATAATATATAGTTTTTAAA
4055914 CATTTTTTTA
Statistics
Matches: 168, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
29 14 0.08
30 9 0.05
31 1 0.01
32 2 0.01
33 12 0.07
34 47 0.28
35 58 0.35
36 25 0.15
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (35 bp):
ATAATTTTGAAAACATATAATATATAGTTTTTAAA
Found at i:4055944 original size:76 final size:77
Alignment explanation
Indices: 4055859--4056004 Score: 186
Period size: 76 Copynumber: 1.9 Consensus size: 77
4055849 TTTGAAAACA
** * *
4055859 TATAATATATAGTTTTTAAAGTAATTTTGAAAACA-TATAATATATAGTTTTTAAACATTTTTTT
1 TATAATATATAGTTTTTAAAACAATTTTGAAAAAAGTATAATATATAGTTTTTAAACATTTTTTG
4055923 AAAAAAAAAGTG
66 AAAAAAAAAGTG
* * * * * *
4055935 TATAATATATGGTTTTTAAAACATTTTTTAAAAAATGTATGATATATGGTTTTTAAATATTTTTT
1 TATAATATATAGTTTTTAAAACAATTTTGAAAAAA-GTATAATATATAGTTTTTAAACATTTTTT
4056000 GAAAA
65 GAAAA
4056005 CATATCTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 29 0.50
78 29 0.50
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (77 bp):
TATAATATATAGTTTTTAAAACAATTTTGAAAAAAGTATAATATATAGTTTTTAAACATTTTTTG
AAAAAAAAAGTG
Found at i:4055980 original size:37 final size:37
Alignment explanation
Indices: 4055894--4056004 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 37
4055884 TTTGAAAACA
*
4055894 TATAATATATAGTTTTTAAACATTTTTTTAAAAAAAAAGTG
1 TATAATATATGGTTTTTAAACA-TTTTTT---AAAAAAGTG
4055935 TATAATATATGGTTTTTAAAACATTTTTTAAAAAA-TG
1 TATAATATATGGTTTTT-AAACATTTTTTAAAAAAGTG
* * *
4055972 TATGATATATGGTTTTTAAATATTTTTTGAAAA
1 TATAATATATGGTTTTTAAACATTTTTTAAAAA
4056005 CATATCTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
36 14 0.22
37 18 0.28
38 6 0.09
41 22 0.34
42 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (37 bp):
TATAATATATGGTTTTTAAACATTTTTTAAAAAAGTG
Found at i:4056131 original size:6 final size:6
Alignment explanation
Indices: 4056120--4056171 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
4056110 ATAATATAAA
* *
4056120 TTATTT TTATTTT TTATTCT ATTATTT TTAATT TTA-TT TCATTT TTATTT
1 TTATTT TTA-TTT TTATT-T -TTATTT TTATTT TTATTT TTATTT TTATTT
4056170 TT
1 TT
4056172 CAAGATCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.10
6 22 0.56
7 8 0.21
8 5 0.13
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:4056864 original size:42 final size:42
Alignment explanation
Indices: 4056805--4056895 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
4056795 CCATTCAGTC
*
4056805 GGGTTAGGAAGAAGGGAAAGAGTTAGGAGAATGTTGGGGTTT
1 GGGTTAGAAAGAAGGGAAAGAGTTAGGAGAATGTTGGGGTTT
4056847 GGGTTAGAAAGAAGGGAAAGAGTTAGGAGAATGTTGGGGTTT
1 GGGTTAGAAAGAAGGGAAAGAGTTAGGAGAATGTTGGGGTTT
*
4056889 GGTTTAG
1 GGGTTAG
4056896 GAGAAAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (42 bp):
GGGTTAGAAAGAAGGGAAAGAGTTAGGAGAATGTTGGGGTTT
Found at i:4066026 original size:11 final size:11
Alignment explanation
Indices: 4066006--4066052 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
4065996 CATTTTTTTC
4066006 TTCTTT-TTCT
1 TTCTTTCTTCT
4066016 TTCTTTCTTCT
1 TTCTTTCTTCT
*
4066027 TTCTTTAACTTTT
1 TTCTTT--CTTCT
*
4066040 TTTTTTCTTCT
1 TTCTTTCTTCT
4066051 TT
1 TT
4066053 TTTAGCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.19
11 16 0.52
13 9 0.29
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTTCTTCT
Found at i:4066031 original size:21 final size:20
Alignment explanation
Indices: 4066003--4066054 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4065993 ATCCATTTTT
4066003 TTCTTCTTTTTCTTTCTTTC
1 TTCTTCTTTTTCTTTCTTTC
** * *
4066023 TTCTTTCTTTAACTTTTTTTT
1 TTC-TTCTTTTTCTTTCTTTC
4066044 TTCTTCTTTTT
1 TTCTTCTTTTT
4066055 TAGCTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTCTTTTTCTTTCTTTC
Done.